YRC Public Data Repository - Protein Structure Prediction

Protein:	SYM_ECOLI
Organism:	Escherichia coli
Length:	677 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_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|110343914, gi... - gi\|110642322\|ref\|YP_670052.1\| methionyl-tRNA synthetase [Escherichia coli 536], gi\|110343914\|gb\|ABG7...	592.0	[0..1]	[677..4]
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...	592.0	[0..1]	[677..1]
gi\|91072975, gi\|... - gi\|91211401\|ref\|YP_541387.1\| methionyl-tRNA synthetase [Escherichia coli UTI89], gi\|91072975\|gb\|ABE0... gi\|117624319, gi... - gi\|117624319\|ref\|YP_853232.1\| methionyl-tRNA synthetase [Escherichia coli APEC O1], gi\|115513443\|gb\|... gi\|227887166, gi... - gi\|227887166\|ref\|ZP_04004971.1\| methionyl-tRNA synthetase [Escherichia coli 83972], gi\|227835516\|gb\|... gi\|237704573, gi... - gi\|237704573\|ref\|ZP_04535054.1\| methionyl-tRNA synthetase [Escherichia sp. 3_2_53FAA], gi\|226900939\|... gi\|26108895, gi\|... - gi\|26248490\|ref\|NP_754530.1\| methionyl-tRNA synthetase [Escherichia coli CFT073], gi\|26108895\|gb\|AAN...	592.0	[0..1]	[677..4]
SYM_ECO45 - Methionine--tRNA ligase OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=metG PE=3 SV=1 SYM_ECOUT - Methionine--tRNA ligase OS=Escherichia coli (strain UTI89 / UPEC) GN=metG PE=3 SV=2 SYM_ECOK1 - Methionine--tRNA ligase OS=Escherichia coli O1:K1 / APEC GN=metG PE=3 SV=2 SYM_ECOL6 - Methionine--tRNA ligase OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=metG PE=3 ... SYM_ECOL6 - Methionine--tRNA ligase OS=Escherichia coli O6 GN=metG PE=3 SV=3	592.0	[0..1]	[677..1]
gi\|15832174, gi\|... - gi\|15832174\|ref\|NP_310947.1\| methionyl-tRNA synthetase [Escherichia coli O157:H7 str. Sakai], gi\|133... gi\|226237469 - gi\|226237469\|dbj\|BAH46991.1\| methionyl-tRNA synthetase [Escherichia coli O55:H7] gi\|254793941, gi... - gi\|254793941\|ref\|YP_003078778.1\| methionyl-tRNA synthetase [Escherichia coli O157:H7 str. TW14359], ... gi\|217329495, gi... - gi\|217329495\|ref\|ZP_03445574.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. TW14588], g... gi\|195937886 - gi\|195937886\|ref\|ZP_03083268.1\| methionyl-tRNA synthetase [Escherichia coli O157:H7 str. EC4024] gi\|168789082, gi... - gi\|189371227\|gb\|EDU89643.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC869], gi\|1687... gi\|168783890, gi... - gi\|188998822\|gb\|EDU67808.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4076], gi\|168... gi\|187768610, gi... - gi\|187768610\|gb\|EDU32454.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4196], gi\|168... gi\|25293119, gi\|... - pir\|\|C85839 methionine tRNA synthetase [imported] - Escherichia coli (strain O157:H7, substrain EDL... SYM_ECO5E - Methionine--tRNA ligase OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=metG PE=3 SV=1 gi\|208820874, gi... - gi\|208820874\|ref\|ZP_03261194.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4042], gi... gi\|15802593, gi\|... - gi\|15802593\|ref\|NP_288620.1\| methionyl-tRNA synthetase [Escherichia coli O157:H7 EDL933], gi\|1251632... gi\|208814010, gi... - gi\|208814010\|ref\|ZP_03255339.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4045], gi... SYM_ECO57 - Methionine--tRNA ligase OS=Escherichia coli O157:H7 GN=metG PE=3 SV=3 gi\|208806897, gi... - gi\|208806897\|ref\|ZP_03249234.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4206], gi... gi\|168770093, gi... - gi\|189360933\|gb\|EDU79352.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4486], gi\|168... gi\|168761860, gi... - gi\|189367747\|gb\|EDU86163.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4501], gi\|168... gi\|168756378, gi... - gi\|189356515\|gb\|EDU74934.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4401], gi\|168... gi\|168750112, gi... - gi\|188015612\|gb\|EDU53734.1\| methionyl tRNA synthetase [Escherichia coli O157:H7 str. EC4113], gi\|168...	592.0	[0..1]	[677..1]
gi\|193062824, gi... - gi\|75259276\|ref\|ZP_00730624.1\| COG0143: Methionyl-tRNA synthetase [Escherichia coli E22], gi\|1930628... SYM_ECO7I - Methionine--tRNA ligase OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=metG PE=3 SV=1 gi\|75236302, gi\|... - gi\|75236302\|ref\|ZP_00720411.1\| COG0143: Methionyl-tRNA synthetase [Escherichia coli E110019], gi\|193... gi\|75231544, gi\|... - gi\|75231544\|ref\|ZP_00717913.1\| COG0143: Methionyl-tRNA synthetase [Escherichia coli B7A], gi\|1911653... gi\|194413039, gi... - gi\|75209882\|ref\|ZP_00710074.1\| COG0143: Methionyl-tRNA synthetase [Escherichia coli B171], gi\|194428... SYM_ECO24 - Methionine--tRNA ligase OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=metG PE=3 SV=1 SYM_ECO8A - Methionine--tRNA ligase OS=Escherichia coli O8 (strain IAI1) GN=metG PE=3 SV=1 SYM_ECO55 - Methionine--tRNA ligase OS=Escherichia coli (strain 55989 / EAEC) GN=metG PE=3 SV=1 SYM_ECOSM - Methionine--tRNA ligase OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=metG PE=3 SV=1 SYM_ECOSE - Methionine--tRNA ligase OS=Escherichia coli (strain SE11) GN=metG PE=3 SV=1	591.0	[0..1]	[677..1]
gi\|194420380, gi... - gi\|83571146\|ref\|ZP_00922587.1\| COG0143: Methionyl-tRNA synthetase [Shigella dysenteriae 1012], gi\|19...	591.0	[0..1]	[677..1]
gi\|30063551, gi\|... - gi\|30063551\|ref\|NP_837722.1\| methionyl-tRNA synthetase [Shigella flexneri 2a str. 2457T], gi\|3004180... gi\|56480038, gi\|... - gi\|56480038\|ref\|NP_708001.2\| methionyl-tRNA synthetase [Shigella flexneri 2a str. 301], gi\|56383589\|... SYM_SHIFL - Methionine--tRNA ligase OS=Shigella flexneri GN=metG PE=3 SV=4 SYM_SHIF8 - Methionine--tRNA ligase OS=Shigella flexneri serotype 5b (strain 8401) GN=metG PE=3 SV=1	591.0	[0..1]	[677..1]
SYM_SHIB3 - Methionine--tRNA ligase OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=metG PE=3 SV=...	591.0	[0..1]	[677..1]
gi\|62128373, gi\|... - gi\|62180740\|ref\|YP_217157.1\| methionyl-tRNA synthetase [Salmonella enterica subsp. enterica serovar ...	591.0	[0..1]	[677..28]

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Predicted Domain #1

Region A:
Residues: [1-565]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MTQVAKKILV TCALPYANGS IHLGHMLEHI QADVWVRYQR MRGHEVNFIC ADDAHGTPIM  60
   61 LKAQQLGITP EQMIGEMSQE HQTDFAGFNI SYDNYHSTHS EENRQLSELI YSRLKENGFI 120
  121 KNRTISQLYD PEKGMFLPDR FVKGTCPKCK SPDQYGDNCE VCGATYSPTE LIEPKSVVSG 180
  181 ATPVMRDSEH FFFDLPSFSE MLQAWTRSGA LQEQVANKMQ EWFESGLQQW DISRDAPYFG 240
  241 FEIPNAPGKY FYVWLDAPIG YMGSFKNLCD KRGDSVSFDE YWKKDSTAEL YHFIGKDIVY 300
  301 FHSLFWPAML EGSNFRKPSN LFVHGYVTVN GAKMSKSRGT FIKASTWLNH FDADSLRYYY 360
  361 TAKLSSRIDD IDLNLEDFVQ RVNADIVNKV VNLASRNAGF INKRFDGVLA SELADPQLYK 420
  421 TFTDAAEVIG EAWESREFGK AVREIMALAD LANRYVDEQA PWVVAKQEGR DADLQAICSM 480
  481 GINLFRVLMT YLKPVLPKLT ERAEAFLNTE LTWDGIQQPL LGHKVNPFKA LYNRIDMRQV 540
  541 EALVEASKEE VKAAAAPVTG PLADD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	136.0
Match:	1f4lA
Description:	Methionyl-tRNA synthetase (MetRS); Methionyl-tRNA synthetase (MetRS), Zn-domain
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
isoleucine-tRNA ligase activity	3.76808520367507	bayes_pls_golite062009
glutamate-tRNA ligase activity	2.63681738794687	bayes_pls_golite062009
catalytic activity	2.37674226834122	bayes_pls_golite062009
tyrosine-tRNA ligase activity	1.88984817882585	bayes_pls_golite062009
arginine-tRNA ligase activity	1.50161401062914	bayes_pls_golite062009
tryptophan-tRNA ligase activity	1.14187887833901	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
nucleic acid binding	0.449504767632354	bayes_pls_golite062009
glutamine-tRNA ligase activity	0.118292082006187	bayes_pls_golite062009
binding	0.090743795600025	bayes_pls_golite062009

Predicted Domain #2

Region A:
Residues: [566-677]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 PIQETITFDD FAKVDLRVAL IENAEFVEGS DKLLRLTLDL GGEKRNVFSG IRSAYPDPQA  60
   61 LIGRHTIMVA NLAPRKMRFG ISEGMVMAAG PGGKDIFLLS PDAGAKPGHQ VK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	78.69897
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
aminoacyl-tRNA ligase activity	0.951012331023742	bayes_pls_golite062009
ligase activity, forming carbon-oxygen bonds	0.94916921414305	bayes_pls_golite062009
ligase activity, forming aminoacyl-tRNA and related compounds	0.94916921414305	bayes_pls_golite062009
ligase activity	0.74087140514731	bayes_pls_golite062009
catalytic activity	0.513070432311783	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: