YRC Public Data Repository - Protein Structure Prediction

Protein:	SYT_YERPB
Organism:	Yersinia pseudotuberculosis PB1/+
Length:	642 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 SYT_YERPB.

Description	E-value	Query Range	Subject Range
gi\|197241161, gi... - gi\|197262906\|ref\|ZP_03162980.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... SYT_SALTY - Threonine--tRNA ligase OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=thrS PE=3 ... SYT_SALHS - Threonine--tRNA ligase OS=Salmonella heidelberg (strain SL476) GN=thrS PE=3 SV=1 SYT_SALTY - Threonyl-tRNA synthetase OS=Salmonella typhimurium GN=thrS PE=3 SV=1 gi\|168244449, gi... - gi\|205336802\|gb\|EDZ23566.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar He... gi\|205329759, gi... - gi\|205329759\|gb\|EDZ16523.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar 4,... lcl\|NC_016856.1_... - [gene=thrS] [protein=threonyl-tRNA synthetase] [protein_id=YP_005237194.1] [location=1422178..142410... SYT_SALTY - Threonine--tRNA ligase OS=Salmonella typhimurium GN=thrS PE=3 SV=1	0.0	[1..642]	[1..642]
SYT_SHIB3 - Threonine--tRNA ligase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=thrS PE=3 SV=1 SYT_SHIBS - Threonine--tRNA ligase OS=Shigella boydii serotype 4 (strain Sb227) GN=thrS PE=3 SV=1	0.0	[1..642]	[1..642]
SYT_SALTI - Threonyl-tRNA synthetase OS=Salmonella typhi GN=thrS PE=3 SV=1 gi\|199602680, gi... - gi\|200390235\|ref\|ZP_03216846.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... SYT_SALA4 - Threonine--tRNA ligase OS=Salmonella agona (strain SL483) GN=thrS PE=3 SV=1 SYT_SALSV - Threonine--tRNA ligase OS=Salmonella schwarzengrund (strain CVM19633) GN=thrS PE=3 SV=1 gi\|205341550, gi... - gi\|205341550\|gb\|EDZ28314.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar We... gi\|213852224 - gi\|213852224\|ref\|ZP_03381756.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213426331 - gi\|213426331\|ref\|ZP_03359081.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|213423451 - gi\|213423451\|ref\|ZP_03356434.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|204927743, gi... - gi\|204927743\|ref\|ZP_03218944.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova... gi\|168239001, gi... - gi\|197288252\|gb\|EDY27637.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Sc... SYT_SALTI - Threonine--tRNA ligase OS=Salmonella typhi GN=thrS PE=3 SV=1 gi\|167552305, gi... - gi\|205323017\|gb\|EDZ10856.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Sa... gi\|29141677, gi\|... - gi\|29141677\|ref\|NP_805019.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar T... gi\|16760562 - gi\|16760562\|ref\|NP_456179.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar T... gi\|238910851 - gi\|238910851\|ref\|ZP_04654688.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serova...	0.0	[1..642]	[1..642]
SYT_SHIDS - Threonine--tRNA ligase OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=thrS PE=3 SV=1	0.0	[1..642]	[1..642]
SYT_SALPA - Threonine--tRNA ligase OS=Salmonella paratyphi A GN=thrS PE=3 SV=1 SYT_SALPK - Threonine--tRNA ligase OS=Salmonella paratyphi A (strain AKU_12601) GN=thrS PE=3 SV=1 SYT_SALPA - Threonine--tRNA ligase OS=Salmonella paratyphi A (strain ATCC 9150 / SARB42) GN=thrS PE=3 SV=1	0.0	[1..642]	[1..642]
gi\|77959152, gi\|... - gi\|77959152\|ref\|ZP_00823175.1\| COG0441: Threonyl-tRNA synthetase [Yersinia bercovieri ATCC 43970], g...	0.0	[1..642]	[1..642]
SYT_SALCH - Threonine--tRNA ligase OS=Salmonella choleraesuis (strain SC-B67) GN=thrS PE=3 SV=1 SYT_SALCH - Threonine--tRNA ligase OS=Salmonella choleraesuis GN=thrS PE=3 SV=1 SYT_SALCH - Threonyl-tRNA synthetase OS=Salmonella choleraesuis GN=thrS PE=3 SV=1 gi\|168463268, gi... - gi\|195634423\|gb\|EDX52775.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Ne... gi\|168263848, gi... - gi\|205347615\|gb\|EDZ34246.1\| threonyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar Ha...	0.0	[1..642]	[1..642]
SYT_ECOK1 - Threonine--tRNA ligase OS=Escherichia coli O1:K1 / APEC GN=thrS PE=3 SV=1 SYT_ECOLI - Threonyl-tRNA synthetase (EC 6.1.1.3) (Threonine--tRNA ligase) (ThrRS) - Escherichia coli SYT_SHISS - Threonine--tRNA ligase OS=Shigella sonnei (strain Ss046) GN=thrS PE=3 SV=1 SYT_SHIFL - Threonine--tRNA ligase OS=Shigella flexneri GN=thrS PE=3 SV=1 gi\|24112885, gi\|... - gi\|24112885\|ref\|NP_707395.1\| threonyl-tRNA synthetase [Shigella flexneri 2a str. 301], gi\|24051829\|g... EG11001 - threonyl-tRNA synthetase / Threonine--tRNA ligase, autogenously regulated; binds Zn(II) SYT_ECOL6 - Threonine--tRNA ligase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=thrS PE=3 S... gi\|30063014, gi\|... - gi\|30063014\|ref\|NP_837185.1\| threonyl-tRNA synthetase [Shigella flexneri 2a str. 2457T], gi\|30041263... SYT_ECOL6 - Threonine--tRNA ligase OS=Escherichia coli O6 GN=thrS PE=3 SV=1 sp\|B7USA2\|SYT_ECO27 - Threonyl-tRNA synthetase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=thrS PE=3 SV=1 SYT_ECOSM - Threonine--tRNA ligase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=thrS PE=3 SV=1 SYT_ECODH - Threonine--tRNA ligase OS=Escherichia coli (strain K12 / DH10B) GN=thrS PE=3 SV=1 gi\|190908082, gi... - gi\|191171752\|ref\|ZP_03033299.1\| threonyl-tRNA synthetase [Escherichia coli F11], gi\|190908082\|gb\|EDV... gi\|188492265, gi... - gi\|188492265\|ref\|ZP_02999535.1\| threonyl-tRNA synthetase [Escherichia coli 53638], gi\|188487464\|gb\|E... gi\|89108559, gi\|... - gi\|89108559\|ref\|AP_002339.1\| threonyl-tRNA synthetase [Escherichia coli str. K-12 substr. W3110], gi... SYT_ECO7I - Threonine--tRNA ligase OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=thrS PE=3 SV=1 gi\|242377442, gi... - gi\|251785169\|ref\|YP_002999473.1\| hypothetical protein B21_01677 [Escherichia coli BL21], gi\|24237744... SYT_ECOUT - Threonine--tRNA ligase OS=Escherichia coli (strain UTI89 / UPEC) GN=thrS PE=3 SV=1 SYT_ECO81 - Threonine--tRNA ligase OS=Escherichia coli O81 (strain ED1a) GN=thrS PE=3 SV=1 gi\|254288567, gi... - gi\|254288567\|ref\|YP_003054315.1\| threonyl-tRNA synthetase [Escherichia coli BL21(DE3)], gi\|253977874... SYT_ECOL5 - Threonine--tRNA ligase OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=thrS PE=3 SV=1 gi\|237705668, gi... - gi\|237705668\|ref\|ZP_04536149.1\| threonyl-tRNA synthetase [Escherichia sp. 3_2_53FAA], gi\|226900425\|g... EG11001 - threonyl-tRNA synthetase / Threonine--tRNA ligase, autogenously regulated; binds Zn(II) SYT_SHIF8 - Threonine--tRNA ligase OS=Shigella flexneri serotype 5b (strain 8401) GN=thrS PE=3 SV=1 SYT_ECOLU - Threonine--tRNA ligase OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=thrS PE=3 SV=1 SYT_ECOBW - Threonine--tRNA ligase OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=thrS PE=3 SV=1 gi\|194422590, gi... - gi\|194438580\|ref\|ZP_03070669.1\| threonyl-tRNA synthetase [Escherichia coli 101-1], gi\|194422590\|gb\|E... gi\|194416606, gi... - gi\|194435142\|ref\|ZP_03067376.1\| threonyl-tRNA synthetase [Shigella dysenteriae 1012], gi\|194416606\|g... SYT_ECO45 - Threonine--tRNA ligase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=thrS PE=3 SV=1 gi\|254161779, gi... - gi\|254161779\|ref\|YP_003044887.1\| threonyl-tRNA synthetase [Escherichia coli B str. REL606], gi\|25397... SYT_ECO27 - Threonine--tRNA ligase OS=Escherichia coli O127:H6 (strain E2348/69 / EPEC) GN=thrS PE=3 SV=1	0.0	[1..642]	[1..642]
gi\|43066 - gi\|43066\|emb\|CAA23560.1\| unnamed protein product [Escherichia coli]	0.0	[1..642]	[1..642]
SYT_METCA - Threonyl-tRNA synthetase OS=Methylococcus capsulatus GN=thrS PE=3 SV=1 SYT_METCA - Threonine--tRNA ligase OS=Methylococcus capsulatus (strain ATCC 33009 / NCIMB 11132 / Bath) GN=thrS ...	0.0	[1..637]	[1..636]

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Predicted Domain #1

Region A:
Residues: [1-642]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPVITLPDGS QRHYDHAVSV LDVALDIGPG LAKACIAGRV NGELVDASDL IESDAQLAII  60
   61 TAKDAEGLEI LRHSCAHLLG HAIKQLWPDT KMAIGPVIDN GFYYDVDIEH TLTQEDLALL 120
  121 EKRMHELADK DYDVIKKKVS WQEARDTFAA RGEDYKVAIL DENISRDDRP GLYHHEEYVD 180
  181 MCRGPHVPNM RFCHHFKLQK TSGAYWRGDS KNKMLQRIYG TAWGDKKQLN AYLQRLEEAA 240
  241 KRDHRKIGKQ LDLYHMQEEA PGMVFWHNDG WTIFRELETF VRMKLKEYQY QEVKGPFMMD 300
  301 RVLWEKTGHW ENYAEHMFTT SSENREYCIK PMNCPGHVQI FNQGLKSYRD LPLRMAEFGS 360
  361 CHRNEPSGAL HGLMRVRGFT QDDAHVFCTE EQVRDEVNSC IKMVYDMYST FGFEKIVVKL 420
  421 STRPEKRIGS DELWTRAEDD LAAALTENGI PFDYQPGEGA FYGPKIEFTL HDCLDRAWQC 480
  481 GTVQLDFSLP GRLSASYIGE NNDRQVPVMI HRAILGSMER FIGILTEEYA GFFPTWLAPV 540
  541 QVVVMNITDS QSDYVQQVTK KLQDAGIRAK ADLRNEKIGF KIREHTLRRV PYMLVCGDKE 600
  601 VESGKIAVRT RRGKDLGSLD VNVVVDQLLA EIRSRSLHQL EE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	148.0
Match:	1qf6A
Description:	Threonyl-tRNA synthetase (ThrRS), C-terminal domain; Threonyl-tRNA synthetase (ThrRS), N-terminal 'additional' domain; Threonyl-tRNA synthetase (ThrRS), second 'additional' domain; Threonyl-tRNA synthetase (ThrRS)
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ligase activity, forming aminoacyl-tRNA and related compounds	7.89468709683036	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	7.89468709683036	bayes_pls_golite062009
aminoacyl-tRNA ligase activity	7.88410036819636	bayes_pls_golite062009
ligase activity	6.92073480193262	bayes_pls_golite062009
threonine-tRNA ligase activity	6.47381405106149	bayes_pls_golite062009
phenylalanine-tRNA ligase activity	2.99105702052936	bayes_pls_golite062009
serine-tRNA ligase activity	2.46505535069103	bayes_pls_golite062009
glycine-tRNA ligase activity	2.29229136935761	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
binding	1.11470390774037	bayes_pls_golite062009
transcription regulator activity	1.0753492604686	bayes_pls_golite062009
asparagine-tRNA ligase activity	0.921492123574877	bayes_pls_golite062009
nucleic acid binding	0.897558352141977	bayes_pls_golite062009
DNA binding	0.854148126675211	bayes_pls_golite062009
transcription repressor activity	0.55217603492525	bayes_pls_golite062009
transcription factor activity	0.283508546234551	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: