YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|24350798, gi\|...
Organism:	Shewanella oneidensis MR-1
Length:	862 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|24350798, gi|....

Description	E-value	Query Range	Subject Range
gi\|91209997, gi\|... - gi\|91209997\|ref\|YP_539983.1\| anaerobic dimethyl sulfoxide reductase chain A precursor [Escherichia c... gi\|117623078, gi... - gi\|117623078\|ref\|YP_851991.1\| anaerobic dimethyl sulfoxide reductase chain A precursor [Escherichia ... gi\|218557802, gi... - gi\|218557802\|ref\|YP_002390715.1\| dimethyl sulfoxide reductase, anaerobic, subunit A [Escherichia col... gi\|226898326, gi... - gi\|237707116\|ref\|ZP_04537597.1\| anaerobic dimethyl sulfoxide reductase chain A [Escherichia sp. 3_2_...	638.0	[0..1]	[861..14]
gi\|227838891, gi... - gi\|227884139\|ref\|ZP_04001944.1\| anaerobic dimethyl sulfoxide reductase chain A precursor [Escherichi... gi\|218688737, gi... - gi\|218688737\|ref\|YP_002396949.1\| dimethyl sulfoxide reductase, anaerobic, subunit A [Escherichia col... gi\|26107320, gi\|... - gi\|26246920\|ref\|NP_752960.1\| anaerobic dimethyl sulfoxide reductase chain A precursor [Escherichia c...	638.0	[0..1]	[861..14]
gi\|75240971, gi\|... - gi\|75240971\|ref\|ZP_00724860.1\| COG0243: Anaerobic dehydrogenases, typically selenocysteine-containin... gi\|110342686, gi... - gi\|110641094\|ref\|YP_668824.1\| anaerobic dimethyl sulfoxide reductase chain A precursor [Escherichia ...	638.0	[0..1]	[861..14]
gi\|167994706, gi... - gi\|205327461\|gb\|EDZ14225.1\| anaerobic dimethyl sulfoxide reductase chain a [Salmonella enterica subs... gi\|168230858, gi... - gi\|205334747\|gb\|EDZ21511.1\| anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family [Sal... gi\|204929995, gi... - gi\|204929995\|ref\|ZP_03221016.1\| anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family ... gi\|197262865, gi... - gi\|197262865\|ref\|ZP_03162939.1\| anaerobic dimethyl sulfoxide reductase chain a [Salmonella enterica ... gi\|16419476, gi\|... - gi\|16764325\|ref\|NP_459940.1\| anaerobic dimethyl sulfoxide reductase subunit A [Salmonella typhimuriu... gi\|200389506, gi... - gi\|200389506\|ref\|ZP_03216117.1\| anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family ... gi\|194469590, gi... - gi\|194469590\|ref\|ZP_03075574.1\| anaerobic dimethyl sulfoxide reductase chain a [Salmonella enterica ... gi\|197247690, gi... - gi\|197247690\|ref\|YP_002145882.1\| anaerobic dimethyl sulfoxide reductase chain a [Salmonella enterica... gi\|238913261 - gi\|238913261\|ref\|ZP_04657098.1\| anaerobic dimethyl sulfoxide reductase chain a [Salmonella enterica ... gi\|168263550, gi... - gi\|205347797\|gb\|EDZ34428.1\| anaerobic dimethyl sulfoxide reductase, A subunit, DmsA/YnfE family [Sal... gi\|168466549, gi... - gi\|195630951\|gb\|EDX49537.1\| anaerobic dimethyl sulfoxide reductase chain a [Salmonella enterica subs... lcl\|NC_016856.1_... - [gene=dmsA] [protein=anaerobic dimethyl sulfoxide reductase subunit A] [protein_id=YP_005236679.1] [...	636.0	[0..1]	[862..14]
gi\|224582774, gi... - gi\|224582774\|ref\|YP_002636572.1\| anaerobic dimethyl sulfoxide reductase chain A precursor [Salmonell... gi\|62127121, gi\|... - gi\|62179488\|ref\|YP_215905.1\| anaerobic dimethyl sulfoxide reductase, subunit A [Salmonella enterica ... gi\|207856356, gi... - gi\|207856356\|ref\|YP_002243007.1\| anaerobic dimethyl sulfoxide reductase chain A precursor [Salmonell... gi\|197938809, gi... - gi\|198244293\|ref\|YP_002214888.1\| anaerobic dimethyl sulfoxide reductase chain a [Salmonella enterica...	636.0	[0..1]	[862..14]
gi\|190902351, gi... - gi\|75229262\|ref\|ZP_00715827.1\| COG0243: Anaerobic dehydrogenases, typically selenocysteine-containin...	635.0	[0..1]	[861..14]
gi\|75189934, gi\|... - gi\|75189934\|ref\|ZP_00703201.1\| COG0243: Anaerobic dehydrogenases, typically selenocysteine-containin...	635.0	[0..1]	[861..14]
gi\|192927677, gi... - gi\|75257391\|ref\|ZP_00728907.1\| COG0243: Anaerobic dehydrogenases, typically selenocysteine-containin... gi\|194413555, gi... - gi\|75210417\|ref\|ZP_00710573.1\| COG0243: Anaerobic dehydrogenases, typically selenocysteine-containin...	634.0	[0..1]	[861..14]
gi\|189376442, gi... - gi\|189376442\|gb\|EDU94858.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|189372750, gi... - gi\|189372750\|gb\|EDU91166.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|188998919, gi... - gi\|188998919\|gb\|EDU67905.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|187768373, gi... - gi\|187768373\|gb\|EDU32217.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|189361169, gi... - gi\|189361169\|gb\|EDU79588.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|168762972, gi... - gi\|189366808\|gb\|EDU85224.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|189355939, gi... - gi\|189355939\|gb\|EDU74358.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|168752124, gi... - gi\|188013965\|gb\|EDU52087.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli O157... gi\|254792094, gi... - gi\|254792094\|ref\|YP_003076931.1\| dimethyl sulfoxide reductase, anaerobic, subunit A [Escherichia col... gi\|38703902 - gi\|38703902\|ref\|NP_309006.2\| anaerobic dimethyl sulfoxide reductase subunit A [Escherichia coli O157... gi\|217322548, gi... - gi\|217326327\|ref\|ZP_03442411.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli ... gi\|38703902 - gi\|38703902\|ref\|NP_309006.2\| anaerobic dimethyl sulfoxide reductase subunit A [Escherichia coli O157... gi\|209400103, gi... - gi\|209400103\|ref\|YP_002269567.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli... gi\|208737982, gi... - gi\|208822497\|ref\|ZP_03262816.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli ... gi\|208815659, gi... - gi\|208815659\|ref\|ZP_03256838.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli ... gi\|208807933, gi... - gi\|208807933\|ref\|ZP_03250270.1\| anaerobic dimethyl sulfoxide reductase, A subunit [Escherichia coli ... gi\|195939557 - gi\|195939557\|ref\|ZP_03084939.1\| anaerobic dimethyl sulfoxide reductase subunit A [Escherichia coli O...	634.0	[0..1]	[861..14]
gi\|56128241, gi\|... - gi\|56413984\|ref\|YP_151059.1\| anaerobic dimethyl sulfoxide reductase chain A [Salmonella enterica sub... gi\|197362907, gi... - gi\|197362907\|ref\|YP_002142544.1\| anaerobic dimethyl sulfoxide reductase chain A [Salmonella enterica...	634.0	[0..1]	[862..14]

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Predicted Domain #1

Region A:
Residues: [1-862]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MKRRAFLKMS ASCAAAATVV GCGSDKNPVL KPEVSPEQVP EISKLSACIG NCFQTCPLRV  60
   61 YSRNGIITRI ESESGGDIKF VDNWSVDGAH HEIRPCLKGR AQKQKAYSAD RVKYPMKRVG 120
  121 PRGSGQYVRI SWDEAINTVA QELSTKITTY GAQSIYLPVA TGDYDYQVDG MYAAMMFLHE 180
  181 ITKKKIPLYI PEMDFTMELD ASGYLMYHDS YSAAQMKDAV KSTFGWDDLW GTGNTLLDVK 240
  241 NGTDLMICFG YNPMESRMGG AGSAYDYTNL KRQFGFKTIY IEPRYTDTMV VCDDQWVPIR 300
  301 PGTDAALAEA IAYVWIAEMD EAPLDMAFLQ SKVYGYGAEA AFDHYPELPL AKSYKGHILG 360
  361 LDDGQAKTPE WAAAITGIPV DTIRALASEI AAAKTPFFIQ GWGIQRAQNG ENAARSLFML 420
  421 PILLGKVGDK GTNFCSVPGA KTYAKPIVAG MEADSVGNSV GSAVINGTEF TIPGYKWLEG 480
  481 VQRPLNSRDD GLRHMLGEEQ KKDHDNILEL KNPIKFIFGN ACGTTLNQTA DINHTLDILN 540
  541 NAPEAQDLFI LAIDHMFSPS AKMADIILPC ITNLENSDIV TNKLDHDSGM MVYSYVFERA 600
  601 IEPMYEAKST WEICRLLAAR MGVEHSYARL KTQDEWVKWS FEHYAKKVPN LYNPEDTYES 660
  661 VLGRSPVRRI ASENPLFKGL REFKYGGVTL NTPSKKIEAY SLTLLNRTRF EKFEETETSF 720
  721 IGKYIPATEG AEDNEFAAEY PFQLISWHHK GRVHSTHANY PWLKEANDQV AWINPLDAQR 780
  781 YGVVNGKKMT LTNPRDAKMV ITAKVTTRVM PGVIAMGHGA WHQPDANGVD HGGSVNVLVS 840
  841 RKASPTARGI PANTARIRIV QA

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	147.0
Match:	1dmrA
Description:	OXIDIZED DMSO REDUCTASE FROM RHODOBACTER CAPSULATUS
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
trimethylamine-N-oxide reductase activity	8.75612712598998	bayes_pls_golite062009
4 iron, 4 sulfur cluster binding	6.81363258746891	bayes_pls_golite062009
formate dehydrogenase activity	6.68295624624715	bayes_pls_golite062009
metal cluster binding	5.7442724322527	bayes_pls_golite062009
iron-sulfur cluster binding	5.7442724322527	bayes_pls_golite062009
molybdenum ion binding	3.31971125919934	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH, nitrogenous group as acceptor	2.54554723799271	bayes_pls_golite062009
nitrate reductase activity	2.20600951698793	bayes_pls_golite062009
catalytic activity	1.93875927205186	bayes_pls_golite062009
oxidoreductase activity	1.8662488889516	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors	1.84836110501265	bayes_pls_golite062009
carbon-carbon lyase activity	1.29705810885029	bayes_pls_golite062009
carboxy-lyase activity	1.27093915206504	bayes_pls_golite062009
oxidoreductase activity, acting on other nitrogenous compounds as donors	1.12492792673137	bayes_pls_golite062009
oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor	0.968773059107375	bayes_pls_golite062009
lyase activity	0.603656450860878	bayes_pls_golite062009
oxidoreductase activity, acting on NADH or NADPH	0.134493772161849	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: