Citrus Sinensis ID: 026552

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------
MGSEAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF
cccccccHHHHcccccEEEEEEccccccHHHHccccccHHHHHHHHHHHHHHHHHHccccccEEEEcccccHHHHHHHHHHcccccEEEEEEcccccccHHHHHHHHHHHHHHHHHHcccHHHHHHHccccccccccccHHHHHHHHHccccccccccccccccHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccHHHccccccccHHHHccccccccc
cccHHHHHHHHccccEEEEEEEcHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccEEEEEEEccccHHHHHHHHHHHccccEEEEEccHHHHcHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHccccccccccEEEEcHHHHHHHHHccccEEcccccccccccccccccccEEccccccccccccccccccccccccHHHHHccccEcccc
mgseaalpkwasnpfgwavdiidpRELSAKMLNKNKinlneishdsAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLsqrfpsikfvvskkadslypvvsgASIVAKVtrdrtlrgwIFEETAENmhrnfgsgypgdpetkawltdhkhiifgfpslvrfswgtctSHFKDIVEVLWesdemdedvssrrsgkrqlklsdigfssskrrseeieSSGKGRCKFLEARKLEQLTHF
mgseaalpkwasnpfgwavDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAklsqrfpsIKFVvskkadslypvvsgasivakvtrdrTLRGWIFeetaenmhrnfgsgYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMdedvssrrsgkrqlklsdigfssskrrseeiessgkgrckflearkleqlthf
MGSEAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFssskrrseeiessgkgrCKFLEARKLEQLTHF
********KWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWE*********************************************************
**SEAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESD******************************************FLEARKLEQL**F
********KWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESD***************LKLSDIGF***************GRCKFLEARKLEQLTHF
**SEAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESD**************************************************Q****
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MGSEAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF
no confident homologs detected

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST ?

Original result of BLAST against SWISS-PROT Database

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query237 2.2.26 [Sep-21-2011]
Q9SEZ6296 Ribonuclease H2 subunit A yes no 0.936 0.75 0.739 2e-96
Q9VPP5347 Ribonuclease H2 subunit A yes no 0.924 0.631 0.445 1e-48
Q9CWY8301 Ribonuclease H2 subunit A yes no 0.751 0.591 0.491 3e-47
Q5U209301 Ribonuclease H2 subunit A yes no 0.725 0.571 0.497 6e-47
O75792299 Ribonuclease H2 subunit A yes no 0.696 0.551 0.506 2e-46
Q2TBT5299 Ribonuclease H2 subunit A yes no 0.708 0.561 0.497 8e-45
Q54D13289 Ribonuclease H2 subunit A yes no 0.776 0.636 0.430 4e-37
Q9U6P6297 Ribonuclease H2 subunit A yes no 0.751 0.599 0.45 6e-36
Q10236326 Ribonuclease H2 subunit A yes no 0.641 0.466 0.475 8e-29
P53942307 Ribonuclease H2 subunit A yes no 0.805 0.622 0.4 2e-28
>sp|Q9SEZ6|RNH2A_ARATH Ribonuclease H2 subunit A OS=Arabidopsis thaliana GN=At2g25100 PE=2 SV=2 Back     alignment and function desciption
 Score =  351 bits (901), Expect = 2e-96,   Method: Compositional matrix adjust.
 Identities = 165/223 (73%), Positives = 193/223 (86%), Gaps = 1/223 (0%)

Query: 15  FGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEK 74
            GWAVD+IDPRELSAKML KNK NLNEISH+SA+GLI RVL++G+LLTE YLDTVGD +K
Sbjct: 75  LGWAVDVIDPRELSAKMLAKNKTNLNEISHNSAMGLIKRVLDMGVLLTEAYLDTVGDPDK 134

Query: 75  YQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGS 134
           Y+ KLS+RFPSIKFVVSKKADSL+P+VSGASIVAKVTRDR L+ W+ EET E+++RNFGS
Sbjct: 135 YRIKLSERFPSIKFVVSKKADSLFPIVSGASIVAKVTRDRALKEWLVEETGEDINRNFGS 194

Query: 135 GYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSG 194
           GYPGDPETKAWL  HKH +FGFPSLVRFSWGTCT+H K  VEV WE+DE +E+  +  S 
Sbjct: 195 GYPGDPETKAWLVQHKHSVFGFPSLVRFSWGTCTTHLKGEVEVAWEADE-NEESGNGSSS 253

Query: 195 KRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF 237
           KRQ KLS  GF + ++RSEEIESSGKGRCKFL+ARK++QLT F
Sbjct: 254 KRQAKLSSFGFKTCEKRSEEIESSGKGRCKFLQARKIQQLTQF 296
Catalytic subunit of RNase HII, an endonuclease that specifically degrades the RNA of RNA:DNA hybrids. Participates in DNA replication, possibly by mediating the removal of lagging-strand Okazaki fragment RNA primers during DNA replication. Mediates the excision of single ribonucleotides from DNA:RNA duplexes.
Arabidopsis thaliana (taxid: 3702)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: 4
>sp|Q9VPP5|RNH2A_DROME Ribonuclease H2 subunit A OS=Drosophila melanogaster GN=CG13690 PE=2 SV=1 Back     alignment and function description
>sp|Q9CWY8|RNH2A_MOUSE Ribonuclease H2 subunit A OS=Mus musculus GN=Rnaseh2a PE=1 SV=2 Back     alignment and function description
>sp|Q5U209|RNH2A_RAT Ribonuclease H2 subunit A OS=Rattus norvegicus GN=Rnaseh2a PE=2 SV=1 Back     alignment and function description
>sp|O75792|RNH2A_HUMAN Ribonuclease H2 subunit A OS=Homo sapiens GN=RNASEH2A PE=1 SV=2 Back     alignment and function description
>sp|Q2TBT5|RNH2A_BOVIN Ribonuclease H2 subunit A OS=Bos taurus GN=RNASEH2A PE=1 SV=1 Back     alignment and function description
>sp|Q54D13|RNH2A_DICDI Ribonuclease H2 subunit A OS=Dictyostelium discoideum GN=rnaseh2A PE=3 SV=1 Back     alignment and function description
>sp|Q9U6P6|RNH2A_CAEEL Ribonuclease H2 subunit A OS=Caenorhabditis elegans GN=rnh-2 PE=2 SV=1 Back     alignment and function description
>sp|Q10236|RNH2A_SCHPO Ribonuclease H2 subunit A OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rnh201 PE=3 SV=1 Back     alignment and function description
>sp|P53942|RNH2A_YEAST Ribonuclease H2 subunit A OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=RNH201 PE=1 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query237
225464178297 PREDICTED: ribonuclease H2 subunit A iso 0.957 0.764 0.792 1e-104
255549406299 ribonuclease hi large subunit, putative 0.957 0.759 0.788 1e-103
449468774297 PREDICTED: ribonuclease H2 subunit A-lik 0.957 0.764 0.766 1e-102
356536350297 PREDICTED: ribonuclease H2 subunit A-lik 0.949 0.757 0.767 6e-99
224097610297 predicted protein [Populus trichocarpa] 0.957 0.764 0.770 3e-98
21593541280 putative ribonuclease large subunit [Ara 0.936 0.792 0.739 1e-94
18400719296 Ribonuclease H2 subunit A [Arabidopsis t 0.936 0.75 0.739 1e-94
297825539296 predicted protein [Arabidopsis lyrata su 0.936 0.75 0.744 1e-94
125533439298 hypothetical protein OsI_35154 [Oryza sa 0.936 0.744 0.702 1e-91
115484243298 Os11g0153900 [Oryza sativa Japonica Grou 0.936 0.744 0.702 1e-91
>gi|225464178|ref|XP_002269817.1| PREDICTED: ribonuclease H2 subunit A isoform 1 [Vitis vinifera] gi|296086584|emb|CBI32219.3| unnamed protein product [Vitis vinifera] Back     alignment and taxonomy information
 Score =  383 bits (983), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 180/227 (79%), Positives = 204/227 (89%)

Query: 11  ASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG 70
           A    GWAVD+IDP ELSAKML KNKINLNEISHDSAIGLITRVLN+G+LLTEVY+DTVG
Sbjct: 71  ADESIGWAVDVIDPWELSAKMLKKNKINLNEISHDSAIGLITRVLNMGVLLTEVYVDTVG 130

Query: 71  DAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHR 130
           DAEKY+ KLS+RFP++KFVV+KKADSLYPVVSGASIVAKVTRDR LR W+  ETAENMHR
Sbjct: 131 DAEKYRIKLSERFPAVKFVVAKKADSLYPVVSGASIVAKVTRDRALRDWVLVETAENMHR 190

Query: 131 NFGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSS 190
           NFGSGYPGDP TK+WL  HKH +FGFP+LVRFSWGTCT++ KDIVEVLWE+D+++ED S+
Sbjct: 191 NFGSGYPGDPVTKSWLQHHKHSVFGFPTLVRFSWGTCTAYSKDIVEVLWEADKVEEDGST 250

Query: 191 RRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF 237
            R+GKRQLKLS +GF  SKR+SEEIESSGKGRCKF +ARKLEQLT F
Sbjct: 251 NRNGKRQLKLSSVGFIESKRKSEEIESSGKGRCKFFQARKLEQLTQF 297

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota
>gi|255549406|ref|XP_002515756.1| ribonuclease hi large subunit, putative [Ricinus communis] gi|223545084|gb|EEF46595.1| ribonuclease hi large subunit, putative [Ricinus communis] Back     alignment and taxonomy information
>gi|449468774|ref|XP_004152096.1| PREDICTED: ribonuclease H2 subunit A-like [Cucumis sativus] gi|449529756|ref|XP_004171864.1| PREDICTED: ribonuclease H2 subunit A-like [Cucumis sativus] Back     alignment and taxonomy information
>gi|356536350|ref|XP_003536702.1| PREDICTED: ribonuclease H2 subunit A-like isoform 1 [Glycine max] Back     alignment and taxonomy information
>gi|224097610|ref|XP_002311009.1| predicted protein [Populus trichocarpa] gi|222850829|gb|EEE88376.1| predicted protein [Populus trichocarpa] Back     alignment and taxonomy information
>gi|21593541|gb|AAM65508.1| putative ribonuclease large subunit [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|18400719|ref|NP_565584.1| Ribonuclease H2 subunit A [Arabidopsis thaliana] gi|49066054|sp|Q9SEZ6.2|RNH2A_ARATH RecName: Full=Ribonuclease H2 subunit A; Short=RNase H2 subunit A; AltName: Full=Ribonuclease HI large subunit; Short=RNase HI large subunit; AltName: Full=Ribonuclease HI subunit A gi|26450346|dbj|BAC42289.1| putative ribonuclease large subunit [Arabidopsis thaliana] gi|28973385|gb|AAO64017.1| putative ribonuclease large subunit [Arabidopsis thaliana] gi|330252563|gb|AEC07657.1| Ribonuclease H2 subunit A [Arabidopsis thaliana] Back     alignment and taxonomy information
>gi|297825539|ref|XP_002880652.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|297326491|gb|EFH56911.1| predicted protein [Arabidopsis lyrata subsp. lyrata] Back     alignment and taxonomy information
>gi|125533439|gb|EAY79987.1| hypothetical protein OsI_35154 [Oryza sativa Indica Group] Back     alignment and taxonomy information
>gi|115484243|ref|NP_001065783.1| Os11g0153900 [Oryza sativa Japonica Group] gi|62701661|gb|AAX92734.1| ribonuclease HII, putative [Oryza sativa Japonica Group] gi|77548724|gb|ABA91521.1| ribonuclease HI large subunit, putative, expressed [Oryza sativa Japonica Group] gi|113644487|dbj|BAF27628.1| Os11g0153900 [Oryza sativa Japonica Group] gi|125576251|gb|EAZ17473.1| hypothetical protein OsJ_33004 [Oryza sativa Japonica Group] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query237
TAIR|locus:2040189296 AT2G25100 [Arabidopsis thalian 0.932 0.746 0.689 1.9e-83
GENEDB_PFALCIPARUM|PFF1150w288 PFF1150w "ribonuclease H1 larg 0.734 0.604 0.554 1.1e-46
UNIPROTKB|C6KT75288 PFF1150w "Ribonuclease" [Plasm 0.734 0.604 0.554 1.1e-46
MGI|MGI:1916974301 Rnaseh2a "ribonuclease H2, lar 0.751 0.591 0.491 7.1e-45
FB|FBgn0031252347 CG13690 [Drosophila melanogast 0.924 0.631 0.432 2.4e-44
RGD|1307248301 Rnaseh2a "ribonuclease H2, sub 0.725 0.571 0.497 2.4e-44
UNIPROTKB|Q5U209301 Rnaseh2a "Ribonuclease H2 subu 0.725 0.571 0.497 2.4e-44
ZFIN|ZDB-GENE-040426-976307 rnaseh2a "ribonuclease H2, sub 0.746 0.576 0.488 6.4e-44
UNIPROTKB|O75792299 RNASEH2A "Ribonuclease H2 subu 0.793 0.628 0.471 1.3e-43
UNIPROTKB|F1SDX8301 RNASEH2A "Ribonuclease" [Sus s 0.746 0.588 0.477 2.8e-43
TAIR|locus:2040189 AT2G25100 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 809 (289.8 bits), Expect = 1.9e-83, Sum P(2) = 1.9e-83
 Identities = 153/222 (68%), Positives = 178/222 (80%)

Query:    16 GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKY 75
             GWAVD+IDPRELSAKML KNK NLNEISH+SA+GLI RVL++G+LLTE YLDTVGD +KY
Sbjct:    76 GWAVDVIDPRELSAKMLAKNKTNLNEISHNSAMGLIKRVLDMGVLLTEAYLDTVGDPDKY 135

Query:    76 QAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSG 135
             + KLS+RFPSIKFVVSKKADSL+P+VSGASIVAKVTRDR L+ W+ EET E+++RNFGSG
Sbjct:   136 RIKLSERFPSIKFVVSKKADSLFPIVSGASIVAKVTRDRALKEWLVEETGEDINRNFGSG 195

Query:   136 YPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSGK 195
             YPGDPETKAWL  HKH +FGFPSLVRFSWGTCT+H K  VEV WE+DE +E+  +  S K
Sbjct:   196 YPGDPETKAWLVQHKHSVFGFPSLVRFSWGTCTTHLKGEVEVAWEADE-NEESGNGSSSK 254

Query:   196 RQLKLSDIGFXXXXXXXXXXXXXXXXXCKFLEARKLEQLTHF 237
             RQ KLS  GF                 CKFL+ARK++QLT F
Sbjct:   255 RQAKLSSFGFKTCEKRSEEIESSGKGRCKFLQARKIQQLTQF 296
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0003723 "RNA binding" evidence=IEA
GO:0003824 "catalytic activity" evidence=ISS
GO:0004523 "ribonuclease H activity" evidence=IEA
GO:0005634 "nucleus" evidence=ISM
GO:0005737 "cytoplasm" evidence=ISM
GO:0016070 "RNA metabolic process" evidence=IEA
GENEDB_PFALCIPARUM|PFF1150w PFF1150w "ribonuclease H1 large subunit, putative" [Plasmodium falciparum (taxid:5833)] Back     alignment and assigned GO terms
UNIPROTKB|C6KT75 PFF1150w "Ribonuclease" [Plasmodium falciparum 3D7 (taxid:36329)] Back     alignment and assigned GO terms
MGI|MGI:1916974 Rnaseh2a "ribonuclease H2, large subunit" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
FB|FBgn0031252 CG13690 [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
RGD|1307248 Rnaseh2a "ribonuclease H2, subunit A" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|Q5U209 Rnaseh2a "Ribonuclease H2 subunit A" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040426-976 rnaseh2a "ribonuclease H2, subunit A" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
UNIPROTKB|O75792 RNASEH2A "Ribonuclease H2 subunit A" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|F1SDX8 RNASEH2A "Ribonuclease" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
Q9SEZ6RNH2A_ARATH3, ., 1, ., 2, 6, ., 40.73990.93670.75yesno

EC Number Prediction by Ezypred Server ?

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.1.260.963
3rd Layer3.1.26.40.946

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
GSVIVG00001423001
RecName- Full=Ribonuclease; EC=3.1.26.-;; Endonuclease that specifically degrades the RNA of RNA- DNA hybrids (By similarity) (298 aa)
(Vitis vinifera)
Predicted Functional Partners:
GSVIVG00022496001
SubName- Full=Chromosome chr14 scaffold_27, whole genome shotgun sequence; (330 aa)
   •• • 0.922
GSVIVG00024178001
RecName- Full=Proliferating cell nuclear antigen;; This protein is an auxiliary protein of DNA [...] (266 aa)
   •• • 0.769
GSVIVG00022150001
RecName- Full=DNA ligase; EC=6.5.1.1; (783 aa)
•  •  • 0.680
GSVIVG00022048001
RecName- Full=DNA polymerase; EC=2.7.7.7; (2224 aa)
   •• • 0.658
GSVIVG00006013001
RecName- Full=DNA polymerase; EC=2.7.7.7; (1126 aa)
   •  • 0.656
GSVIVG00002439001
RecName- Full=DNA primase; EC=2.7.7.-; (457 aa)
   •  • 0.598
GSVIVG00020561001
SubName- Full=Chromosome chr14 scaffold_21, whole genome shotgun sequence; (220 aa)
   •  • 0.593
MSH2
SubName- Full=Chromosome chr17 scaffold_16, whole genome shotgun sequence; (802 aa)
   •• • 0.581
GSVIVG00006228001
SubName- Full=Chromosome chr1 scaffold_166, whole genome shotgun sequence; (739 aa)
   •  • 0.569
GSVIVG00015413001
SubName- Full=Chromosome chr18 scaffold_1, whole genome shotgun sequence; (360 aa)
   •  • 0.569

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database part I

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query237
cd07181221 cd07181, RNase_HII_eukaryota_like, Mammalian RNase 7e-92
cd06266210 cd06266, RNase_HII, Ribonuclease H (RNase H) type 4e-83
TIGR00729206 TIGR00729, TIGR00729, ribonuclease H, mammalian HI 3e-33
pfam01351199 pfam01351, RNase_HII, Ribonuclease HII 2e-29
cd07180204 cd07180, RNase_HII_Archaea_like, Archaeal ribonucl 2e-28
COG0164199 COG0164, RnhB, Ribonuclease HII [DNA replication, 5e-19
PRK00015197 PRK00015, rnhB, ribonuclease HII; Validated 1e-12
PRK14551212 PRK14551, rnhB, ribonuclease HII; Provisional 2e-11
cd07182179 cd07182, RNase_HII_bacteria_HII_like, bacterial Ri 7e-06
>gnl|CDD|187694 cd07181, RNase_HII_eukaryota_like, Mammalian RNase HII is functional when it forms a complex with two other accessory protein Back     alignment and domain information 
 Score =  269 bits (689), Expect = 7e-92
 Identities = 94/162 (58%), Positives = 116/162 (71%)

Query: 12  SNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGD 71
            +  GWA  I+ P+ +S KML + K NLNEISHD+AIGLI  VL+ G+ +TEVY+DTVG 
Sbjct: 57  DDALGWATRILSPQYISTKMLARTKYNLNEISHDAAIGLIREVLDKGVNVTEVYVDTVGP 116

Query: 72  AEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRN 131
            EKYQAKL ++FP IKF V KKADSLYP+VS ASIVAKVTRDR L+ W F+ET      +
Sbjct: 117 PEKYQAKLQKKFPGIKFTVEKKADSLYPIVSAASIVAKVTRDRALKNWQFDETLIKDSGD 176

Query: 132 FGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHFKD 173
            GSGYP DP+TK WL  +   +FG+P LVRFSW T  +  + 
Sbjct: 177 LGSGYPSDPKTKKWLKKNVDPVFGYPQLVRFSWSTAKTILEK 218

Ribonuclease H (RNase H) is classified into two families, type I (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type II (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII). RNase H endonucleolytically hydrolyzes an RNA strand when it is annealed to a complementary DNA strand in the presence of divalent cations, in DNA replication and repair. The enzyme can be found in bacteria, archaea, and eukaryotes. Most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite a lack of evidence for homology from sequence comparisons, type I and type II RNase H share a common fold and similar steric configurations of the four acidic active-site residues, suggesting identical or very similar catalytic mechanisms. Eukaryotic RNase HII is active during replication and is believed to play a role in removal of Okazaki fragment primers and single ribonucleotides in DNA-DNA duplexes. Eukaryotic RNase HII is functional when it forms a complex with two other accessory proteins. It is speculated that the two accessory subunits are required for correct folding of the catalytic subunit of RNase HII. Mutations in the three subunits of human RNase HII cause neurological disorder. Length = 221
>gnl|CDD|187691 cd06266, RNase_HII, Ribonuclease H (RNase H) type II family (prokaryotic RNase HII and HIII, and eukaryotic RNase H2/HII) Back     alignment and domain information
>gnl|CDD|129812 TIGR00729, TIGR00729, ribonuclease H, mammalian HI/archaeal HII subfamily Back     alignment and domain information
>gnl|CDD|216451 pfam01351, RNase_HII, Ribonuclease HII Back     alignment and domain information
>gnl|CDD|187693 cd07180, RNase_HII_Archaea_like, Archaeal ribonuclease HII Back     alignment and domain information
>gnl|CDD|223242 COG0164, RnhB, Ribonuclease HII [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|234574 PRK00015, rnhB, ribonuclease HII; Validated Back     alignment and domain information
>gnl|CDD|237752 PRK14551, rnhB, ribonuclease HII; Provisional Back     alignment and domain information
>gnl|CDD|187695 cd07182, RNase_HII_bacteria_HII_like, bacterial Ribonuclease HII-like Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 237
KOG2299301 consensus Ribonuclease HI [Replication, recombinat 100.0
cd07181216 RNaseH_typeII_eukaryota_like Eukaryotic Ribonuclea 100.0
PRK14551212 rnhB ribonuclease HII; Provisional 100.0
cd07180204 RNaseH_typeII_Archaea_like Archaeal ribonuclease H 100.0
TIGR00729206 ribonuclease H, mammalian HI/archaeal HII subfamil 100.0
COG0164199 RnhB Ribonuclease HII [DNA replication, recombinat 100.0
PRK00015197 rnhB ribonuclease HII; Validated 100.0
cd06266193 RNaseH_typeII Ribonuclease H type II. Ribonuclease 100.0
cd07182179 RNaseH_typeII_bacteria_HII_like bacterial Ribonucl 100.0
PRK13926207 ribonuclease HII; Provisional 100.0
cd06590208 RNaseH_typeII_bacteria_HIII_like bacterial Ribonuc 100.0
PRK14550204 rnhB ribonuclease HII; Provisional 99.98
PRK13925198 rnhB ribonuclease HII; Provisional 99.97
PF01351198 RNase_HII: Ribonuclease HII; InterPro: IPR024567 R 99.97
PRK00996304 ribonuclease HIII; Provisional 99.94
TIGR00716284 rnhC ribonuclease HIII. Two types of ribonuclease 99.82
COG1039297 RnhC Ribonuclease HIII [DNA replication, recombina 99.57
>KOG2299 consensus Ribonuclease HI [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=4.4e-62  Score=429.95  Aligned_cols=218  Identities=50%  Similarity=0.826  Sum_probs=189.7

Q ss_pred             cchhHHHhcC-----CceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChhHHHHH
Q 026552            4 EAALPKWASN-----PFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAK   78 (237)
Q Consensus         4 ~~~~~~i~~~-----a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g~~~~y~~~   78 (237)
                      |.|+..|.++     .+||++.+|||++|++.||+++++|||+++|++++.||+.++++|+++++|||||+|+|++||++
T Consensus        77 e~lf~~i~~d~~~~~~vgwA~~~isP~~IS~~Ml~r~kynLNevshdsam~LI~~v~~~gvnvteiyVDTVGpp~~Yq~k  156 (301)
T KOG2299|consen   77 EELFNKIKEDEELTSNVGWATDCISPREISASMLRRNKYNLNEVSHDSAMGLIDEVLDQGVNVTEIYVDTVGPPAKYQEK  156 (301)
T ss_pred             HHHHHHHhhhhhhhhceeeEeeecCHHHHHHHHHHHhcCCchhhhhHHHHHHHHHHHHhCCceEEEEEecCCChHHHHHH
Confidence            5577777655     39999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhccCCCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCc
Q 026552           79 LSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPS  158 (237)
Q Consensus        79 L~~~~p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~  158 (237)
                      |+++||+++++|.+||||+||+||||||||||+||+.+++|+|.|.+.....+|||||||||+|++||+.|++++||||+
T Consensus       157 Lek~FP~~k~tV~kKADSlfpiVS~ASI~AKVtRD~alk~w~~~E~~~~~d~~~GSGYP~DP~T~~wLk~~v~~VFGfp~  236 (301)
T KOG2299|consen  157 LEKRFPGIKFTVTKKADSLFPIVSAASIVAKVTRDRALKEWQFEEKLSDPDEDLGSGYPSDPETKAWLKENVDSVFGFPS  236 (301)
T ss_pred             HHhhCCCeEEEEeecccccccchhhhhhhhhhhhccccceeeeeeecccCCccccCCCCCChhHHHHHHhcccccccCcc
Confidence            99999999999999999999999999999999999999999999988888889999999999999999999999999999


Q ss_pred             cccccchhhHhhc-cccceeeeccCcccccccccccccccccccccccCcccCchhhhhccCccccchhhhccccccc
Q 026552          159 LVRFSWGTCTSHF-KDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLT  235 (237)
Q Consensus       159 ~~R~Sw~t~~~~l-~~~~~v~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~r~l~~~~  235 (237)
                      +|||||+|++.+| +++.++.|+++..+.+..   ..   .++++|..+..  .+..     ..|..+| +|+|+++.
T Consensus       237 lVRfSW~Ta~t~L~~~~~~~~~e~~~~e~~~~---~~---~~~T~~~~~~~--~s~~-----~~r~~~~-~r~l~~~~  300 (301)
T KOG2299|consen  237 LVRFSWKTAKTLLEDRSEPLKWEESGFELDKT---PL---LKFTKKFKPNP--ASRS-----VPRSERF-ERHLENWY  300 (301)
T ss_pred             ceeeeHHHHHHHHhcccccceeecccccccch---HH---HHHHHHhcCCC--cccc-----cchhHHH-HHhhhhhc
Confidence            9999999999999 589999999886543211   11   26777522221  1111     2344466 99999875

>cd07181 RNaseH_typeII_eukaryota_like Eukaryotic Ribonuclease HII; putative role in Okazaki fragment removal during replication Back     alignment and domain information
>PRK14551 rnhB ribonuclease HII; Provisional Back     alignment and domain information
>cd07180 RNaseH_typeII_Archaea_like Archaeal ribonuclease HII Back     alignment and domain information
>TIGR00729 ribonuclease H, mammalian HI/archaeal HII subfamily Back     alignment and domain information
>COG0164 RnhB Ribonuclease HII [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK00015 rnhB ribonuclease HII; Validated Back     alignment and domain information
>cd06266 RNaseH_typeII Ribonuclease H type II Back     alignment and domain information
>cd07182 RNaseH_typeII_bacteria_HII_like bacterial Ribonuclease HII-like Back     alignment and domain information
>PRK13926 ribonuclease HII; Provisional Back     alignment and domain information
>cd06590 RNaseH_typeII_bacteria_HIII_like bacterial Ribonuclease HIII-like Back     alignment and domain information
>PRK14550 rnhB ribonuclease HII; Provisional Back     alignment and domain information
>PRK13925 rnhB ribonuclease HII; Provisional Back     alignment and domain information
>PF01351 RNase_HII: Ribonuclease HII; InterPro: IPR024567 Ribonuclease HII and HIII are endonucleases that specifically degrade the RNA of RNA-DNA hybrids Back     alignment and domain information
>PRK00996 ribonuclease HIII; Provisional Back     alignment and domain information
>TIGR00716 rnhC ribonuclease HIII Back     alignment and domain information
>COG1039 RnhC Ribonuclease HIII [DNA replication, recombination, and repair] Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query237
3p5j_A301 The Structure Of The Human Rnase H2 Complex Defines 4e-48
3kio_A301 Mouse Rnase H2 Complex Length = 301 2e-47
3puf_A302 Crystal Structure Of Human Rnase H2 Complex Length 5e-47
3p56_A299 The Structure Of The Human Rnase H2 Complex Defines 3e-46
1eke_A230 Crystal Structure Of Class Ii Ribonuclease H (Rnase 1e-14
2dff_A213 Crystal Structure Of Tk-Rnase Hii(1-204)-C Length = 5e-14
1uax_A220 Crystal Structure Of The Ribonuclease H2 From Pyroc 1e-13
1io2_A213 Crystal Structure Of Type 2 Ribonuclease H From Hyp 2e-13
2dfh_A221 Crystal Structure Of Tk-Rnase Hii(1-212)-C Length = 2e-13
2dfe_A209 Crystal Structure Of Tk-Rnase Hii(1-200)-C Length = 2e-13
1x1p_A212 Crystal Structure Of Tk-Rnase Hii(1-197)-A(28-42) L 2e-12
3p83_D217 Structure Of The Pcna:rnase Hii Complex From Archae 3e-09
1i39_A225 Rnase Hii From Archaeoglobus Fulgidus Length = 225 3e-09
>pdb|3P5J|A Chain A, The Structure Of The Human Rnase H2 Complex Defines Key Interaction Interfaces Relevant To Enzyme Function And Human Disease Length = 301 Back     alignment and structure 
Iteration: 1

 Score =  187 bits (475), Expect = 4e-48,   Method: Compositional matrix adjust.
 Identities = 89/181 (49%), Positives = 120/181 (66%), Gaps = 3/181 (1%)
Query: 16  GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKY 75
           GWA+D++ P  +S  ML + K NLN +SHD+A GLI   L+  + +T+V++DTVG  E Y
Sbjct: 91  GWALDVLSPNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGMPETY 150
Query: 76  QAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSG 135
           QA+L Q FP I+  V  KADSL+PVVS ASI AKV RD+ ++ W F E  +++  ++GSG
Sbjct: 151 QARLQQHFPGIEVTVKAKADSLFPVVSAASIFAKVARDKAVKNWQFVENLQDLDSDYGSG 210
Query: 136 YPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHF-KDIVEVLWESDEMDEDVSSRRSG 194
           YP DP+TKAWL  H   +FGFP  VRFSW T  +   K+  +V+WE  E +ED    R G
Sbjct: 211 YPNDPKTKAWLRKHVDPVFGFPQFVRFSWSTAQAILEKEAEDVIWEDSEAEED--PERPG 268
Query: 195 K 195
           K
Sbjct: 269 K 269
>pdb|3KIO|A Chain A, Mouse Rnase H2 Complex Length = 301 Back     alignment and structure
>pdb|3PUF|A Chain A, Crystal Structure Of Human Rnase H2 Complex Length = 302 Back     alignment and structure
>pdb|3P56|A Chain A, The Structure Of The Human Rnase H2 Complex Defines Key Interaction Interfaces Relevant To Enzyme Function And Human Disease Length = 299 Back     alignment and structure
>pdb|1EKE|A Chain A, Crystal Structure Of Class Ii Ribonuclease H (Rnase Hii) With Mes Ligand Length = 230 Back     alignment and structure
>pdb|2DFF|A Chain A, Crystal Structure Of Tk-Rnase Hii(1-204)-C Length = 213 Back     alignment and structure
>pdb|1UAX|A Chain A, Crystal Structure Of The Ribonuclease H2 From Pyrococcus Horikoshii Ot3 Length = 220 Back     alignment and structure
>pdb|1IO2|A Chain A, Crystal Structure Of Type 2 Ribonuclease H From Hyperthermophilic Archaeon, Thermococcus Kodakaraensis Kod1 Length = 213 Back     alignment and structure
>pdb|2DFH|A Chain A, Crystal Structure Of Tk-Rnase Hii(1-212)-C Length = 221 Back     alignment and structure
>pdb|2DFE|A Chain A, Crystal Structure Of Tk-Rnase Hii(1-200)-C Length = 209 Back     alignment and structure
>pdb|1X1P|A Chain A, Crystal Structure Of Tk-Rnase Hii(1-197)-A(28-42) Length = 212 Back     alignment and structure
>pdb|3P83|D Chain D, Structure Of The Pcna:rnase Hii Complex From Archaeoglobus Fulgidus. Length = 217 Back     alignment and structure
>pdb|1I39|A Chain A, Rnase Hii From Archaeoglobus Fulgidus Length = 225 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query237
3kio_A301 Ribonuclease H2 subunit A; aicardi-goutieres syndr 3e-71
1eke_A230 Ribonuclease HII; endonuclease, structural genomic 5e-47
1i39_A225 Ribonuclease HII, RNAse HII; mixed beta sheet, hel 4e-42
1io2_A213 Ribonuclease HII; endonuclease, hydrolase; 2.00A { 9e-42
1uax_A220 Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid 1e-41
2d0b_A310 RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hyd 8e-26
2etj_A250 Ribonuclease HII, RNAse HII; TM0915, ribonuclease 1e-04
>3kio_A Ribonuclease H2 subunit A; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_A 3puf_A 3p56_A Length = 301 Back     alignment and structure
 Score =  218 bits (558), Expect = 3e-71
 Identities = 91/227 (40%), Positives = 132/227 (58%), Gaps = 13/227 (5%)

Query: 12  SNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGD 71
            +  GWA+D++ P  +S  ML + K NLN +SHD+A GLI   L+  + +T+V++DTVG 
Sbjct: 87  GDFVGWALDVLSPNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGM 146

Query: 72  AEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRN 131
            E YQA+L Q FP I+  V  KADSL+PVVS ASI AKV RD+ ++ W F E  +++  +
Sbjct: 147 PETYQARLQQHFPGIEVTVKAKADSLFPVVSAASIFAKVARDKAVKNWQFVENLQDLDSD 206

Query: 132 FGSGYPGDPETKAWLTDHKHIIFGFPSLVRFSWGTCTSHF-KDIVEVLWESDEMDEDVSS 190
           +GSGYP DP+TKAWL  H   +FGFP  VRFSW T  +   K+  +V+WE  E +ED   
Sbjct: 207 YGSGYPNDPKTKAWLRKHVDPVFGFPQFVRFSWSTAQAILEKEAEDVIWEDSEAEED--- 263

Query: 191 RRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF 237
               +R  K++       +    +         ++ + R LE  +  
Sbjct: 264 ---PERPGKITSYFSQGPQTCRPQA------PHRYFQERGLEAASSL 301
>1eke_A Ribonuclease HII; endonuclease, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: MES; 2.00A {Methanocaldococcus jannaschii} SCOP: c.55.3.1 Length = 230 Back     alignment and structure
>1i39_A Ribonuclease HII, RNAse HII; mixed beta sheet, helix-loop-helix, hydrolase; 1.95A {Archaeoglobus fulgidus} SCOP: c.55.3.1 PDB: 1i3a_A 3p83_D* Length = 225 Back     alignment and structure
>1io2_A Ribonuclease HII; endonuclease, hydrolase; 2.00A {Thermococcus kodakarensis} SCOP: c.55.3.1 PDB: 2dfh_A 2dff_A 2dfe_A 1x1p_A Length = 213 Back     alignment and structure
>1uax_A Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid ribonucleotidohydrolase, hydrolase; 2.00A {Pyrococcus horikoshii} SCOP: c.55.3.1 Length = 220 Back     alignment and structure
>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A 3asm_A Length = 310 Back     alignment and structure
>2etj_A Ribonuclease HII, RNAse HII; TM0915, ribonuclease HII (EC 3.1.26.4) (RNAse HII), structur genomics, joint center for structural genomics; 1.74A {Thermotoga maritima} SCOP: c.55.3.1 PDB: 3o3g_A* 3o3f_A* 3o3h_A* Length = 250 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query237
3kio_A301 Ribonuclease H2 subunit A; aicardi-goutieres syndr 100.0
1eke_A230 Ribonuclease HII; endonuclease, structural genomic 100.0
1io2_A213 Ribonuclease HII; endonuclease, hydrolase; 2.00A { 100.0
1i39_A225 Ribonuclease HII, RNAse HII; mixed beta sheet, hel 100.0
1uax_A220 Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid 100.0
2etj_A250 Ribonuclease HII, RNAse HII; TM0915, ribonuclease 100.0
2d0b_A310 RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hyd 99.95
3vn5_A257 RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {A 99.93
>3kio_A Ribonuclease H2 subunit A; aicardi-goutieres syndrome, RNAse H2, protein complex, autoimmune disease, endonuclease, hydrolase, metal-binding; 2.90A {Mus musculus} PDB: 3p5j_A 3puf_A 3p56_A Back     alignment and structure
Probab=100.00  E-value=1.1e-60  Score=433.65  Aligned_cols=222  Identities=42%  Similarity=0.791  Sum_probs=170.5

Q ss_pred             cchhHHHhc--CCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCCChhHHHHHhhc
Q 026552            4 EAALPKWAS--NPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQ   81 (237)
Q Consensus         4 ~~~~~~i~~--~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g~~~~y~~~L~~   81 (237)
                      |+|++.|.+  .+++|+|.+++|++||+.|+++.++|||.+++.++..+|+.++..+++|+.||||+++.+++|+++|+.
T Consensus        77 e~L~~~I~~~~~a~~~~v~~~s~~eId~~m~~~~~~nlN~l~~~~~~~~i~~~~~l~~~p~~vlVD~~~~p~~y~~~L~~  156 (301)
T 3kio_A           77 ERLFAKMEEDGDFVGWALDVLSPNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGMPETYQARLQQ  156 (301)
T ss_dssp             HHHHHHHHHTTTTCEEEEEEECHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHHHHTTCCEEEEEEECSSCCHHHHHHHHH
T ss_pred             HHHHHHHHhhcccceEEEEecCHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHhcCCCCCEEEECCCCChHHHHHHHhh
Confidence            678999988  689999999999999999998889999999999999999988877899999999999999999999998


Q ss_pred             cCCCceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCcccc
Q 026552           82 RFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVR  161 (237)
Q Consensus        82 ~~p~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~~~R  161 (237)
                      .+|++++++++|||++||+||||||||||+||++|++|.|.|.+.+.+++|||||||||+|++||+++++++||+|++||
T Consensus       157 ~~p~~~~~~~~KgDs~~~sVAAASIlAKV~RD~~M~~~~f~e~l~~~~~~~GsGYPSDp~T~~~L~~~~~~~~G~p~~vR  236 (301)
T 3kio_A          157 HFPGIEVTVKAKADSLFPVVSAASIFAKVARDKAVKNWQFVENLQDLDSDYGSGYPNDPKTKAWLRKHVDPVFGFPQFVR  236 (301)
T ss_dssp             SSTTSEEEEETTGGGTSHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCCCCCCSSSTTSHHHHHHHHTTCBTTTBSCTTBC
T ss_pred             cCCCCceEEEeccchhhhHHHHHHHHHHHHHHHHHHHhhhhhhHHhhCCCCCCcCCCCHHHHHHHHHcccccCCCCcccc
Confidence            89999999999999999999999999999999999999998888889999999999999999999999999999999999


Q ss_pred             ccchhhHhhc-cccceeeeccCcccccccccccccccccccccccCcccCchhhhhccCccccchhhhcccccccCC
Q 026552          162 FSWGTCTSHF-KDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF  237 (237)
Q Consensus       162 ~Sw~t~~~~l-~~~~~v~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~r~l~~~~~~  237 (237)
                      +||+|+++++ +++++|+|++|+++++.+   + .+  +|++| |.....     ...+++||+||++|+|++|+++
T Consensus       237 ~SW~tvk~~l~~~~~~v~w~~~~~~~~~~---~-~~--~~~~~-f~~~~~-----~~~~~~~~~~f~~~~l~~~~~~  301 (301)
T 3kio_A          237 FSWSTAQAILEKEAEDVIWEDSEAEEDPE---R-PG--KITSY-FSQGPQ-----TCRPQAPHRYFQERGLEAASSL  301 (301)
T ss_dssp             TTSHHHHHHHHHHSCCEECSCC-------------------------------------------------------
T ss_pred             CCcHHHHHHHhcCCceeeecccccccccc---c-ch--hHHHH-hcCCCc-----cccccccchhhHhhcccccccC
Confidence            9999999999 589999999887543221   1 12  88886 221111     1114789999999999999875
>1eke_A Ribonuclease HII; endonuclease, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: MES; 2.00A {Methanocaldococcus jannaschii} SCOP: c.55.3.1 Back     alignment and structure
>1io2_A Ribonuclease HII; endonuclease, hydrolase; 2.00A {Thermococcus kodakarensis} SCOP: c.55.3.1 PDB: 2dfh_A 2dff_A 2dfe_A 1x1p_A Back     alignment and structure
>1i39_A Ribonuclease HII, RNAse HII; mixed beta sheet, helix-loop-helix, hydrolase; 1.95A {Archaeoglobus fulgidus} SCOP: c.55.3.1 PDB: 1i3a_A 3p83_D* Back     alignment and structure
>1uax_A Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid ribonucleotidohydrolase, hydrolase; 2.00A {Pyrococcus horikoshii} SCOP: c.55.3.1 Back     alignment and structure
>2etj_A Ribonuclease HII, RNAse HII; TM0915, ribonuclease HII (EC 3.1.26.4) (RNAse HII), structur genomics, joint center for structural genomics; 1.74A {Thermotoga maritima} SCOP: c.55.3.1 PDB: 3o3g_A* 3o3f_A* 3o3h_A* Back     alignment and structure
>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A {Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A 3asm_A Back     alignment and structure
>3vn5_A RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {Aquifex aeolicus} Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 237
d1io2a_213 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 4e-15
d1ekea_225 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 2e-13
d1uaxa_211 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 1e-12
d1i39a_200 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 1e-10
d2etja1221 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase 1e-09
>d1io2a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Thermococcus kodakaraensis [TaxId: 311400]} Length = 213 Back     information, alignment and structure

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: Class II ribonuclease H (RNase HII)
species: Archaeon Thermococcus kodakaraensis [TaxId: 311400]

 Score = 69.4 bits (169), Expect = 4e-15
 Identities = 43/128 (33%), Positives = 65/128 (50%), Gaps = 8/128 (6%)

Query: 42  ISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQRFPSIKFVVSK-KADSLYP 99
           ++          + ++ +    +Y D    D E++  +L +R      VV+K KAD ++P
Sbjct: 80  LNEFEVENFAKALNSLKVKPDVIYADAADVDEERFARELGERLNFEAEVVAKHKADDIFP 139

Query: 100 VVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSL 159
           VVS ASI+AKVTRDR +     E      +   GSGYP DP T+A+L ++      FP +
Sbjct: 140 VVSAASILAKVTRDRAVEKLKEE------YGEIGSGYPSDPRTRAFLENYYREHGEFPPI 193

Query: 160 VRFSWGTC 167
           VR  W T 
Sbjct: 194 VRKGWKTL 201
>d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 225 Back     information, alignment and structure
>d1uaxa_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Length = 211 Back     information, alignment and structure
>d1i39a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 200 Back     information, alignment and structure
>d2etja1 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase HII) {Thermotoga maritima [TaxId: 2336]} Length = 221 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

Original result of HHsearch against SCOP70(version1.75) database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query237
d1io2a_213 Class II ribonuclease H (RNase HII) {Archaeon Ther 100.0
d1uaxa_211 Class II ribonuclease H (RNase HII) {Archaeon Pyro 100.0
d1i39a_200 Class II ribonuclease H (RNase HII) {Archaeon Arch 100.0
d1ekea_225 Class II ribonuclease H (RNase HII) {Archaeon Meth 100.0
d2etja1221 Class II ribonuclease H (RNase HII) {Thermotoga ma 99.97
>d1io2a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Thermococcus kodakaraensis [TaxId: 311400]} Back     information, alignment and structure
class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: Class II ribonuclease H (RNase HII)
species: Archaeon Thermococcus kodakaraensis [TaxId: 311400]

Probab=100.00  E-value=1.5e-36  Score=259.79  Aligned_cols=155  Identities=29%  Similarity=0.456  Sum_probs=137.0

Q ss_pred             cchhHHHhcCCceEEEEEEChhhHhhhcccCChhhHHHHHHHHHHHHHHHHHhcCCCccEEEEcCCC-ChhHHHHHhhcc
Q 026552            4 EAALPKWASNPFGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQR   82 (237)
Q Consensus         4 ~~~~~~i~~~a~~~~v~~isp~eId~~ml~~~~~nLN~ls~~a~~~~I~~ll~~~~~~~~V~VD~~g-~~~~y~~~L~~~   82 (237)
                      +.|++.|.+.+..|.+..++|++++..+     .|+|.++..+|.++|..+   ...++.|++|++. ++..|...+.+.
T Consensus        50 ~~l~~~I~~~~~~~~i~~~~~~~~~~~~-----~~~~~~~~~~~~~ai~~l---~~~~~~v~~D~~~~~~~~~~~~~~~~  121 (213)
T d1io2a_          50 EKLFNEILGVLDDYVILELPPDVIGSRE-----GTLNEFEVENFAKALNSL---KVKPDVIYADAADVDEERFARELGER  121 (213)
T ss_dssp             HHHHHHHHTTCSEEEEEEECHHHHHTCS-----SCHHHHHHHHHHHHHHHC---SSCCSEEEEECCSSCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhhhhcccHHHHhhhH-----HHHHHHHHHHHHHHHHhc---CCCCCEEEECcccccchhhhhhhccc
Confidence            6788999999999999999999988743     599999999999999886   3567899999987 777777777655


Q ss_pred             CC-CceeEEEecCCccchhHHHHHHHHHHHHHHHHhhhchhhHHhhhcCCCCccCCCCHHHHHHHHhccccccCCCcccc
Q 026552           83 FP-SIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDPETKAWLTDHKHIIFGFPSLVR  161 (237)
Q Consensus        83 ~p-~i~v~v~~KADs~~p~VsAASIvAKV~RD~~m~~~~~~e~~~~~~~~yGsGYPsDp~Tk~~L~~~~~~~fG~p~~~R  161 (237)
                      .+ ...+++.+|||++||+||||||||||+||++|+.      +++.||+||+|||+|+.|++||++++++++|+|++||
T Consensus       122 ~~~~~~~~~~~KgD~~~~~VAAASIlAKv~RD~~m~~------l~~~y~~~g~GY~s~~h~~a~l~~~~~~~~~~~~~hR  195 (213)
T d1io2a_         122 LNFEAEVVAKHKADDIFPVVSAASILAKVTRDRAVEK------LKEEYGEIGSGYPSDPRTRAFLENYYREHGEFPPIVR  195 (213)
T ss_dssp             CSSCCEEEEETTHHHHCHHHHHHHHHHHHHHHHHHHH------HHHHHSCCCSSCTTSHHHHHHHHHHHHHHSSCCTTBC
T ss_pred             ccccceeEEeecccccchhhhHHHHHHHHHHHHHHHH------HHHhCCcCCCCCCCHHHHHHHHHhcccccCCCCcccc
Confidence            44 3567788899999999999999999999999999      5677899999999999999999999888889999999


Q ss_pred             ccchhhHhhcc
Q 026552          162 FSWGTCTSHFK  172 (237)
Q Consensus       162 ~Sw~t~~~~l~  172 (237)
                      +||+|++++++
T Consensus       196 ~sf~~~k~~l~  206 (213)
T d1io2a_         196 KGWKTLKKIAE  206 (213)
T ss_dssp             TTCHHHHHHHH
T ss_pred             CCcHHHHHHHH
Confidence            99999999984
>d1uaxa_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Pyrococcus horikoshii [TaxId: 53953]} Back     information, alignment and structure
>d1i39a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Back     information, alignment and structure
>d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Back     information, alignment and structure
>d2etja1 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase HII) {Thermotoga maritima [TaxId: 2336]} Back     information, alignment and structure