YRC Public Data Repository - Protein Structure Prediction

Protein:	SYT_SHEON
Organism:	Shewanella oneidensis MR-1
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_SHEON.

Description	E-value	Query Range	Subject Range
gi\|94310105, gi\|... - gi\|94310105\|ref\|YP_583315.1\| threonyl-tRNA synthetase [Ralstonia metallidurans CH34], gi\|93353957\|gb...	568.0	[0..1]	[635..29]
SYT_BURS3 - Threonine--tRNA ligase OS=Burkholderia sp. (strain 383) GN=thrS PE=3 SV=1 SYT_BURL3 - Threonine--tRNA ligase OS=Burkholderia lata (strain ATCC 17760 / LMG 22485 / NCIMB 9086 / R18194 / 3...	562.0	[0..1]	[636..1]
SYT_CUPPJ - Threonine--tRNA ligase OS=Cupriavidus pinatubonensis (strain JMP 134 / LMG 1197) GN=thrS PE=3 SV=1	560.0	[0..1]	[635..1]
gi\|254245609, gi... - gi\|254245609\|ref\|ZP_04938930.1\| Threonyl-tRNA synthetase, class IIa [Burkholderia cenocepacia PC184]... gi\|162218055, gi... - gi\|67656296\|ref\|ZP_00453679.1\| Threonyl-tRNA synthetase, class IIa [Burkholderia cenocepacia AU 1054... gi\|162227933, gi... - gi\|67668173\|ref\|ZP_00465361.1\| Threonyl-tRNA synthetase, class IIa [Burkholderia cenocepacia HI2424]...	559.0	[0..1]	[636..1]
SYT_SHIDS - Threonine--tRNA ligase OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=thrS PE=3 SV=1	559.0	[0..1]	[642..1]
gi\|43066 - gi\|43066\|emb\|CAA23560.1\| unnamed protein product [Escherichia coli]	559.0	[0..1]	[642..1]
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	559.0	[0..1]	[642..1]
SYT_BURVG - Threonine--tRNA ligase OS=Burkholderia vietnamiensis (strain G4 / LMG 22486) GN=thrS PE=3 SV=1	558.0	[0..1]	[636..1]
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	558.0	[0..1]	[642..1]
gi\|187776029, gi... - gi\|187776029\|ref\|ZP_02799987.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4196], gi\|... gi\|188016225, gi... - gi\|188024843\|ref\|ZP_02774486.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4113], gi\|... gi\|189010441, gi... - gi\|189010441\|ref\|ZP_02807141.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4076], gi\|... gi\|189356196, gi... - gi\|189402338\|ref\|ZP_02781727.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4401], gi\|... gi\|189367509, gi... - gi\|189367509\|gb\|EDU85925.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4501], gi\|1687... gi\|189372060, gi... - gi\|189372060\|gb\|EDU90476.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC869], gi\|16878... gi\|189377572, gi... - gi\|189377572\|gb\|EDU95988.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC508], gi\|16880... gi\|15831680, gi\|... - gi\|15831680\|ref\|NP_310453.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|1336... gi\|254793336, gi... - gi\|254793336\|ref\|YP_003078173.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14359], g... SYT_ECO57 - Threonine--tRNA ligase OS=Escherichia coli O157:H7 GN=thrS PE=3 SV=1 gi\|209768834, gi... - pir\|\|F85780 threonine tRNA synthetase [imported] - Escherichia coli (strain O157:H7, substrain EDL9... gi\|15802131, gi\|... - gi\|15802131\|ref\|NP_288153.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 EDL933], gi\|12515733... gi\|217318337, gi... - gi\|217328990\|ref\|ZP_03445071.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14588], gi... gi\|189360618, gi... - gi\|189403439\|ref\|ZP_02795487.2\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4486], gi\|... gi\|208725260, gi... - gi\|208810744\|ref\|ZP_03252620.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4206], gi\|... gi\|208730990, gi... - gi\|208816647\|ref\|ZP_03257767.1\| threonyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4045], gi\|... SYT_ECO5E - Threonine--tRNA ligase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=thrS PE=3 SV=1	557.0	[0..1]	[642..1]

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Predicted Domain #1

Region A:
Residues: [1-642]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPVITLPDGS KREFAHPVST LDVAADIGPG LAKACIAGRV NGELKDACDL IETDAELSII  60
   61 TAKDEEGIEI LRHSCAHLLG HAIKQLWPQT KMAIGPVIDN GFYYDIDLEH KLTQDDIEAL 120
  121 EKRMLELAKT NYDVVKRVVS WQEARDTFAA RGEEYKIAIL DENISKDATP ALYHHEEYTD 180
  181 MCRGPHVPNM RFCQHFKLMS IAGAYWRGNS ENKMLQRIYG TAWADKKALS TYLARLEEAA 240
  241 KRDHRKIGKQ LDLYHMQEEA PGMVFWHNDG WSIFLELERF IRRKLNQYTY QEVKGPLMMD 300
  301 RVLWERSGHW DKYSEAMFTT SSENREYAIK PMNCPGHVQI FNQGLKSYRD LPLRMAEFGC 360
  361 CHRNEPSGSL HGLMRVRGFT QDDAHIFCTE DQVQAEVSSC IQMVYDTYST FGFENIVVKL 420
  421 STRPEKRIGD DAMWDRAEEA LKQALRANNI EFTILPGEGA FYGPKIEFTL HDCLDRAWQC 480
  481 GTVQLDYALP SRLGATYVAE DNSRQTPVMI HRAILGSLER FLGILIEEYA GRFPTWLAPM 540
  541 QVVVMNITDK QADYVEEVVK FFKEQGIRAS FDLRNEKIGF KIREHTLRRV PYLLVVGDQE 600
  601 MENKEVAVRT RDGVDLGKMR IEDFAAKIHQ QISLRSLKLL EE

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	159.0
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
proline-tRNA ligase activity	3.75014065504119	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: