YRC Public Data Repository - Protein Structure Prediction

Protein:	RNH_GEOSL
Organism:	Geobacter sulfurreducens PCA
Length:	149 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 RNH_GEOSL.

Description	E-value	Query Range	Subject Range
gi\|238721803, gi... - gi\|77973125\|ref\|ZP_00828677.1\| COG0328: Ribonuclease HI [Yersinia frederiksenii ATCC 33641], gi\|2387...	175.0	[0..1]	[144..6]
RNH_RHIEC - Ribonuclease H OS=Rhizobium etli (strain CFN 42 / ATCC 51251) GN=rnhA PE=3 SV=1	174.0	[0..3]	[148..2]
RNH_YERPS - Ribonuclease H OS=Yersinia pseudotuberculosis GN=rnhA PE=3 SV=1 gi\|165924761, gi... - gi\|165924761\|ref\|ZP_02220593.1\| RNase H [Yersinia pestis biovar Orientalis str. F1991016], gi\|165923... gi\|166011974, gi... - gi\|166011974\|ref\|ZP_02232872.1\| RNase H [Yersinia pestis biovar Antiqua str. E1979001], gi\|165989141... gi\|166211295, gi... - gi\|166211295\|ref\|ZP_02237330.1\| RNase H [Yersinia pestis biovar Antiqua str. B42003004], gi\|16620706... gi\|167399933, gi... - gi\|167399933\|ref\|ZP_02305451.1\| RNase H [Yersinia pestis biovar Antiqua str. UG05-0454], gi\|16705064... gi\|167419598, gi... - gi\|167419598\|ref\|ZP_02311351.1\| RNase H [Yersinia pestis biovar Orientalis str. MG05-1020], gi\|16696... gi\|167056769, gi... - gi\|167423920\|ref\|ZP_02315673.1\| RNase H [Yersinia pestis biovar Mediaevalis str. K1973002], gi\|16705... RNH_YERPY - Ribonuclease H OS=Yersinia pseudotuberculosis serotype O:3 (strain YPIII) GN=rnhA PE=3 SV=1 RNH_YERPB - Ribonuclease H OS=Yersinia pseudotuberculosis serotype IB (strain PB1/+) GN=rnhA PE=3 SV=1 gi\|21960014, gi\|... - gi\|22126971\|ref\|NP_670394.1\| ribonuclease H [Yersinia pestis KIM], gi\|21960014\|gb\|AAM86645.1\|AE01391... RNH_YERPS - Ribonuclease H OS=Yersinia pseudotuberculosis serotype I (strain IP32953) GN=rnhA PE=3 SV=1 gi\|45442536, gi\|... - gi\|45442536\|ref\|NP_994075.1\| ribonuclease H [Yersinia pestis biovar Microtus str. 91001], gi\|4543740... RNH_YERPG - Ribonuclease H OS=Yersinia pestis bv. Antiqua (strain Angola) GN=rnhA PE=3 SV=1 RNH_YERP3 - Ribonuclease H OS=Yersinia pseudotuberculosis serotype O:1b (strain IP 31758) GN=rnhA PE=3 SV=1 gi\|218928250, gi... - gi\|218928250\|ref\|YP_002346125.1\| ribonuclease H [Yersinia pestis CO92], gi\|16121382\|ref\|NP_404695.1\|... RNH_YERPE - Ribonuclease HI OS=Yersinia pestis GN=rnhA PE=3 SV=1 RNH_YERPA - Ribonuclease H OS=Yersinia pestis bv. Antiqua (strain Antiqua) GN=rnhA PE=3 SV=1 RNH_YERPN - Ribonuclease H OS=Yersinia pestis bv. Antiqua (strain Nepal516) GN=rnhA PE=3 SV=1 gi\|229841012, gi... - gi\|229841012\|ref\|ZP_04461171.1\| ribonuclease HI, degrades RNA of DNA-RNA hybrids [Yersinia pestis bi... gi\|149291290, gi... - gi\|149366916\|ref\|ZP_01888950.1\| ribonuclease HI [Yersinia pestis CA88-4125], gi\|149291290\|gb\|EDM4136... gi\|229689464, gi... - gi\|229843117\|ref\|ZP_04463263.1\| ribonuclease HI, degrades RNA of DNA-RNA hybrids [Yersinia pestis bi... gi\|165913674, gi... - gi\|89102980\|ref\|ZP_01175579.1\| COG0328: Ribonuclease HI [Yersinia pestis biovar Orientalis str. IP27... RNH_YERPP - Ribonuclease H OS=Yersinia pestis (strain Pestoides F) GN=rnhA PE=3 SV=1 gi\|229701620, gi... - gi\|229895465\|ref\|ZP_04510637.1\| ribonuclease HI, degrades RNA of DNA-RNA hybrids [Yersinia pestis Pe...	171.0	[0..1]	[144..1]
RNH_RHIL3 - Ribonuclease H OS=Rhizobium leguminosarum bv. viciae (strain 3841) GN=rnhA PE=3 SV=1 gi\|241203400, gi... - gi\|241203400\|ref\|YP_002974496.1\| ribonuclease H [Rhizobium leguminosarum bv. trifolii WSM1325], gi\|2...	171.0	[0..3]	[148..2]
gi\|26246158, gi\|... - gi\|26246158\|ref\|NP_752197.1\| ribonuclease H [Escherichia coli CFT073], gi\|26106555\|gb\|AAN78741.1\|AE0...	171.0	[0..1]	[144..38]
gi\|77957727, gi\|... - gi\|77957727\|ref\|ZP_00821775.1\| COG0328: Ribonuclease HI [Yersinia bercovieri ATCC 43970], gi\|2387848...	170.0	[0..1]	[144..1]
gi\|238716995, gi... - gi\|77960260\|ref\|ZP_00824141.1\| COG0328: Ribonuclease HI [Yersinia mollaretii ATCC 43969], gi\|2387991...	170.0	[0..1]	[144..1]
RNH_ALCBS - Ribonuclease H OS=Alcanivorax borkumensis (strain ATCC 700651 / DSM 11573 / NCIMB 13689 / SK2) GN=rn...	170.0	[0..3]	[148..2]
gi\|77977837, gi\|... - gi\|77977837\|ref\|ZP_00833276.1\| COG0328: Ribonuclease HI [Yersinia intermedia ATCC 29909], gi\|2387944...	170.0	[0..1]	[144..1]
RNH_BRAJA - Ribonuclease H OS=Bradyrhizobium japonicum GN=rnhA PE=3 SV=1 RNH_BRADU - Ribonuclease H OS=Bradyrhizobium diazoefficiens (strain JCM 10833 / IAM 13628 / NBRC 14792 / USDA 11...	170.0	[0..5]	[149..7]

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Predicted Domain #1

Region A:
Residues: [1-149]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MSAEVEVFCD GACSGNPGVG GYGAILRYGS AEKELSGADG DTTNNRMELT AAIRALEALS  60
   61 RPCAVTITTD SQYLVKGMTE WLSGWVRRGW VNSKKEPVLN RDLWERLREL TGKHQVRWVW 120
  121 VRGHNGHPEN ERCDALARRA IDAYRNERR

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	42.0
Match:	1rbrA
Description:	STRUCTURAL STUDY OF MUTANTS OF ESCHERICHIA COLI RIBONUCLEASE HI WITH ENHANCED THERMOSTABILITY
Matching Structure (courtesy of the PDB):

Predicted functions:

Term	Confidence	Notes
ribonuclease activity	3.91517707500372	bayes_pls_golite062009
endoribonuclease activity	3.00008907756136	bayes_pls_golite062009
ribonuclease H activity	2.37346218921366	bayes_pls_golite062009
hydrolase activity	2.30893115816458	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	2.26022264830742	bayes_pls_golite062009
nuclease activity	1.81796593394339	bayes_pls_golite062009
endonuclease activity	1.79009816048707	bayes_pls_golite062009
catalytic activity	1.62277843225829	bayes_pls_golite062009
exoribonuclease activity	1.48827607538468	bayes_pls_golite062009
exoribonuclease activity, producing 5'-phosphomonoesters	1.34153791988846	bayes_pls_golite062009
3'-5'-exoribonuclease activity	0.8085201347205	bayes_pls_golite062009
exonuclease activity	0.39213900591465	bayes_pls_golite062009
endoribonuclease activity, producing 5'-phosphomonoesters	0.13187450705887	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: