YRC Public Data Repository - Protein Structure Prediction

Protein:	RUVA_GEOSL
Organism:	Geobacter sulfurreducens PCA
Length:	199 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 RUVA_GEOSL.

Description	E-value	Query Range	Subject Range
RUVA_PSESM - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas syringae pv. tomato (strain DC3000)... RUVA_PSESM - Holliday junction ATP-dependent DNA helicase ruvA OS=Pseudomonas syringae pv. tomato GN=ruvA PE=3 SV... gi\|213926183, gi... - gi\|213969185\|ref\|ZP_03397324.1\| Holliday junction DNA helicase RuvA [Pseudomonas syringae pv. tomato...	250.0	[0..1]	[198..1]
RUVA_PSEU2 - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas syringae pv. syringae (strain B728a...	250.0	[0..1]	[198..1]
RUVA_PSEP1 - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas putida (strain F1 / ATCC 700007) GN... tr\|I7CE92\|I7CE92... - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas putida (strain DOT-T1E) GN=ruvA PE=... RUVA_PSEPK - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas putida (strain KT2440) GN=ruvA PE=3... tr\|E4R7V1\|E4R7V1... - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas putida (strain BIRD-1) GN=ruvA PE=3...	249.0	[0..1]	[197..1]
RUVA_PSE14 - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas savastanoi pv. phaseolicola (strain...	248.0	[0..1]	[198..1]
RUVA_PSEF5 - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas fluorescens (strain Pf-5 / ATCC BAA...	248.0	[0..1]	[197..1]
gi\|91188507, gi\|... - gi\|91227614\|ref\|ZP_01261918.1\| Holliday junction DNA helicase motor protein [Vibrio alginolyticus 12...	248.0	[0..1]	[197..1]
gi\|95112060 - gi\|95112060\|emb\|CAK16787.1\| holliday junction helicase subunit A [Pseudomonas entomophila L48] RUVA_PSEE4 - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas entomophila (strain L48) GN=ruvA PE...	247.0	[0..1]	[197..1]
RUVA_COXBR - Holliday junction ATP-dependent DNA helicase RuvA OS=Coxiella burnetii (strain RSA 331 / Henzerling ... RUVA_COXBU - Holliday junction ATP-dependent DNA helicase RuvA OS=Coxiella burnetii (strain RSA 493 / Nine Mile p... RUVA_COXBU - Holliday junction ATP-dependent DNA helicase RuvA OS=Coxiella burnetii GN=ruvA PE=3 SV=1 gi\|165918688, gi... - gi\|165918688\|ref\|ZP_02218774.1\| Holliday junction DNA helicase RuvA [Coxiella burnetii RSA 334], gi\|... RUVA_COXB1 - Holliday junction ATP-dependent DNA helicase RuvA OS=Coxiella burnetii (strain CbuK_Q154) GN=ruvA PE... gi\|153208743, gi... - gi\|153208743\|ref\|ZP_01946981.1\| Holliday junction DNA helicase RuvA [Coxiella burnetii 'MSU Goat Q17...	247.0	[0..1]	[197..1]
RUVA_PSEAE - Holliday junction ATP-dependent DNA helicase ruvA OS=Pseudomonas aeruginosa GN=ruvA PE=3 SV=1 gi\|194556234, gi... - gi\|84322552\|ref\|ZP_00970637.1\| COG0632: Holliday junction resolvasome, DNA-binding subunit [Pseudomo... gi\|254239314, gi... - gi\|84316457\|ref\|ZP_00964931.1\| COG0632: Holliday junction resolvasome, DNA-binding subunit [Pseudomo... RUVA_PSEAB - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas aeruginosa (strain UCBPP-PA14) GN=r... RUVA_PSEAE - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas aeruginosa (strain ATCC 15692 / PAO... gi\|107100423 - gi\|107100423\|ref\|ZP_01364341.1\| hypothetical protein PaerPA_01001448 [Pseudomonas aeruginosa PACS2] RUVA_PSEA8 - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas aeruginosa (strain LESB58) GN=ruvA ... RUVA_PSEA7 - Holliday junction ATP-dependent DNA helicase RuvA OS=Pseudomonas aeruginosa (strain PA7) GN=ruvA PE=...	247.0	[0..1]	[197..1]
gi\|154356991, gi... - gi\|94491792\|ref\|ZP_01299002.1\| hypothetical protein CburD_01001187 [Coxiella burnetii Dugway 7E9-12]... RUVA_COXBN - Holliday junction ATP-dependent DNA helicase RuvA OS=Coxiella burnetii (strain Dugway 5J108-111) GN=...	247.0	[0..1]	[197..1]

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Predicted Domain #1

Region A:
Residues: [1-199]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MIALLTGRLA HKSPDAIIID VNGVGYRVQI PFSTYYELPE EGKTVSLSIH THVKEDSISL  60
   61 FGFRTLAEKE FFQLLISVSG IGPKMARDIL SNIQPEELAA AIVQGNLVRL SSIPGIGKKT 120
  121 AERLVLELKE KVRKMDVAPS AQEAPSSEAP AEVADDVASA LVNLGYKEAV VRKVLAEMSI 180
  181 EPDASTEAVL RQALKVLMK

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	64.09691
Match:	1bdxA
Description:	DNA helicase RuvA subunit, C-terminal domain; DNA helicase RuvA subunit, middle domain; DNA helicase RuvA subunit, N-terminal domain
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
four-way junction helicase activity	6.5377357736202	bayes_pls_golite062009
DNA helicase activity	4.17140899815273	bayes_pls_golite062009
endodeoxyribonuclease activity	3.43738564958931	bayes_pls_golite062009
helicase activity	3.41619150983834	bayes_pls_golite062009
deoxyribonuclease activity	3.18777140839084	bayes_pls_golite062009
excinuclease ABC activity	2.75922711242844	bayes_pls_golite062009
nucleic acid binding	1.99569639221804	bayes_pls_golite062009
structure-specific DNA binding	1.68542948433544	bayes_pls_golite062009
binding	1.60192408330567	bayes_pls_golite062009
single-stranded DNA binding	1.58506920916947	bayes_pls_golite062009
DNA binding	1.33645375386113	bayes_pls_golite062009
endonuclease activity	1.07194065760938	bayes_pls_golite062009
damaged DNA binding	1.01799678384131	bayes_pls_golite062009
ATP-dependent DNA helicase activity	1.01626429465845	bayes_pls_golite062009
structural constituent of ribosome	0.83740886071361	bayes_pls_golite062009
structural molecule activity	0.53636537261201	bayes_pls_golite062009
nuclease activity	0.29926900436997	bayes_pls_golite062009
exonuclease activity, active with either ribo- or deoxyribonucleic acids and producing 5'-phosphomonoesters	0.0954216620147701	bayes_pls_golite062009
exonuclease activity	0.0152988330656798	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: