YRC Public Data Repository - Protein Structure Prediction

Protein:	REP_ECOLI
Organism:	Escherichia coli
Length:	673 amino acids
Reference:	Drew K, et al. (2011) The proteome folding project: Proteome-scale prediction of structure and function. Genome Res. 2011 Sep 16

[What does the above image mean?]

[Show Ginzu Version Information]

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 REP_ECOLI.

Description	E-value	Query Range	Subject Range
gi\|62182388, gi\|... - gi\|62182388\|ref\|YP_218805.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica ser...	565.0	[0..1]	[673..34]
gi\|253975623, gi... - gi\|254163722\|ref\|YP_003046830.1\| DNA helicase and single-stranded DNA-dependent ATPase [Escherichia ... gi\|253326641, gi... - gi\|254290472\|ref\|YP_003056220.1\| DNA helicase and single-stranded DNA-dependent ATPase [Escherichia ... gi\|157154755, gi... - gi\|75188525\|ref\|ZP_00701792.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli E24377... gi\|194438642, gi... - gi\|83585969\|ref\|ZP_00924608.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli 101-1]... gi\|218556340, gi... - gi\|218556340\|ref\|YP_002389254.1\| ATP-dependent DNA helicase Rep [Escherichia coli IAI1], gi\|21836310... gi\|74314292, gi\|... - gi\|74314292\|ref\|YP_312711.1\| ATP-dependent DNA helicase Rep [Shigella sonnei Ss046], gi\|73857769\|gb\|... gi\|188487788, gi... - gi\|75512661\|ref\|ZP_00735173.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli 53638]... gi\|191166128, gi... - gi\|75230744\|ref\|ZP_00717207.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli B7A], ... gi\|242379311, gi... - gi\|251787038\|ref\|YP_003001342.1\| hypothetical protein B21_03605 [Escherichia coli BL21], gi\|24237931...	564.0	[0..1]	[673..1]
gi\|3318688\|pdb\|1... - rep helicase [Escherichia coli], Chain A, Structure Of The Rep Helicase-Single Stranded Dna Complex ... gi\|3318688, gi\|3... - pir\|\|HJECDR ATP-dependent DNA helicase Rep (EC 3.6.1.-) - Escherichia coli (strain K-12), gi\|331868... gi\|16131634\|ref\|... - rep helicase [Escherichia coli K12], rep helicase [Escherichia coli K12]	564.0	[0..1]	[673..1]
gi\|75197666, gi\|... - gi\|75197666\|ref\|ZP_00707736.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli HS], g... gi\|170518545, gi... - gi\|170680827\|ref\|YP_001746097.1\| ATP-dependent DNA helicase Rep [Escherichia coli SMS-3-5], gi\|17051... gi\|170022195, gi... - gi\|170022195\|ref\|YP_001727149.1\| ATP-dependent DNA helicase Rep [Escherichia coli ATCC 8739], gi\|169...	564.0	[0..1]	[673..1]
gi\|110617080, gi... - gi\|110807532\|ref\|YP_691052.1\| ATP-dependent DNA helicase Rep [Shigella flexneri 5 str. 8401], gi\|110...	563.0	[0..1]	[673..6]
gi\|205336232, gi... - gi\|205336232\|gb\|EDZ22996.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica sero... REP_SALTY - ATP-dependent DNA helicase rep OS=Salmonella typhimurium GN=rep PE=3 SV=1 gi\|168234233, gi... - gi\|205331806\|gb\|EDZ18570.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica sero... gi\|205327553, gi... - gi\|205327553\|gb\|EDZ14317.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica sero... REP_SALTY - ATP-dependent DNA helicase Rep OS=Salmonella typhimurium (strain LT2 / SGSC1412 / ATCC 700720) GN=re... gi\|167553318, gi... - gi\|205322218\|gb\|EDZ10057.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica sero... gi\|194405911, gi... - gi\|194447607\|ref\|YP_002047933.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica... gi\|168822967, gi... - gi\|205340705\|gb\|EDZ27469.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica sero... gi\|168467671, gi... - gi\|195629985\|gb\|EDX48645.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica sero... gi\|168263196, gi... - gi\|205348144\|gb\|EDZ34775.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica sero... gi\|161366394, gi... - gi\|161617030\|ref\|YP_001590995.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica... gi\|197940488, gi... - gi\|198245972\|ref\|YP_002217850.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica... gi\|197264134, gi... - gi\|197264134\|ref\|ZP_03164208.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica ... gi\|197215447, gi... - gi\|197251744\|ref\|YP_002148842.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica... gi\|194455131, gi... - gi\|194468767\|ref\|ZP_03074751.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica ... gi\|206710927, gi... - gi\|207859124\|ref\|YP_002245775.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica... gi\|199605191, gi... - gi\|200388093\|ref\|ZP_03214705.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica ... gi\|238912922 - gi\|238912922\|ref\|ZP_04656759.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica ... REP_SALTY - ATP-dependent DNA helicase rep OS=Salmonella typhimurium GN=rep PE=3 SV=1	563.0	[0..1]	[673..1]
gi\|56480432, gi\|... - gi\|56480432\|ref\|NP_709581.2\| ATP-dependent DNA helicase Rep [Shigella flexneri 2a str. 301], gi\|5638... gi\|30043188, gi\|... - gi\|30064927\|ref\|NP_839098.1\| ATP-dependent DNA helicase Rep [Shigella flexneri 2a str. 2457T], gi\|30...	563.0	[0..1]	[673..1]
gi\|237702787, gi... - gi\|237702787\|ref\|ZP_04533268.1\| rep helicase [Escherichia sp. 3_2_53FAA], gi\|226902958\|gb\|EEH89217.1... gi\|91213298, gi\|... - gi\|91213298\|ref\|YP_543284.1\| ATP-dependent DNA helicase Rep [Escherichia coli UTI89], gi\|91074872\|gb... gi\|218367612, gi... - gi\|218560843\|ref\|YP_002393756.1\| ATP-dependent DNA helicase Rep [Escherichia coli S88], gi\|218367612... gi\|115515163, gi... - gi\|117626039\|ref\|YP_859362.1\| ATP-dependent DNA helicase Rep [Escherichia coli APEC O1], gi\|11551516...	563.0	[0..1]	[673..1]
gi\|208813347, gi... - gi\|208813347\|ref\|ZP_03254676.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4045... gi\|208739793, gi... - gi\|208819670\|ref\|ZP_03259990.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4042... gi\|209398850, gi... - gi\|209398850\|ref\|YP_002273296.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC411... gi\|209921251, gi... - gi\|209921251\|ref\|YP_002295335.1\| ATP-dependent DNA helicase Rep [Escherichia coli SE11], gi\|20991451... gi\|13364186, gi\|... - gi\|15833965\|ref\|NP_312738.1\| rep helicase [Escherichia coli O157:H7], gi\|13364186\|dbj\|BAB38134.1\| re... gi\|217324229, gi... - gi\|217324229\|ref\|ZP_03440313.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. TW1458... gi\|25290754, gi\|... - pir\|\|G91217 hypothetical protein ECs4711 [imported] - Escherichia coli (strain O157:H7, substrain R... gi\|189365803, gi... - gi\|189365803\|gb\|EDU84219.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4501], g... gi\|13364186, gi\|... - gi\|15833965\|ref\|NP_312738.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. Sakai], g... gi\|189362630, gi... - gi\|189362630\|gb\|EDU81049.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4486], g... gi\|187768815, gi... - gi\|187768815\|gb\|EDU32659.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4196], g... gi\|189001612, gi... - gi\|189001612\|gb\|EDU70598.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4076], g... gi\|168786612, gi... - gi\|189373350\|gb\|EDU91766.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC869], gi... gi\|189376792, gi... - gi\|189376792\|gb\|EDU95208.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC508], gi... gi\|195938066 - gi\|195938066\|ref\|ZP_03083448.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4024... gi\|208808178, gi... - gi\|208808178\|ref\|ZP_03250515.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4206... gi\|193066130, gi... - gi\|75255783\|ref\|ZP_00727537.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli E22], ... gi\|193071046, gi... - gi\|75234073\|ref\|ZP_00718486.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli E11001... gi\|75209001, gi\|... - gi\|75209001\|ref\|ZP_00709265.1\| COG0210: Superfamily I DNA and RNA helicases [Escherichia coli B171],... gi\|168751735, gi... - gi\|188014262\|gb\|EDU52384.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4113], g... gi\|168753671, gi... - gi\|189359080\|gb\|EDU77499.1\| ATP-dependent DNA helicase Rep [Escherichia coli O157:H7 str. EC4401], g... gi\|254595176, gi... - gi\|254795776\|ref\|YP_003080613.1\| DNA helicase and single-stranded DNA-dependent ATPase [Escherichia ...	563.0	[0..1]	[673..1]
gi\|56130030, gi\|... - gi\|56415773\|ref\|YP_152848.1\| ATP-dependent DNA helicase Rep [Salmonella enterica subsp. enterica ser...	563.0	[0..1]	[673..1]

Back

Predicted Domain #1

Region A:
Residues: [1-673]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MRLNPGQQQA VEFVTGPCLV LAGAGSGKTR VITNKIAHLI RGCGYQARHI AAVTFTNKAA  60
   61 REMKERVGQT LGRKEARGLM ISTFHTLGLD IIKREYAALG MKANFSLFDD TDQLALLKEL 120
  121 TEGLIEDDKV LLQQLISTIS NWKNDLKTPS QAAASAIGER DRIFAHCYGL YDAHLKACNV 180
  181 LDFDDLILLP TLLLQRNEEV RKRWQNKIRY LLVDEYQDTN TSQYELVKLL VGSRARFTVV 240
  241 GDDDQSIYSW RGARPQNLVL LSQDFPALKV IKLEQNYRSS GRILKAANIL IANNPHVFEK 300
  301 RLFSELGYGA ELKVLSANNE EHEAERVTGE LIAHHFVNKT QYKDYAILYR GNHQSRVFEK 360
  361 FLMQNRIPYK ISGGTSFFSR PEIKDLLAYL RVLTNPDDDS AFLRIVNTPK REIGPATLKK 420
  421 LGEWAMTRNK SMFTASFDMG LSQTLSGRGY EALTRFTHWL AEIQRLAERE PIAAVRDLIH 480
  481 GMDYESWLYE TSPSPKAAEM RMKNVNQLFS WMTEMLEGSE LDEPMTLTQV VTRFTLRDMM 540
  541 ERGESEEELD QVQLMTLHAS KGLEFPYVYM VGMEEGFLPH QSSIDEDNID EERRLAYVGI 600
  601 TRAQKELTFT LCKERRQYGE LVRPEPSRFL LELPQDDLIW EQERKVVSAE ERMQKGQSHL 660
  661 ANLKAMMAAK RGK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	161.0
Match:	1uaaA
Description:	DEXX box DNA helicase
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
catalytic activity	1.37148167194523	bayes_pls_golite062009
pyrophosphatase activity	1.16998111465319	bayes_pls_golite062009
binding	0.712909626033412	bayes_pls_golite062009
helicase activity	0.00674361801283974	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: