YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|254163483, gi...
Organism:	Escherichia coli B str. REL606
Length:	689 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 gi|254163483, gi....

Description	E-value	Query Range	Subject Range
gi\|75515980, gi\|... - gi\|75515980\|ref\|ZP_00738098.1\| COG0751: Glycyl-tRNA synthetase, beta subunit [Escherichia coli 53638...	871.0	[0..1]	[689..1]
SYGB_SHISS - Glycine--tRNA ligase beta subunit OS=Shigella sonnei (strain Ss046) GN=glyS PE=3 SV=1 SYGB_ECO24 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=glyS PE=3 ... SYGB_ECO55 - Glycine--tRNA ligase beta subunit OS=Escherichia coli (strain 55989 / EAEC) GN=glyS PE=3 SV=1	871.0	[0..1]	[689..1]
gi\|189359259, gi... - gi\|189359259\|gb\|EDU77678.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC44... gi\|188018299, gi... - gi\|188018299\|gb\|EDU56421.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC41... gi\|168765973, gi... - gi\|189364795\|gb\|EDU83214.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC44... gi\|168759650, gi... - gi\|189369719\|gb\|EDU88135.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC45... gi\|189002608, gi... - gi\|189002608\|gb\|EDU71594.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC40... gi\|168772480, gi... - gi\|187771698\|gb\|EDU35542.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC41... SYGB_ECOK1 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O1:K1 / APEC GN=glyS PE=3 SV=1 SYGB_ECO45 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=glyS PE=3 SV=1 gi\|217326136, gi... - gi\|217326136\|ref\|ZP_03442220.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. ... SYGB_ECO81 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O81 (strain ED1a) GN=glyS PE=3 SV=1 gi\|168797396, gi... - gi\|189380084\|gb\|EDU98500.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC50... gi\|168785430, gi... - gi\|189374282\|gb\|EDU92698.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. EC86... gi\|208808060, gi... - gi\|208808060\|ref\|ZP_03250397.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. ... gi\|195935089 - gi\|195935089\|ref\|ZP_03080471.1\| glycyl-tRNA synthetase subunit beta [Escherichia coli O157:H7 str. E... gi\|208820866, gi... - gi\|208820866\|ref\|ZP_03261186.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. ... gi\|208734062, gi... - gi\|208812785\|ref\|ZP_03254114.1\| glycyl-tRNA synthetase, beta subunit [Escherichia coli O157:H7 str. ... SYGB_ECO27 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=glyS PE=3 ... SYGB_ECO5E - Glycine--tRNA ligase beta subunit OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=glyS PE=3 SV... gi\|75242652, gi\|... - gi\|75242652\|ref\|ZP_00726396.1\| COG0751: Glycyl-tRNA synthetase, beta subunit [Escherichia coli F11],... SYGB_ECOUT - Glycine--tRNA ligase beta subunit OS=Escherichia coli (strain UTI89 / UPEC) GN=glyS PE=3 SV=1 gi\|13363916, gi\|... - gi\|15833696\|ref\|NP_312469.1\| glycyl-tRNA synthetase subunit beta [Escherichia coli O157:H7 str. Saka... sp\|B7ULB9\|SYGB_ECO27 - Glycyl-tRNA synthetase beta subunit OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=glyS PE=... SYGB_ECOL5 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=glyS PE=3 SV... SYGB_ECO57 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O157:H7 GN=glyS PE=3 SV=2 gi\|209755204, gi... - pir\|\|B91184 glycine tRNA synthetase beta subunit [imported] - Escherichia coli (strain O157:H7, subs... SYGB_ECOL6 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=... gi\|227883725, gi... - gi\|227883725\|ref\|ZP_04001530.1\| glycyl-tRNA synthetase subunit beta [Escherichia coli 83972], gi\|227... SYGB_ECOL6 - Glycine--tRNA ligase beta subunit OS=Escherichia coli O6 GN=glyS PE=3 SV=2 gi\|226902593, gi... - gi\|237703329\|ref\|ZP_04533810.1\| glycyl-tRNA synthetase subunit beta [Escherichia sp. 3_2_53FAA], gi\|... gi\|254594915, gi... - gi\|254795515\|ref\|YP_003080352.1\| glycine tRNA synthetase, beta subunit [Escherichia coli O157:H7 str...	870.0	[0..1]	[689..1]
SYGB_SHIF8 - Glycine--tRNA ligase beta subunit OS=Shigella flexneri serotype 5b (strain 8401) GN=glyS PE=3 SV=1 SYGB_SHIFL - Glycine--tRNA ligase beta subunit OS=Shigella flexneri GN=glyS PE=3 SV=1 SYGB_ECOSE - Glycine--tRNA ligase beta subunit OS=Escherichia coli (strain SE11) GN=glyS PE=3 SV=1 gi\|24114835, gi\|... - gi\|24114835\|ref\|NP_709345.1\| glycyl-tRNA synthetase subunit beta [Shigella flexneri 2a str. 301], gi... gi\|30065154, gi\|... - gi\|30065154\|ref\|NP_839325.1\| glycyl-tRNA synthetase subunit beta [Shigella flexneri 2a str. 2457T], ... gi\|193061668, gi... - gi\|75260153\|ref\|ZP_00731421.1\| COG0751: Glycyl-tRNA synthetase, beta subunit [Escherichia coli E22],... gi\|75231597, gi\|... - gi\|75231597\|ref\|ZP_00717955.1\| COG0751: Glycyl-tRNA synthetase, beta subunit [Escherichia coli B7A],... gi\|194414435, gi... - gi\|75211312\|ref\|ZP_00711411.1\| COG0751: Glycyl-tRNA synthetase, beta subunit [Escherichia coli B171]...	870.0	[0..1]	[689..1]
gi\|192958195, gi... - gi\|75237495\|ref\|ZP_00721528.1\| COG0751: Glycyl-tRNA synthetase, beta subunit [Escherichia coli E1100...	870.0	[0..1]	[689..1]
SYGB_SHIB3 - Glycine--tRNA ligase beta subunit OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=gly...	869.0	[0..1]	[689..1]
gi\|194431308, gi... - gi\|83571586\|ref\|ZP_00923026.1\| COG0751: Glycyl-tRNA synthetase, beta subunit [Shigella dysenteriae 1...	869.0	[0..1]	[689..1]
SYGB_SHIBS - Glycine--tRNA ligase beta subunit OS=Shigella boydii serotype 4 (strain Sb227) GN=glyS PE=3 SV=1	867.0	[0..1]	[689..1]
gi\|25293197 - gi\|25293197\|pir\|\|G86030 glycine tRNA synthetase, beta subunit [imported] - Escherichia coli (strain ... gi\|12518293, gi\|... - gi\|15804104\|ref\|NP_290143.1\| glycyl-tRNA synthetase subunit beta [Escherichia coli O157:H7 EDL933], ...	867.0	[0..1]	[689..1]
SYGB_MANSM - Glycine--tRNA ligase beta subunit OS=Mannheimia succiniciproducens (strain MBEL55E) GN=glyS PE=3 SV=...	865.0	[0..1]	[689..1]

Back

Predicted Domain #1

Region A:
Residues: [1-229]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSEKTFLVEI GTEELPPKAL RSLAESFAAN FTAELDNAGL AHGTVQWFAA PRRLALKVAN  60
   61 LAEAQPDREI EKRGPAIAQA FDAEGKPSKA AEGWARGCGI TVDQAERLTT DKGEWLLYRA 120
  121 HVKGESTEAL LPNMVATSLA KLPIPKLMRW GASDVHFVRP VHTVTLLLGD KVIPATILGI 180
  181 QSDRVIRGHR FMGEPEFTID NADQYPEILR ERGKVIADYE ERKAKIKAD

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #2

Region A:
Residues: [230-327]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 AEEAARKIGG NADLSESLLE EVASLVEWPV VLTAKFEEKF LAVPAEALVY TMKGDQKYFP  60
   61 VYANDGKLLP NFIFVANIES KDPQQIISGN EKVVRPRL

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below is our most confident prediction for this domain.
Click here to view all matches.

Found no confident structure predictions for this domain.

Predicted Domain #3

Region A:
Residues: [328-466]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 ADAEFFFNTD RKKRLEDNLP RLQTVLFQQQ LGTLRDKTDR IQALAGWIAE QIGADVNHAT  60
   61 RAGLLSKCDL MTNMVFEFTD TQGVMGMHYA RHDGEAEDVA VALNEQYQPR FAGDDLPSNP 120
  121 VACALAIADK MDTLAGIFG

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	2.16
Match:	2pjqA
Description:	No description for 2pjqA was found.

Predicted functions:

Term	Confidence	Notes
phosphoric ester hydrolase activity	1.07633178573349	bayes_pls_golite062009
catalytic activity	1.0051367994492	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.594006188476253	bayes_pls_golite062009
binding	0.249342667148283	bayes_pls_golite062009

Predicted Domain #4

Region A:
Residues: [467-689]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 IGQHPKGDKD PFALRRAALG VLRIIVEKNL NLDLQTLTEE AVRLYGDKLT NANVVDDVID  60
   61 FMLGRFRAWY QDEGYTVDTI QAVLARRPTR PADFDARMKA VSHFRTLDAA AALAAANKRV 120
  121 SNILAKSDEV LSDRVNASTL KEPEEIKLAM QVVVLRDKLE PYFTEGRYQD ALVELAELRE 180
  181 PVDAFFDKVM VMVDDKELRI NRLTMLEKLR ELFLRVADIS LLQ

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.09691
Match:	1bs2A
Description:	Arginyl-tRNA synthetase (ArgRS); Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming carbon-oxygen bonds	7.22739538544605	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	7.22739538544605	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.21678612388154	bayes_pls_golite062009
ligase activity	5.98606099120849	bayes_pls_golite062009
isoleucine-tRNA ligase activity	3.76808520367507	bayes_pls_golite062009
catalytic activity	1.41356903593784	bayes_pls_golite062009
arginine-tRNA ligase activity	1.15514226827836	bayes_pls_golite062009
binding	0.532129028580124	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:

Predicted functions: