YRC Public Data Repository - Protein Structure Prediction

Protein:	gi\|56413986, gi\|...
Organism:	Salmonella enterica subsp. enterica serovar Paratyphi A str. ATCC 9150
Length:	447 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|56413986, gi|....

Description	E-value	Query Range	Subject Range
gi\|224467299, gi... - gi\|224582772\|ref\|YP_002636570.1\| hypothetical protein SPC_0962 [Salmonella enterica subsp. enterica ... gi\|207856354, gi... - gi\|207856354\|ref\|YP_002243005.1\| recombination factor protein RarA [Salmonella enterica subsp. enter... gi\|205352170, gi... - gi\|205352170\|ref\|YP_002225971.1\| recombination factor protein RarA [Salmonella enterica subsp. enter... gi\|198244942, gi... - gi\|198244942\|ref\|YP_002214886.1\| putative DNA recombination-associated ATPase RarA [Salmonella enter... gi\|62179486, gi\|... - gi\|62179486\|ref\|YP_215903.1\| recombination factor protein RarA [Salmonella enterica subsp. enterica ...	2.0E-84	[1..447]	[1..447]
gi\|187430894, gi... - gi\|75178304\|ref\|ZP_00698358.1\| COG2256: ATPase related to the helicase subunit of the Holliday junct...	1.0E-83	[1..447]	[1..447]
gi\|191167587, gi... - gi\|75229260\|ref\|ZP_00715825.1\| COG2256: ATPase related to the helicase subunit of the Holliday junct...	2.0E-83	[1..447]	[1..447]
gi\|24112267, gi\|... - gi\|24112267\|ref\|NP_706777.1\| recombination factor protein RarA [Shigella flexneri 2a str. 301], gi\|2... gi\|30040625, gi\|... - gi\|30062379\|ref\|NP_836550.1\| recombination factor protein RarA [Shigella flexneri 2a str. 2457T], gi...	2.0E-83	[1..447]	[1..447]
gi\|25329891 - gi\|25329891\|pir\|\|G85614 probable polynucleotide enzyme ycaJ [imported] - Escherichia coli (strain O1... gi\|12514054, gi\|... - gi\|15800755\|ref\|NP_286769.1\| recombination factor protein RarA [Escherichia coli O157:H7 EDL933], gi...	2.0E-83	[1..447]	[1..447]
gi\|193064678, gi... - gi\|75257393\|ref\|ZP_00728909.1\| COG2256: ATPase related to the helicase subunit of the Holliday junct... gi\|194413579, gi... - gi\|75210419\|ref\|ZP_00710575.1\| COG2256: ATPase related to the helicase subunit of the Holliday junct... gi\|218553478, gi... - gi\|218553478\|ref\|YP_002386391.1\| recombination factor protein RarA [Escherichia coli IAI1], gi\|21836...	2.0E-83	[1..447]	[1..447]
gi\|81244789, gi\|... - gi\|82543378\|ref\|YP_407325.1\| recombination factor protein RarA [Shigella boydii Sb227], gi\|81244789\|...	3.0E-83	[1..447]	[1..447]
gi\|53732854 - gi\|53732854\|ref\|ZP_00155159.2\| COG2256: ATPase related to the helicase subunit of the Holliday junct...	3.0E-83	[1..447]	[1..446]
YCAJ_ECOLI - Hypothetical protein ycaJ - Escherichia coli gi\|83585835, gi\|... - gi\|83585835\|ref\|ZP_00924475.1\| COG2256: ATPase related to the helicase subunit of the Holliday junct... gi\|157160415, gi... - gi\|75195080\|ref\|ZP_00705150.1\| COG2256: ATPase related to the helicase subunit of the Holliday junct... gi\|190907651, gi... - gi\|75240969\|ref\|ZP_00724858.1\| COG2256: ATPase related to the helicase subunit of the Holliday junct... gi\|82777586, gi\|... - gi\|82777586\|ref\|YP_403935.1\| recombination factor protein RarA [Shigella dysenteriae Sd197], gi\|8124... gi\|168783802, gi... - gi\|188998918\|gb\|EDU67904.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... gi\|254591492, gi... - gi\|254792092\|ref\|YP_003076929.1\| recombination protein [Escherichia coli O157:H7 str. TW14359], gi\|2... gi\|168787320, gi... - gi\|189372743\|gb\|EDU91159.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... gi\|253972907, gi... - gi\|254161006\|ref\|YP_003044114.1\| recombination protein [Escherichia coli B str. REL606], gi\|25397290... gi\|189376426, gi... - gi\|189376426\|gb\|EDU94842.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... gi\|253977121, gi... - gi\|254287814\|ref\|YP_003053562.1\| recombination protein [Escherichia coli BL21(DE3)], gi\|253977121\|gb... gi\|169888385, gi... - gi\|170080550\|ref\|YP_001729870.1\| recombination protein [Escherichia coli str. K-12 substr. DH10B], g... gi\|242376707, gi... - gi\|251784434\|ref\|YP_002998738.1\| hypothetical protein B21_00903 [Escherichia coli BL21], gi\|24237670... gi\|170520218, gi... - gi\|170682500\|ref\|YP_001744278.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli... gi\|238863427, gi... - gi\|238900150\|ref\|YP_002925946.1\| recombination protein [Escherichia coli BW2952], gi\|238863427\|gb\|AC... RARA_ECOL6 - Replication-associated recombination protein A OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 70092... gi\|192955956, gi... - gi\|193070763\|ref\|ZP_03051698.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli ... gi\|227884141, gi... - gi\|227884141\|ref\|ZP_04001946.1\| recombination ATPase [Escherichia coli 83972], gi\|227838893\|gb\|EEJ49... gi\|195939555 - gi\|195939555\|ref\|ZP_03084937.1\| recombination factor protein RarA [Escherichia coli O157:H7 str. EC4... gi\|208732375, gi... - gi\|208815727\|ref\|ZP_03256906.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli ... EG12690 - recombination intermediate processing DNA-dependent ATPase / DNA-dependent ATPase involved in proces... RARA_ECO57 - Replication-associated recombination protein A OS=Escherichia coli O157:H7 GN=rarA PE=3 SV=1 EG12690 - recombination intermediate processing DNA-dependent ATPase / DNA-dependent ATPase involved in proces... gi\|89107742, gi\|... - gi\|89107742\|ref\|AP_001522.1\| recombination protein [Escherichia coli str. K-12 substr. W3110], gi\|40... gi\|168752126, gi... - gi\|188013952\|gb\|EDU52074.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... gi\|189355914, gi... - gi\|189355914\|gb\|EDU74333.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... gi\|168762974, gi... - gi\|189366832\|gb\|EDU85248.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... gi\|189361172, gi... - gi\|189361172\|gb\|EDU79591.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... gi\|187768384, gi... - gi\|187768384\|gb\|EDU32228.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli O157... YCAJ_ECOL6, RARA... - Uncharacterized protein ycaJ - Escherichia coli O6, Replication-associated recombination protein A O... gi\|13360436, gi\|... - gi\|15830231\|ref\|NP_309004.1\| recombination factor protein RarA [Escherichia coli O157:H7 str. Sakai]... gi\|110342684, gi... - gi\|110641092\|ref\|YP_668822.1\| recombination factor protein RarA [Escherichia coli 536], gi\|110342684... gi\|208737596, gi... - gi\|208822111\|ref\|ZP_03262430.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli ... gi\|209397045, gi... - gi\|209397045\|ref\|YP_002269565.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli... gi\|209918141, gi... - gi\|209918141\|ref\|YP_002292225.1\| recombination factor protein RarA [Escherichia coli SE11], gi\|20991... gi\|217320733, gi... - gi\|217324512\|ref\|ZP_03440596.1\| putative DNA recombination-associated ATPase RarA [Escherichia coli ... gi\|218548414, gi... - gi\|218548414\|ref\|YP_002382205.1\| recombination factor protein RarA [Escherichia fergusonii ATCC 3546... gi\|218688680, gi... - gi\|218688680\|ref\|YP_002396892.1\| recombination factor protein RarA [Escherichia coli ED1a], gi\|21842... gi\|218704321, gi... - gi\|218704321\|ref\|YP_002411840.1\| recombination factor protein RarA [Escherichia coli UMN026], gi\|218...	3.0E-83	[1..447]	[1..447]
gi\|46133388 - gi\|46133388\|ref\|ZP_00157116.2\| COG2256: ATPase related to the helicase subunit of the Holliday junct... gi\|145270993, gi... - gi\|145639902\|ref\|ZP_01795502.1\| formyltetrahydrofolate deformylase [Haemophilus influenzae PittII], ... gi\|145627717, gi... - gi\|145627717\|ref\|ZP_01783518.1\| formyltetrahydrofolate deformylase [Haemophilus influenzae 22.1-21],...	4.0E-83	[1..447]	[1..446]

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Predicted Domain #1

Region A:
Residues: [1-113]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSNLSLDFSD NTFQPLAARM RPENLAQYIG QQHLLAAGKP LPRAIEAGHL HSMILWGPPG  60
   61 TGKTTLAEVI ARYASADVER ISAVTSGVKE IREAIERARQ NRNAGRRTIL FVD

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	10.0
Match:	1um8A
Description:	Crystal structure of helicobacter pylori ClpX
Matching Structure (courtesy of the PDB):

Predicted Domain #2

Region A:
Residues: [114-232]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 EVHRFNKSQQ DAFLPHIEDG TITFIGATTE NPSFELNSAL LSRARVYLLK SLTTDDIEQV  60
   61 LDQAMQDKTR GYGDQDIVLP DETRRAIAEL VNGDARRALN TLEMMADMAE ADDSGKRVL

[Run NCBI BLAST on this sequence.]

Detection Method:	FFAS03
Confidence:	3.85
Match:	1sxjD
Description:	Crystal Structure of the Eukaryotic Clamp Loader (Replication Factor C, RFC) Bound to the DNA Sliding Clamp (Proliferating Cell Nuclear Antigen, PCNA)
Matching Structure (courtesy of the PDB):

Predicted Domain #3

Region A:
Residues: [233-447]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 LPALLTEIAG ERSARFDNKG DRFYDLISAL HKSVRGSAPD AALYWYARII TAGGDPLYVA  60
   61 RRCLAIASED VGNADPRAMQ VAIAAWDCFT RVGPAEGERA IAQAIVYLAC APKSNAVYTA 120
  121 FKAALADARE RPDYDVPVHL RNAPTKLMKE MGYGQEYRYA HDEPNAYAAG EVYFPPEIAQ 180
  181 TRYYHPTNRG LEGKIGEKLA WLAEQDQNSP TKRYR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	24.69897
Match:	2r9gA
Description:	No description for 2r9gA was found.

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