YRC Public Data Repository - Protein Structure Prediction

Protein:	SYGA_SHEON
Organism:	Shewanella oneidensis MR-1
Length:	301 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 SYGA_SHEON.

Description	E-value	Query Range	Subject Range
SYGA_SHEAM - Glycine--tRNA ligase alpha subunit OS=Shewanella amazonensis (strain ATCC BAA-1098 / SB2B) GN=glyQ P...	636.0	[0..1]	[301..1]
SYGA_SHEFN - Glycine--tRNA ligase alpha subunit OS=Shewanella frigidimarina (strain NCIMB 400) GN=glyQ PE=3 SV=1	636.0	[0..1]	[301..1]
SYGA_SHEB5 - Glycine--tRNA ligase alpha subunit OS=Shewanella baltica (strain OS155 / ATCC BAA-1091) GN=glyQ PE=3... SYGA_SHEB8 - Glycine--tRNA ligase alpha subunit OS=Shewanella baltica (strain OS185) GN=glyQ PE=3 SV=1 SYGA_SHEB9 - Glycine--tRNA ligase alpha subunit OS=Shewanella baltica (strain OS195) GN=glyQ PE=3 SV=1 SYGA_SHEB2 - Glycine--tRNA ligase alpha subunit OS=Shewanella baltica (strain OS223) GN=glyQ PE=3 SV=1	635.0	[0..1]	[301..1]
gi\|77960174, gi\|... - gi\|77960174\|ref\|ZP_00824061.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Yersinia mollaretii A...	634.0	[0..3]	[301..2]
gi\|238716056, gi... - gi\|77959655\|ref\|ZP_00823673.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Yersinia bercovieri A...	633.0	[0..3]	[301..2]
SYGA_SHIB3 - Glycine--tRNA ligase alpha subunit OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=gl... SYGA_ECO24 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=glyQ PE=3... SYGA_ECOK1 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O1:K1 / APEC GN=glyQ PE=3 SV=1 gi\|124501569, gi... - gi\|124526875\|ref\|ZP_01698757.1\| Glycine--tRNA ligase [Escherichia coli B], gi\|124501569\|gb\|EAY49032.... gi\|168797397, gi... - gi\|189379985\|gb\|EDU98401.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC5... gi\|168785431, gi... - gi\|189374294\|gb\|EDU92710.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC8... gi\|170767045, gi... - gi\|170767045\|ref\|ZP_02901498.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia albertii TW07627]... SYGA_ECOSM - Glycine--tRNA ligase alpha subunit OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=glyQ PE=3 SV=1 gi\|208729262, gi... - gi\|208809461\|ref\|ZP_03251798.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str.... gi\|195935090 - gi\|195935090\|ref\|ZP_03080472.1\| glycyl-tRNA synthetase subunit alpha [Escherichia coli O157:H7 str. ... gi\|208739586, gi... - gi\|208819463\|ref\|ZP_03259783.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str.... gi\|208812043, gi... - gi\|208812043\|ref\|ZP_03253372.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str.... gi\|167549107, gi... - gi\|205325508\|gb\|EDZ13347.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. enteri... gi\|168753379, gi... - gi\|189359380\|gb\|EDU77799.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|168746895, gi... - gi\|188018372\|gb\|EDU56494.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|168765974, gi... - gi\|189364678\|gb\|EDU83097.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC4... tr\|A0A0G3I109\|A0... - Glycine--tRNA ligase alpha subunit OS=Escherichia coli (strain K12) GN=glyQ PE=3 SV=1 gi\|189369512, gi... - gi\|189369512\|gb\|EDU87928.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|189002567, gi... - gi\|189002567\|gb\|EDU71553.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|168772479, gi... - gi\|187771688\|gb\|EDU35532.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str. EC4... gi\|13363917, gi\|... - gi\|15833697\|ref\|NP_312470.1\| glycyl-tRNA synthetase subunit alpha [Escherichia coli O157:H7 str. Sak... SYGA_ECOL5 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=glyQ PE=3 S... SYGA_SHIF8 - Glycine--tRNA ligase alpha subunit OS=Shigella flexneri serotype 5b (strain 8401) GN=glyQ PE=3 SV=1 gi\|194431329, gi... - gi\|83571587\|ref\|ZP_00923027.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Shigella dysenteriae ... gi\|194435819, gi... - gi\|83588587\|ref\|ZP_00927211.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Escherichia coli 101-... SYGA_ECOUT - Glycine--tRNA ligase alpha subunit OS=Escherichia coli (strain UTI89 / UPEC) GN=glyQ PE=3 SV=1 SYGA_ECO57 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O157:H7 GN=glyQ PE=3 SV=1 SYGA_ECOLC - Glycine--tRNA ligase alpha subunit OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=gly... SYGA_ECOL6 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O6 GN=glyQ PE=3 SV=1 gi\|30043414, gi\|... - gi\|30065153\|ref\|NP_839324.1\| glycyl-tRNA synthetase subunit alpha [Shigella flexneri 2a str. 2457T],... SYGA_ECOL6 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN... gi\|15804105, gi\|... - gi\|15804105\|ref\|NP_290144.1\| glycyl-tRNA synthetase subunit alpha [Escherichia coli O157:H7 EDL933],... SYGA_CITK8 - Glycine--tRNA ligase alpha subunit OS=Citrobacter koseri (strain ATCC BAA-895 / CDC 4225-83 / SGSC46... SYGA_SHIFL - Glycine--tRNA ligase alpha subunit OS=Shigella flexneri GN=glyQ PE=3 SV=1 gi\|24114836, gi\|... - gi\|24114836\|ref\|NP_709346.1\| glycyl-tRNA synthetase subunit alpha [Shigella flexneri 2a str. 301], g... gi\|209755190, gi... - pir\|\|H86030 glycine tRNA synthetase, alpha subunit [imported] - Escherichia coli (strain O157:H7, su... SYGA_ECO7I - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=glyQ PE=3 SV=... gi\|227883726, gi... - gi\|227883726\|ref\|ZP_04001531.1\| glycyl-tRNA synthetase subunit alpha [Escherichia coli 83972], gi\|22... SYGA_ECO55 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli (strain 55989 / EAEC) GN=glyQ PE=3 SV=1 gi\|237703330, gi... - gi\|237703330\|ref\|ZP_04533811.1\| glycyl-tRNA synthetase subunit alpha [Escherichia sp. 3_2_53FAA], gi... sp\|B7ULC0\|SYGA_ECO27 - Glycyl-tRNA synthetase alpha subunit OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=glyQ PE... SYGA_ECOBW - Glycine--tRNA ligase alpha subunit OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=glyQ PE=3 S... SYGA_ECOLU - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=glyQ P... gi\|242379078, gi... - gi\|251786805\|ref\|YP_003001109.1\| hypothetical protein B21_03362 [Escherichia coli BL21], gi\|24237907... gi\|254290234, gi... - gi\|254290234\|ref\|YP_003055982.1\| glycyl-tRNA synthetase subunit alpha [Escherichia coli BL21(DE3)], ... gi\|254038745, gi... - gi\|254038745\|ref\|ZP_04872801.1\| glycyl-tRNA synthetase subunit alpha [Escherichia sp. 1_1_43], gi\|22... gi\|254163484, gi... - gi\|254163484\|ref\|YP_003046592.1\| glycyl-tRNA synthetase subunit alpha [Escherichia coli B str. REL60... gi\|254594916, gi... - gi\|254795516\|ref\|YP_003080353.1\| glycine tRNA synthetase, alpha subunit [Escherichia coli O157:H7 st... SYGA_ECOSE - Glycine--tRNA ligase alpha subunit OS=Escherichia coli (strain SE11) GN=glyQ PE=3 SV=1 SYGA_ECO5E - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=glyQ PE=3 S... gi\|217324718, gi... - gi\|217324718\|ref\|ZP_03440802.1\| glycyl-tRNA synthetase, alpha subunit [Escherichia coli O157:H7 str.... SYGA_ECO27 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=glyQ PE=3... SYGA_ECO8A - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O8 (strain IAI1) GN=glyQ PE=3 SV=1 SYGA_ESCF3 - Glycine--tRNA ligase alpha subunit OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 05... SYGA_ECO81 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O81 (strain ED1a) GN=glyQ PE=3 SV=1 SYGA_ECO45 - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=glyQ PE=3 SV=1 SYGA_SHIDS - Glycine--tRNA ligase alpha subunit OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=glyQ PE=3 SV... SYGA_SHIBS - Glycine--tRNA ligase alpha subunit OS=Shigella boydii serotype 4 (strain Sb227) GN=glyQ PE=3 SV=1 gi\|191165304, gi... - gi\|75231596\|ref\|ZP_00717954.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Escherichia coli B7A]... gi\|192958179, gi... - gi\|75237496\|ref\|ZP_00721529.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Escherichia coli E110... SYGA_ECOHS - Glycine--tRNA ligase alpha subunit OS=Escherichia coli O9:H4 (strain HS) GN=glyQ PE=3 SV=1 gi\|75211313, gi\|... - gi\|75211313\|ref\|ZP_00711412.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Escherichia coli B171... gi\|188490108, gi... - gi\|75515979\|ref\|ZP_00738097.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Escherichia coli 5363... SYGA_SHISS - Glycine--tRNA ligase alpha subunit OS=Shigella sonnei (strain Ss046) GN=glyQ PE=3 SV=1 gi\|75242651, gi\|... - gi\|75242651\|ref\|ZP_00726395.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Escherichia coli F11]... gi\|193061756, gi... - gi\|75260152\|ref\|ZP_00731420.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Escherichia coli E22]...	633.0	[0..3]	[300..2]
gi\|238727551, gi... - gi\|77978087\|ref\|ZP_00833521.1\| COG0752: Glycyl-tRNA synthetase, alpha subunit [Yersinia intermedia A...	632.0	[0..3]	[301..2]
SYGA_SALCH - Glycine--tRNA ligase alpha subunit OS=Salmonella choleraesuis GN=glyQ PE=3 SV=1 SYGA_SALTY - Glycyl-tRNA synthetase alpha subunit OS=Salmonella typhimurium GN=glyQ PE=3 SV=1 SYGA_SALTY - Glycine--tRNA ligase alpha subunit OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) G... SYGA_SALCH - Glycyl-tRNA synthetase alpha subunit OS=Salmonella choleraesuis GN=glyQ PE=3 SV=1 SYGA_SALDC - Glycine--tRNA ligase alpha subunit OS=Salmonella dublin (strain CT_02021853) GN=glyQ PE=3 SV=1 gi\|197241390, gi... - gi\|197263135\|ref\|ZP_03163209.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. en... SYGA_SALA4 - Glycine--tRNA ligase alpha subunit OS=Salmonella agona (strain SL483) GN=glyQ PE=3 SV=1 gi\|194472354, gi... - gi\|194472354\|ref\|ZP_03078338.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. en... SYGA_SALPC - Glycine--tRNA ligase alpha subunit OS=Salmonella paratyphi C (strain RKS4594) GN=glyQ PE=3 SV=1 SYGA_SALEP - Glycine--tRNA ligase alpha subunit OS=Salmonella enteritidis PT4 (strain P125109) GN=glyQ PE=3 SV=1 SYGA_SALG2 - Glycine--tRNA ligase alpha subunit OS=Salmonella gallinarum (strain 287/91 / NCTC 13346) GN=glyQ PE=... gi\|199605760, gi... - gi\|200388662\|ref\|ZP_03215274.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. en... gi\|168260600, gi... - gi\|205350145\|gb\|EDZ36776.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. enteri... gi\|168241825, gi... - gi\|205338694\|gb\|EDZ25458.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. enteri... gi\|168232494, gi... - gi\|205333312\|gb\|EDZ20076.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. enteri... gi\|205330796, gi... - gi\|205330796\|gb\|EDZ17560.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. enteri... SYGA_SALHS - Glycine--tRNA ligase alpha subunit OS=Salmonella heidelberg (strain SL476) GN=glyQ PE=3 SV=1 SYGA_SALNS - Glycine--tRNA ligase alpha subunit OS=Salmonella newport (strain SL254) GN=glyQ PE=3 SV=1 SYGA_SALCH - Glycine--tRNA ligase alpha subunit OS=Salmonella choleraesuis (strain SC-B67) GN=glyQ PE=3 SV=1 gi\|168818523, gi... - gi\|205344474\|gb\|EDZ31238.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. enteri... gi\|168465045, gi... - gi\|195632343\|gb\|EDX50827.1\| glycyl-tRNA synthetase, alpha subunit [Salmonella enterica subsp. enteri... SYGA_SALTY - Glycine--tRNA ligase alpha subunit OS=Salmonella typhimurium GN=glyQ PE=3 SV=1 lcl\|NC_016856.1_... - [gene=glyQ] [protein=glycyl-tRNA synthetase subunit alpha] [protein_id=YP_005239887.1] [location=com... gi\|283787795\|ref... - glycine-tRNA synthetase, alpha subunit [Citrobacter rodentium ICC168] gi\|228558181, gi... - gi\|228558181\|gb\|EEK22846.1\| hypothetical protein CIT292_00256 [Citrobacter youngae ATCC 29220], gi\|2... gi\|238910310 - gi\|238910310\|ref\|ZP_04654147.1\| glycyl-tRNA synthetase subunit alpha [Salmonella enterica subsp. ent... gi\|237728874, gi... - gi\|237728874\|ref\|ZP_04559355.1\| glycyl-tRNA synthetase subunit alpha [Citrobacter sp. 30_2], gi\|2269...	632.0	[0..3]	[300..2]
gi\|90325194, gi\|... - gi\|90413725\|ref\|ZP_01221713.1\| glycyl-tRNA synthetase alpha subunit [Photobacterium profundum 3TCK],...	632.0	[0..5]	[301..4]
gi\|46911713, gi\|... - gi\|54307293\|ref\|YP_128313.1\| glycyl-tRNA synthetase subunit alpha [Photobacterium profundum SS9], gi...	632.0	[0..5]	[301..22]

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Predicted Domain #1

Region A:
Residues: [1-301]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTTKHDVKTF QGFILTLQEY WAQQGCAIVQ PLDMEVGAGT FHPQTFLRSL GPEPMSSAYV  60
   61 QPSRRPTDGR YGENPNRLQH YYQFQVVLKP SPDNIQELYL GSLQALGIDT QIHDIRFVED 120
  121 NWESPTLGAW GLGWEVWLNG MEVTQFTYFQ QVGGLECSPV TGEITYGLER LAMYIQGVDS 180
  181 VYDLVWTDGP MGRITYGDVF HQNEVEQSTY NFEHADVDFM FALFDQCEKM CQHLLSLEKP 240
  241 LPLPAYEQVM KASHAFNLLD ARHAISVTER QRYILRVRTM AKAVAESYYQ AREALGFPMC 300
  301 K

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	149.0
Match:	1j5wA
Description:	Glycyl-tRNA synthetase (GlyRS) alpha chain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
glycine-tRNA ligase activity	13.4352200543886	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.89468709683036	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	7.89468709683036	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.88410036819636	bayes_pls_golite062009
ligase activity	6.92073480193262	bayes_pls_golite062009
phenylalanine-tRNA ligase activity	3.4145644216516	bayes_pls_golite062009
threonine-tRNA ligase activity	2.18642354927	bayes_pls_golite062009
serine-tRNA ligase activity	2.07594942154162	bayes_pls_golite062009
catalytic activity	1.99372273395202	bayes_pls_golite062009
alanine-tRNA ligase activity	1.82594054955281	bayes_pls_golite062009
lysine-tRNA ligase activity	1.72324031407565	bayes_pls_golite062009
histidine-tRNA ligase activity	1.72215103383322	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
binding	0.311307565529325	bayes_pls_golite062009
aspartate-tRNA ligase activity	0.00572514744734753	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: