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reference predict_h13703 (Apr 10, 2005 15:50:25) reference pred_h13703 (Apr 10, 2005 17:14:21) PPhdr from: svik@smu.edu PPhdr resp: MAIL PPhdr orig: HTML PPhdr want: HTML PPhdr password(###) prediction of: - default prediction of: - ProSite SEG ProDom return msf format ret html ret store # default: single protein sequence resfilename=pj5444qn description=nuoB_formatted MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTG LKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAA VNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAW GKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGG MRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARES CGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFREEFE AGIKQPFSNTHLINGIQPNLLKERW
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Pattern-ID: ASN_GLYCOSYLATION PS00001 PDOC00001
Pattern-DE: N-glycosylation site
Pattern: N[^P][ST][^P]
238 NISK
Pattern-ID: PKC_PHOSPHO_SITE PS00005 PDOC00005
Pattern-DE: Protein kinase C phosphorylation site
Pattern: [ST].[RK]
14 TWR
98 TYK
253 SGR
269 TAR
364 SVK
Pattern-ID: CK2_PHOSPHO_SITE PS00006 PDOC00006
Pattern-DE: Casein kinase II phosphorylation site
Pattern: [ST].{2}[DE]
46 SPDE
98 TYKD
163 TGFD
269 TARE
Pattern-ID: MYRISTYL PS00008 PDOC00008
Pattern-DE: N-myristoylation site
Pattern: G[^EDRKHPFYW].{2}[STAGCN][^P]
37 GARKAL
64 GAGFST
70 GLKWSL
115 GMLISA
280 GMRDGL
293 GGAGTD
318 GSRLGT
360 GLPWSV
435 GIQPNL
Pattern-ID: AMIDATION PS00009 PDOC00009
Pattern-DE: Amidation site
Pattern: .G[RK][RK]
191 EGRR
Pattern-ID: COMPLEX1_51K_1 PS00644 PDOC00555
Pattern-DE: Respiratory-chain NADH dehydrogenase 51 Kd subunit signature 1
Pattern: G[AM]G[AR]Y[LIVM]CG[DE]{2}[STA]{2}[LIM]{2}[EN]S
174 GAGRYICGEETALINS
Pattern-ID: COMPLEX1_51K_2 PS00645 PDOC00555
Pattern-DE: Respiratory-chain NADH dehydrogenase 51 Kd subunit signature 2
Pattern: ESCG.C.PCR.G
349 ESCGWCTPCRDG
Identities computed with respect to: (query) prot Colored by: consensus/70% and property
HSP processing: ranked
1 [ . . . . : . . . . 1 . . . . : . . . . 2 . . . . : . . . . 3 . . . . : . . . . 4 . . . . ] 445
prot (#) default: single protein... score P(N) N 100.0% MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGXTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
1 PD002676 p2000.1 (30) NUBM(4) NQO1(2... 806 1.4e-80 1 60.7% -------------------------LDDYLAHGGYEGLKKVLTTMSPEEIIEEVKQSGLRGRGGAGFPTGLKWSFMAKKDtsEPKYLICNADEGEPGTFKDRRLMRHDPHKIIEGMLIAAYAIGANQGYIYIRGEYPQAVERLQRAIQEAREAGLLGKNILGSGFDFDIEIHRGAGAYVCGEETALIESLEGKRGKPRLKPPFPAQSGLWGKPTVVNNVETIANVPTILRRGADWFASIGTPNSKGTKLFSISGHVNNPGVIEVPMG----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
2 PD002895 p2000.1 (28) NUBM(4) NQO1(2... 362 1.5e-33 1 44.5% ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------RELIEDYGGGVRGGWklKAVQPGGPSGGCLPEKHldVPMDYDSLRAAGSMLGTGAIIVMDESTDMVEAVRRFMEFYKHESCGQCTPCREGTKWLYKILERLVKGEATPEDIDMLQEISKMV-KGHSICGLGDAAPWPVQSTLRHFREEYEARIKE--------------------
3 PD039184 p2000.1 (2) NUOF(2) // NAD... 159 3.4e-11 1 100.0% MKNIIRTPETHPLTWRLRDDKQPVWLDE---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
4 PD121821 p2000.1 (1) P95176_MYCTU //... 124 2.1e-07 1 56.1% ----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------TLRELL-DYAGGVRAGHRLKFWTPGGSSTPLLTDEHLDVPL----------------------------------------------------------------------------------------------------------------------------------------
5 PD108468 p2000.1 (1) NUOF_ECOLI // N... 112 4.2e-06 1 100.0% -----------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------PFSNTHLINGIQPNLLKERW
consensus/100% ........................................................................................................................................................................................................................................................................... .................................................................................................................................................................................
consensus/90% ........................................................................................................................................................................................................................................................................... .................................................................................................................................................................................
consensus/80% ........................................................................................................................................................................................................................................................................... ........................................................................................................................... .....................................................
consensus/70% ........................................................................................................................................................................................................................................................................... ........................................................................................................................... .....................................................
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--- ------------------------------------------------------------ --- --- Again: these results were obtained based on the domain data- --- base collected by Daniel Kahn and his coworkers in Toulouse. --- --- PLEASE quote: --- F Corpet, J Gouzy, D Kahn (1998). The ProDom database --- of protein domain families. Nucleic Ac Res 26:323-326. --- --- The general WWW page is on: ---- --------------------------------------- --- http://www.toulouse.inra.fr/prodom.html ---- --------------------------------------- --- --- For WWW graphic interfaces to PRODOM, in particular for your --- protein family, follow the following links (each line is ONE --- single link for your protein!!): --- http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD002676 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD002676 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD002676 ==> graphical output of all proteins having domain PD002676 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD002895 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD002895 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD002895 ==> graphical output of all proteins having domain PD002895 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD039184 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD039184 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD039184 ==> graphical output of all proteins having domain PD039184 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD121821 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD121821 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD121821 ==> graphical output of all proteins having domain PD121821 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom1=PD108468 ==> multiple alignment, consensus, PDB and PROSITE links of domain PD108468 http://www.toulouse.inra.fr/prodom/cgi-bin/ReqProdomII.pl?id_dom2=PD108468 ==> graphical output of all proteins having domain PD108468 --- --- NOTE: if you want to use the link, make sure the entire line --- is pasted as URL into your browser! --- --- END of PRODOM --- ------------------------------------------------------------
--- ------------------------------------------------------------ --- PSI-BLAST multiple sequence alignment --- ------------------------------------------------------------ --- --- PSI-BLAST ALIGNMENT HEADER: ABBREVIATIONS FOR SUMMARY --- SEQLENGTH : 445 --- ID : identifier of aligned (homologous) protein --- LSEQ2 : length of aligned sequence --- IDE : percentage of pairwise sequence identity --- SIM : percentage of similarity --- LALI : number of residues aligned --- LGAP : number of residues in all indels --- BSCORE : blast score (bits) --- BEXPECT : blast expectation value --- OMIM : OMIM (Online Mendelian Inheritance in Man) ID --- PROTEIN : one-line description of aligned protein --- '!' : indicates lower scoring alignment that is combined --- with the higher scoring adjacent one --- --- PSI-BLAST ALIGNMENT HEADER: SUMMARY ID LSEQ2 IDE SIM LALI LGAP BSCORE BEXPECT OMIM PROTEIN trembl|Q83QS7|Q83QS7 445 99 99 445 0 627 e-178 NADH dehydrogenase I chai trembl|Q8XCX1|Q8XCX1 445 99 99 445 0 627 e-178 NADH dehydrogenase I chai trembl|Q8FFJ8|Q8FFJ8 445 99 100 445 0 626 e-178 NADH dehydrogenase I chai swiss|P31979|NUOF_ECOLI 445 100 100 445 0 625 e-178 NADH-quinone oxidoreducta swiss|P33901|NUOF_SALTY 445 98 99 445 0 620 e-176 NADH-quinone oxidoreducta trembl|Q5PN61|Q5PN61 445 98 99 445 0 620 e-176 NADH dehydrogenase I chai trembl|Q8Z526|Q8Z526 445 98 99 445 0 617 e-175 NADH dehydrogenase I chai trembl|Q7N2J1|Q7N2J1 454 88 92 445 3 606 e-172 NADH dehydrogenase I chai trembl|Q6D2S1|Q6D2S1 449 88 92 444 3 605 e-172 NADH-quinone oxidoreducta trembl|Q8ZDL1|Q8ZDL1 461 88 92 444 9 602 e-171 NADH dehydrogenase I chai trembl|Q669A4|Q669A4 461 88 91 444 9 601 e-171 NADH dehydrogenase I chai trembl|Q8EI33|Q8EI33 461 77 85 444 2 586 e-166 NADH dehydrogenase I, F s trembl|Q88FH3|Q88FH3 453 75 83 436 7 569 e-161 NADH dehydrogenase I, F s trembl|Q87ZQ5|Q87ZQ5 452 75 84 441 3 565 e-160 NADH dehydrogenase I, F s trembl|Q9I0J7|Q9I0J7 448 79 87 422 2 563 e-159 NADH dehydrogenase I chai swiss|Q8K9Y3|NUOF_BUCAP 447 70 82 439 2 560 e-158 NADH-quinone oxidoreducta trembl|Q9KGW4|Q9KGW4 451 76 85 422 2 557 e-157 NADH dehydrogenase I subu swiss|P57256|NUOF_BUCAI 444 67 81 440 5 556 e-157 NADH-quinone oxidoreducta trembl|Q43840|Q43840 487 41 58 405 12 551 e-155 NADH dehydrogenase (EC 1. trembl|Q9VMI3|Q9VMI3 474 41 59 402 4 551 e-155 CG9140-PA (GM14163p) trembl|Q9WXM5|Q9WXM5 607 38 59 431 3 549 e-155 NADP-reducing hydrogenase swiss|Q9ZE33|NUOF_RICPR 421 44 61 394 3 548 e-155 NADH-quinone oxidoreducta trembl|Q68XY3|Q68XY3 421 44 61 395 3 547 e-154 NADH dehydrogenase (Ubiqu trembl|Q7PMH3|Q7PMH3 486 41 59 408 4 545 e-154 ENSANGP00000012416 (Fragm swiss|Q91YT0|NUBM_MOUSE 464 41 59 407 4 545 e-154 NADH-ubiquinone oxidoredu swiss|P56912|NUF1_RHIME 434 41 57 406 5 544 e-154 NADH-quinone oxidoreducta swiss|P49821|NUBM_HUMAN 464 41 60 404 4 544 e-153 161015 NADH-ubiquinone oxidoredu swiss|P25708|NUBM_BOVIN 464 42 60 401 4 543 e-153 NADH-ubiquinone oxidoredu trembl|Q17880|Q17880 479 38 57 409 12 542 e-153 Hypothetical protein C09H trembl|Q23923|Q23923 479 42 60 408 5 542 e-153 QinA trembl|Q8RBC9|Q8RBC9 596 40 60 433 8 542 e-153 NADH:ubiquinone oxidoredu trembl|Q9WY70|Q9WY70 545 42 60 428 3 541 e-153 NADP-reducing hydrogenase trembl|Q61ZT2|Q61ZT2 479 38 57 409 12 541 e-153 Hypothetical protein CBG0 trembl|Q82DX6|Q82DX6 449 46 62 425 4 541 e-152 Putative NADH dehydrogena swiss|P56913|NUF2_RHIME 421 49 66 418 2 541 e-152 NADH-quinone oxidoreducta trembl|Q8GE74|Q8GE74 421 43 61 404 4 541 e-152 NADH dehydrogenase I chai swiss|Q92JB2|NUOF_RICCN 421 43 61 404 4 540 e-152 NADH-quinone oxidoreducta trembl|Q7PAQ6|Q7PAQ6 421 43 61 404 4 540 e-152 NADH dehydrogenase I chai trembl|Q8HXQ9|Q8HXQ9 464 41 60 404 4 540 e-152 NADH dehydrogenase (Ubiqu trembl|Q5ZRU3|Q5ZRU3 428 44 61 416 5 540 e-152 NADH dehydrogenase I, F s trembl|Q5XIH3|Q5XIH3 464 40 60 404 4 540 e-152 NADH dehydrogenase (Ubiqu trembl|Q73V10|Q73V10 453 47 63 419 9 539 e-152 NuoF trembl|Q7WCU4|Q7WCU4 455 44 62 406 5 539 e-152 Respiratory-chain NADH de trembl|Q7VZQ0|Q7VZQ0 455 44 62 406 5 539 e-152 Respiratory-chain NADH de trembl|Q7W5B2|Q7W5B2 455 44 62 406 5 539 e-152 Respiratory-chain NADH de trembl|Q5WT25|Q5WT25 425 44 61 416 5 538 e-152 NADH dehydrogenase I chai trembl|Q5X1B2|Q5X1B2 425 44 61 416 5 538 e-152 NADH dehydrogenase I chai trembl|Q8YGK5|Q8YGK5 435 40 56 406 5 538 e-152 NADH-QUINONE OXIDOREDUCTA trembl|Q8H2T7|Q8H2T7 504 41 58 395 12 538 e-152 Putative NADH dehydrogena trembl|Q6V9B2|Q6V9B2 484 41 58 409 4 538 e-152 NADH:ubiquinone oxidoredu trembl|Q98KR0|Q98KR0 434 41 58 407 5 537 e-151 NADH-ubiquinone dehydroge trembl|Q8G1B2|Q8G1B2 435 40 56 406 5 537 e-151 NADH dehydrogenase I, F s trembl|Q44512|Q44512 535 39 59 414 4 537 e-151 Hydrogenase subunit swiss|P29913|NQO1_PARDE 431 41 60 408 12 537 e-151 NADH-quinone oxidoreducta trembl|Q82TU8|Q82TU8 425 43 61 408 5 537 e-151 Respiratory-chain NADH de trembl|Q8AVD7|Q8AVD7 471 38 56 423 32 537 e-151 Ndufv1-prov protein trembl|Q89KJ3|Q89KJ3 441 42 59 403 6 535 e-151 NADH ubiquinone oxidoredu swiss|O07948|NUOF_RHOCA 431 42 58 404 4 535 e-151 NADH-quinone oxidoreducta trembl|Q8XXQ6|Q8XXQ6 431 41 60 405 5 535 e-151 PROBABLE NADH DEHYDROGENA trembl|Q7NZH6|Q7NZH6 431 43 63 407 5 534 e-151 NADH-ubiquinone oxidoredu trembl|Q6AZA2|Q6AZA2 492 40 58 408 4 534 e-150 Zgc:86620 trembl|Q5PAI3|Q5PAI3 430 39 58 413 5 534 e-150 NADH dehydrogenase chain trembl|Q8UFX2|Q8UFX2 434 40 58 405 13 533 e-150 NADH ubiquinone oxidoredu trembl|Q9FNN5|Q9FNN5 486 41 58 395 12 533 e-150 NADH dehydrogenase (At5g0 trembl|Q9K1B8|Q9K1B8 433 43 62 405 5 533 e-150 NADH dehydrogenase I, F s swiss|Q89AU2|NUOF_BUCBP 444 67 79 419 2 533 e-150 NADH-quinone oxidoreducta trembl|Q5W1K6|Q5W1K6 462 41 58 405 4 532 e-150 NADH-quinone oxidoreducta trembl|Q93SF8|Q93SF8 597 38 58 432 3 531 e-150 HymB protein swiss|Q9XAQ9|NUOF_STRCO 449 46 63 414 4 531 e-149 NADH-quinone oxidoreducta swiss|P65568|NUOF_MYCBO 445 47 65 419 10 531 e-149 NADH-quinone oxidoreducta swiss|P65567|NUOF_MYCTU 445 47 65 419 10 531 e-149 NADH-quinone oxidoreducta trembl|Q9JX83|Q9JX83 433 44 62 405 5 530 e-149 NADH dehydrogenase I chai trembl|Q8LAL7|Q8LAL7 486 41 58 395 12 530 e-149 NADH dehydrogenase trembl|Q7RV82|Q7RV82 493 42 60 394 6 530 e-149 NADH-ubiquinone oxidoredu trembl|Q6N5M9|Q6N5M9 441 41 57 406 6 530 e-149 NADH-ubiquinone dehydroge trembl|Q5ZHS2|Q5ZHS2 459 42 59 405 4 529 e-149 Hypothetical protein trembl|Q74GA3|Q74GA3 591 40 59 417 2 529 e-149 NADH dehydrogenase I, F s trembl|Q83BR0|Q83BR0 422 41 62 417 5 528 e-148 NADH dehydrogenase I, F s trembl|Q6G393|Q6G393 435 39 57 409 13 528 e-148 NADH dehydrogenase I, F s trembl|Q6FE67|Q6FE67 443 66 79 416 4 527 e-148 NADH dehydrogenase I chai trembl|Q5U0T0|Q5U0T0 702 41 58 404 4 527 e-148 AT08270p trembl|Q9V852|Q9V852 702 41 58 404 4 526 e-148 CG11423-PA trembl|Q9A6X9|Q9A6X9 439 42 58 403 6 526 e-148 NADH dehydrogenase I, F s swiss|P24917|NUBM_NEUCR 493 42 59 394 6 526 e-148 NADH-ubiquinone oxidoredu trembl|Q608Y1|Q608Y1 427 60 77 413 1 525 e-148 NADH dehydrogenase I, F s trembl|Q8YYU4|Q8YYU4 544 39 59 412 4 524 e-147 Hydrogenase subunit trembl|Q6BM47|Q6BM47 487 37 56 410 15 524 e-147 Similar to tr|Q96UX4 Cand trembl|Q749M1|Q749M1 570 37 56 427 9 523 e-147 NAD-reducing hydrogenase, trembl|Q6SGN3|Q6SGN3 431 56 72 424 7 523 e-147 NADH-quinone oxidoreducta trembl|Q6FZY6|Q6FZY6 435 39 56 406 13 523 e-147 NADH dehydrogenase I, F s trembl|Q67JG0|Q67JG0 618 40 57 435 2 522 e-147 Iron hydrogenase beta sub trembl|Q73GH8|Q73GH8 417 42 61 389 5 521 e-146 NADH dehydrogenase I, F s trembl|Q63VM8|Q63VM8 436 40 58 417 12 521 e-146 NADH dehydrogenase I chai trembl|Q9U4M2|Q9U4M2 484 39 59 399 5 520 e-146 NADH dehydrogenase swiss|Q92406|NUBM_ASPNG 496 38 59 407 15 520 e-146 NADH-ubiquinone oxidoredu trembl|Q62IP0|Q62IP0 436 40 58 417 12 519 e-146 NADH dehydrogenase I, F s trembl|Q9UUU2|Q9UUU2 488 38 57 409 7 519 e-146 NUBM protein precursor (E trembl|Q46507|Q46507 490 40 59 421 4 519 e-146 Potential NAD-reducing hy trembl|Q8F7Q4|Q8F7Q4 443 46 62 406 3 519 e-146 NADH dehydrogenase I, F s trembl|Q96UX4|Q96UX4 489 38 59 392 6 518 e-146 NADH dehydrogenase comple trembl|Q5P1E5|Q5P1E5 437 44 60 406 6 518 e-145 NADH dehydrogenase I, cha trembl|Q72NT3|Q72NT3 443 46 62 406 3 517 e-145 NADH dehydrogenase I F su trembl|Q8PJ45|Q8PJ45 444 41 58 416 7 515 e-145 NADH-ubiquinone oxidoredu trembl|Q6AL37|Q6AL37 550 37 57 430 2 515 e-145 Probable NADH dehydrogena trembl|Q9AJC1|Q9AJC1 541 37 58 418 5 514 e-144 Hydrogenase diaphorase la trembl|O52682|O52682 626 39 59 436 28 514 e-144 Fe-hydrogenase beta subun trembl|Q8P7T7|Q8P7T7 444 41 57 416 7 513 e-144 NADH-ubiquinone oxidoredu trembl|Q6MIR7|Q6MIR7 430 45 62 411 5 512 e-144 NADH dehydrogenase I, F s trembl|Q5YWD2|Q5YWD2 441 47 63 415 7 512 e-144 Putative NADH dehydrogena trembl|Q7X1N4|Q7X1N4 617 39 58 434 4 510 e-143 NADP-reducing hydrogenase swiss|Q56222|NQO1_THETH 438 48 66 401 7 510 e-143 NADH-quinone oxidoreducta trembl|Q5SM54|Q5SM54 438 48 66 401 7 510 e-143 NADH-quinone oxidoreducta trembl|Q72GD3|Q72GD3 438 48 66 401 7 510 e-143 NADH-quinone oxidoreducta trembl|Q8KX28|Q8KX28 534 38 58 417 2 508 e-143 Hydrogenase large diaphor trembl|O27592|O27592 630 39 59 416 5 508 e-143 NADP-reducing hydrogenase trembl|Q7VRV6|Q7VRV6 445 68 80 413 2 507 e-142 NADH dehydrogenase I chai trembl|Q9PGJ0|Q9PGJ0 444 40 58 420 7 507 e-142 NADH-ubiquinone oxidoredu trembl|Q8ABI5|Q8ABI5 635 39 57 438 7 507 e-142 NADH:ubiquinone oxidoredu trembl|Q87EQ0|Q87EQ0 444 39 58 420 7 506 e-142 NADH-ubiquinone oxidoredu trembl|Q79A13|Q79A13 533 39 60 401 2 505 e-142 Hydrogenase subunit trembl|P74024|P74024 533 39 60 401 2 505 e-142 Hydrogenase subunit trembl|Q6A6G3|Q6A6G3 444 47 66 411 7 503 e-141 NADH dehydrogenase I chai trembl|Q67P17|Q67P17 425 45 62 397 9 499 e-140 NADH dehydrogenase I subu trembl|Q6AQG1|Q6AQG1 634 37 55 412 4 496 e-139 Probable NADP-reducing hy trembl|Q9RU92|Q9RU92 444 49 64 405 8 493 e-138 NADH dehydrogenase I, F s trembl|Q6XQK4|Q6XQK4 536 37 57 417 13 489 e-137 HoxF trembl|Q64C23|Q64C23 654 38 60 413 2 488 e-137 NADH-ubiquinone oxidoredu trembl|Q89QJ1|Q89QJ1 518 37 55 415 3 487 e-136 NADH dehydrogenase I chai trembl|Q6MDR1|Q6MDR1 432 48 65 402 3 486 e-136 Probable NADH-ubiquinone trembl|Q608U7|Q608U7 516 40 56 414 3 483 e-135 Formate dehydrogenase, be trembl|Q746S7|Q746S7 423 50 66 417 4 481 e-135 NADH dehydrogenase I, F s trembl|Q6NBU5|Q6NBU5 518 37 54 414 3 478 e-133 NAD-dependent formate deh trembl|Q84FW2|Q84FW2 519 40 56 415 3 474 e-132 NAD-linked formate dehydr trembl|Q7WMR8|Q7WMR8 526 39 56 415 4 473 e-132 NAD-dependent formate deh swiss|O66841|NUOF_AQUAE 426 44 60 395 10 472 e-132 NADH-quinone oxidoreducta trembl|Q7QNI1|Q7QNI1 366 78 86 363 2 471 e-132 ENSANGP00000000047 trembl|Q92LN0|Q92LN0 518 37 55 414 3 471 e-131 PUTATIVE NAD-DEPENDENT FO trembl|Q9Z353|Q9Z353 534 37 58 396 5 471 e-131 HoxF protein trembl|Q8U6U9|Q8U6U9 518 37 57 415 3 470 e-131 NADH dehydrogenase I chai trembl|Q88KV5|Q88KV5 525 39 56 416 6 470 e-131 Formate dehydrogenase, be trembl|Q96ID4|Q96ID4 354 42 62 341 3 468 e-131 Hypothetical protein (Fra trembl|Q98BW8|Q98BW8 518 37 56 415 3 468 e-130 NAD-dependent formate deh trembl|O87814|O87814 520 40 55 414 3 459 e-128 NAD-dependent formate deh trembl|Q9UVT9|Q9UVT9 379 38 58 352 3 459 e-128 NADH:ubiquinone oxidoredu trembl|Q5S7T0|Q5S7T0 429 38 56 385 6 459 e-128 Hydrogenosomal NADH dehyd trembl|Q62M10|Q62M10 521 38 54 416 3 459 e-128 Formate dehydrogenase, be trembl|Q63RZ2|Q63RZ2 521 38 54 416 3 459 e-128 NAD-dependent formate deh trembl|Q9ZBV8|Q9ZBV8 646 44 56 391 9 445 e-124 Putative respiratory chai trembl|Q82M25|Q82M25 607 42 57 394 9 436 e-121 Putative NADH dehydrogena trembl|Q6N1Z2|Q6N1Z2 428 50 64 419 6 435 e-121 NADH-ubiquinone dehydroge trembl|Q9V7A6|Q9V7A6 481 32 51 404 13 424 e-117 CG8102-PA, isoform A trembl|Q89ST4|Q89ST4 567 36 54 377 22 415 e-114 Blr2316 protein trembl|Q603S6|Q603S6 610 35 51 408 44 403 e-111 NAD-reducing hydrogenase, trembl|Q604G6|Q604G6 561 35 53 380 18 401 e-110 Dehydrogenase subunit, pu trembl|Q835I8|Q835I8 417 36 56 386 7 398 e-110 NAD-dependent formate deh trembl|O94500|O94500 452 32 51 400 8 396 e-109 SPBC18E5.10 protein trembl|P72304|P72304 604 33 52 389 15 385 e-105 NAD-reducing hydrogenase trembl|Q8T495|Q8T495 462 29 47 385 32 384 e-105 AT08706p swiss|P22317|HOXF_ALCEU 602 33 53 388 15 383 e-105 NAD-reducing hydrogenase trembl|Q8MLA3|Q8MLA3 462 29 47 385 32 383 e-105 CG8102-PB, isoform B trembl|Q8KTI8|Q8KTI8 572 36 54 375 22 382 e-104 Tungsten-containing forma trembl|Q5P4U3|Q5P4U3 585 31 49 383 23 352 6e-96 Formate dehydrogenase, NA trembl|Q742U7|Q742U7 436 27 44 390 27 312 1e-83 Hypothetical protein trembl|Q9EZD1|Q9EZD1 280 37 54 269 1 310 3e-83 NAD-dependent formate deh trembl|Q51696|Q51696 401 31 46 374 16 303 6e-81 Hypothetical protein ORF2 trembl|Q67JR5|Q67JR5 394 32 46 378 23 292 9e-78 NADH dehydrogenase subuni trembl|O96948|O96948 1206 27 43 344 30 279 9e-74 Hydrogenase (EC 1.18.99.1 trembl|Q9RDL3|Q9RDL3 524 25 42 372 18 273 7e-72 Putative oxidoreductase trembl|Q9ACZ1|Q9ACZ1 525 25 42 372 18 260 3e-68 Putative oxidoreductase trembl|Q82C68|Q82C68 524 24 42 372 18 259 7e-68 Putative oxidoreductase trembl|Q8FH95|Q8FH95 742 20 33 339 91 251 2e-65 Electron transport comple trembl|Q87MX2|Q87MX2 869 18 32 314 82 251 2e-65 RnfC-related protein swiss|P77611|RNFC_ECOLI 740 20 33 339 91 251 2e-65 Electron transport comple trembl|Q83RB9|Q83RB9 740 20 33 339 91 250 3e-65 Putative membrane protein swiss|P58324|RNFC_ECO57 740 20 33 339 91 249 1e-64 Electron transport comple swiss|Q8ZPM2|RNFC_SALTY 735 20 33 336 91 246 9e-64 Electron transport comple trembl|Q8Z6Q9|Q8Z6Q9 673 20 33 336 91 245 1e-63 Putative NADH reducing de trembl|Q83T35|Q83T35 673 20 33 336 91 245 1e-63 Putative NADH reducing de trembl|Q5PIB9|Q5PIB9 735 20 33 336 91 244 2e-63 Putative NADH reducing de swiss|Q9CNP2|RNFC_PASMU 835 18 31 355 86 244 2e-63 Electron transport comple swiss|Q9KT88|RNFC_VIBCH 774 19 32 316 78 240 4e-62 Electron transport comple trembl|Q65U33|Q65U33 723 18 32 341 81 239 6e-62 NqrA protein swiss|P71397|RNFC_HAEIN 819 18 33 343 83 239 1e-61 Electron transport comple trembl|Q8SXT0|Q8SXT0 239 51 66 167 1 235 2e-60 RE33648p trembl|Q7MM83|Q7MM83 885 18 32 315 80 234 3e-60 Predicted NADH:ubiquinone trembl|Q8D888|Q8D888 919 18 32 315 80 234 3e-60 RnfC-related protein trembl|Q8RIJ6|Q8RIJ6 441 20 35 298 72 229 1e-58 Nitrogen fixation iron-su trembl|Q7VNT4|Q7VNT4 702 18 32 351 86 224 3e-57 Putative iron-sulfur bind trembl|Q5V638|Q5V638 507 23 38 349 35 221 2e-56 Putative NADH dehydrogena trembl|Q7N4F9|Q7N4F9 852 19 32 313 78 217 4e-55 Electron transport comple trembl|Q603B2|Q603B2 523 20 34 316 78 217 4e-55 Electron transport comple trembl|Q896I5|Q896I5 449 20 36 305 83 217 4e-55 RnfC/nqrF trembl|Q6LP35|Q6LP35 761 17 31 315 79 217 4e-55 Putative NADH:ubiquinone trembl|Q8ZED0|Q8ZED0 620 18 32 310 78 208 2e-52 Putative iron-sulfur bind trembl|Q66AG5|Q66AG5 659 18 32 310 78 208 2e-52 Putative iron-sulfur bind trembl|Q8D0I9|Q8D0I9 659 18 32 310 78 208 2e-52 Putative membrane protein trembl|Q74TT9|Q74TT9 659 18 32 310 78 207 2e-52 Putative iron-sulfur bind trembl|Q8AA47|Q8AA47 445 21 37 263 61 207 5e-52 Na+-transporting NADH:ubi trembl|Q9WY86|Q9WY86 451 21 35 291 74 205 1e-51 Electron transport comple trembl|Q6D4W2|Q6D4W2 693 20 32 313 78 205 2e-51 Electron transport comple trembl|Q64T32|Q64T32 445 19 36 287 66 204 2e-51 Electron transport comple trembl|Q6AIQ7|Q6AIQ7 447 20 33 277 64 200 4e-50 Probable electron transfe trembl|Q5P1B2|Q5P1B2 547 19 31 258 57 198 2e-49 Putative electron transpo trembl|Q8VQW6|Q8VQW6 496 19 32 297 74 198 2e-49 RnfC trembl|Q6AIR8|Q6AIR8 447 20 33 264 53 197 4e-49 Related to propanediol ut swiss|Q52716|RNFC_RHOCA 519 19 33 305 72 196 9e-49 Electron transport comple trembl|Q8EE79|Q8EE79 790 18 32 302 69 195 1e-48 Iron-sulfur cluster-bindi trembl|Q9EVN5|Q9EVN5 487 18 30 301 74 194 3e-48 RnfC protein trembl|Q5P537|Q5P537 508 22 34 307 70 192 1e-47 Electron transport comple trembl|Q7MXA5|Q7MXA5 443 21 37 262 61 191 3e-47 Electron transport comple trembl|Q8XKI6|Q8XKI6 436 20 35 293 71 188 2e-46 Hypothetical protein CPE1 trembl|Q67R12|Q67R12 446 22 32 286 76 183 5e-45 Na+-transporting NADH-qui trembl|Q5QUW0|Q5QUW0 556 17 32 313 79 182 1e-44 Predicted NADH:ubiquinone trembl|Q6AQ74|Q6AQ74 438 21 35 292 69 180 5e-44 Probable electron transpo trembl|Q603I4|Q603I4 495 19 33 308 76 180 6e-44 Electron transport comple trembl|Q7P7D0|Q7P7D0 279 19 32 235 61 177 4e-43 Electron transport comple trembl|Q73PG1|Q73PG1 480 19 33 318 69 168 2e-40 Na(+)-translocating NADH- trembl|Q7BV74|Q7BV74 451 24 35 260 68 167 3e-40 PduS trembl|Q9XDM9|Q9XDM9 451 24 35 260 68 167 3e-40 Propanediol utilization p trembl|Q8Z5L1|Q8Z5L1 442 24 36 261 66 164 3e-39 Putative ferredoxin swiss|Q9HYB8|RNFC_PSEAE 774 21 32 256 56 162 2e-38 Electron transport comple trembl|Q720T9|Q720T9 454 22 34 268 54 159 1e-37 PduS protein trembl|Q5PDR5|Q5PDR5 442 23 35 260 66 159 1e-37 Putative ferredoxin trembl|Q8Y7X7|Q8Y7X7 454 22 34 268 54 158 2e-37 Lmo1142 protein trembl|Q92CR5|Q92CR5 454 22 34 268 54 157 3e-37 Lin1106 protein swiss|P57215|RNFC_BUCAI 473 16 30 230 60 146 8e-34 Electron transport comple trembl|Q9L4Q5|Q9L4Q5 402 21 40 219 48 145 1e-33 Electron transfer protein swiss|Q89AW8|RNFC_BUCBP 505 17 32 281 69 140 8e-32 Electron transport comple trembl|Q7XZ61|Q7XZ61 170 37 49 97 3 105 1e-21 NADH dehydrogenase (Fragm trembl|Q72B66|Q72B66 673 23 40 124 1 98 3e-19 Pyridine nucleotide-disul trembl|Q6NDH3|Q6NDH3 673 18 36 132 3 95 3e-18 Possible oxidoreductase trembl|Q7MBG7|Q7MBG7 649 17 38 128 8 94 4e-18 FORMATE DEHYDROGENASE, BE trembl|Q73MB5|Q73MB5 609 26 43 94 1 88 2e-16 Pyridine nucleotide-disul trembl|Q74FU5|Q74FU5 672 21 42 123 3 88 2e-16 Fe(III) reductase, beta s trembl|Q65UM2|Q65UM2 612 23 41 101 1 88 3e-16 GltD protein trembl|P77907|P77907 707 21 41 118 7 75 2e-12 Formate dehydrogenase bet trembl|Q8TSY4|Q8TSY4 447 17 29 262 64 61 3e-08 Na+-transporting NADH:ubi trembl|Q73MW6|Q73MW6 428 16 40 67 8 44 0.005 Hypothetical protein trembl|Q87T50|Q87T50 889 19 31 66 0 38 0.28 OtnA protein trembl|Q727R3|Q727R3 401 13 26 217 76 38 0.35 Electron transport comple trembl|O83187|O83187 514 22 40 70 7 37 0.62 Nitrogen fixation protein --- --- PSI-BLAST ALIGNMENT
--- ------------------------------------------------------------ --- MAXHOM multiple sequence alignment --- ------------------------------------------------------------ --- --- MAXHOM ALIGNMENT HEADER: ABBREVIATIONS FOR SUMMARY --- ID : identifier of aligned (homologous) protein --- STRID : PDB identifier (only for known structures) --- IDE : percentage of pairwise sequence identity --- WSIM : percentage of weighted similarity --- LALI : number of residues aligned --- NGAP : number of insertions and deletions (indels) --- LGAP : number of residues in all indels --- LSEQ2 : length of aligned sequence --- ACCNUM : SwissProt accession number --- OMIM : OMIM (Online Mendelian Inheritance in Man) ID --- NAME : one-line description of aligned protein --- --- MAXHOM ALIGNMENT HEADER: SUMMARY ID STRID IDE WSIM LALI NGAP LGAP LSEQ2 ACCNUM OMIM NAME nuof_ecoli 100 100 445 0 0 445 P31979 OXIDOREDUCTASE CHAIN 6) ( nuof_salty 99 99 400 0 0 431 P33901 OXIDOREDUCTASE CHAIN 6) ( nuof_bucap 73 68 423 1 1 447 Q8K9Y3 oxidoreductase chain F). nuof_bucai 70 65 423 1 2 444 P57256 OXIDOREDUCTASE CHAIN F). nuof_bucbp 69 62 415 1 2 444 Q89AU2 I, chain F) (NDH-1, chain nuof_aquae 56 45 234 1 2 426 O66841 OXIDOREDUCTASE CHAIN F). nqo1_theth 52 40 334 1 1 438 Q56222 DEHYDROGENASE 1, CHAIN 1) nuf2_rhime 51 37 398 2 2 421 P56913 OXIDOREDUCTASE CHAIN F 2) nuof_myctu 50 35 371 3 5 445 P95176 OXIDOREDUCTASE CHAIN F). nuof_mycbo 50 35 371 3 5 445 P65568 I, chain F) (NDH-1, chain nuof_strco 49 33 391 4 4 449 Q9XAQ9 OXIDOREDUCTASE CHAIN F). nuof_riccn 48 32 315 2 2 421 Q92JB2 oxidoreductase chain F). nqo1_parde 47 32 328 2 2 431 P29913 DEHYDROGENASE 1, CHAIN 1) nuof_ricpr 47 31 336 2 2 421 Q9ZE33 OXIDOREDUCTASE CHAIN F). hoxf_alceu 47 32 229 2 2 602 P22317 NAD-REDUCING HYDROGENASE nuof_rhoca 46 30 328 1 2 431 O07948 OXIDOREDUCTASE CHAIN F). nubm_bovin 45 26 373 3 3 464 P25708 (EC 1.6.99.3) (COMPLEX I- nuf1_rhime 45 26 336 3 3 434 P56912 OXIDOREDUCTASE CHAIN F 1) nubm_neucr 45 25 340 3 5 493 P24917 (EC 1.6.99.3) (COMPLEX I- nubm_mouse 45 25 373 3 3 464 Q91YT0 (EC 1.6.5.3) (EC 1.6.99.3 nubm_human 44 25 373 3 3 464 P49821 161015 (EC 1.6.99.3) (COMPLEX I- nubm_aspng 43 25 340 3 5 496 Q92406 (EC 1.6.99.3) (COMPLEX I- --- --- MAXHOM ALIGNMENT: IN MSF FORMAT
--- --- Version of database searched for alignment: --- SWISS-PROT release 41 (02/2003) with 122 564 proteins ---
Identities computed with respect to: (1) predict_h1370 Colored by: consensus/70% and property
1 [ . . . . : . . . . 1 . . . . : . . . . 2 . . . . : . . . . 3 . . . . : . . . . 4 . . . . ] 445
1 predict_h1370 100.0% MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
2 nuof_ecoli 100.0% MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
3 nuof_salty 98.8% MKNVIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVSQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVHLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGVWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEIGMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAH---------------------------------------------
4 nuof_bucap 72.6% MNNIIPTEETHPLTWRLRNDRETVWIEEYCKKNGYFSLKKALKTMCPEDVVHLIKESGLKGRGGAGFSTGLKWSLMSKDNSSKIRYLLCNADEMEPGTYKDRFLMENIPHQLIEGMLLSAFALNVSRGYIFLRGEYIKAEYILKKSIQEAINFGFIGSNILNSGFNFELFLHTGAGRYICGEETALINSLEGRRANPRAKPPFPAVFGLWGKPTCVNNVETLSNVPSIVLHGVNWYKKLSKSTdtGTKLMGFSGKVNNPGVWELPFGTTAREILEDYARGMKSGLFLKSWQPGGAGTDFLIEKHLDLPMDFTSIAKAGSRLGTAIAMAVDNKTNMISLVCNIEKFFSRESCGLCTPCREGLPWIVKILESLEKKEGHKNDVKNLERLCLDLSPGKTFCAHAPGAVEPLQSAIKYFRLEFEAGI----------------------
5 nuof_bucai 69.5% MNRILRISETHPLTWRLRDDQKTVWIKEYCDKNGYLSLKKALKEMLPEDVINIVKESGLKGRGGAGFSTGLKWSLMSQNHSYTReyLICNADEMEPGTYKDRLLIEKIPHQLIEGIILSAYALNVSRAYIFLRGEYVQAEHILKQSIQEAINFGFIGLNILGSNFNIELVLHTGAGRYICGEETALINSLEGRRANPRSKPPFPAVFGLWGKPTCVNNVETLSNVPCIILNGVSWYKNLSKSSDTGTKLMGFSGNVRNPGVWELPFGTTAREILEDYAHGMKSGFSLKAWQPGGAGTDFLLEEHLDLPMDFKNISQAGSRLGTALSMAVDNKTSMVSLVYNIEKFFSRESCGLCTPCRDGLPWIVKILKSLEQNKGHKNDVKNLEKLCSHLSPGKTFCAHAPGAIEPLQSAIKYFRSEFESGI----------------------
6 nuof_bucbp 68.4% -----RTSETHPLTWRLNAQQDTVWIKEYKRKNGYRAFEKVVNHMTSEDVIDLIKQSGLKGRGGAGFLTGLKWSLMpnDEYGYTRYLLCNADEMEPGTYKDRFLMEKVPHQLLEGILISAFALSVTKSYIFLRGEYVNTERILKQSIIEATNYGYLGKNVCGSNLTFEIFIHTGAGRYICGEETALINSLEGRRANPRFKPPFPAYVGLWGKPTCVNNVETLSNVPAIFLNGVKWYKGLSKSLDTGTKMMGFSGSVKFPGIWELPFGITAREIFERYAGGMKNNKKLKVWQPGGASTSFLIDKHLDVPMDFVNIKKVGSRLGTALAMAVDDSVSIVSLVRNIEEFFSRESCGFCTPCRDGLPWIVKILKVLEQKIGVPEDIEILEQLCEQLGPGRTFCAHAPGAIEPLKSALKYFRLEFE-------------------------
7 nuof_aquae 55.9% --------------------------------------------MSPEEIIDWVDKSTLRGRGGAGFPTGKKWKFAVQNPGP--RYFICNADESEPGTFKDRIIIERDPHLLIEGIIISSYAIGANEAYIYIRGEYPAGYYILRDAIEEAKKKGFLGKNILGSGFDLEIYVARGAGAYICGEETALIESLEGKRGHPRLKPPYPVQKGLWGKPTVVNNVETIANVPFIISMGWEEYRYIGPSDYAGPKLFPVSGKVKKPGVYELPMNTTLREVIFKYAGG---------------------------------------------------------------------------------------------------------------------------------------------------------------------
8 nqo1_theth 51.9% -------------------------LDYYLRHGGYETAKRVLKEKTPDEVIEEVKRSGLRGRGGAGFPTGLKWSFMPKDDGKQ-HYLICNADESEPGSFKDRYILEDVPHLLIEGMILAGYAIRATVGYIYVRGEYRRAADRLEQAIKEARARGYLGKNLFGTDFSFDLHVHRGAGAYICGEETALMNSLEGLRANPRLKPPFPAQSGLWGKPTTINNVETLASVVPIMERGADWFAQMGTEQSKGMKLYQISGPVKRPGVYELPMGTTFRELIYEWAGGPLEPIQAIIPGGSSTPPLPFTEEVLDTPMSYEHLQAKGSMLGTGGVILIPERVSMVDAMWNLTRFYAHESCGKCTPCREG-------------------------------------------------------------------------------------
9 nuf2_rhime 50.8% -------------------------LSTYEAGGGYRALRKALGEYTPDEIVELVKESNLRGRGGAGFPTGMKWSFVPK-AAGKPKYLCCNADEGEPGTFKDRIIMERDPHQLIEGLAVSAYAIGAETAYVYIRGEYVTAIRRMEQAIAEAHENGYLGVGILGSKFNFMVHIHRGAGAYICGEETAMLESLEGKRAQPRLKPPFPAVAGLYASPTVINNVETLACVPHIVMRGSAWFRGIGPDRSPGPKLYCLSGQVRKPGLYELPMGISLRELVEEHAGGPLPGRKVKAVIPGGVSAPVIPEGELEVGMDFDSLTAAGSMLGSAGVVVIDDSTCMVKLATRIIEFFHHESCGKCTPCREGLDWTVKVLRRIEAGEGETGDLEQLEMLCKGIF-GNTFCALGDGAAMGLRAALKHFREEFVAHIEE--------------------
10 nuof_myctu 49.9% ----------------------------------------------PDDVISIVKDSGLRGRGGAGFATGTKWSFIPQGdaAKPHYLVVNADESEPGTCKDIPLMLATPHVLIEGVIIAAYAIRAHHAFVYVRGEVVPVLRRLHNAVAEAYAAGFLGRNIGGSGFDLELVVHAGAGAYICGEETALLDSLEGRRGQPRLRPPFPAVAGLYGCPTVINNVETIASVPSIILGGIDWFRSMGSEKSPGFTLYSLSGHVTRPGQYEAPLGITLRELL-DYAGGVRAGHRLKFWTPGGSSTPLLTDEHLDVPLDYEGVGAAGSMLGTKALEIFDETTCVVRAVRRWTEFYKHESCGKCTPCREGTFWLDKIYERLETGRGSHEDIDKLLDISDSI-LGKSFCALGDGAASPVMSSIKHFRDEY--------------------------
11 nuof_mycbo 49.9% ----------------------------------------------PDDVISIVKDSGLRGRGGAGFATGTKWSFIPQGdaAKPHYLVVNADESEPGTCKDIPLMLATPHVLIEGVIIAAYAIRAHHAFVYVRGEVVPVLRRLHNAVAEAYAAGFLGRNIGGSGFDLELVVHAGAGAYICGEETALLDSLEGRRGQPRLRPPFPAVAGLYGCPTVINNVETIASVPSIILGGIDWFRSMGSEKSPGFTLYSLSGHVTRPGQYEAPLGITLRELL-DYAGGVRAGHRLKFWTPGGSSTPLLTDEHLDVPLDYEGVGAAGSMLGTKALEIFDETTCVVRAVRRWTEFYKHESCGKCTPCREGTFWLDKIYERLETGRGSHEDIDKLLDISDSI-LGKSFCALGDGAASPVMSSIKHFRDEY--------------------------
12 nuof_strco 48.6% -------------------------LDVYRRHEGYEGLRKALA-MAPDDLIAYVKESGLRGRGGAGFPTGMKWQFIPQGDG-KPHYLVVNADESEPGTCKDIPLLFANPHSLIEGIVIACYAIRSSHAFIYLRGEVVPVLRRLHEAVREAYAAGFLGENILGSGLDLTLTVHAGAGAYICGEETALLDSLEGRRGQPRLRPPFPAVAGLYACPTVVNNVESIASVPAILNKGKDWFRSMGSEKSPGFTLYSLSGHVAGPGQYEAPLGITLRQLL-DMSGGMRPGHRLKFWTPGGSSTPMFTDEHLDVPLDYEGVGAAGSMLGTKALQCFDETTCVVRAVTRWTEFYAHESCGKCTPCREGTYWLVQLLRDIEAGKGQMSDLDKLNDIADNIN-GKSFCALGDGAASPIFSSLKYFREEYE-------------------------
13 nuof_riccn 48.1% -----------------------------------------------DFIVEEVKKSGLRGRGGAGFSTGMKWSFMPKNLEKSC-YLVVNADESEPGTCKDRDILRFEPHKLIEGCLLASFAIGANNCYIYIRGEFYNEASNIQRALDEAYKEGLIGKNSCGSGFDCNIYLHRGAGAYICGEETALLESLEGKKGMPRLKPPFPAGFGLYGCPTTINNVESIAVVPTILRRGASWFAGIGKPNNTGTKIFCISGHVNKPCNVEEAMGISLKELIEKYAGGVRGGwnLKAIIPGGSSVPLLPKSLCEVDMDFDSLRTAGSGLGTGGIIVMDQSTDIIYAIARLSKFYMHESCGQCTPCREGTGW----------------------------------------------------------------------------------
14 nqo1_parde 46.3% -----------------------------------------------DKIIDEMKASGLRGRGGAGFPTGMKWSFMPKESDGRPSYLVINADESEPATCKDREIMRHDPHTLIEGALIASFAMGAHAAYIYIRGEFIREREALQAAIDECYDAGLLGRNAAGSGWDFDLYLHHGAGAYICGEETALLESLEGKKGMPRMKPPFPAGAGLYGCPTTVNNVESIAVVPTILRRGAEWFASFGRPNNAGVKLFGLTGHVNTPCVVEEAMSIPMRELIEKHGGGIRGGWklKAVIPGGASCPVLteQCENAIMDYDGMRDVRSSFGTACMIVMDQSTDVVKAIWRLSKFFKHESCGQCTPCREGTGWMMRVMERLVRGD----------------------------------------------------------------------
15 nuof_ricpr 46.9% -----------------------------------------------DFIIDEVKKSGLRGRGGAGFSTGMKWSFMPKN-SEKPCYLVVNADESEPGTCKDRDILRFEPHKLIEGCLIASFAIGANTCYIYIRGEFYNEASNMQRALDEAYKEGLIGKNACGSGFDCNIYLHRGAGAYICGEETALLESLEGKKGMPRLKPPFPAGFGLYGCPTTINNVESIAVVPTILRRGASWFAAIGKPNNTGTKVFCISGHVNKPCNIEEVMGVPLKELIEKYAGGVRGGwnLKAIIPGGASVPLLPKSLCEVEMDFDSLRTVGSGLGTGGIIVMDKSTDIIYAIARLSKFYMHESCGQCTPCREGTGWMWRVMMRLVNGNAKKNEIDTL-------------------------------------------------------------
16 hoxf_alceu 46.5% --------------------------------------------LKPEQVIETIVDSRLRGRGGAGFSTGLKWRLC-RDAESEQKYVICNADEGEPGTFKDRVLLTRAPKKVFVGMVIAAYAIGCRKGIVYLRGEYFYLKDYLERQLQELREDGLLGRAIGgaGFDFDIRIQMGAGAYICGDESALIESCEGKRGTPRVKPPFPVQQGYLGKPTSVNNVETFAAVSRIMEEGADWFRAMGTPDSAGTRLLSVAGDCSKPGIYEVEWGVTLNEVL---------------------------------------------------------------------------------------------------------------------------------------------------------------------------
17 nuof_rhoca 45.1% -----------------------------------------------DWIIEQVKASGLRGRGGAGFPTGLKWSFMPKQSDGRPSFLVINADESEPGTCKDREIMRHDPHTLIEGALIAGFAMGARAAYIYIRGEYVREKEALQAAIDECYEAGLIGKNACRSDYDFDVYLHHGAGAYICGEETALLESLEGKKGMPRMKPPFPAGSGLYGCPTTVNNVESIAVVPTILRRGGAWFAGIGRPNNTGVKLFAMSGHVNTPCVVEEAMSISMKELIEKHGGGVRGGWKNLKAVIPGGASCPVIPAHldAIMDYDGMREKQSSFGTACLIVMDQQTDIIKAIARLSKFFKHESCGQCTPCREGTSWMWRVMERLVTGE----------------------------------------------------------------------
18 nubm_bovin 45.2% ----------------------------------------------PDWILGEVKTSGLRGRGGAGFPTGLKWSFMNKPSDGRPKYLVVNADEGEPGTCKDREIIRHDPHKLVEGCLVGGRAMGARAAYIYIRGEFYNEASNLQVAIREAYEAGLIGKNACGSGYDFDVFVVRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVANVETVAVSPTICRRGGAWFASFGRERNSGTKLFNISGHVNNPCTVEEEMSVPLKELIEKHAGGVTGGwnLLAVIPGGSSTPLIPKSVCevLMDFDALIQAQTGLGTAAVIVMDRSTDIVKAIARLIEFYKHESCGQCTPCREGVDWMNKVMARFVRGDARPAEIDSLWEISKQI-EGHTICALGDGAAWPVQGLIRHFRPELE-------------------------
19 nuf1_rhime 44.8% -----------------------------------------------DWIINEVKASGLRGRGGAGFPTGLKWSFMPKESDGRPHYLVVNADESEPGTCKDRDIMRHDPHTLIEGCVIASFAMGAHAAYIYVRGEFIREREALQAAIDECYEYGLLGKN-NKLGYDIDIYVHHGAGAYICGEETALLESLEGKKGQPRLKPPFPANMGLYGCPTTVNNVESIAVTPTILRRGAGWYTSFGRPNNHGTKLYSVSGHVNRPCTVEDAMSIPFHELIEKHCGGIRGGwnLLAVIPGGSSVPCVPGAQmdAIMDYDGLRELGSGLGTAAVIVMDKSTDIIKAIWRLSAFYKHESCGQCTPCREGTGWMMRVMERMVQGRAQKREIDML-------------------------------------------------------------
20 nubm_neucr 44.4% -----------------------------------------------DWIIGEVKASGLRGRGGAGFPSGLKWSFmdWDKDDKPRYLVVNADEGEPGTCKDREIMRKDPHKLVEGCLVAGRAMNATAAYIYIRGEFIQEAAILQNAINEAYADGLIGKNACGSGYDFDVYLHRGAGAYVCGEETSLIESLEGKPGKPRLKPPFPAAVGLFGCPSTVANVETAVVAPTICRRGGNWFAGFGRERNQGTKLFCISGHVNNPCTVEEEMSIPMRELIDKHCGGVRGGwnLLAVIPGGSSTPILPKHICDTqmDFDALKDSQSGLGTAALIVMDKSTDVVRAISRLSHFYRHESCGQCTPCREGSKWTEQIMKRFEKGQGREREIDMLQEL----------------------------------------------------------
21 nubm_mouse 44.4% ----------------------------------------------PDWILGEMKTSGLRGRGGAGFPTGLKWSFMNKPSDGRPKYLVVNADEGEPGTCKDREIMRHDPHKLVEGCLVGGRAMGARAAYIYIRGEFYNEASNLQVAIREAYEAGLIGKNACGSDYDFDVFVVRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVANVETVAVSPTICRRGGTWFAGFGRERNSGTKLFNISGHVNHPCTVEEEMSVPLKELIEKHAGGVTGGwnLLAVIPGGSSTPLIPKSVCevLMDFDALVQAQTGLGTAAVIVMDRSTDIVKAIARLIEFYKHESCGQCTPCREGVDWMNKVMARFVKGDARPAEIDSLWEISKQI-EGHTICALGDGAAWPVQGLIRHFRPELE-------------------------
22 nubm_human 44.1% ----------------------------------------------PDWILGEIKTSGLRGRGGAGFPTGLKWSFMNKPSDGRPKYLVVNADEGEPGTCKDREILRHDPHKLLEGCLVGGRAMGARAAYIYIRGEFYNEASNLQVAIREAYEAGLIGKNACGSGYDFDVFVVRGAGAYICGEETALIESIEGKQGKPRLKPPFPADVGVFGCPTTVANVETVAVSPTICRRGGTWFAGFGRERNSGTKLFNISGHVNHPCTVEEEMSVPLKELIEKHAGFVTGGWDylAVIPGGSSTPLIPKSVCevLMDFDALVQAQTGLGTAAVIVMDRSTDIVKAIARLIEFYKHESCGQCTPCREGVDWMNKVMARFVRGDARPAEIDSLWEISKQI-EGHTICALGDGAAWPVQGLIRHFRPELE-------------------------
23 nubm_aspng 42.4% -----------------------------------------------DWLISELKASGLRGRGGAGFPSGLKYSFmdWDKDPRPRYLVVNADEGEPGTCKDREIMRKDPQKLIEGCLVVGRAMNANAAYMYIRGEFYQEATVLQRAINEAYEAGLIGKNACGTGYDFDVYIHRGMGAYVCGEETSLIESIEGKAGKPRLKPPFPAAVGLFGCPSTVTNVETVAVTPTIMRRGASWFSSFGRERNAGTKLFCISGHVNNPCTVEEEMSISLRDVIDRHCGGVRGGwnLLAVIPGGSSTPVLPKTIcdQLMDFDALKDSQSGLGTAAVIVMDKSTDIVRAISRLSTFYKHESCGQCTPCREGSKWTMHMMQRMEKGQAREREIDMLQEL----------------------------------------------------------
consensus/100% ...............................................-.llt.h.tutL+GRGGAGF.oGhKaphh.........ahhhNADE.EPuohKDh.lh...Pp.lh.GhhlsshAhts..shhalRGEh......hp.tl.Ehht.GhlG.s..t.thsh.lhl.hGhGtYlCG-EouhhpShEGh.u.PR.+PPaPs..GhhupPoslsNVEohssss.Ih..G.t.at.hu.....G.phh.hsG.st.Ps.hE..hshshpplh...........................................................................................................................................................................
consensus/90% ...............................................-.llt.lKtusL+GRGGAGFsTGhKWphhsp..t.p.pYLlsNADE.EPGThKDh.lh.t.PH.LlEGhlluuhAhts.tualalRGEhh.....lp.ultEsht.GhlGpNhhsosashplhlhtGAGtYICGEETALlpSlEG+pu.PR.+PPFPA..GhaGpPTslsNVEolsssPtIh.tGhtWatthup.ps.GhplhshSGpVppPs.hE..huhsh+Ell.castG.h.sh..h....susss..h..t..p..hpa.th.t.to.hGoth..hhspphshl.hh.ph.tFa.+ESCG.CTPCR-G.................................................................
consensus/80% ...............................................-.llt.lKtSGL+GRGGAGFsTGhKWShhspsts.p.cYLlsNADE.EPGThKDR.lhct.PH.LlEGhlluuhAhtuptuYlalRGEahtth..LptAltEAhttGhlG+NhhGosash-lhlppGAGtYICGEETALlpSlEG+pupPRhKPPFPAs.GlaGpPTslsNVEolussPsIhhpGspWatshup.pssGsKLhshSGcVppPs.hE..huhsh+Ell.cauGGhpsGhphhhh.PGGuusshl.cthh-h.h-acslhthtohLGTthh.hhDpphshlphlhph.cFat+ESCG.CTPCR-G..W..phh..h.tt.................................................
consensus/70% ......................D.lls.lKpSGLRGRGGAGFsTGhKWShMspsps.p.+YLlsNADEuEPGThKDR.lhcp.PHhLlEGhlluuaAhtAptuYIYlRGEahpttp.LppAItEAhptGhlG+NhhGoGaDh-lalHpGAGAYICGEETALlpSLEG++upPRhKPPFPAshGlaGpPTsVNNVETlusVPsIhtpGssWatshGpppssGsKLhshSG+VppPshhE.shuhsh+Ell-cauGGhpsGhphhhh.PGGuusshlscthh-h.MDa-ulttstShLGTuhhhshDppsshlphltplpcFat+ESCG.CTPCR-Gh.W..+lhtth.pspu..t-lc.L....................................
|
--- COILS HEADER: SUMMARY
COILS version 2.2: R.B. Russell, A.N. Lupas, 1999
using MTIDK matrix.
weights: a,d=2.5 and b,c,e,f,g=1.0
For the threshold of 5 ( probability > 0.5):
>prot
window size = 14 14 residues in coiled coil domain
window size = 21 0 residues in coiled coil domain
window size = 28 0 residues in coiled coil domain
. : . : . : . : . 5
seq MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEI
frame-14 MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEI
frame-21 MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEI
frame-28 MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEI
prob-14 44455555555556666666666669999999999999999999999988
prob-21 33455555555555555666666689999999999999999999999999
prob-28 44444444455557777777777777777777777777777777777777
. : . : . : . : . 10
seq VNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYK
frame-14 VNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYK
frame-21 VNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYK
frame-28 VNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYK
prob-14 88777777777776666777777777788888899999999999999667
prob-21 99888777666666666666777777777777777777777777777777
prob-28 77777777777766666666666666666677777777777777777777
. : . : . : . : . 15
seq DRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEA
frame-14 DRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEA
frame-21 DRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEA
frame-28 DRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEA
prob-14 99999999999999999999999999999999999999999999999999
prob-21 77778888888888888888899999999999999999999999999999
prob-28 77778888888888888899999999999999999999999999999999
. : . : . : . : . 20
seq TEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSK
frame-14 TEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSK
frame-21 TEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSK
frame-28 TEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSK
prob-14 99999999999888886666666688888999999999999999998888
prob-21 99999999999998887777777777777888888888888888888888
prob-28 99999999999998887777777776666666666666666666666666
. : . : . : . : . 25
seq PPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLM
frame-14 PPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLM
frame-21 PPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLM
frame-28 PPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLM
prob-14 43334444666999999999999999999997888888888999999999
prob-21 44446666666666666777777788888888888888888888877777
prob-28 55555555555777777888888888888888888888888888877777
. : . : . : . : . 30
seq GFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFL
frame-14 GFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFL
frame-21 GFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFL
frame-28 GFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFL
prob-14 99999644444468888888999999999999998888888455558889
prob-21 77777766666668888888999999999999999999999666668889
prob-28 77777766666668888888888888888888888888888677777779
. : . : . : . : . 35
seq TEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARES
frame-14 TEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARES
frame-21 TEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARES
frame-28 TEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARES
prob-14 99999999999999999999999999999999999999999999999999
prob-21 99999999999999999999999999999999999999999999999998
prob-28 99999999999999999999999999999999999999999999999999
. : . : . : . : . 40
seq CGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAH
frame-14 CGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAH
frame-21 CGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAH
frame-28 CGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAH
prob-14 99555449999999999999999988888899999999999999666999
prob-21 88777777777777779999999999999999999999999999999999
prob-28 99888666677777778888888888888888888888888888777888
. : . : . : . : . 45
seq APGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
frame-14 APGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
frame-21 APGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
frame-28 APGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
prob-14 999999999999999999999888866677777777777777655
prob-21 999999999999999999999999966666655555555555544
prob-28 888888888888888888888888877777777776666666655
// End
-------------------------------------------------------------------------------
Cysteines Bonding State and Connectivity Predictor
-------------------------------------------------------------------------------
0 = Not Bonded
1 = Bonded
Chain identifier: predict_h13703.fasta
.........10........20........30........40........50........60........70........
MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKD
+---------------------------------------------------------------------
|
80........90........100.......110.......120.......130.......140.......150......
ESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGK
1
+----------------------
+----------------------------------|----------------------
---------------------|----------------------------------|-------+
| | |
.160.......170.......180.......190.......200.......210.......220.......230.....
NIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQ
1 1 1
-------------------------------------------------------------------------------
-------------------------------------------------------------------------------
..240.......250.......260.......270.......280.......290.......300.......310....
NISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGK
-------------------------------------+
----------------------------------+ |
| |
| |
...320.......330.......340.......350.......360.......370.......380.......390...
AGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGK
1 1 0 0
....400.......410.......420.......430.......440...
TFCAHAPGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW
0
-------------------------------------------------------------------------------
Please cite:
P. Frasconi, A. Passerini, and A. Vullo.
"A Two-Stage SVM Architecture for Predicting the Disulfide Bonding State of Cysteines"
Proc. IEEE Workshop on Neural Networks for Signal Processing, pp. 25-34, 2002.
A.Ceroni, P.Frasconi, A.Passerini and A.Vullo.
"Predicting the Disulfide Bonding State of Cysteines with Combinations of Kernel Machines"
Journal of VLSI Signal Processing, 35, 287-295, 2003.
A. Vullo and P. Frasconi.
"Disulfide Connectivity Prediction using Recursive Neural Networks and Evolutionary Information"
Bioinformatics, 20, 653-659, 2004.
Questions and comments are very appreciated.
Please, send email to: cystein@dsi.unifi.it
Created by members of the Machine Learning and
Neural Network Group, Universita' di Firenze
The server is hosted at the Department of Systems and
Computer Science (DSI), Faculty of Engineering,
Universita' di Firenze, Italy
-------------------------------------------------------------------------------
**************************************************************************** * * * PHD: Profile fed neural network systems from HeiDelberg * * ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ * * * * Prediction of: * * secondary structure, by PHDsec * * solvent accessibility, by PHDacc * * and helical transmembrane regions, by PHDhtm * * * * Author: * * Burkhard Rost * * EMBL, 69012 Heidelberg, Germany * * Internet: Rost@EMBL-Heidelberg.DE * * * * All rights reserved. * * * **************************************************************************** * * * The network systems are described in: * * * * PHDsec: B Rost & C Sander: JMB, 1993, 232, 584-599. * * B Rost & C Sander: Proteins, 1994, 19, 55-72. * * PHDacc: B Rost & C Sander: Proteins, 1994, 20, 216-226. * * PHDhtm: B Rost et al.: Prot. Science, 1995, 4, 521-533. * * * ****************************************************************************
| N HTM | Total score | Best HTM | c-N |
| 1 | 0.9679 | 0.7048 | 114 - 131 |
| Positions | Segments | Explain |
| 1- 113 | o1 | outside region 1 |
| 114- 131 | T1 | ?=error 1 |
| 132- 445 | i1 | inside region 1 |
| %A: 8.5 | %C: 2.0 | %D: 3.8 | %E: 8.5 | %F: 4.3 |
| %G: 10.8 | %H: 1.6 | %I: 4.9 | %K: 5.6 | %L: 10.8 |
| %M: 2.7 | %N: 4.5 | %P: 5.6 | %Q: 2.2 | %R: 6.3 |
| %S: 4.3 | %T: 5.2 | %V: 3.6 | %W: 2.2 | %Y: 2.5 |
| AA : | amino acid sequence |
| pH_sec: | 'probability' for assigning helix (1=high, 0=low) |
| pL_sec: | 'probability' for assigning neither helix, nor strand (1=high, 0=low) |
| PHD_htm: | PHD predicted membrane helix: M=helical transmembrane region, blank=non-membrane PHD = PHD: Profile network prediction HeiDelberg |
| Rel_htm: | reliability index for PHDhtm prediction (0=low to 9=high) Note: for the brief presentation strong predictions marked by '*' |
| SUB_htm: | subset of the PHDhtm prediction, for all residues with an expected average accuracy > 98% (tables in header) NOTE: for this subset the following symbols are used: N: is non-membrane region (for which above ' ' is used) .: means that no prediction is made for this residue, as the reliability is: Rel < 7 |
| PHDrhtm: | refined PHD prediction: M=helical transmembrane region, blank=non-membrane |
| PiMohtm: | PHD prediction of membrane topology: T=helical transmembrane region, i=inside of membrane, o=outside of membrane |
| pT_htm: | 'probability' for assigning transmembrane helix |
| pN_htm: | 'probability' for assigning globular region |
| phd_skip: | note: sequence stretches with less than 9 are not predicted, the symbol '*' is used! |
PHD results (brief)....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....1 AA MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYK PHD_htm Rel_htm **************************************************************************************************** PiMohtm oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo ....,....11...,....12...,....13...,....14...,....15...,....16...,....17...,....18...,....19...,....20 AA DRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSK PHD_htm MMMMMMMMMMMMMMM Rel_htm ************ *** ******************************************************************* PiMohtm oooooooooooooTTTTTTTTTTTTTTTTTTiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii ....,....21...,....22...,....23...,....24...,....25...,....26...,....27...,....28...,....29...,....30 AA PPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFL PHD_htm Rel_htm ****************** **** ************************************************************************ PiMohtm iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii ....,....31...,....32...,....33...,....34...,....35...,....36...,....37...,....38...,....39...,....40 AA TEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAH PHD_htm Rel_htm **************************************************************************************************** PiMohtm iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii ....,....41...,....42...,....43...,....44...,....45 AA APGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW PHD_htm Rel_htm ********************************************* PiMohtm iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
PHD results (normal) ....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....1 AA MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYK PHD_htm Rel_htm 9999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999999 SUB_htm NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN PHDrhtm PiMohtm oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo ....,....11...,....12...,....13...,....14...,....15...,....16...,....17...,....18...,....19...,....20 AA DRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSK PHD_htm MMMMMMMMMMMMMMM Rel_htm 9999999999986402455677766554301367899999999999999999999999999999999999999999999999999999999999999999 SUB_htm NNNNNNNNNNNN........MMM..........NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN PHDrhtm MMMMMMMMMMMMMMMMMM PiMohtm oooooooooooooTTTTTTTTTTTTTTTTTTiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii ....,....21...,....22...,....23...,....24...,....25...,....26...,....27...,....28...,....29...,....30 AA PPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFL PHD_htm Rel_htm 9999999999999999875556777766788899999999999999999999999999999999999999999999999999999999999999999999 SUB_htm NNNNNNNNNNNNNNNNNN....NNNN..NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN PHDrhtm PiMohtm iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii ....,....31...,....32...,....33...,....34...,....35...,....36...,....37...,....38...,....39...,....40 AA TEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAH PHD_htm Rel_htm 9999999999999999999888887777899999999999999999999999999999999999999999999999999999999999999999999999 SUB_htm NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN PHDrhtm PiMohtm iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii ....,....41...,....42...,....43...,....44...,....45 AA APGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW PHD_htm Rel_htm 998887788999999999999999999999999999999999999 SUB_htm NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN PHDrhtm PiMohtm iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
| Bottom - Summary - Details - PredictProtein |
PROF predictions for query |
SYNOPSIS of prediction for query |
| sec str type | H | E | L | % in protein | 37.08 | 12.13 | 50.79 |
| accessib type | b | e |
| % in protein | 56.40 | 43.60 |
HEADER information |
| ali_orig | /home/ppuser/server/work/predict_h13703.hsspPsiFil |
| %A: 8.5 | %C: 2.0 | %D: 3.8 | %E: 8.5 | %F: 4.3 |
| %G: 10.8 | %H: 1.6 | %I: 4.9 | %K: 5.6 | %L: 10.8 |
| %M: 2.7 | %N: 4.5 | %P: 5.6 | %Q: 2.2 | %R: 6.3 |
| %S: 4.3 | %T: 5.2 | %V: 3.6 | %W: 2.2 | %Y: 2.5 |
| prof_fpar | acc=/home/ppuser/server/pub/prof/net/PROFboth_best.par |
| prof_nnet | acc=6 |
| AA : | amino acid sequence |
| OBS_sec: | observed secondary structure: H=helix, E=extended (sheet), blank=other (loop) |
| PROF_sec: | PROF predicted secondary structure: H=helix, E=extended (sheet), blank=other (loop) PROF = PROF: Profile network prediction HeiDelberg |
| Rel_sec: | reliability index for PROFsec prediction (0=low to 9=high) Note: for the brief presentation strong predictions marked by '*' |
| SUB_sec: | subset of the PROFsec prediction, for all residues with an expected average accuracy > 82% (tables in header) NOTE: for this subset the following symbols are used: L: is loop (for which above ' ' is used) .: means that no prediction is made for this residue, as the reliability is: Rel < 5 |
| pH_sec: | 'probability' for assigning helix (1=high, 0=low) |
| pE_sec: | 'probability' for assigning strand (1=high, 0=low) |
| pL_sec: | 'probability' for assigning neither helix, nor strand (1=high, 0=low) |
| O_2_acc: | observerd relative solvent accessibility (acc) in 2 states: b = 0-16%, e = 16-100%. |
| P_2_acc: | PROF predicted relative solvent accessibility (acc) in 2 states: b = 0-16%, e = 16-100%. |
| O_3_acc: | observerd relative solvent accessibility (acc) in 3 states: b = 0-9%, i = 9-36%, e = 36-100%. |
| P_3_acc: | PROF predicted relative solvent accessibility (acc) in 3 states: b = 0-9%, i = 9-36%, e = 36-100%. |
| OBS_acc: | observed relative solvent accessibility (acc) in 10 states: a value of n (=0-9) corresponds to a relative acc. of between n*n % and (n+1)*(n+1) % (e.g. for n=5: 16-25%). |
| PROF_acc: | PROF predicted relative solvent accessibility (acc) in 10 states: a value of n (=0-9) corresponds to a relative acc. of between n*n % and (n+1)*(n+1) % (e.g. for n=5: 16-25%). |
| Rel_acc: | reliability index for PROFacc prediction (0=low to 9=high) Note: for the brief presentation strong predictions marked by '*' |
| SUB_acc: | subset of the PROFacc prediction, for all residues with an expected average correlation > 0.69 (tables in header) NOTE: for this subset the following symbols are used: I: is intermediate (for which above ' ' is used) .: means that no prediction is made for this residue, as the reliability is: Rel < 4 |
| ali_orig: | input file |
| prof_fpar: | name of parameter file, used [w] |
| prof_nnet: | number of networks used for prediction [d] |
| prof_skip: | note: sequence stretches with less than 9 are not predicted, the symbol '*' is used! |
BODY with predictions for query |
PROF results (normal)....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....10.1.,....11.1.,....12.1.,....13.1.,....14.1.,....15.1.,....16.1.,....17.1.,....18.1.,....19.1.,....20.1.,....21.1.,....22.1.,....23.1.,....24.1.,....25.1.,....26.1.,....27.1.,....28.1.,....29.1.,....30.1.,....31.1.,....32.1.,....33.1.,....34.1.,....35.1.,....36.1.,....37.1.,....38.1.,....39.1.,....40.1.,....41.1.,....42.1.,....43.1.,....44.1., AA MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW OBS_sec PROF_sec EEEEE HHHHHHHH HHHHHHHH HHHHHHHHHH EEE EEEEEE HHHHHH HHHHHHHHHHHHH EEEEEEE HHHHHHHHHHHHHHHH EEEEEEE HHHHHHHHH EEE HHHHHHHHHHHHH HHHHH EEEEEEEEE EEEE HHHHHHHH EEEEE HHHHHHH EEEEE HHHHHHHHHHHHHHH HHHHHHHHHHH HHHHHHHHHHHHHH HHHHHHHHHHHHHHHHHH HHHH Rel_sec 9422367766640577527877301456431257057888872079488988987627732133555343310003445678623788726767766432045551053245657888888503641379872453578888888888887617754220245542037886145410025314788755045477676666553123346642110444587788887601023310577767762478875331366336640366578899761577455540146630444423256310234547245644013356304788616755688888775543221145355531345158889988761778811378899888863037540112502310478888875788887620445754111026731320248 SUB_sec L....LLLLLL..EEEE.LLLL....HH....LL.HHHHHHH..LL.HHHHHHHHH.LL.....LLL...........LLLLL..EEEE.LLLLLLL.....HHH..L...HHHHHHHHHHH..L...EEEE..L.HHHHHHHHHHHHHHHH.LLL......LL....EEEE..L.....L...HHHHHH..L.LLLLLLLLLL......LL........HHHHHHHHHH........LLLLLLLL..EEEEE....LL..EE...LLLHHHHHHH.LLL.LLL....EE.........LL......L.L..HH......LL...EEEE.LLLLHHHHHHHHHH.......L.LLL....L.HHHHHHHHHH.LLLL...HHHHHHHHHH...LL.....L......HHHHHHHHHHHHHHH....LLL......LL.......L O_3_acc bbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbbb P_3_acc eee e eee bbb b eee eebbe beeeeb ebb ebbee e e bbe bee bb b bbbbbbbbbeb eeeeeeb bbbbbb e e beb bbeebb bbbbbbbbbbbb b bbbbbb ebbe b ebbe b e bbbb bbb beb b bb bbbbbbbb b bbb bbe e eee bbbbbbbbb bbbbbbb bbbbbb bbe bbe bee eeeeee bbbbbb beee b bbbbbbb bbeebbe b ee eb bbbbbbbbbbbb ee e bb bebb e bb bbbbbbbbb bb bb bbebb bbb bbbb ebb bb bbe beeeeeeee be b ebbe bee bbbbbbbbbb bbbbbbe b e b e beee eee eebeee beeee Rel_acc 4142112132322143342251120143334020130834244344243916494410213222422111021100222531234199843110201002002133110226719969972611121839690023036523934895492331101101010032238380110121122201353224302412110210011012211211332232353394268238030613100333012236572432311100230110072378330021002122334432331010002210100002240722020112248999702010332693251403221010100011000207126933323132325114394363503330212432100311291386339353735314310320000321233016303 SUB_acc e.e...........b..i..e.....e...e......b.e.be.ie.e.b.eibee........b..............e....i.bbbb.....................bb.bbbbbb.b.....b.bbb......bb..b.ebbeib..................b.b..............b...b...e...........................b..bb.bb..b...b.............bbb.b...............b..bb..............bb.....................e.b.........bbbbbb........bb..b.e...................b..bb..........e..e.bi.b.e........b.........b..bb..b.e.b.e..e.................e...
PROF results (detail) ....,....1....,....2....,....3....,....4....,....5....,....6....,....7....,....8....,....9....,....10.1.,....11.1.,....12.1.,....13.1.,....14.1.,....15.1.,....16.1.,....17.1.,....18.1.,....19.1.,....20.1.,....21.1.,....22.1.,....23.1.,....24.1.,....25.1.,....26.1.,....27.1.,....28.1.,....29.1.,....30.1.,....31.1.,....32.1.,....33.1.,....34.1.,....35.1.,....36.1.,....37.1.,....38.1.,....39.1.,....40.1.,....41.1.,....42.1.,....43.1.,....44.1., AA MKNIIRTPETHPLTWRLRDDKQPVWLDEYRSKNGYEGARKALTGLSPDEIVNQVKDAGLKGRGGAGFSTGLKWSLMPKDESMNIRYLLCNADEMEPGTYKDRLLMEQLPHLLVEGMLISAFALKAYRGYIFLRGEYIEAAVNLRRAIAEATEAGLLGKNIMGTGFDFELFVHTGAGRYICGEETALINSLEGRRANPRSKPPFPATSGAWGKPTCVNNVETLCNVPAILANGVEWYQNISKSKDAGTKLMGFSGRVKNPGLWELPFGTTAREILEDYAGGMRDGLKFKAWQPGGAGTDFLTEAHLDLPMEFESIGKAGSRLGTALAMAVDHEINMVSLVRNLEEFFARESCGWCTPCRDGLPWSVKILRALERGEGQPGDIETLEQLCRFLGPGKTFCAHAPGAVEPLQSAIKYFREEFEAGIKQPFSNTHLINGIQPNLLKERW pH_sec .... ....... ..... ............ . .... .... ..... ....... ....... ..... ..... 1.0 pH_sec . ...... ......... . ....... ............... .... ......... ....... . ........ ......... .......... ....... ....... 0.9 pH_sec .... ....... .......... ... ............ ................ ....... ............ ....... .... ........... .......... .......... ................ 0.8 pH_sec ..... ........ .......... .... ............. ................ ....... ............ ... ....... ...... ............. .......... ............ ................. . 0.7 pH_sec ....... ........ .......... ..... ............. ................ ......... ............ .... ........ ...... ............... ........... .............. .................. ... 0.6 pH_sec ........ .......... .......... ....... .............. ................. ......... .................... ........ . ....... ............... ........... ............... . .................... .... 0.5 pH_sec ......... .......... ........... ....... ............... ................. ......... .................... ........ . .. ........ ................ .. ............ ................ . . .. .................... ..... ...... 0.4 pH_sec .......... .......... ........... ... ........ ................ .................. .. ........... .... ... .................... ......... ... .... .......... ................. .... ............ ................ .............................. ...... ....... 0.3 pH_sec . .. ........................ ............ .......... ... .. ............................ ........................... . ... .............. ....... ........................... .. .......... ...... ..... ....... ........... ...................... ................... .................................................. ........ ....... 0.2 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- pE_sec .. .. .. .. . 1.0 pE_sec .. .... .... .... .... .. . ... 0.9 pE_sec .... .... .... .... ..... .. .. .... 0.8 pE_sec .... ..... ..... ..... ........ .... .... ..... 0.7 pE_sec ..... ...... ....... ...... . ......... .... ..... ..... 0.6 pE_sec ..... .... ...... ....... ....... .. ... ......... ..... ....... ....... 0.5 pE_sec ... ...... .... ..... ....... ....... .. ........ .... . ... ........... ....... ....... ....... 0.4 pE_sec .... ....... ..... ....... ....... .. ......... ..... ................ . ...... .... ........... ....... .......... .. .... ........ .. ... . 0.3 pE_sec ..... ......... . .................... ........... . .... .......... ............................ .... .................... ....................... .. ................. ...... ............. . ..... . ...... .. . ...... . 0.2 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- pL_sec . . . ... . 1.0 pL_sec . .. . .... . .. .. .... . ... .. ..... . ...... .. . .. .... . . . . 0.9 pL_sec . ....... .... .. .. .. .. ..... ....... . . . .. .. .. . .. ......... .. ........ .. ... ....... . .. . . .... . ... . .... . . .... .. . 0.8 pL_sec .. ........ ..... .. .. .... ....... . ........ ........ .. ... ... .... .... ... .. .............. .... . ......... .... .... ........ .... ... ..... . ... .... .. .... ... .... .... . . ...... ... .. 0.7 pL_sec ............ ...... ... ... ............... ......... .......... ... .... ... ..... . ...... ... ... .............. ....... . . ......... .... .... ........ ............ ...... ....... ..... ............ ..... .... .. .... ...... .... ... 0.6 pL_sec ............. ....... .... ... ............... .......... ........... .... .... ... ............... ...... ... ........................ . ... ........... ..... ..... ......... ................... ........ ..... ............. ..... ..... ......... ................ .... 0.5 pL_sec ............. ........ ...... .... ............................. ............ ..... ...... .... ............... ........... ......................... .. .... ............ . ...... ..... ........... ..................... ........ ..... ................. ........ ................ ....................... 0.4 pL_sec .............. ........... ........ ..... ............................. ............. ....... . ...... ..... ................ ............ ............................... .................. ......... ...... ............ ....................... ........... ..... ..................... ........ ................. . ....................... 0.3 pL_sec ..................................... ...... ................................ ........................... ........ ....... .................. .............. .................................. . .................... .................. .................................................... ....... ...................... .......... .................. ... ........................ 0.2 ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- OBS_acc 100% OBS_acc 81% OBS_acc 64% OBS_acc 49% OBS_acc 36% OBS_acc 25% OBS_acc 16% OBS_acc 9% OBS_acc 4% ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROF_acc . . . . ..... . . . . . . . . . 100% PROF_acc . . .. ... . . . . . ..... . . ... ... . . .. .. . .... ... .. . . .... 81% PROF_acc . . . ... ... . . . . .. . . . ..... . . . . . ... . . ... . . . . .. .. . . . .... .. . . .. . . . ... .. .. .. .... 64% PROF_acc ... . ... ... .. . .... . . .. . . . .. . ...... . . . .. . . . . . . . . ... . . .. ...... ... .. . .. . .. . . . . . . ........ . . . .. . . . ... ... .. ... .... 49% PROF_acc ... ...... . ....... .. .... . .. .. .... . .. . . . ....... .. ... . . .. . . . . . . . .. ... . . . . . .... ..... .. . .. ....... . . .... . .. .. . ... . . .... . . . .. . .. . ... . . . . ........ .. .. . .. . .. .. .. .... ... .. ... .... 36% PROF_acc ... ...... . . ....... .. .... . .. .. .... .. .. . . . . ....... . .. ... . . .. .. . .. ... . .. .. .. ... . . . . . . . . . .... ..... . . .. . .. ......... . .... . .. .. .. ..... . .... . . . .. . .. . .. . ... . . . . .. ......... .. .. . .. . .. ... ... .... ... .. ... .... 25% PROF_acc ............ . ....... .. .... .. .. ....... .. ... . . . .......... . ....... . .. .. .. . .. ..... .. .. .. ... .. .. . . . . . . . ............ . . . .. .. ............ . ..... . .. .. .. ..... . ....... . . ... . ..... . .. . ... . .. .. . .. ......... .. .. .. .... . .. ... ... ............ .... .... 16% PROF_acc ............ . ....... .. .... .. .. ....... .. ... . . . ............ ....... . .. ... .. . .. ..... .. .. .. ... . .. .... . . . . . . ............ . . . .. .. ............ . ..... . .. .. .. ..... . ....... ... ... . ..... . .. . ... . .. .. . .. ......... .. .. .. .... . .. ... ... ................. .... 9% PROF_acc ............. . ....... .. .... .. .. ....... .. ... .. . .............. ....... . .. ... .. . .. ..... .. .. .. ... . .. .... . . . . . . . ............ . . . . .. .. ............ . ..... . .. .. .......... ....... ... ... . ..... . .. . ... . .. .. . .. ......... .. .. .. .... . .. ... ... ................. .... 4% -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------
| Top - Summary - Details - PredictProtein |
--- --- GLOBE: prediction of protein globularity --- --- nexp = 194 (number of predicted exposed residues) --- nfit = 174 (number of expected exposed residues --- diff = 20.00 (difference nexp-nfit) --- =====> your protein appears as compact, as a globular domain --- --- --- GLOBE: further explanations preliminaryily in: --- http://cubic.bioc.columbia.edu/papers/1999_globe/paper.html --- --- END of GLOBE
Ambivalent Sequence Predictor (ASP v1.0) mmy Parameters: Window size : 5 Min mu dPr : 9 Z-score cutoff : -1.75 Mean dPr score=13.250, Standard deviation=2.866 Please note: ASP was designed to identify the location of conformational switches in amino acid sequences. It is NOT designed to predict whether a given sequence does or does not contain a switch. For best results, ASP should be used on sequences of length >150 amino acids with >10 sequence homologues in the SWISS-PROT data bank. ASP has been validated against a set of globular proteins and may not be generally applicable. Please see Young et al., Protein Science 8(9):1852-64. 1999. for details and for how best to interpret this output. We consider ASP to be experimental at this time, and would appreciate any feedback from our users.
END of results for file predict_h13703
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