YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|213052691
Organism:	Salmonella enterica subsp. enterica serovar Typhi str. E00-7866
Length:	454 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 gi|213052691.

Description	E-value	Query Range	Subject Range
gi\|25319364 - gi\|25319364\|pir\|\|C86055 hypothetical protein thdF [imported] - Escherichia coli (strain O157:H7, su... gi\|12518545, gi\|... - gi\|15804300\|ref\|NP_290339.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 EDL933], gi\|125...	3.0E-94	[1..454]	[1..454]
gi\|238727510, gi... - gi\|77976612\|ref\|ZP_00832091.1\| COG0486: Predicted GTPase [Yersinia intermedia ATCC 29909], gi\|238793...	4.0E-94	[1..454]	[1..454]
gi\|254795709, gi... - gi\|254795709\|ref\|YP_003080546.1\| 5-methylaminomethyl-2-thiouridine-synthesizing GTPase [Escherichia ... gi\|25319352, gi\|... - pir\|\|A98209 hypothetical protein ECs4641 [imported] - Escherichia coli (strain O157:H7, substrain R... MNME_ECO57 - tRNA modification GTPase MnmE OS=Escherichia coli O157:H7 GN=mnmE PE=3 SV=1 gi\|208814185, gi... - gi\|208814185\|ref\|ZP_03255514.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4045]... gi\|208740195, gi... - gi\|208820072\|ref\|ZP_03260392.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4042]... MNME_ECO5E - tRNA modification GTPase MnmE OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=mnmE PE=3 SV=1 gi\|217324903, gi... - gi\|217324903\|ref\|ZP_03440987.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. TW14588... gi\|189373460, gi... - gi\|189373460\|gb\|EDU91876.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC869], gi\|... gi\|168798745, gi... - gi\|189378836\|gb\|EDU97252.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC508], gi\|... gi\|195936329 - gi\|195936329\|ref\|ZP_03081711.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4024] gi\|208808040, gi... - gi\|208808040\|ref\|ZP_03250377.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4206]... gi\|189369584, gi... - gi\|189369584\|gb\|EDU88000.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4501], gi... gi\|189364418, gi... - gi\|189364418\|gb\|EDU82837.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4486], gi... gi\|168772255, gi... - gi\|187771576\|gb\|EDU35420.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4196], gi... gi\|168779932, gi... - gi\|189002302\|gb\|EDU71288.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4076], gi... gi\|15833895, gi\|... - gi\|15833895\|ref\|NP_312668.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. Sakai], gi... gi\|168748574, gi... - gi\|188016998\|gb\|EDU55120.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4113], gi... gi\|189359120, gi... - gi\|189359120\|gb\|EDU77539.1\| tRNA modification GTPase TrmE [Escherichia coli O157:H7 str. EC4401], gi...	4.0E-94	[1..454]	[1..454]
MNME_SHIFL - tRNA modification GTPase MnmE OS=Shigella flexneri GN=mnmE PE=3 SV=1 MNME_SHIF8 - tRNA modification GTPase MnmE OS=Shigella flexneri serotype 5b (strain 8401) GN=mnmE PE=3 SV=1 gi\|24054236, gi\|... - gi\|24114984\|ref\|NP_709494.1\| tRNA modification GTPase TrmE [Shigella flexneri 2a str. 301], gi\|24054... gi\|30065014, gi\|... - gi\|30065014\|ref\|NP_839185.1\| tRNA modification GTPase TrmE [Shigella flexneri 2a str. 2457T], gi\|300...	4.0E-94	[1..454]	[1..454]
MNME_ECOLC - tRNA modification GTPase MnmE OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=mnmE PE=... MNME_ECO8A - tRNA modification GTPase MnmE OS=Escherichia coli O8 (strain IAI1) GN=mnmE PE=3 SV=1 MNME_ECODH - tRNA modification GTPase MnmE OS=Escherichia coli (strain K12 / DH10B) GN=mnmE PE=3 SV=1 MNME_ECOSE - tRNA modification GTPase MnmE OS=Escherichia coli (strain SE11) GN=mnmE PE=3 SV=1 MNME_ECOBW - tRNA modification GTPase MnmE OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=mnmE PE=3 SV=1 gi\|124530079, gi... - gi\|124530079\|ref\|ZP_01700862.1\| tRNA modification GTPase TrmE [Escherichia coli B], gi\|124499484\|gb\|... gi\|226838890, gi... - gi\|254038925\|ref\|ZP_04872977.1\| tRNA modification GTPase TrmE [Escherichia sp. 1_1_43], gi\|226838890... TRME_ECOLI - Probable tRNA modification GTPase trmE - Escherichia coli MNME_SHIBS - tRNA modification GTPase MnmE OS=Shigella boydii serotype 4 (strain Sb227) GN=mnmE PE=3 SV=1 gi\|89110306, gi\|... - gi\|89110306\|ref\|AP_004086.1\| GTPase [Escherichia coli str. K-12 substr. W3110], gi\|85676337\|dbj\|BAE7... EG10997 - tRNA U34 5-methylaminomethyl-2-thiouridine modification GTPase / GTPase required for 5-methylaminome... MNME_SHIB3 - tRNA modification GTPase MnmE OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=mnmE PE... gi\|188493740, gi... - gi\|75514232\|ref\|ZP_00736540.1\| COG0486: Predicted GTPase [Escherichia coli 53638], gi\|188493740\|ref\|... EG10997 - tRNA U34 5-methylaminomethyl-2-thiouridine modification GTPase / GTPase required for 5-methylaminome...	8.0E-94	[1..454]	[1..454]
MNME_ECO45 - tRNA modification GTPase MnmE OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=mnmE PE=3 SV=1 MNME_ECOL6, TRME... - tRNA modification GTPase trmE - Escherichia coli O6, tRNA modification GTPase MnmE OS=Escherichia co... gi\|227839207, gi... - gi\|227883929\|ref\|ZP_04001734.1\| tRNA modification GTPase TrmE [Escherichia coli 83972], gi\|227839207... gi\|226902772, gi... - gi\|237703508\|ref\|ZP_04533989.1\| tRNA modification GTPase mnmE [Escherichia sp. 3_2_53FAA], gi\|226902... gi\|191170442, gi... - gi\|75242505\|ref\|ZP_00726249.1\| COG0486: Predicted GTPase [Escherichia coli F11], gi\|191170442\|ref\|ZP... MNME_ECOK1 - tRNA modification GTPase MnmE OS=Escherichia coli O1:K1 / APEC GN=mnmE PE=3 SV=1 MNME_ECOUT - tRNA modification GTPase MnmE OS=Escherichia coli (strain UTI89 / UPEC) GN=mnmE PE=3 SV=1 MNME_ECOL6 - tRNA modification GTPase MnmE OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=mnmE... MNME_ECOL5 - tRNA modification GTPase MnmE OS=Escherichia coli O6:K15:H31 (strain 536 / UPEC) GN=mnmE PE=3 SV=1	9.0E-94	[1..454]	[1..454]
gi\|194413821, gi... - gi\|75210683\|ref\|ZP_00710824.1\| COG0486: Predicted GTPase [Escherichia coli B171], gi\|194428063\|ref\|Z... gi\|192930510, gi... - gi\|75258245\|ref\|ZP_00729693.1\| COG0486: Predicted GTPase [Escherichia coli E22], gi\|193063795\|ref\|ZP...	9.0E-94	[1..454]	[1..454]
gi\|290554 - gi\|290554\|gb\|AAA62057.1\| 50 kD protein	1.0E-93	[1..454]	[1..454]
MNME_SHIDS - tRNA modification GTPase MnmE OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=mnmE PE=3 SV=1	1.0E-93	[1..454]	[1..454]
MNME_ECOSM - tRNA modification GTPase MnmE OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=mnmE PE=3 SV=1 MNME_ECO81 - tRNA modification GTPase MnmE OS=Escherichia coli O81 (strain ED1a) GN=mnmE PE=3 SV=1 MNME_ESCF3 - tRNA modification GTPase MnmE OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73... gi\|194431305, gi... - gi\|83571504\|ref\|ZP_00922944.1\| COG0486: Predicted GTPase [Shigella dysenteriae 1012], gi\|194431305\|r... gi\|170124535, gi... - gi\|170767097\|ref\|ZP_02901550.1\| tRNA modification GTPase TrmE [Escherichia albertii TW07627], gi\|170...	1.0E-93	[1..454]	[1..454]

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Predicted Domain #1

Region A:
Residues: [1-454]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSHNDTIVAQ ATPPGRGGVG ILRISGLKAR DVAQEVLGKL PKPRYADYLP FKDVDGSALD  60
   61 QGIALWFPGP NSFTGEDVLE LQGHGGPVIL DLLLKRILTL PGVRIARPGE FSERAFLNDK 120
  121 LDLAQAEAIA DLIDASSEQA ARSALNSLQG AFSARVNHLV EALTHLRIYV EAAIDFPDEE 180
  181 IDFLSDGKIE AQLNGVIADL DAVRTEARQG SLLREGMKVV IAGRPNAGKS SLLNALAGRE 240
  241 AAIVTDIAGT TRDVLREHIH IDGMPLHIID TAGLRDANDE VERIGIERAW QEIEQADRVL 300
  301 FMVDGTTTDA VDPADIWPDF IARLPKNLPI TVVRNKADIT GETLGISEVN GHSLVRLSAR 360
  361 TGEGVDVLRN HLKQSMGFDT NMEGGFLARR RHLQALAEAA NHLEQGKAQL LGAWAGELLA 420
  421 EELRLAQQSL SEITGEFTSD DLLGRIFSSF CIGK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	73.09691
Match:	1xzpA
Description:	Structure of the GTP-binding protein TrmE from Thermotoga maritima
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
methyltransferase activity	3.28983380541263	bayes_pls_golite062009
transferase activity, transferring one-carbon groups	3.20782575104451	bayes_pls_golite062009
catalytic activity	1.65079399897053	bayes_pls_golite062009
transferase activity	1.3676947912529	bayes_pls_golite062009
coenzyme binding	1.08379167900905	bayes_pls_golite062009
nucleic acid binding	0.913322399315129	bayes_pls_golite062009
structural constituent of ribosome	0.738234102557832	bayes_pls_golite062009
RNA helicase activity	0.73539642422624	bayes_pls_golite062009
RNA-dependent ATPase activity	0.70759024918936	bayes_pls_golite062009
ATP-dependent RNA helicase activity	0.68122080550778	bayes_pls_golite062009
ATP binding	0.60527666756293	bayes_pls_golite062009
binding	0.604868700215668	bayes_pls_golite062009
aminomethyltransferase activity	0.573831999310668	bayes_pls_golite062009
adenyl ribonucleotide binding	0.573214556107072	bayes_pls_golite062009
ligase activity	0.417681194526243	bayes_pls_golite062009
transcription regulator activity	0.390949264169589	bayes_pls_golite062009
DNA binding	0.376487324624615	bayes_pls_golite062009
translation regulator activity	0.29096092258568	bayes_pls_golite062009
translation factor activity, nucleic acid binding	0.274994961137851	bayes_pls_golite062009
structural molecule activity	0.0558641287316701	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: