YRC Public Data Repository - Protein Structure Prediction

Protein:	SYC_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	459 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

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Top Sequence Alignment Hits

Listed below are up to the top 10 sequence alignment matches, by species, for the PSI-BLAST search against the protein sequence for SYC_SHEON.

Description	E-value	Query Range	Subject Range
gi\|68547081, gi\|... - gi\|68547081\|ref\|ZP_00586622.1\| Cysteinyl-tRNA synthetase, class Ia [Shewanella amazonensis SB2B], gi...	370.0	[0..1]	[459..195]
SYC_SHESR - Cysteine--tRNA ligase OS=Shewanella sp. (strain MR-7) GN=cysS PE=3 SV=1	363.0	[0..1]	[459..3]
SYC_SHESW - Cysteine--tRNA ligase OS=Shewanella sp. (strain W3-18-1) GN=cysS PE=3 SV=1	361.0	[0..1]	[459..3]
SYC_SHESM - Cysteine--tRNA ligase OS=Shewanella sp. (strain MR-4) GN=cysS PE=3 SV=1	361.0	[0..1]	[459..3]
SYC_SHELP - Cysteine--tRNA ligase OS=Shewanella loihica (strain ATCC BAA-1088 / PV-4) GN=cysS PE=3 SV=1	360.0	[0..1]	[459..1]
SYC_HAEI8 - Cysteine--tRNA ligase OS=Haemophilus influenzae (strain 86-028NP) GN=cysS PE=3 SV=1	356.0	[0..1]	[459..1]
gi\|37198290, gi\|... - gi\|37679546\|ref\|NP_934155.1\| cysteinyl-tRNA synthetase [Vibrio vulnificus YJ016], gi\|37198290\|dbj\|BA...	356.0	[0..1]	[459..50]
SYC_HAEIN - Cysteinyl-tRNA synthetase OS=Haemophilus influenzae GN=cysS PE=3 SV=1 SYC_HAEIN - Cysteine--tRNA ligase OS=Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd) GN=cysS ...	354.0	[0..1]	[459..1]
SYC_VIBC3 - Cysteine--tRNA ligase OS=Vibrio cholerae serotype O1 (strain ATCC 39541 / Classical Ogawa 395 / O395... SYC_VIBCM - Cysteine--tRNA ligase OS=Vibrio cholerae serotype O1 (strain M66-2) GN=cysS PE=3 SV=1 gi\|75814054, gi\|... - gi\|75814054\|ref\|ZP_00744706.1\| COG0215: Cysteinyl-tRNA synthetase [Vibrio cholerae V52], gi\|12173027... gi\|229508055, gi... - gi\|229508055\|ref\|ZP_04397560.1\| cysteinyl-tRNA synthetase [Vibrio cholerae BX 330286], gi\|229355560\|... SYC_VIBCH - Cysteine--tRNA ligase OS=Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) GN=cy... gi\|229511706, gi... - gi\|229511706\|ref\|ZP_04401185.1\| cysteinyl-tRNA synthetase [Vibrio cholerae B33], gi\|229351671\|gb\|EEO... gi\|229343534, gi... - gi\|229518845\|ref\|ZP_04408288.1\| cysteinyl-tRNA synthetase [Vibrio cholerae RC9], gi\|229343534\|gb\|EEO... SYC_VIBCH - Cysteine--tRNA ligase OS=Vibrio cholerae GN=cysS PE=3 SV=1 gi\|229607616, gi... - gi\|229607616\|ref\|YP_002878264.1\| cysteinyl-tRNA synthetase [Vibrio cholerae MJ-1236], gi\|229370271\|g... gi\|254848934, gi... - gi\|254848934\|ref\|ZP_05238284.1\| cysteinyl-tRNA synthetase [Vibrio cholerae MO10], gi\|254844639\|gb\|EE... gi\|121591342, gi... - gi\|121591342\|ref\|ZP_01678630.1\| cysteinyl-tRNA synthetase [Vibrio cholerae 2740-80], gi\|121546806\|gb... gi\|153225606, gi... - gi\|153225606\|ref\|ZP_01954801.1\| cysteinyl-tRNA synthetase [Vibrio cholerae MAK 757], gi\|124117267\|gb...	354.0	[0..1]	[459..1]
gi\|166204483, gi... - gi\|166214354\|ref\|ZP_02240389.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Antiqua str. B4200... gi\|167398585, gi... - gi\|167398585\|ref\|ZP_02304109.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Antiqua str. UG05-... gi\|167422736, gi... - gi\|167422736\|ref\|ZP_02314489.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Orientalis str. MG... gi\|167423331, gi... - gi\|167423331\|ref\|ZP_02315084.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Mediaevalis str. K... gi\|229695039, gi... - gi\|229838673\|ref\|ZP_04458832.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Orientalis str. PE... gi\|165927660, gi... - gi\|165927660\|ref\|ZP_02223492.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Orientalis str. F1... gi\|229896170, gi... - gi\|229896170\|ref\|ZP_04511340.1\| cysteinyl-tRNA synthetase [Yersinia pestis Pestoides A], gi\|22970109... gi\|165989933, gi... - gi\|166011255\|ref\|ZP_02232153.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Antiqua str. E1979... gi\|229899240, gi... - gi\|229899240\|ref\|ZP_04514383.1\| cysteinyl-tRNA synthetase [Yersinia pestis biovar Orientalis str. In... gi\|16123250, gi\|... - gi\|218930118\|ref\|YP_002347993.1\| cysteinyl-tRNA synthetase [Yersinia pestis CO92], gi\|16123250\|ref\|N... SYC_YERP3 - Cysteine--tRNA ligase OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=cysS PE=3 SV... SYC_YERPE - Cysteine--tRNA ligase OS=Yersinia pestis GN=cysS PE=3 SV=1 SYC_YERPA - Cysteine--tRNA ligase OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=cysS PE=3 SV=1 gi\|149365066, gi... - gi\|149365066\|ref\|ZP_01887101.1\| cysteinyl-tRNA synthetase [Yersinia pestis CA88-4125], gi\|149291479\|... SYC_YERPP - Cysteine--tRNA ligase OS=Yersinia pestis (strain Pestoides F) GN=cysS PE=3 SV=1 SYC_YERPN - Cysteine--tRNA ligase OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=cysS PE=3 SV=1 SYC_YERPG - Cysteine--tRNA ligase OS=Yersinia pestis bv. Antiqua (strain Angola) GN=cysS PE=3 SV=1	352.0	[0..1]	[459..1]

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Predicted Domain #1

Region A:
Residues: [1-459]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MLKIYNSITR QKQEFKPINP GKVGMYVCGV TVYDLCHIGH GRTFVSFDMI VRYLRYAGYE  60
   61 VNFQRNITDI DDKIIKRANE NQEDCNTLTD RLIGEMHKDF DALNMKRPDF EPRATLHIAE 120
  121 IIDMVERLLA RGHAYVAADG DVLFSVASFP EYGRLSGQNL EQLQAGARVE VDDNKQNPMD 180
  181 FVLWKMSKPG EPTWESPWGP GRPGWHIECS AMNSKHLGLH FDIHGGGSDL QFPHHENEIA 240
  241 QSCCAHDTPY VNYWMHTGMV MIDREKMSKS LGNFFTIRDV LSHYDAETVR YFLLSGHYRS 300
  301 QINYSEENLK QARAALERLY TAIKDVDLTV AAAPAEEFVA KFKAAMDDDF NTPEAYSVLF 360
  361 DMVREINRLK LTDMAEASAL AVSMKQLADV LGLLHQSPDA FFKGEGSDDE VAEIEALIVE 420
  421 RNRARTEKDW PAADVARNRL NELGVVLEDG PSGTTWRKK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	90.69897
Match:	1li5A
Description:	Cysteinyl-tRNA synthetase (CysRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming carbon-oxygen bonds	7.16276509815667	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	7.16276509815667	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.13957775963187	bayes_pls_golite062009
ligase activity	6.11211476973434	bayes_pls_golite062009
cysteine-tRNA ligase activity	5.23703961447809	bayes_pls_golite062009
isoleucine-tRNA ligase activity	3.76808520367507	bayes_pls_golite062009
glutamate-tRNA ligase activity	2.63681738794687	bayes_pls_golite062009
catalytic activity	2.37674226834122	bayes_pls_golite062009
methionine-tRNA ligase activity	2.01261843164558	bayes_pls_golite062009
tyrosine-tRNA ligase activity	1.88984817882585	bayes_pls_golite062009
tryptophan-tRNA ligase activity	1.14187887833901	bayes_pls_golite062009
arginine-tRNA ligase activity	1.13743634264647	bayes_pls_golite062009
nucleotidyltransferase activity	0.2293846471193	bayes_pls_golite062009
nucleic acid binding	0.161799496958314	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.126511747475258	bayes_pls_golite062009
glutamine-tRNA ligase activity	0.118292082006187	bayes_pls_golite062009

TMHMM	2.0c	PSIPRED	v2.61
SignalP	3.0	COILS	1999
DISOPRED	v0.1	NCBI nr	06/2007
PSI-BLAST	2.2.18	FFAS	ffas03
PDB	06/2007	Pfam	22
HMMER	2.3.2

View Structure Prediction Details

Top Sequence Alignment Hits

Predicted functions: