Citrus Sinensis ID: 023038

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-------240-------250-------260-------270-------280-------29
MGSEAALPKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF
ccccccccccccccEEEEEccccccccccHHEEEEEEEccccccccccccccccccccHHHHHHHHHHHHHcccEEEEEEEEcHHHHHHHHHccccccHHHHHHHHHHHHHHHHHcccccccEEEEcccccHHHHHHHHHcccccccEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccHHHHHHccccccccccHHHHHHHHHHHHHccccccccHHHccccccccccccccccccccccccHHHHccccccccHHHHccccccccc
ccccccccccccccEEEEEEEEcccccEccEEEEEEEEEHHHHHHHHHccHHHcccccHHHHHHHHHHHcccccccEEEEEEcHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccEEEEEEEccccHHHHHHHHHHHccccEEEEEccHHHHcHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccEEEEcHHHHHHHHHccccEEcccccccccccccccccccEcccccccccccccccccccccccccHHHHHccccccccc
mgseaalpkwasnpcimgideagrgpvlgpmvygclycpcsyqqtlatlnfadsktlKEEKREELFEDlkvndsvgwavdiidpRELSAKMLNKNKinlneishdsAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLsqrfpsikfvvskkadslypvvsgASIVAKVtrdrtlrgwIFEETAENmhrnfgsgypgdhkhiifgfpslvrfswgtctSHFKDIVEVLWesdemdedvssrrsgkrqlklsdigfssskrrseeieSSGKGRCKFLEARKLEQLTHF
mgseaalpkwasnpCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELfedlkvndsvgwavDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAklsqrfpsIKFVvskkadslypvvsgasivakvtrdrTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMdedvssrrsgkrqlklsdigfssskrrseeiessgkgrckflearkleqlthf
MGSEAALPKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFssskrrseeiessgkgrCKFLEARKLEQLTHF
*********WASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKT*******ELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWE*********************************************************
***EAALPKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWE*******************************************KFLEARKLEQL**F
********KWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESD***************LKLSDIGF***************GRCKFLEARKLEQLTHF
**********ASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWES********************************************************
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ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
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MGSEAALPKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGDHKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF
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 ?
Query288 2.2.26 [Sep-21-2011]
Q9SEZ6296 Ribonuclease H2 subunit A yes no 0.996 0.969 0.720 1e-126
Q9VPP5347 Ribonuclease H2 subunit A yes no 0.920 0.763 0.454 5e-63
Q9CWY8301 Ribonuclease H2 subunit A yes no 0.802 0.767 0.491 8e-63
Q5U209301 Ribonuclease H2 subunit A yes no 0.781 0.747 0.495 1e-62
O75792299 Ribonuclease H2 subunit A yes no 0.756 0.729 0.495 1e-61
Q2TBT5299 Ribonuclease H2 subunit A yes no 0.805 0.775 0.477 4e-60
Q54D13289 Ribonuclease H2 subunit A yes no 0.826 0.823 0.443 3e-54
Q9U6P6297 Ribonuclease H2 subunit A yes no 0.798 0.774 0.448 5e-50
Q10236326 Ribonuclease H2 subunit A yes no 0.746 0.659 0.449 7e-44
P53942307 Ribonuclease H2 subunit A yes no 0.895 0.840 0.383 1e-38
>sp|Q9SEZ6|RNH2A_ARATH Ribonuclease H2 subunit A OS=Arabidopsis thaliana GN=At2g25100 PE=2 SV=2 Back     alignment and function desciption
 Score =  451 bits (1159), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 214/297 (72%), Positives = 252/297 (84%), Gaps = 10/297 (3%)

Query: 1   MGSEAALPKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEE 60
           M SE   P+WAS PC+MGIDEAGRGPVLGPMVYGC+YCP SYQ +LA+L+FADSKTLKEE
Sbjct: 1   MESECLTPEWASQPCLMGIDEAGRGPVLGPMVYGCMYCPISYQSSLASLHFADSKTLKEE 60

Query: 61  KREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGIL 120
           KREEL+E LK++ S+GWAVD+IDPRELSAKML KNK NLNEISH+SA+GLI RVL++G+L
Sbjct: 61  KREELYESLKLDKSLGWAVDVIDPRELSAKMLAKNKTNLNEISHNSAMGLIKRVLDMGVL 120

Query: 121 LTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWI 180
           LTE YLDTVGD +KY+ KLS+RFPSIKFVVSKKADSL+P+VSGASIVAKVTRDR L+ W+
Sbjct: 121 LTEAYLDTVGDPDKYRIKLSERFPSIKFVVSKKADSLFPIVSGASIVAKVTRDRALKEWL 180

Query: 181 FEETAENMHRNFGSGYPGD---------HKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWE 231
            EET E+++RNFGSGYPGD         HKH +FGFPSLVRFSWGTCT+H K  VEV WE
Sbjct: 181 VEETGEDINRNFGSGYPGDPETKAWLVQHKHSVFGFPSLVRFSWGTCTTHLKGEVEVAWE 240

Query: 232 SDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF 288
           +DE +E+  +  S KRQ KLS  GF + ++RSEEIESSGKGRCKFL+ARK++QLT F
Sbjct: 241 ADE-NEESGNGSSSKRQAKLSSFGFKTCEKRSEEIESSGKGRCKFLQARKIQQLTQF 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 ?
Query288
225464178297 PREDICTED: ribonuclease H2 subunit A iso 1.0 0.969 0.794 1e-139
255549406299 ribonuclease hi large subunit, putative 1.0 0.963 0.775 1e-134
449468774297 PREDICTED: ribonuclease H2 subunit A-lik 1.0 0.969 0.757 1e-134
356536350297 PREDICTED: ribonuclease H2 subunit A-lik 0.993 0.962 0.769 1e-130
224097610297 predicted protein [Populus trichocarpa] 1.0 0.969 0.764 1e-129
18400719296 Ribonuclease H2 subunit A [Arabidopsis t 0.996 0.969 0.720 1e-124
297825539296 predicted protein [Arabidopsis lyrata su 0.996 0.969 0.717 1e-124
225464176278 PREDICTED: ribonuclease H2 subunit A iso 0.934 0.967 0.730 1e-123
125533439298 hypothetical protein OsI_35154 [Oryza sa 0.993 0.959 0.692 1e-119
115484243298 Os11g0153900 [Oryza sativa Japonica Grou 0.986 0.953 0.697 1e-119
>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 =  498 bits (1283), Expect = e-139,   Method: Compositional matrix adjust.
 Identities = 236/297 (79%), Positives = 265/297 (89%), Gaps = 9/297 (3%)

Query: 1   MGSEAALPKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEE 60
           MGSE ALPKWAS PC+MGIDEAGRGPVLGPMVYGCLYC  SY  TL+TLNFADSKTLKEE
Sbjct: 1   MGSETALPKWASEPCMMGIDEAGRGPVLGPMVYGCLYCARSYHNTLSTLNFADSKTLKEE 60

Query: 61  KREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGIL 120
           KREELFE+LK ++S+GWAVD+IDP ELSAKML KNKINLNEISHDSAIGLITRVLN+G+L
Sbjct: 61  KREELFENLKADESIGWAVDVIDPWELSAKMLKKNKINLNEISHDSAIGLITRVLNMGVL 120

Query: 121 LTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWI 180
           LTEVY+DTVGDAEKY+ KLS+RFP++KFVV+KKADSLYPVVSGASIVAKVTRDR LR W+
Sbjct: 121 LTEVYVDTVGDAEKYRIKLSERFPAVKFVVAKKADSLYPVVSGASIVAKVTRDRALRDWV 180

Query: 181 FEETAENMHRNFGSGYPGD---------HKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWE 231
             ETAENMHRNFGSGYPGD         HKH +FGFP+LVRFSWGTCT++ KDIVEVLWE
Sbjct: 181 LVETAENMHRNFGSGYPGDPVTKSWLQHHKHSVFGFPTLVRFSWGTCTAYSKDIVEVLWE 240

Query: 232 SDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF 288
           +D+++ED S+ R+GKRQLKLS +GF  SKR+SEEIESSGKGRCKF +ARKLEQLT F
Sbjct: 241 ADKVEEDGSTNRNGKRQLKLSSVGFIESKRKSEEIESSGKGRCKFFQARKLEQLTQF 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|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|225464176|ref|XP_002269852.1| PREDICTED: ribonuclease H2 subunit A isoform 2 [Vitis vinifera] 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 ?
Query288
TAIR|locus:2040189296 AT2G25100 [Arabidopsis thalian 0.996 0.969 0.680 1.2e-106
MGI|MGI:1916974301 Rnaseh2a "ribonuclease H2, lar 0.802 0.767 0.491 1.5e-58
RGD|1307248301 Rnaseh2a "ribonuclease H2, sub 0.781 0.747 0.495 5.1e-58
UNIPROTKB|Q5U209301 Rnaseh2a "Ribonuclease H2 subu 0.781 0.747 0.495 5.1e-58
FB|FBgn0031252347 CG13690 [Drosophila melanogast 0.920 0.763 0.444 7.5e-57
ZFIN|ZDB-GENE-040426-976307 rnaseh2a "ribonuclease H2, sub 0.795 0.745 0.495 7.5e-57
UNIPROTKB|F1SDX8301 RNASEH2A "Ribonuclease" [Sus s 0.798 0.764 0.477 9.6e-57
UNIPROTKB|O75792299 RNASEH2A "Ribonuclease H2 subu 0.795 0.765 0.487 1.2e-56
UNIPROTKB|Q2TBT5299 RNASEH2A "Ribonuclease H2 subu 0.788 0.759 0.483 3.3e-56
UNIPROTKB|E2RQK5299 RNASEH2A "Ribonuclease" [Canis 0.777 0.749 0.491 5.3e-56
TAIR|locus:2040189 AT2G25100 [Arabidopsis thaliana (taxid:3702)] Back     alignment and assigned GO terms
 Score = 1055 (376.4 bits), Expect = 1.2e-106, P = 1.2e-106
 Identities = 202/297 (68%), Positives = 237/297 (79%)

Query:     1 MGSEAALPKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEE 60
             M SE   P+WAS PC+MGIDEAGRGPVLGPMVYGC+YCP SYQ +LA+L+FADSKTLKEE
Sbjct:     1 MESECLTPEWASQPCLMGIDEAGRGPVLGPMVYGCMYCPISYQSSLASLHFADSKTLKEE 60

Query:    61 KREELFEDLKVNDSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGIL 120
             KREEL+E LK++ S+GWAVD+IDPRELSAKML KNK NLNEISH+SA+GLI RVL++G+L
Sbjct:    61 KREELYESLKLDKSLGWAVDVIDPRELSAKMLAKNKTNLNEISHNSAMGLIKRVLDMGVL 120

Query:   121 LTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWI 180
             LTE YLDTVGD +KY+ KLS+RFPSIKFVVSKKADSL+P+VSGASIVAKVTRDR L+ W+
Sbjct:   121 LTEAYLDTVGDPDKYRIKLSERFPSIKFVVSKKADSLFPIVSGASIVAKVTRDRALKEWL 180

Query:   181 FEETAENMHRNFGSGYPGD---------HKHIIFGFPSLVRFSWGTCTSHFKDIVEVLWE 231
              EET E+++RNFGSGYPGD         HKH +FGFPSLVRFSWGTCT+H K  VEV WE
Sbjct:   181 VEETGEDINRNFGSGYPGDPETKAWLVQHKHSVFGFPSLVRFSWGTCTTHLKGEVEVAWE 240

Query:   232 SDEMDEDVSSRRSGKRQLKLSDIGFXXXXXXXXXXXXXXXXXCKFLEARKLEQLTHF 288
             +DE +E+  +  S KRQ KLS  GF                 CKFL+ARK++QLT F
Sbjct:   241 ADE-NEESGNGSSSKRQAKLSSFGFKTCEKRSEEIESSGKGRCKFLQARKIQQLTQF 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
MGI|MGI:1916974 Rnaseh2a "ribonuclease H2, large subunit" [Mus musculus (taxid:10090)] 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
FB|FBgn0031252 CG13690 [Drosophila melanogaster (taxid:7227)] 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|F1SDX8 RNASEH2A "Ribonuclease" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
UNIPROTKB|O75792 RNASEH2A "Ribonuclease H2 subunit A" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|Q2TBT5 RNASEH2A "Ribonuclease H2 subunit A" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|E2RQK5 RNASEH2A "Ribonuclease" [Canis lupus familiaris (taxid:9615)] 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) ?
P53942RNH2A_YEAST3, ., 1, ., 2, 6, ., 40.38320.89580.8403yesno
Q9SEZ6RNH2A_ARATH3, ., 1, ., 2, 6, ., 40.72050.99650.9695yesno
Q54D13RNH2A_DICDI3, ., 1, ., 2, 6, ., 40.44350.82630.8235yesno

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 Layer3.1.260.983
3rd Layer3.1.26.40.979

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING ?

Original result from the STRING server

Your Input:
fgenesh4_pg.C_LG_VIII000164
hypothetical protein; Endonuclease that specifically degrades the RNA of RNA- DNA hybrids (By similarity) (297 aa)
(Populus trichocarpa)
Predicted Functional Partners:
gw1.XIII.413.1
annotation not avaliable (325 aa)
   •• • 0.795
gw1.IX.5004.1
hypothetical protein (664 aa)
•  •  • 0.719
gw1.V.2541.1
hypothetical protein (1081 aa)
   •  • 0.659
eugene3.00660007
hypothetical protein (2222 aa)
   •• • 0.645
estExt_Genewise1_v1.C_LG_I1046
proliferating cell nuclear antigen (PCNA); This protein is an auxiliary protein of DNA polymera [...] (268 aa)
   •• • 0.578
estExt_Genewise1_v1.C_LG_IX3930
proliferating cell nuclear antigen (PCNA); This protein is an auxiliary protein of DNA polymera [...] (265 aa)
   •• • 0.569
eugene3.00120511
hypothetical protein (944 aa)
   •• • 0.567
gw1.I.2892.1
thymidylate kinase (EC-2.7.4.9) (210 aa)
   •  • 0.525
estExt_fgenesh4_pg.C_LG_III1005
replication factor C subunit (331 aa)
   •  • 0.491
estExt_fgenesh4_pm.C_LG_XVIII0380
hypothetical protein (311 aa)
•  •• • 0.476

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 ?
Query288
cd07181221 cd07181, RNase_HII_eukaryota_like, Mammalian RNase 1e-122
cd06266210 cd06266, RNase_HII, Ribonuclease H (RNase H) type 1e-114
pfam01351199 pfam01351, RNase_HII, Ribonuclease HII 6e-51
TIGR00729206 TIGR00729, TIGR00729, ribonuclease H, mammalian HI 1e-47
cd07180204 cd07180, RNase_HII_Archaea_like, Archaeal ribonucl 1e-43
COG0164199 COG0164, RnhB, Ribonuclease HII [DNA replication, 2e-40
PRK00015197 PRK00015, rnhB, ribonuclease HII; Validated 2e-30
PRK14551212 PRK14551, rnhB, ribonuclease HII; Provisional 8e-23
cd07182179 cd07182, RNase_HII_bacteria_HII_like, bacterial Ri 3e-21
cd06590207 cd06590, RNase_HII_bacteria_HIII_like, bacterial R 1e-14
PRK13926207 PRK13926, PRK13926, ribonuclease HII; Provisional 1e-11
COG1039297 COG1039, RnhC, Ribonuclease HIII [DNA replication, 2e-08
TIGR00716284 TIGR00716, rnhC, ribonuclease HIII 8e-08
PRK13925198 PRK13925, rnhB, ribonuclease HII; Provisional 9e-08
PRK14550204 PRK14550, rnhB, ribonuclease HII; Provisional 2e-06
PRK00996304 PRK00996, PRK00996, ribonuclease HIII; Provisional 1e-05
>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 =  348 bits (895), Expect = e-122
 Identities = 131/218 (60%), Positives = 158/218 (72%), Gaps = 10/218 (4%)

Query: 17  MGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKV-NDSV 75
           +GIDEAGRGPVLGPMVYG  YCP SY++ L  L FADSKTL EEKREELF+ LK  +D++
Sbjct: 1   LGIDEAGRGPVLGPMVYGAAYCPISYKEELKKLGFADSKTLTEEKREELFKKLKEKDDAL 60

Query: 76  GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKY 135
           GWA  I+ P+ +S KML + K NLNEISHD+AIGLI  VL+ G+ +TEVY+DTVG  EKY
Sbjct: 61  GWATRILSPQYISTKMLARTKYNLNEISHDAAIGLIREVLDKGVNVTEVYVDTVGPPEKY 120

Query: 136 QAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSG 195
           QAKL ++FP IKF V KKADSLYP+VS ASIVAKVTRDR L+ W F+ET      + GSG
Sbjct: 121 QAKLQKKFPGIKFTVEKKADSLYPIVSAASIVAKVTRDRALKNWQFDETLIKDSGDLGSG 180

Query: 196 YPGD---------HKHIIFGFPSLVRFSWGTCTSHFKD 224
           YP D         +   +FG+P LVRFSW T  +  + 
Sbjct: 181 YPSDPKTKKWLKKNVDPVFGYPQLVRFSWSTAKTILEK 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|216451 pfam01351, RNase_HII, Ribonuclease 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|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
>gnl|CDD|187692 cd06590, RNase_HII_bacteria_HIII_like, bacterial Ribonuclease HIII-like Back     alignment and domain information
>gnl|CDD|184400 PRK13926, PRK13926, ribonuclease HII; Provisional Back     alignment and domain information
>gnl|CDD|223969 COG1039, RnhC, Ribonuclease HIII [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|129799 TIGR00716, rnhC, ribonuclease HIII Back     alignment and domain information
>gnl|CDD|184399 PRK13925, rnhB, ribonuclease HII; Provisional Back     alignment and domain information
>gnl|CDD|173015 PRK14550, rnhB, ribonuclease HII; Provisional Back     alignment and domain information
>gnl|CDD|234886 PRK00996, PRK00996, ribonuclease HIII; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 288
KOG2299301 consensus Ribonuclease HI [Replication, recombinat 100.0
cd07181216 RNaseH_typeII_eukaryota_like Eukaryotic Ribonuclea 100.0
cd07180204 RNaseH_typeII_Archaea_like Archaeal ribonuclease H 100.0
COG0164199 RnhB Ribonuclease HII [DNA replication, recombinat 100.0
PRK14551212 rnhB ribonuclease HII; Provisional 100.0
PRK14550204 rnhB ribonuclease HII; Provisional 100.0
TIGR00729206 ribonuclease H, mammalian HI/archaeal HII subfamil 100.0
cd06266193 RNaseH_typeII Ribonuclease H type II. Ribonuclease 100.0
cd07182179 RNaseH_typeII_bacteria_HII_like bacterial Ribonucl 100.0
PRK13925198 rnhB ribonuclease HII; Provisional 100.0
PRK00015197 rnhB ribonuclease HII; Validated 100.0
PRK13926207 ribonuclease HII; Provisional 100.0
cd06590208 RNaseH_typeII_bacteria_HIII_like bacterial Ribonuc 100.0
PF01351198 RNase_HII: Ribonuclease HII; InterPro: IPR024567 R 100.0
PRK00996304 ribonuclease HIII; Provisional 100.0
TIGR00716284 rnhC ribonuclease HIII. Two types of ribonuclease 100.0
COG1039297 RnhC Ribonuclease HIII [DNA replication, recombina 100.0
>KOG2299 consensus Ribonuclease HI [Replication, recombination and repair] Back     alignment and domain information 
Probab=100.00  E-value=1.3e-80  Score=559.50  Aligned_cols=268  Identities=53%  Similarity=0.900  Sum_probs=239.2

Q ss_pred             CCcCCcCCC-CceecccccCcCCcccceeeEEEEecccccccccccCcCCCCCCCHHHHHHHHHHhhhc----CcccEEE
Q 023038            5 AALPKWASN-PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVN----DSVGWAV   79 (288)
Q Consensus         5 ~~~p~~~~~-~~viGiDEAGRGpv~GPmVvaav~~~~~~~~~L~~~gv~DSK~Ls~~kRe~L~~~I~~~----~~~~~~v   79 (288)
                      |++|+.|.+ ||++||||||||||+||||||++|||.+....|..+|++|||+|++.+|++||++|++.    ..++|++
T Consensus        18 s~vp~~~~~~PcvlGIDEAGRGPVLGPMVYa~~ycP~~~~~~l~~lgfaDSK~L~e~kRe~lf~~i~~d~~~~~~vgwA~   97 (301)
T KOG2299|consen   18 SPVPDEQKSEPCVLGIDEAGRGPVLGPMVYAAAYCPLDYLEDLENLGFADSKTLTEAKREELFNKIKEDEELTSNVGWAT   97 (301)
T ss_pred             cCCcccccCCceEeeccccCCCCcccceeeEEEeccchhhhhhhhcCccchhhccHHHHHHHHHHHhhhhhhhhceeeEe
Confidence            688999987 99999999999999999999999999999889999999999999999999999999753    3589999


Q ss_pred             EEECHhhHhHHhhccccchHHHHHHHHHHHHHHHHHccCCCcceEEECCCCChHHHHHHhhccCCCcceEEeecCCccCc
Q 023038           80 DIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYP  159 (288)
Q Consensus        80 ~~isp~eId~~~~~~~~~NlN~l~~~~~~~li~~~l~~~~~~~~v~VD~~g~~~~y~~~L~~~~p~i~v~~~~KADs~~~  159 (288)
                      .+|+|++|++.|++++++|||+++|++++.||+.+++.|+++.+|||||+|+|.+||.+|++.||+++++|.+|||++||
T Consensus        98 ~~isP~~IS~~Ml~r~kynLNevshdsam~LI~~v~~~gvnvteiyVDTVGpp~~Yq~kLek~FP~~k~tV~kKADSlfp  177 (301)
T KOG2299|consen   98 DCISPREISASMLRRNKYNLNEVSHDSAMGLIDEVLDQGVNVTEIYVDTVGPPAKYQEKLEKRFPGIKFTVTKKADSLFP  177 (301)
T ss_pred             eecCHHHHHHHHHHHhcCCchhhhhHHHHHHHHHHHHhCCceEEEEEecCCChHHHHHHHHhhCCCeEEEEeeccccccc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             chhhhhHHHHHHHHHHHHhhhhhhcccccCCCCcccCccc---------ccccccCCCcccccccHhHHHhh-hccceeE
Q 023038          160 VVSGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGD---------HKHIIFGFPSLVRFSWGTCTSHF-KDIVEVL  229 (288)
Q Consensus       160 ~VAAASIiAKV~RD~~m~~~~~~~~~~~~~~~~GsGYPsd---------h~~~~~G~p~~~R~Sw~t~~~~l-~~~~~~~  229 (288)
                      +||||||||||+||+.+++|++.+.....+.++|||||+|         |++.+||||++|||||+|++++| +.+.++.
T Consensus       178 iVS~ASI~AKVtRD~alk~w~~~E~~~~~d~~~GSGYP~DP~T~~wLk~~v~~VFGfp~lVRfSW~Ta~t~L~~~~~~~~  257 (301)
T KOG2299|consen  178 IVSAASIVAKVTRDRALKEWQFEEKLSDPDEDLGSGYPSDPETKAWLKENVDSVFGFPSLVRFSWKTAKTLLEDRSEPLK  257 (301)
T ss_pred             chhhhhhhhhhhhccccceeeeeeecccCCccccCCCCCChhHHHHHHhcccccccCccceeeeHHHHHHHHhcccccce
Confidence            9999999999999999999999999888899999999999         88899999999999999999999 5799999


Q ss_pred             eecCcccccccccccccccceecccccCcccCcchhhhccCccccchhhhccccccc
Q 023038          230 WESDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLT  286 (288)
Q Consensus       230 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~r~l~~~~  286 (288)
                      |+++..+.+...  .    .++++|..+...  +..     ..|..+| +|+|+++.
T Consensus       258 ~e~~~~e~~~~~--~----~~~T~~~~~~~~--s~~-----~~r~~~~-~r~l~~~~  300 (301)
T KOG2299|consen  258 WEESGFELDKTP--L----LKFTKKFKPNPA--SRS-----VPRSERF-ERHLENWY  300 (301)
T ss_pred             eecccccccchH--H----HHHHHHhcCCCc--ccc-----cchhHHH-HHhhhhhc
Confidence            999876532211  1    367775222211  111     2344466 99999875

>cd07181 RNaseH_typeII_eukaryota_like Eukaryotic Ribonuclease HII; putative role in Okazaki fragment removal during replication Back     alignment and domain information
>cd07180 RNaseH_typeII_Archaea_like Archaeal ribonuclease HII Back     alignment and domain information
>COG0164 RnhB Ribonuclease HII [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK14551 rnhB ribonuclease HII; Provisional Back     alignment and domain information
>PRK14550 rnhB ribonuclease HII; Provisional Back     alignment and domain information
>TIGR00729 ribonuclease H, mammalian HI/archaeal HII subfamily 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
>PRK13925 rnhB ribonuclease HII; Provisional Back     alignment and domain information
>PRK00015 rnhB ribonuclease HII; Validated 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
>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 ?
Query288
3p5j_A301 The Structure Of The Human Rnase H2 Complex Defines 1e-63
3puf_A302 Crystal Structure Of Human Rnase H2 Complex Length 2e-62
3kio_A301 Mouse Rnase H2 Complex Length = 301 5e-62
3p56_A299 The Structure Of The Human Rnase H2 Complex Defines 9e-61
2dff_A213 Crystal Structure Of Tk-Rnase Hii(1-204)-C Length = 2e-21
1eke_A230 Crystal Structure Of Class Ii Ribonuclease H (Rnase 4e-21
1io2_A213 Crystal Structure Of Type 2 Ribonuclease H From Hyp 6e-21
2dfh_A221 Crystal Structure Of Tk-Rnase Hii(1-212)-C Length = 6e-21
2dfe_A209 Crystal Structure Of Tk-Rnase Hii(1-200)-C Length = 8e-21
1x1p_A212 Crystal Structure Of Tk-Rnase Hii(1-197)-A(28-42) L 1e-19
1uax_A220 Crystal Structure Of The Ribonuclease H2 From Pyroc 1e-18
1i39_A225 Rnase Hii From Archaeoglobus Fulgidus Length = 225 9e-17
3p83_D217 Structure Of The Pcna:rnase Hii Complex From Archae 9e-17
3o3g_A222 T. Maritima Rnase H2 In Complex With Nucleic Acid S 2e-04
2etj_A250 Crystal Structure Of Ribonuclease Hii (ec 3.1.26.4) 6e-04
3o3f_A222 T. Maritima Rnase H2 D107n In Complex With Nucleic 6e-04
>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 =  239 bits (610), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 120/244 (49%), Positives = 158/244 (64%), Gaps = 13/244 (5%)
Query: 14  PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVN- 72
           PC++G+DEAGRGPVLGPMVY   YCP S    L  L  ADSKTL E +RE LF  ++ + 
Sbjct: 28  PCVLGVDEAGRGPVLGPMVYAICYCPLSRLADLEALKVADSKTLTENERERLFAKMEEDG 87
Query: 73  DSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDA 132
           D VGWA+D++ P  +S  ML + K NLN +SHD+A GLI   L+  + +T+V++DTVG  
Sbjct: 88  DFVGWALDVLSPNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGMP 147
Query: 133 EKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAENMHRNF 192
           E YQA+L Q FP I+  V  KADSL+PVVS ASI AKV RD+ ++ W F E  +++  ++
Sbjct: 148 ETYQARLQQHFPGIEVTVKAKADSLFPVVSAASIFAKVARDKAVKNWQFVENLQDLDSDY 207
Query: 193 GSGYPGD-------HKHI--IFGFPSLVRFSWGTCTSHF-KDIVEVLWESDEMDEDVSSR 242
           GSGYP D        KH+  +FGFP  VRFSW T  +   K+  +V+WE  E +ED    
Sbjct: 208 GSGYPNDPKTKAWLRKHVDPVFGFPQFVRFSWSTAQAILEKEAEDVIWEDSEAEED--PE 265
Query: 243 RSGK 246
           R GK
Sbjct: 266 RPGK 269
>pdb|3PUF|A Chain A, Crystal Structure Of Human Rnase H2 Complex Length = 302 Back     alignment and structure
>pdb|3KIO|A Chain A, Mouse Rnase H2 Complex Length = 301 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|2DFF|A Chain A, Crystal Structure Of Tk-Rnase Hii(1-204)-C Length = 213 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|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|1UAX|A Chain A, Crystal Structure Of The Ribonuclease H2 From Pyrococcus Horikoshii Ot3 Length = 220 Back     alignment and structure
>pdb|1I39|A Chain A, Rnase Hii From Archaeoglobus Fulgidus Length = 225 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|3O3G|A Chain A, T. Maritima Rnase H2 In Complex With Nucleic Acid Substrate And Calcium Ions Length = 222 Back     alignment and structure
>pdb|2ETJ|A Chain A, Crystal Structure Of Ribonuclease Hii (ec 3.1.26.4) (rnase Hii) (tm0915) From Thermotoga Maritima At 1.74 A Resolution Length = 250 Back     alignment and structure
>pdb|3O3F|A Chain A, T. Maritima Rnase H2 D107n In Complex With Nucleic Acid Substrate And Magnesium Ions Length = 222 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 ?
Query288
3kio_A301 Ribonuclease H2 subunit A; aicardi-goutieres syndr 1e-102
1eke_A230 Ribonuclease HII; endonuclease, structural genomic 2e-73
1uax_A220 Ribonuclease HII, ribonuclease H2; RNA*DNA hybrid 2e-67
1io2_A213 Ribonuclease HII; endonuclease, hydrolase; 2.00A { 2e-67
1i39_A225 Ribonuclease HII, RNAse HII; mixed beta sheet, hel 3e-67
2d0b_A310 RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hyd 4e-52
2etj_A250 Ribonuclease HII, RNAse HII; TM0915, ribonuclease 8e-16
>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 =  301 bits (771), Expect = e-102
 Identities = 121/292 (41%), Positives = 167/292 (57%), Gaps = 23/292 (7%)

Query: 8   PKWASNPCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFE 67
                 PC++G+DEAGRGPVLGPMVY   YCP S    L  L  ADSKTL E +RE LF 
Sbjct: 22  AVCLKEPCVLGVDEAGRGPVLGPMVYAICYCPLSRLADLEALKVADSKTLTENERERLFA 81

Query: 68  DLKVN-DSVGWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYL 126
            ++ + D VGWA+D++ P  +S  ML + K NLN +SHD+A GLI   L+  + +T+V++
Sbjct: 82  KMEEDGDFVGWALDVLSPNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFV 141

Query: 127 DTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAE 186
           DTVG  E YQA+L Q FP I+  V  KADSL+PVVS ASI AKV RD+ ++ W F E  +
Sbjct: 142 DTVGMPETYQARLQQHFPGIEVTVKAKADSLFPVVSAASIFAKVARDKAVKNWQFVENLQ 201

Query: 187 NMHRNFGSGYPGD---------HKHIIFGFPSLVRFSWGTCTSHF-KDIVEVLWESDEMD 236
           ++  ++GSGYP D         H   +FGFP  VRFSW T  +   K+  +V+WE  E +
Sbjct: 202 DLDSDYGSGYPNDPKTKAWLRKHVDPVFGFPQFVRFSWSTAQAILEKEAEDVIWEDSEAE 261

Query: 237 EDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF 288
           ED       +R  K++       +    +         ++ + R LE  +  
Sbjct: 262 ED------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
>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
>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
>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
>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 ?
Query288
3kio_A301 Ribonuclease H2 subunit A; aicardi-goutieres syndr 100.0
1eke_A230 Ribonuclease HII; endonuclease, structural genomic 100.0
1i39_A225 Ribonuclease HII, RNAse HII; mixed beta sheet, hel 100.0
1io2_A213 Ribonuclease HII; endonuclease, hydrolase; 2.00A { 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 100.0
3vn5_A257 RNAse HIII, ribonuclease HIII; hydrolase; 1.98A {A 100.0
>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=2.2e-78  Score=564.86  Aligned_cols=273  Identities=45%  Similarity=0.835  Sum_probs=212.0

Q ss_pred             CCCcCCcCCC-CceecccccCcCCcccceeeEEEEecccccccccccCcCCCCCCCHHHHHHHHHHhhhc-CcccEEEEE
Q 023038            4 EAALPKWASN-PCIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVN-DSVGWAVDI   81 (288)
Q Consensus         4 ~~~~p~~~~~-~~viGiDEAGRGpv~GPmVvaav~~~~~~~~~L~~~gv~DSK~Ls~~kRe~L~~~I~~~-~~~~~~v~~   81 (288)
                      .|++|++|.+ ++++|||||||||++||||+|||++|.+....|..+||+|||+||+++|++||++|++. .+++|+|.+
T Consensus        17 ~s~~p~~~~~~~~v~GvDEaGRGplaGPvV~aavil~~~~~~~l~~~gl~DSKkLs~~kRe~L~~~I~~~~~a~~~~v~~   96 (301)
T 3kio_A           17 SSPVPAVCLKEPCVLGVDEAGRGPVLGPMVYAICYCPLSRLADLEALKVADSKTLTENERERLFAKMEEDGDFVGWALDV   96 (301)
T ss_dssp             ECCCCTHHHHSCEEEEEEEECSSCSBSCEEEEEEEEEGGGGGGCCCCCSCC--CCCHHHHHHHHHHHHHTTTTCEEEEEE
T ss_pred             eCCCchhhcCCceEEeeeCCCCCCccccceEEEEEEchhhhhhHhhcCCCccccCCHHHHHHHHHHHHhhcccceEEEEe
Confidence            4799999987 99999999999999999999999999987777888999999999999999999999873 368999999


Q ss_pred             ECHhhHhHHhhccccchHHHHHHHHHHHHHHHHHccCCCcceEEECCCCChHHHHHHhhccCCCcceEEeecCCccCcch
Q 023038           82 IDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGDAEKYQAKLSQRFPSIKFVVSKKADSLYPVV  161 (288)
Q Consensus        82 isp~eId~~~~~~~~~NlN~l~~~~~~~li~~~l~~~~~~~~v~VD~~g~~~~y~~~L~~~~p~i~v~~~~KADs~~~~V  161 (288)
                      ++|++||+.|+++..+|||.++|++++.|+++++++++.++.||||+++.|++|+.+|++.+|++++++++|||++|++|
T Consensus        97 ~s~~eId~~m~~~~~~nlN~l~~~~~~~~i~~~~~l~~~p~~vlVD~~~~p~~y~~~L~~~~p~~~~~~~~KgDs~~~sV  176 (301)
T 3kio_A           97 LSPNLISTSMLGRVKYNLNSLSHDTAAGLIQYALDQNVNVTQVFVDTVGMPETYQARLQQHFPGIEVTVKAKADSLFPVV  176 (301)
T ss_dssp             ECHHHHHHHHTSSSCCCHHHHHHHHHHHHHHHHHHTTCCEEEEEEECSSCCHHHHHHHHHSSTTSEEEEETTGGGTSHHH
T ss_pred             cCHHHHHHHhhhcccccHHHHHHHHHHHHHHHHHhcCCCCCEEEECCCCChHHHHHHHhhcCCCCceEEEeccchhhhHH
Confidence            99999999998888899999999999999999988889999999999999999999999999999999999999999999


Q ss_pred             hhhhHHHHHHHHHHHHhhhhhhcccccCCCCcccCccc---------ccccccCCCcccccccHhHHHhh-hccceeEee
Q 023038          162 SGASIVAKVTRDRTLRGWIFEETAENMHRNFGSGYPGD---------HKHIIFGFPSLVRFSWGTCTSHF-KDIVEVLWE  231 (288)
Q Consensus       162 AAASIiAKV~RD~~m~~~~~~~~~~~~~~~~GsGYPsd---------h~~~~~G~p~~~R~Sw~t~~~~l-~~~~~~~~~  231 (288)
                      |||||||||+||++|++|.+.+.......+||||||||         ++++.||+|++||+||+|+++++ +++++|.|+
T Consensus       177 AAASIlAKV~RD~~M~~~~f~e~l~~~~~~~GsGYPSDp~T~~~L~~~~~~~~G~p~~vR~SW~tvk~~l~~~~~~v~w~  256 (301)
T 3kio_A          177 SAASIFAKVARDKAVKNWQFVENLQDLDSDYGSGYPNDPKTKAWLRKHVDPVFGFPQFVRFSWSTAQAILEKEAEDVIWE  256 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTTCCCCCCSSSTTSHHHHHHHHTTCBTTTBSCTTBCTTSHHHHHHHHHHSCCEECS
T ss_pred             HHHHHHHHHHHHHHHHHhhhhhhHHhhCCCCCCcCCCCHHHHHHHHHcccccCCCCccccCCcHHHHHHHhcCCceeeec
Confidence            99999999999999999987776666677899999998         55567999999999999999999 589999999


Q ss_pred             cCcccccccccccccccceecccccCcccCcchhhhccCccccchhhhcccccccCC
Q 023038          232 SDEMDEDVSSRRSGKRQLKLSDIGFSSSKRRSEEIESSGKGRCKFLEARKLEQLTHF  288 (288)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~r~l~~~~~~  288 (288)
                      +|+++++..+      ..+|++| |.....     ...+++||+||++|+|++|+++
T Consensus       257 ~~~~~~~~~~------~~~~~~~-f~~~~~-----~~~~~~~~~~f~~~~l~~~~~~  301 (301)
T 3kio_A          257 DSEAEEDPER------PGKITSY-FSQGPQ-----TCRPQAPHRYFQERGLEAASSL  301 (301)
T ss_dssp             CC-------------------------------------------------------
T ss_pred             cccccccccc------chhHHHH-hcCCCc-----cccccccchhhHhhcccccccC
Confidence            8875432211      1388887 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
>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
>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
>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 288
d1ekea_225 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 7e-29
d1io2a_213 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 1e-26
d1uaxa_211 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 4e-24
d2etja1221 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase 4e-21
d1i39a_200 c.55.3.1 (A:) Class II ribonuclease H (RNase HII) 8e-20
>d1ekea_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Methanococcus jannaschii [TaxId: 2190]} Length = 225 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 Methanococcus jannaschii [TaxId: 2190]

 Score =  108 bits (269), Expect = 7e-29
 Identities = 69/221 (31%), Positives = 98/221 (44%), Gaps = 26/221 (11%)

Query: 16  IMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSV 75
           I+GIDEAGRGPVLGPMV          ++ L  L   DSK L + KR  L + L+    V
Sbjct: 3   IIGIDEAGRGPVLGPMVVCAFAIEKEREEELKKLGVKDSKELTKNKRAYLKKLLENLGYV 62

Query: 76  GWAVDIIDPRELSAKMLNKNKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVGD---- 131
              +   +        +N N I +N  +       +   LNI     E+Y+D        
Sbjct: 63  EKRILEAEEINQLMNSINLNDIEIN--AFSKVAKNLIEKLNIRDDEIEIYIDACSTNTKK 120

Query: 132 -----AEKYQAKLSQRFPSIKFVVSKKADSLYPVVSGASIVAKVTRDRTLRGWIFEETAE 186
                 +K +  + +R  +IK +   KAD+ YPVVS ASI+AK  RD  +  +      +
Sbjct: 121 FEDSFKDKIEDIIKERNLNIKIIAEHKADAKYPVVSAASIIAKAERDEIIDYY------K 174

Query: 187 NMHRNFGSGYPGDHKHI---------IFGFPSLVRFSWGTC 218
            ++ + GSGYP D K I             P + R  W TC
Sbjct: 175 KIYGDIGSGYPSDPKTIKFLEDYFKKHKKLPDIARTHWKTC 215
>d1io2a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Thermococcus kodakaraensis [TaxId: 311400]} Length = 213 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
>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
>d1i39a_ c.55.3.1 (A:) Class II ribonuclease H (RNase HII) {Archaeon Archaeoglobus fulgidus [TaxId: 2234]} Length = 200 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 ?
Query288
d1io2a_213 Class II ribonuclease H (RNase HII) {Archaeon Ther 100.0
d2etja1221 Class II ribonuclease H (RNase HII) {Thermotoga ma 100.0
d1ekea_225 Class II ribonuclease H (RNase HII) {Archaeon Meth 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
>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=3.2e-53  Score=375.53  Aligned_cols=194  Identities=34%  Similarity=0.532  Sum_probs=165.1

Q ss_pred             ceecccccCcCCcccceeeEEEEecccccccccccCcCCCCCCCHHHHHHHHHHhhhcCcccEEEEEECHhhHhHHhhcc
Q 023038           15 CIMGIDEAGRGPVLGPMVYGCLYCPCSYQQTLATLNFADSKTLKEEKREELFEDLKVNDSVGWAVDIIDPRELSAKMLNK   94 (288)
Q Consensus        15 ~viGiDEAGRGpv~GPmVvaav~~~~~~~~~L~~~gv~DSK~Ls~~kRe~L~~~I~~~~~~~~~v~~isp~eId~~~~~~   94 (288)
                      .|+|||||||||+|||||||||+++.+....|..+||+|||+||+++|++|++.|++. ...|.+..++|++++.     
T Consensus         2 ~i~GvDEaGRG~l~GPvvvaav~~~~~~~~~l~~~gv~DSK~Ls~~kR~~l~~~I~~~-~~~~~i~~~~~~~~~~-----   75 (213)
T d1io2a_           2 KIAGIDEAGRGPVIGPMVIAAVVVDENSLPKLEELKVRDSKKLTPKRREKLFNEILGV-LDDYVILELPPDVIGS-----   75 (213)
T ss_dssp             EEEEEEEECSSCSBSCEEEEEEEEEGGGHHHHHHTTGGGCTTCCHHHHHHHHHHHHTT-CSEEEEEEECHHHHHT-----
T ss_pred             cEEeecCcCccccccceEEEEEEEchhhcchhhhcCcchhhhCcHHHHHHHHHHHHHH-HHHhhhhcccHHHHhh-----
Confidence            4799999999999999999999999988778889999999999999999999999974 5789999999999864     


Q ss_pred             ccchHHHHHHHHHHHHHHHHHccCCCcceEEECCCC-ChHHHHHHhhccCC-CcceEEeecCCccCcchhhhhHHHHHHH
Q 023038           95 NKINLNEISHDSAIGLITRVLNIGILLTEVYLDTVG-DAEKYQAKLSQRFP-SIKFVVSKKADSLYPVVSGASIVAKVTR  172 (288)
Q Consensus        95 ~~~NlN~l~~~~~~~li~~~l~~~~~~~~v~VD~~g-~~~~y~~~L~~~~p-~i~v~~~~KADs~~~~VAAASIiAKV~R  172 (288)
                      +..|+|.++..++.+.|..   +...++.+++|++. ++..|...+.+.++ ...+++++|||++|++||||||||||+|
T Consensus        76 ~~~~~~~~~~~~~~~ai~~---l~~~~~~v~~D~~~~~~~~~~~~~~~~~~~~~~~~~~~KgD~~~~~VAAASIlAKv~R  152 (213)
T d1io2a_          76 REGTLNEFEVENFAKALNS---LKVKPDVIYADAADVDEERFARELGERLNFEAEVVAKHKADDIFPVVSAASILAKVTR  152 (213)
T ss_dssp             CSSCHHHHHHHHHHHHHHH---CSSCCSEEEEECCSSCHHHHHHHHHHTCSSCCEEEEETTHHHHCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHHHh---cCCCCCEEEECcccccchhhhhhhcccccccceeEEeecccccchhhhHHHHHHHHHH
Confidence            4578999987776655544   45667889999987 56667776665543 4467778899999999999999999999


Q ss_pred             HHHHHhhhhhhcccccCCCCcccCccc-cccc--------ccCCCcccccccHhHHHhhh
Q 023038          173 DRTLRGWIFEETAENMHRNFGSGYPGD-HKHI--------IFGFPSLVRFSWGTCTSHFK  223 (288)
Q Consensus       173 D~~m~~~~~~~~~~~~~~~~GsGYPsd-h~~~--------~~G~p~~~R~Sw~t~~~~l~  223 (288)
                      |++|++|+..||.      ||+|||+| |..+        .+|+|++||+||+|++++++
T Consensus       153 D~~m~~l~~~y~~------~g~GY~s~~h~~a~l~~~~~~~~~~~~~hR~sf~~~k~~l~  206 (213)
T d1io2a_         153 DRAVEKLKEEYGE------IGSGYPSDPRTRAFLENYYREHGEFPPIVRKGWKTLKKIAE  206 (213)
T ss_dssp             HHHHHHHHHHHSC------CCSSCTTSHHHHHHHHHHHHHHSSCCTTBCTTCHHHHHHHH
T ss_pred             HHHHHHHHHhCCc------CCCCCCCHHHHHHHHHhcccccCCCCccccCCcHHHHHHHH
Confidence            9999999999874      47899999 4332        36799999999999999985
>d2etja1 c.55.3.1 (A:1-221) Class II ribonuclease H (RNase HII) {Thermotoga maritima [TaxId: 2336]} 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
>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