YRC Public Data Repository - Protein Structure Prediction

Protein:	SYM_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	676 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 SYM_SHEON.

Description	E-value	Query Range	Subject Range
gi\|62128373, gi\|... - gi\|62180740\|ref\|YP_217157.1\| methionyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar ...	512.0	[0..1]	[676..28]
SYM_PHOPR - Methionine--tRNA ligase OS=Photobacterium profundum GN=metG PE=3 SV=1 SYM_PHOPR - Methionine--tRNA ligase OS=Photobacterium profundum (strain SS9) GN=metG PE=3 SV=1	511.0	[0..1]	[675..1]
SYM_SALPA - Methionine--tRNA ligase OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=metG PE=3 SV=1 SYM_SALPK - Methionine--tRNA ligase OS=Salmonella paratyphi A (strain AKU_12601) GN=metG PE=3 SV=1 SYM_SALPA - Methionine--tRNA ligase OS=Salmonella paratyphi A GN=metG PE=3 SV=1	510.0	[0..1]	[676..1]
SYM_SALCH - Methionine--tRNA ligase OS=Salmonella choleraesuis GN=metG PE=3 SV=2 SYM_SALEP - Methionine--tRNA ligase OS=Salmonella enteritidis PT4 (strain P125109) GN=metG PE=3 SV=1 SYM_SALCH - Methionyl-tRNA synthetase OS=Salmonella choleraesuis GN=metG PE=3 SV=2 SYM_SALG2 - Methionine--tRNA ligase OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=metG PE=3 SV=1 SYM_SALCH - Methionine--tRNA ligase OS=Salmonella choleraesuis (strain SC-B67) GN=metG PE=3 SV=2	510.0	[0..1]	[676..1]
SYM_SALTY - Methionine--tRNA ligase OS=Salmonella typhimurium GN=metG PE=3 SV=3 gi\|167991077, gi... - gi\|205330481\|gb\|EDZ17245.1\| methionyl tRNA synthetase [Salmonella enterica subsp. enterica serovar 4... lcl\|NC_016856.1_... - [gene=metG] [protein=methionyl-tRNA synthetase] [protein_id=YP_005238197.1] [location=2301292..23033... SYM_SALTY - Methionine--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=metG PE=3... SYM_SALDC - Methionine--tRNA ligase OS=Salmonella dublin (strain CT_02021853) GN=metG PE=3 SV=1 SYM_SALTY - Methionyl-tRNA synthetase OS=Salmonella typhimurium GN=metG PE=3 SV=3	510.0	[0..1]	[676..1]
SYM_SHESR - Methionine--tRNA ligase OS=Shewanella sp. (strain MR-7) GN=metG PE=3 SV=1	510.0	[0..1]	[676..1]
gi\|213428244 - gi\|213428244\|ref\|ZP_03360994.1\| methionyl-tRNA synthetase [Salmonella enterica subsp. enterica serov... gi\|213586109 - gi\|213586109\|ref\|ZP_03367935.1\| methionyl-tRNA synthetase [Salmonella enterica subsp. enterica serov... SYM_SALTI - Methionyl-tRNA synthetase OS=Salmonella typhi GN=metG PE=3 SV=3 SYM_SALTI - Methionine--tRNA ligase OS=Salmonella typhi GN=metG PE=3 SV=3 gi\|16761097 - gi\|16761097\|ref\|NP_456714.1\| methionyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar ... gi\|213650020 - gi\|213650020\|ref\|ZP_03380073.1\| methionyl-tRNA synthetase [Salmonella enterica subsp. enterica serov... gi\|213864934 - gi\|213864934\|ref\|ZP_03387053.1\| methionyl-tRNA synthetase [Salmonella enterica subsp. enterica serov...	509.0	[0..1]	[676..1]
gi\|90413229, gi\|... - gi\|90413229\|ref\|ZP_01221224.1\| methionyl-tRNA synthetase [Photobacterium profundum 3TCK], gi\|9032578...	509.0	[0..1]	[675..1]
SYM_ECOL5 - Methionine--tRNA ligase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=metG PE=3 SV=2 gi\|75242932, gi\|... - gi\|75242932\|ref\|ZP_00726638.1\| COG0143: Methionyl-tRNA synthetase [Escherichia coli F11], gi\|1911699...	509.0	[0..1]	[676..1]
gi\|110343914, gi... - gi\|110642322\|ref\|YP_670052.1\| methionyl-tRNA synthetase [Escherichia coli 536], gi\|110343914\|gb\|ABG7...	509.0	[0..1]	[676..4]

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Predicted Domain #1

Region A:
Residues: [1-87]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MATSQRKILV TSALPYANGP IHLGHMLEYI QTDIWSRYQK LRGHECHYIC ADDAHGTPIM  60
   61 LKAQQLGMAP EEMIAQVNKE HQQDFAD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	116.0
Match:	1f4lA
Description:	Methionyl-tRNA synthetase (MetRS); Methionyl-tRNA synthetase (MetRS), Zn-domain
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [88-676]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 FNIAFDNYHS THSEENRVLA SDIYLKLRAN GYIKSKSISQ LFDPEQSMFL PDRFVKGTCP  60
   61 KCKSPDQYGD NCDACGATYS PTELINPKSA VSGATPVMKD TEHFFFDLPA FEDMLKEWTR 120
  121 SGALQTEMAN KLDEWFEQGL QQWDITRDAP YFGFEIPDAP GKYFYVWLDA PIGYMGSFKN 180
  181 LCDKRPELSF DEFWAKDSKA EVYHFIGKDI VYFHSLFWPA MLYGSGYRQP NSVYAHGYVT 240
  241 VNGAKMSKSK GTFIKARTYL DHLDPEYLRY YYAAKLSSRI DDLDLNLEDF AQRVNSDLVG 300
  301 KLVNLASRTA GFITKRFDGK LAKITDTTLT EVFLAKQEQI AEFYETREYG KAMREIMALA 360
  361 DIANGFVADA APWQMVKHDD QQEAAHQVCS NALNLFRILV TYLKPVLPRL AQDVEAFFQQ 420
  421 TLTWDGLGQD MAGHEIAPFK AMMQRVELDK VNAMVADSKE NLQATTEPEA PKGPLATDPI 480
  481 SDTINYEDFA KIDLRIARIV KAEHVAEADK LLKLQLDIGG ETRQVFAGIK SAYSPEDLEG 540
  541 KLTVMVANLA PRKMRFGMSE GMVLAAGPGG SDLWILEPHE GAQPGMRVK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	74.69897
Match:	1gaxA
Description:	Valyl-tRNA synthetase (ValRS) C-terminal domain; Valyl-tRNA synthetase (ValRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming aminoacyl-tRNA and related compounds	7.16276509815667	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.16276509815667	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.13957775963187	bayes_pls_golite062009
ligase activity	6.11211476973434	bayes_pls_golite062009
methionine-tRNA ligase activity	5.54691369460949	bayes_pls_golite062009
valine-tRNA ligase activity	2.76211928339998	bayes_pls_golite062009
glutamate-tRNA ligase activity	2.63681738794687	bayes_pls_golite062009
leucine-tRNA ligase activity	2.62601062778624	bayes_pls_golite062009
catalytic activity	2.37674226834122	bayes_pls_golite062009
isoleucine-tRNA ligase activity	2.06526306263547	bayes_pls_golite062009
tyrosine-tRNA ligase activity	1.88984817882585	bayes_pls_golite062009
arginine-tRNA ligase activity	1.50161401062914	bayes_pls_golite062009
binding	1.25484337880125	bayes_pls_golite062009
tryptophan-tRNA ligase activity	1.14187887833901	bayes_pls_golite062009
nucleic acid binding	1.06540031996204	bayes_pls_golite062009
nucleotidyltransferase activity	1.06535308346284	bayes_pls_golite062009
cysteine-tRNA ligase activity	0.844943947059557	bayes_pls_golite062009
transferase activity, transferring phosphorus-containing groups	0.625793556381714	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: