YRC Public Data Repository - Protein Structure Prediction

Protein:	YDR336W
Organism:	Saccharomyces cerevisiae
Length:	314 amino acids
Reference:	Malmström L, et al. (2007) Superfamily assignments for the yeast proteome through integration of structure prediction with the gene ontology. PLoS Biol 5(4): e76. doi:10.1371/journal.pbio.0050076

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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 YDR336W.

Description	E-value	Query Range	Subject Range
MRX8_YEAST - MIOREX complex component 8 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=MRX8 PE=1 SV=... YDR336W - Putative protein of unknown function; sumoylated under stress conditions in a genome wide study; YDR... gi\|207346439 - gi\|207346439\|gb\|EDZ72932.1\| YDR336Wp-like protein [Saccharomyces cerevisiae AWRI1631] gi\|190404723 - gi\|190404723\|gb\|EDV07990.1\| conserved hypothetical protein [Saccharomyces cerevisiae RM11-1a]	2.0E-56	[1..314]	[1..314]
gi\|149737870, gi... - gi\|153827657\|ref\|ZP_01980324.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae MZO-2], ... gi\|9654394, gi\|1... - gi\|9654394\|gb\|AAF93181.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae O1 biovar El T... gi\|227008128, gi... - gi\|227080240\|ref\|YP_002808791.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae M66-2],... gi\|254851569, gi... - gi\|254851569\|ref\|ZP_05240919.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae MO10], g... gi\|153225450, gi... - gi\|153225450\|ref\|ZP_01954755.1\| thiophene and furan oxidation protein ThdF [Vibrio cholerae MAK 757]... gi\|11279574 - pir\|\|D82375 thiophene and furan oxidation protein ThdF VC0003 [imported] - Vibrio cholerae (strain N...	3.0E-53	[1..311]	[100..387]
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...	5.0E-53	[1..311]	[90..377]
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...	2.0E-52	[1..311]	[90..377]
MNME_SALTY - tRNA modification GTPase MnmE OS=Salmonella typhimurium GN=mnmE PE=3 SV=1 TRME_SALTY, MNME... - tRNA modification GTPase trmE - Salmonella typhimurium, tRNA modification GTPase mnmE OS=Salmonella ... MNME_SALTY - tRNA modification GTPase MnmE OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=mnm... lcl\|NC_016856.1_... - [gene=trmE] [protein=tRNA modification GTPase TrmE] [protein_id=YP_005240111.1] [location=4061906..4...	2.0E-52	[1..311]	[90..377]
gi\|15981992, gi\|... - gi\|218931079\|ref\|YP_002348954.1\| tRNA modification GTPase TrmE [Yersinia pestis CO92], gi\|16124211\|r... MNME_YERPE - tRNA modification GTPase MnmE OS=Yersinia pestis GN=mnmE PE=3 SV=1	2.0E-52	[1..311]	[90..377]
gi\|213052691 - gi\|213052691\|ref\|ZP_03345569.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s... gi\|213424947 - gi\|213424947\|ref\|ZP_03357697.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s... gi\|213580794 - gi\|213580794\|ref\|ZP_03362620.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s... TRME_SALTI, MNME... - tRNA modification GTPase trmE - Salmonella typhi, tRNA modification GTPase mnmE OS=Salmonella typhi ... MNME_SALTI - tRNA modification GTPase MnmE OS=Salmonella typhi GN=mnmE PE=3 SV=1 gi\|29139607, gi\|... - gi\|29143971\|ref\|NP_807313.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica sero... gi\|16762483 - gi\|16762483\|ref\|NP_458100.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica sero... gi\|213865392 - gi\|213865392\|ref\|ZP_03387511.1\| tRNA modification GTPase TrmE [Salmonella enterica subsp. enterica s...	3.0E-52	[1..311]	[90..377]
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...	4.0E-52	[1..311]	[90..377]
gi\|290554 - gi\|290554\|gb\|AAA62057.1\| 50 kD protein	6.0E-52	[1..311]	[90..377]
gi\|12721514, gi\|... - gi\|15603031\|ref\|NP_246103.1\| tRNA modification GTPase TrmE [Pasteurella multocida subsp. multocida s...	1.0E-50	[1..311]	[101..388]

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Predicted Domain #1

Region A:
Residues: [1-122]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MEQLCKRYVH TPAAFIQNIV ANTKRTTLAT QLSVEKAKKK VPKTALKKKL NSRPKERLPN  60
   61 WLKLNDVFNI HYEKPSNSDI NKVNRFFNKA KVEFEWCAAS FDDIPENPFL NKKSHKDILK 120
  121 DH

[Run NCBI BLAST on this sequence.]

Detection Method:

MSA

Shown below are all of our structure predictions for this domain.
Click here to view only most confident match.

		MCM Score	GO Score	GO Term	SCOP Match	SCOP Description
View	Download	0.416	N/A	N/A	a.118.18	Cysteine rich protein B (HcpB)
View	Download	0.302	N/A	N/A	a.141.1	Frizzled cystein-rich domain

Predicted Domain #2

Region A:
Residues: [123-314]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 GECGTTLIDT LPEVIFLGGT NVGKSSILNN ITTSHVSRDL GSLARVSKTT GFTKTLNCYN  60
   61 VGNRLRMIDS PGYGFNSSKE QGKVTLQYLL ERKQLVRCFL LLAGDKEINN TDNMIIQYIH 120
  121 EHGVPFEVVF TKMDKVKDLN KFKKKVMSSG LMDLPTLPRL VLTNSLTSST SPKRFGIDLL 180
  181 RYVIFQSCGL IL

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	32.221849
Match:	1egaA_
Description:	GTPase Era, N-terminal domain; GTPase Era C-terminal domain
Matching Structure (courtesy of the PDB):

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