YRC Public Data Repository - Protein Structure Prediction

Protein:	mss1
Organism:	Schizosaccharomyces pombe
Length:	496 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 mss1.

Description	E-value	Query Range	Subject Range
TRME_PHOLL, MNME... - tRNA modification GTPase trmE - Photorhabdus luminescens subsp. laumondii, tRNA modification GTPase ... MNME_PHOLL - tRNA modification GTPase MnmE OS=Photorhabdus luminescens subsp. laumondii (strain DSM 15139 / CIP 1...	254.0	[0..20]	[496..1]
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...	253.0	[0..20]	[496..1]
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...	253.0	[0..20]	[496..1]
gi\|75236429, gi\|... - gi\|75236429\|ref\|ZP_00720525.1\| COG0486: Predicted GTPase [Escherichia coli E110019], gi\|193069233\|re...	252.0	[0..20]	[496..1]
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...	251.0	[0..20]	[496..1]
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...	251.0	[0..20]	[496..1]
MNME_ECO24 - tRNA modification GTPase MnmE OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=mnmE PE=3 SV=1	251.0	[0..20]	[496..1]
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	251.0	[0..20]	[496..1]
gi\|290554 - gi\|290554\|gb\|AAA62057.1\| 50 kD protein	251.0	[0..20]	[496..1]
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...	251.0	[0..20]	[496..1]

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Predicted Domain #1

Region A:
Residues: [1-496]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRILNRVFLN TFQACFRRFV HQIPTIYALS TPPGTSAVAI VRISGPNACK VAKTLAGSVP  60
   61 KPRIASLRTI KHPVRSEVID KALMLYFKKP SSFTGEDVVE LQLHGGTAVV DVTLEAIKQS 120
  121 GIPNIRYAKP GEFSERAFYN GRADLTQLEG LIDVINAQTA EQLYSANKEA HGSIYDICFR 180
  181 WRKKLIEYRA FLEASIDFSE EHELDDIETI KLFEELNEMK DEIDAHIEGG KCKEVLRKGI 240
  241 NVAILGPSNA GKSSLINLLA NRRISIVSPQ SGTTRDAIEV LVDINGFPVL LSDTAGLRKG 300
  301 EDVQEIEKIG IEIAKARAEE SQLTLFVFPI NYHSFSESLK QSEILETIKD CLRQRKPIHF 360
  361 LINKVDCVSD YTTMFKPIKA YLQKNFLIPE NRIHAVSCKT KEGLIDFLQA LSSTFECMVN 420
  421 PLTNNKIQAN LGWNERQRQC LSSCSSHLSL ALQKSSDIVV AAEEVKLATE DIGRVTGAVD 480
  481 MENVFSVIFS KFCVGK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	57.0
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: