YRC Public Data Repository - Protein Structure Prediction

Protein:	rnh-1.3
Organism:	Caenorhabditis elegans
Length:	139 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-1.3.

Description	E-value	Query Range	Subject Range
RNH_CUPMC - Ribonuclease H OS=Cupriavidus metallidurans (strain ATCC 43123 / DSM 2839 / NBRC 102507 / CH34) GN=r...	153.0	[0..3]	[137..4]
gi\|26246158, gi\|... - gi\|26246158\|ref\|NP_752197.1\| ribonuclease H [Escherichia coli CFT073], gi\|26106555\|gb\|AAN78741.1\|AE0...	153.0	[0..3]	[137..42]
gi\|157833638, gi... - gi\|494540\|pdb\|1RBR\| Chain , Ribonuclease H (E.C.3.1.26.4) Mutant With His 62 Replaced By Pro (H62p...	153.0	[0..3]	[137..5]
RNH_RHILO - Ribonuclease H OS=Rhizobium loti GN=rnhA PE=3 SV=1 RNH_RHILO - Ribonuclease H OS=Rhizobium loti (strain MAFF303099) GN=rnhA PE=3 SV=1	153.0	[0..3]	[136..5]
gi\|24111645, gi\|... - gi\|24111645\|ref\|NP_706155.1\| ribonuclease H [Shigella flexneri 2a str. 301], gi\|24050418\|gb\|AAN41862...	153.0	[0..3]	[137..42]
gi\|110613810, gi... - gi\|110804262\|ref\|YP_687781.1\| ribonuclease H [Shigella flexneri 5 str. 8401], gi\|110613810\|gb\|ABF024...	152.0	[0..3]	[137..42]
gi\|91070856, gi\|... - gi\|91209282\|ref\|YP_539268.1\| ribonuclease H [Escherichia coli UTI89], gi\|91070856\|gb\|ABE05737.1\| RNa... gi\|117622496, gi... - gi\|117622496\|ref\|YP_851409.1\| ribonuclease H [Escherichia coli APEC O1], gi\|115511620\|gb\|ABI99694.1\|... gi\|226899001, gi... - gi\|237707791\|ref\|ZP_04538272.1\| ribonuclease H [Escherichia sp. 3_2_53FAA], gi\|226899001\|gb\|EEH85260... gi\|194419057, gi... - gi\|194432795\|ref\|ZP_03065080.1\| ribonuclease H [Shigella dysenteriae 1012], gi\|194419057\|gb\|EDX35141...	152.0	[0..3]	[137..42]
gi\|62126462, gi\|... - gi\|62178829\|ref\|YP_215246.1\| ribonuclease H [Salmonella enterica subsp. enterica serovar Choleraesui...	152.0	[0..3]	[137..124]
RNH_ECO8A - Ribonuclease H OS=Escherichia coli O8 (strain IAI1) GN=rnhA PE=3 SV=1 RNH_ECO45 - Ribonuclease H OS=Escherichia coli O45:K1 (strain S88 / ExPEC) GN=rnhA PE=3 SV=1 RNH_ECO81 - Ribonuclease H OS=Escherichia coli O81 (strain ED1a) GN=rnhA PE=3 SV=1 RNH_ECO7I - Ribonuclease H OS=Escherichia coli O7:K1 (strain IAI39 / ExPEC) GN=rnhA PE=3 SV=1 RNH_ECOLU - Ribonuclease H OS=Escherichia coli O17:K52:H18 (strain UMN026 / ExPEC) GN=rnhA PE=3 SV=1 gi\|195938586 - gi\|195938586\|ref\|ZP_03083968.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4024] gi\|208808292, gi... - gi\|208808292\|ref\|ZP_03250629.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4206], gi\|208728093\|... gi\|208733274, gi... - gi\|208811997\|ref\|ZP_03253326.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4045], gi\|208733274\|... gi\|208820698, gi... - gi\|208820698\|ref\|ZP_03261018.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4042], gi\|208740821\|... RNH_ECO5E - Ribonuclease H OS=Escherichia coli O157:H7 (strain EC4115 / EHEC) GN=rnhA PE=3 SV=1 RNH_ECOSE - Ribonuclease H OS=Escherichia coli (strain SE11) GN=rnhA PE=3 SV=1 gi\|217324249, gi... - gi\|217324249\|ref\|ZP_03440333.1\| ribonuclease H [Escherichia coli O157:H7 str. TW14588], gi\|217320470... RNH_ESCF3 - Ribonuclease H OS=Escherichia fergusonii (strain ATCC 35469 / DSM 13698 / CDC 0568-73) GN=rnhA PE=3 ... gi\|124500997, gi... - gi\|124527833\|ref\|ZP_01699222.1\| ribonuclease H [Escherichia coli B], gi\|124500997\|gb\|EAY48464.1\| rib... RNH_SHIDS - Ribonuclease H OS=Shigella dysenteriae serotype 1 (strain Sd197) GN=rnhA PE=3 SV=1 RNH_SHIBS - Ribonuclease H OS=Shigella boydii serotype 4 (strain Sb227) GN=rnhA PE=3 SV=1 RNH_SHIB3 - Ribonuclease H OS=Shigella boydii serotype 18 (strain CDC 3083-94 / BS512) GN=rnhA PE=3 SV=1 RNH_ECO24 - Ribonuclease H OS=Escherichia coli O139:H28 (strain E24377A / ETEC) GN=rnhA PE=3 SV=1 gi\|83570286 - gi\|83570286\|ref\|ZP_00921732.1\| COG0328: Ribonuclease HI [Shigella dysenteriae 1012] gi\|194438212, gi... - gi\|83586294\|ref\|ZP_00924929.1\| COG0328: Ribonuclease HI [Escherichia coli 101-1], gi\|194438212\|ref\|Z... gi\|75513656, gi\|... - gi\|75513656\|ref\|ZP_00736047.1\| COG0328: Ribonuclease HI [Escherichia coli 53638], gi\|188495937\|ref\|Z... RNH_SHISS - Ribonuclease H OS=Shigella sonnei (strain Ss046) GN=rnhA PE=3 SV=1 gi\|190902905, gi... - gi\|75229807\|ref\|ZP_00716334.1\| COG0328: Ribonuclease HI [Escherichia coli B7A], gi\|191167012\|ref\|ZP_... gi\|75238912, gi\|... - gi\|75238912\|ref\|ZP_00722894.1\| COG0328: Ribonuclease HI [Escherichia coli E110019], gi\|193067575\|ref... RNH_ECOLC - Ribonuclease H OS=Escherichia coli (strain ATCC 8739 / DSM 1576 / Crooks) GN=rnhA PE=3 SV=1 gi\|168763422, gi... - gi\|189366386\|gb\|EDU84802.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4501], gi\|168763422\|ref\|... gi\|168769977, gi... - gi\|189361084\|gb\|EDU79503.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4486], gi\|168769977\|ref\|... gi\|168776182, gi... - gi\|187768426\|gb\|EDU32270.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4196], gi\|168776182\|ref\|... gi\|168782939, gi... - gi\|188999616\|gb\|EDU68602.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4076], gi\|168782939\|ref\|... gi\|168789657, gi... - gi\|189370760\|gb\|EDU89176.1\| ribonuclease H [Escherichia coli O157:H7 str. EC869], gi\|168789657\|ref\|Z... gi\|189377335, gi... - gi\|189377335\|gb\|EDU95751.1\| ribonuclease H [Escherichia coli O157:H7 str. EC508], gi\|168800384\|ref\|Z... RNH_ECODH - Ribonuclease H OS=Escherichia coli (strain K12 / DH10B) GN=rnhA PE=3 SV=1 RNH_ECOSM - Ribonuclease H OS=Escherichia coli (strain SMS-3-5 / SECEC) GN=rnhA PE=3 SV=1 gi\|161485946 - gi\|161485946\|ref\|NP_706155.2\| ribonuclease H [Shigella flexneri 2a str. 301] gi\|188015545, gi... - gi\|188015545\|gb\|EDU53667.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4113], gi\|168750162\|ref\|... gi\|168757207, gi... - gi\|189355700\|gb\|EDU74119.1\| ribonuclease H [Escherichia coli O157:H7 str. EC4401], gi\|168757207\|ref\|... RNH_SHIFL - Ribonuclease HI OS=Shigella flexneri GN=rnhA PE=3 SV=1 gi\|4902951, gi\|8... - gi\|89107089\|ref\|AP_000869.1\| ribonuclease HI, degrades RNA of DNA-RNA hybrids [Escherichia coli str.... gi\|30061766, gi\|... - gi\|30061766\|ref\|NP_835937.1\| ribonuclease H [Shigella flexneri 2a str. 2457T], gi\|30040008\|gb\|AAP157... gi\|15829464, gi\|... - gi\|15829464\|ref\|NP_308237.1\| ribonuclease H [Escherichia coli O157:H7 str. Sakai], gi\|13359666\|dbj\|B... EG10860 - ribonuclease HI, degrades RNA of DNA-RNA hybrids / RNase HI; participates in DNA replication RNH_ECO57 - Ribonuclease HI OS=Escherichia coli O157:H7 GN=rnhA PE=3 SV=1 EG10860 - ribonuclease HI, degrades RNA of DNA-RNA hybrids / RNase HI; participates in DNA replication gi\|15799890, gi\|... - gi\|15799890\|ref\|NP_285902.1\| ribonuclease H [Escherichia coli O157:H7 EDL933], gi\|12512942\|gb\|AAG545... RNH_ECOLI - Ribonuclease HI (EC 3.1.26.4) (RNase HI) (Ribonuclease H) (RNase H) - Escherichia coli RNH_ECOL6 - Ribonuclease HI OS=Escherichia coli O6 GN=rnhA PE=3 SV=1 gi\|254791341, gi... - gi\|254791341\|ref\|YP_003076178.1\| ribonuclease HI, degrades RNA of DNA-RNA hybrids [Escherichia coli ... gi\|254160328, gi... - gi\|254160328\|ref\|YP_003043436.1\| ribonuclease H [Escherichia coli B str. REL606], gi\|253972229\|gb\|AC... gi\|253325808, gi... - gi\|254287131\|ref\|YP_003052879.1\| ribonuclease H [Escherichia coli BL21(DE3)], gi\|253976438\|gb\|ACT421... gi\|242376044, gi... - gi\|251783771\|ref\|YP_002998075.1\| hypothetical protein B21_00212 [Escherichia coli BL21], gi\|24237604... RNH_ECOBW - Ribonuclease H OS=Escherichia coli (strain K12 / MC4100 / BW2952) GN=rnhA PE=3 SV=1 RNH_ECOL6 - Ribonuclease HI OS=Escherichia coli O6:H1 (strain CFT073 / ATCC 700928 / UPEC) GN=rnhA PE=3 SV=1	152.0	[0..3]	[137..5]

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Predicted Domain #1

Region A:
Residues: [1-139]

      1          11         21         31         41         51         
      |          |          |          |          |          |          
    1 MPYDFYTDGS ALGNGQQGSR GGYGVHVPSD TSKNVSGSYP HGPQTNNRYE LEAIKHATQM  60
   61 ARDVPDSHVR IHTDSKNAKD SVTKWNDNWK SNGYKTSSGQ DVKNQDLIRD IDRNVQALKH 120
  121 SGKTVEFEHV RGHSNRMYI

[Run NCBI BLAST on this sequence.]

Detection Method:	PSI-BLAST
Confidence:	37.69897
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
catalytic activity	0.722279828632226	bayes_pls_golite062009
hydrolase activity	0.29272620969648	bayes_pls_golite062009
hydrolase activity, acting on ester bonds	0.24934115119652	bayes_pls_golite062009
nuclease activity	0.239989310123501	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: