Psyllid ID: psy8162

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 (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-------290-------300-------310-------320------
MNYVAKVGASPFNPVQKVLFDQDLTPYNFTTNKPKPLLSRFLSLPNFPNLISSSDIAPYVRTVPPWSSSSPPVDLSLGKDRKKDTPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAARNPVNPARLKLCSPDDFKPIAASMVKKEWQNQWDIIPITNKLKSIKPLIEHWNTSWLNDKK
ccEEEEccccccccccHHHHccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccEEEEEcccccccccEEEEEEcccccccccccccHHHHHHHHHHHHHHHHHHcccccEEEEEcccHHHHHHHHcccccccccccHHHccccHHcccccccccccccHHHHHHHcccccccHHHHHHHHHHHHHHHccccEEEEEEcccccccccHHHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccc
ccEEEEEEcccccccHHHHcccccccHHccccccccHHHHHHHcccccccccccccccccccccccccccccEEEEEcccccccccHHHHHHHHHHHHHHHccccEEEEEccccccccEEEEEEEcccEEEEEcccccHHHHHHHHHHHHHHHHHHHcccccEEEEEccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHccEEEEcccHHHHHHHHccccccHHHHHHHHHHHHHHHccccEEEEEEcccccccccHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccHHcccccccccccccccccc
mnyvakvgaspfnpvqkvlfdqdltpynfttnkpkpllsrflslpnfpnlisssdiapyvrtvppwssssppvdlslgkdrkkdtppvVFQQLFAGVinskyvnhticytdgsktmnstscaysindvisssqlnpvnsiFSAELIAIYLCLEAitvhpsdhfliVSDSRSALAALSnvsftnplvsKVYSCWDLLKTLNKDVHFVLKPSQSALAALSnvsftnplvsKVYSCWDLLKTLnkdvhflwcpshcgirgneavdeaarnpvnparlklcspddfkpIAASMVKKEWqnqwdiipitnklksiKPLIEhwntswlndkk
mnyvakvgaspfnpvqkvLFDQDLTPYNFTTNKPKPLLSRFLSLPNFPNLISSSDIAPYVRtvppwssssppVDLSLGKDRKKDTPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAARNPVNparlklcspdDFKPIAASMVKkewqnqwdiipitnklksikpliehwntswlndkk
MNYVAKVGASPFNPVQKVLFDQDLTPYNFTTNKPKPLLSRFLSLPNFPNLISSSDIAPYVRTVppwssssppVDLSLGKDRKKDTPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAARNPVNPARLKLCSPDDFKPIAASMVKKEWQNQWDIIPITNKLKSIKPLIEHWNTSWLNDKK
**********PFNPVQKVLFDQDLTPYNFTTNKPKPLLSRFLSLPNFPNLISSSDIAPYVRTV***********************PVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAA***VNPARLKLCSPDDFKPIAASMVKKEWQNQWDIIPITNKLKSIKPLIEHWNTSWL****
MNYVAKVGASPFNPVQKVLFDQDLT**********PLLSRFLSLPNFPNLISSSDIAPYVRTVPPWSSSSPPVDLSLGKDRKKDTPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAARNPVNPARLKLCSPDDFKPIAASMVKKEWQNQWDI*PITNKLKSIKPLIEHW**S******
MNYVAKVGASPFNPVQKVLFDQDLTPYNFTTNKPKPLLSRFLSLPNFPNLISSSDIAPYVRTVP**************KDRKKDTPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAARNPVNPARLKLCSPDDFKPIAASMVKKEWQNQWDIIPITNKLKSIKPLIEHWNTSWLNDKK
MNYVAKVGASPFNPVQKVLFDQDLTPYNFTTNKPKPLLSRFLSLPNFPNLISSSDIAPYVRTVPPWSSSSPPVDLSLGKDRKKDTPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAARNPVNPARLKLCSPDDFKPIAASMVKKEWQNQWDIIPITNKLKSIKPLIEHWNTSW*****
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MNYVAKVGASPFNPVQKVLFDQDLTPYNFTTNKPKPLLSRFLSLPNFPNLISSSDIAPYVRTVPPWSSSSPPVDLSLGKDRKKDTPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAARNPVNPARLKLCSPDDFKPIAASMVKKEWQNQWDIIPITNKLKSIKPLIEHWNTSWLNDKK
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

No hits with e-value below 0.001 by BLAST

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 ?
Query326
443693558 502 hypothetical protein CAPTEDRAFT_189741, 0.769 0.5 0.355 8e-26
125901787 1222 pol-like protein [Biomphalaria glabrata] 0.782 0.208 0.313 5e-25
443700898300 hypothetical protein CAPTEDRAFT_212630, 0.647 0.703 0.294 4e-19
443695973261 hypothetical protein CAPTEDRAFT_23017, p 0.650 0.812 0.333 5e-19
443710566377 hypothetical protein CAPTEDRAFT_186063 [ 0.659 0.570 0.293 7e-19
427791321 1210 Putative tick transposon, partial [Rhipi 0.819 0.220 0.297 4e-17
427791807 1212 Putative tick transposon, partial [Rhipi 0.819 0.220 0.297 4e-17
443712830397 hypothetical protein CAPTEDRAFT_202466 [ 0.607 0.498 0.310 8e-16
443720278 498 hypothetical protein CAPTEDRAFT_219461 [ 0.478 0.313 0.302 3e-15
443713753266 hypothetical protein CAPTEDRAFT_215116 [ 0.644 0.789 0.282 3e-15
>gi|443693558|gb|ELT94903.1| hypothetical protein CAPTEDRAFT_189741, partial [Capitella teleta] Back     alignment and taxonomy information
 Score =  124 bits (310), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 108/304 (35%), Positives = 144/304 (47%), Gaps = 53/304 (17%)

Query: 29  FTTNKP---KPLLSRFLSLPNFPNLISSSDIAPY-VRTVPPWSSSSPPVDLSLGKDRKKD 84
           F T+KP   +PLL R  +     ++I++  IAP+ +  VPPW    P VD S+ K  K  
Sbjct: 6   FYTSKPSFIRPLLYR--TEEALESVITAP-IAPFKISDVPPWKLRPPEVDTSISKFLKDQ 62

Query: 85  TPPVVFQQLFAGVINSKYVNHTICYTDGSKTMNSTSCAYSINDVISSSQLNPVNSIFSAE 144
            P +  +Q F  +I+ KY    I YTDGSK+ N+ +CA++ +       L    SI++AE
Sbjct: 63  HPALFLKQEFYNLID-KYPGINI-YTDGSKSNNAVACAFTCSTYQIQFGLPTQMSIYTAE 120

Query: 145 LIAIYLCLEAI-TVHPSDHFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDV 203
           LIAI   L  I TV   D F I SDS S+L ALSN   T+P +                 
Sbjct: 121 LIAIEQALIFIETVKDEDQFNICSDSLSSLTALSNCDITHPYL----------------- 163

Query: 204 HFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDE 263
                        LS ++  N LV K            K V F+WCPSH GI GNE  D 
Sbjct: 164 -------------LSILTKQNNLVRK-----------GKLVVFIWCPSHVGILGNEVADR 199

Query: 264 AARNPVNPARLKLCSPD-DFKPIAASMVKKEWQNQWDIIPITNKLKSIKPLIEHWNTSWL 322
            A+  +     KL  P  D+K    S VK  WQN+WD     NKL SI+P+I  W     
Sbjct: 200 LAKQALVMPVTKLPLPHTDYKSPIRSYVKSLWQNEWD-EETDNKLHSIQPVISEWKQGPQ 258

Query: 323 NDKK 326
            D++
Sbjct: 259 IDRR 262

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota
>gi|125901787|gb|ABN58714.1| pol-like protein [Biomphalaria glabrata] Back     alignment and taxonomy information
>gi|443700898|gb|ELT99633.1| hypothetical protein CAPTEDRAFT_212630, partial [Capitella teleta] Back     alignment and taxonomy information
>gi|443695973|gb|ELT96755.1| hypothetical protein CAPTEDRAFT_23017, partial [Capitella teleta] Back     alignment and taxonomy information
>gi|443710566|gb|ELU04776.1| hypothetical protein CAPTEDRAFT_186063 [Capitella teleta] Back     alignment and taxonomy information
>gi|427791321|gb|JAA61112.1| Putative tick transposon, partial [Rhipicephalus pulchellus] Back     alignment and taxonomy information
>gi|427791807|gb|JAA61355.1| Putative tick transposon, partial [Rhipicephalus pulchellus] Back     alignment and taxonomy information
>gi|443712830|gb|ELU05953.1| hypothetical protein CAPTEDRAFT_202466 [Capitella teleta] Back     alignment and taxonomy information
>gi|443720278|gb|ELU10076.1| hypothetical protein CAPTEDRAFT_219461 [Capitella teleta] Back     alignment and taxonomy information
>gi|443713753|gb|ELU06453.1| hypothetical protein CAPTEDRAFT_215116 [Capitella teleta] 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 ?
Query326
ASPGD|ASPL0000075333 486 AN10625 [Emericella nidulans ( 0.273 0.183 0.278 0.00052
ASPGD|ASPL0000075333 AN10625 [Emericella nidulans (taxid:162425)] Back     alignment and assigned GO terms
 Score = 94 (38.1 bits), Expect = 0.00052, Sum P(2) = 0.00052
 Identities = 29/104 (27%), Positives = 43/104 (41%)

Query:   206 VLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNK------DVHFLWCPSHCGIRGNE 259
             +   +Q+ L AL N        S  Y    ++  LNK      +VHF W P+H G+ GNE
Sbjct:   246 IFTDNQATLQALRNPGSQ----SGQYILEAIIMALNKGRKAGLNVHFRWIPAHRGVEGNE 301

Query:   260 AVDEAARNPVNPARLK-----LCSPDDFKPIAASMVKKEWQNQW 298
               D  A+      R++     +      K  A  +V   W+N W
Sbjct:   302 QADRRAKEATGWRRIRGHRGRMTIRSAVKRRAHEVVNARWENDW 345
GO:0008150 "biological_process" evidence=ND
GO:0003676 "nucleic acid binding" evidence=IEA
GO:0004523 "ribonuclease H activity" evidence=IEA
GO:0005575 "cellular_component" evidence=ND

Prediction of Enzyme Commission (EC) Number

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

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.1.26.4LOW CONFIDENCE prediction!
3rd Layer3.1.26LOW CONFIDENCE prediction!

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query326
cd09276128 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom 9e-26
pfam00075126 pfam00075, RNase_H, RNase H 7e-12
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 6e-08
cd09273135 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase 4e-06
cd09278139 cd09278, RNase_HI_prokaryote_like, RNase HI family 0.003
>gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse transcriptases Back     alignment and domain information 
 Score = 99.3 bits (248), Expect = 9e-26
 Identities = 43/165 (26%), Positives = 59/165 (35%), Gaps = 46/165 (27%)

Query: 107 ICYTDGSKTMNSTSCAYSI---NDVISSSQLNPVNSIFSAELIAIYLCLEAITV--HPSD 161
           + YTDGSK    T   ++I     +  S +L P  S+F AEL+AI   L+        + 
Sbjct: 1   VIYTDGSKLEGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAILEALQLALREGRRAR 60

Query: 162 HFLIVSDSRSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVS 221
              I SDS                                         Q+AL AL +  
Sbjct: 61  KITIFSDS-----------------------------------------QAALKALRSPR 79

Query: 222 FTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAAR 266
            ++PLV ++      L      V   W P H GI GNE  D  A+
Sbjct: 80  SSSPLVLRIRKAIRELANHGVKVRLHWVPGHSGIEGNERADRLAK 124

Ribonuclease H (RNase H) is classified into two families, type 1 (prokaryotic RNase HI, eukaryotic RNase H1 and viral RNase H) and type 2 (prokaryotic RNase HII and HIII, and eukaryotic RNase H2). Ribonuclease HI (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner. RNase H is widely present in various organisms, including bacteria, archaea and eukaryotes. RNase HI has also been observed as an adjunct domain to the reverse transcriptase gene in retroviruses, long-term repeat (LTR)-bearing retrotransposons and non-LTR retrotransposons. RNase HI in LTR retrotransposons perform degradation of the original RNA template, generation of a polypurine tract (the primer for plus-strand DNA synthesis), and final removal of RNA primers from newly synthesized minus and plus strands. The catalytic residues for RNase H enzymatic activity, three aspartatic acids and one glutamatic acid residue (DEDD), are unvaried across all RNase H domains. The position of the RNase domain of non-LTR and LTR transposons is at the carboxyl terminal of the reverse transcriptase (RT) domain and their RNase domains group together, indicating a common evolutionary origin. Many non-LTR transposons have lost the RNase domain because their activity is at the nucleus and cellular RNase may suffice; however LTR retotransposons always encode their own RNase domain because it requires RNase activity in RNA-protein particles in the cytoplasm. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription. Length = 128
>gnl|CDD|215695 pfam00075, RNase_H, RNase H Back     alignment and domain information
>gnl|CDD|187690 cd06222, RNase_H, RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner Back     alignment and domain information
>gnl|CDD|187697 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase HI in long-term repeat retroelements Back     alignment and domain information
>gnl|CDD|187702 cd09278, RNase_HI_prokaryote_like, RNase HI family found mainly in prokaryotes Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 326
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 99.93
PRK06548161 ribonuclease H; Provisional 99.93
PRK08719147 ribonuclease H; Reviewed 99.92
PRK00203150 rnhA ribonuclease H; Reviewed 99.91
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 99.88
KOG3752|consensus371 99.81
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 99.78
PRK13907128 rnhA ribonuclease H; Provisional 99.73
PRK07708219 hypothetical protein; Validated 99.56
PRK07238 372 bifunctional RNase H/acid phosphatase; Provisional 99.51
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 99.07
PF05380159 Peptidase_A17: Pao retrotransposon peptidase ; Int 88.97
.; GO: 0004523 ribonuclease H activity" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF00336">PF00336245 DNA_pol_viral_C: DNA polymerase (viral) C-terminal 81.36
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=99.93  E-value=4.8e-26  Score=196.68  Aligned_cols=139  Identities=22%  Similarity=0.192  Sum_probs=107.1

Q ss_pred             CcEEEEecCCCCCC--CcccEEEEc--CeeE--EeecCCCCchHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHhh
Q psy8162         104 NHTICYTDGSKTMN--STSCAYSIN--DVIS--SSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALS  177 (326)
Q Consensus       104 ~~i~IyTDGS~~~~--~~G~gvv~~--~~~~--~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~ai~~i~  177 (326)
                      ..++|||||||.+|  .+|+|+|+.  +...  +.... .+|+++||++|++.||+++.+.+...|.|+|||+||+++|+
T Consensus         2 ~~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~   80 (154)
T COG0328           2 KKVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGIT   80 (154)
T ss_pred             CceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHH
Confidence            36899999999976  378998764  2222  22333 78999999999999999999888899999999999999999


Q ss_pred             cCCCCCccccccccchhhhhhcccccccccccchhHhhhhccCCcchHHHHHHHHHHHHHHhCCCcEEEEEeeccCCCcc
Q psy8162         178 NVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRG  257 (326)
Q Consensus       178 ~~~~~~~~~~~i~~~~~~~k~~~~~~~~i~~~~~~~~~a~~n~~~~~~l~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~G  257 (326)
                      .|...+....|        ++             +..++|+|.+++.+        ++.+..+...|.+.|||||+|.++
T Consensus        81 ~w~~~w~~~~w--------~~-------------~~~~pvkn~dl~~~--------~~~~~~~~~~v~~~WVkgH~g~~~  131 (154)
T COG0328          81 RWIVKWKKNGW--------KT-------------ADKKPVKNKDLWEE--------LDELLKRHELVFWEWVKGHAGHPE  131 (154)
T ss_pred             HHHhhccccCc--------cc-------------cccCccccHHHHHH--------HHHHHhhCCeEEEEEeeCCCCChH
Confidence            66454432222        22             22457888665333        445565667999999999999999


Q ss_pred             chHHhHHhcCCCCcc
Q psy8162         258 NEAVDEAARNPVNPA  272 (326)
Q Consensus       258 NE~AD~LAk~Aa~~~  272 (326)
                      ||.||+||+.|+...
T Consensus       132 NeraD~LA~~~~~~~  146 (154)
T COG0328         132 NERADQLAREAARAA  146 (154)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999998765

>PRK06548 ribonuclease H; Provisional Back     alignment and domain information
>PRK08719 ribonuclease H; Reviewed Back     alignment and domain information
>PRK00203 rnhA ribonuclease H; Reviewed Back     alignment and domain information
>PF00075 RNase_H: RNase H; InterPro: IPR002156 The RNase H domain is responsible for hydrolysis of the RNA portion of RNA x DNA hybrids, and this activity requires the presence of divalent cations (Mg2+ or Mn2+) that bind its active site Back     alignment and domain information
>KOG3752|consensus Back     alignment and domain information
>cd06222 RnaseH RNase H (RNase HI) is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a not sequence-specific manner Back     alignment and domain information
>PRK13907 rnhA ribonuclease H; Provisional Back     alignment and domain information
>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional Back     alignment and domain information
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B Back     alignment and domain information
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family Back     alignment and domain information
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query326
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 3e-05
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 4e-05
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 6e-04
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A Length = 147 Back     alignment and structure
 Score = 42.7 bits (101), Expect = 3e-05
 Identities = 8/33 (24%), Positives = 12/33 (36%)

Query: 234 WDLLKTLNKDVHFLWCPSHCGIRGNEAVDEAAR 266
             L+        F    +H G   N+ VD  A+
Sbjct: 100 AKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAK 132
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A Length = 165 Back     alignment and structure
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query326
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 99.93
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 99.93
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 99.92
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 99.9
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 99.9
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 99.9
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 99.9
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 99.89
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 99.88
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 99.83
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 99.83
1mu2_A555 HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym 99.82
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 99.81
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 99.78
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 99.53
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 99.4
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 81.52
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A* Back     alignment and structure
Probab=99.93  E-value=4.6e-27  Score=201.81  Aligned_cols=140  Identities=19%  Similarity=0.205  Sum_probs=101.9

Q ss_pred             CCcEEEEecCCCCCCC-----cccEEEEcCe---eEEeecCCCCchHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHH
Q psy8162         103 VNHTICYTDGSKTMNS-----TSCAYSINDV---ISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALA  174 (326)
Q Consensus       103 ~~~i~IyTDGS~~~~~-----~G~gvv~~~~---~~~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~ai~  174 (326)
                      .+.++|||||||.+++     +|+|+++.+.   ..+..+.+.+|++.||+.|++.||+.+...+..+|.|+|||++|++
T Consensus         5 ~~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~~~~~v~i~tDS~~vi~   84 (154)
T 2qkb_A            5 GDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYTNSMFTIN   84 (154)
T ss_dssp             TTEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHTTCCEEEEEESCHHHHH
T ss_pred             CCeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhCCCceEEEEECcHHHHh
Confidence            4678999999998653     6888887531   2345666678999999999999999999877889999999999999


Q ss_pred             HhhcCCCCCccccccccchhhhhhcccccccccccchhHhhhhccCCcchHHHHHHHHHHHHHHhCCCcEEEEEeeccCC
Q psy8162         175 ALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCG  254 (326)
Q Consensus       175 ~i~~~~~~~~~~~~i~~~~~~~k~~~~~~~~i~~~~~~~~~a~~n~~~~~~l~~~i~~~~~~l~~~~~~V~~~WVpgH~G  254 (326)
                      +|+.|...|....        |++.+             ..+++|.    +++++|    ..+.. +..|.|.|||||+|
T Consensus        85 ~i~~~~~~w~~~~--------w~~~~-------------~~~~~n~----~l~~~i----~~l~~-~~~v~~~~V~~H~g  134 (154)
T 2qkb_A           85 GITNWVQGWKKNG--------WKTSA-------------GKEVINK----EDFVAL----ERLTQ-GMDIQWMHVPGHSG  134 (154)
T ss_dssp             HHHTHHHHHHTTT--------SBCTT-------------SSBCTTH----HHHHHH----HHHHT-TCEEEEEECCTTSS
T ss_pred             hhhhhHHHHHhcc--------ccccC-------------CCccccH----HHHHHH----HHHHc-CCceEEEEccCCCC
Confidence            9998643211001        11100             1123332    344443    33332 56799999999999


Q ss_pred             CccchHHhHHhcCCCCcc
Q psy8162         255 IRGNEAVDEAARNPVNPA  272 (326)
Q Consensus       255 i~GNE~AD~LAk~Aa~~~  272 (326)
                      ++|||.||+||++|+..+
T Consensus       135 ~~~N~~AD~LA~~a~~~~  152 (154)
T 2qkb_A          135 FIGNEEADRLAREGAKQS  152 (154)
T ss_dssp             CHHHHHHHHHHHHHHTCC
T ss_pred             CHhHHHHHHHHHHHHHhc
Confidence            999999999999998754
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} SCOP: c.55.3.1 PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A Back     alignment and structure
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} Back     alignment and structure
>1jl1_A Ribonuclease HI; RNAse HI, protein stability, thermostability, hydrogen exchange, cooperativity, hydrolase; 1.30A {Escherichia coli} SCOP: c.55.3.1 PDB: 1f21_A 1jxb_A 1g15_A 1rch_A 1rdd_A 1rnh_A* 2rn2_A 1rda_A 1law_A 1rdb_A 1lav_A 3aa4_A 1rbu_A 1gob_A 1rdc_A 1kvc_A 3aa3_A 3aa2_A 3aa5_X 1rbv_A ... Back     alignment and structure
>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A Back     alignment and structure
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} Back     alignment and structure
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A Back     alignment and structure
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A Back     alignment and structure
>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A Back     alignment and structure
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} Back     alignment and structure
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis} Back     alignment and structure
>1mu2_A HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polymerase, drug design, transferase; 2.35A {Human immunodeficiency virus 2} SCOP: c.55.3.1 e.8.1.2 PDB: 1mu2_B Back     alignment and structure
>2zd1_A Reverse transcriptase/ribonuclease H; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} PDB: 3is9_A* 3irx_A* 2ze2_A* 3bgr_A* 3qlh_A* 3klf_A* 3qo9_A* 1dlo_A 1bqm_A 2be2_A* 1s6q_A* 1s6p_A* 1s9g_A* 1suq_A* 2b5j_A* 2b6a_A* 2ban_A* 1s9e_A* 1hni_A* 1hnv_A* ... Back     alignment and structure
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A Back     alignment and structure
>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans} SCOP: c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A 2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A* Back     alignment and structure
>4htu_A Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, W-C base PAIR, wobble base PAIR, D helix; HET: DNA UCL; 1.49A {Bacillus halodurans} PDB: 3d0p_A* 4hue_A* 4huf_A* 4hug_A* 1zbf_A 1zbi_A 2g8u_A 3uld_A* 3ey1_A* 3twh_A* 2g8f_A 2g8v_A 2g8w_A 2g8i_A 2g8h_A 2g8k_A 3i8d_A* 2r7y_A* 1zbl_A Back     alignment and structure
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2 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 326
d1mu2a1126 c.55.3.1 (A:430-555) HIV RNase H (Domain of revers 0.003
d1rila_147 c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermoph 0.004
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} Length = 126 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: HIV RNase H (Domain of reverse transcriptase)
species: Human immunodeficiency virus type 2 [TaxId: 11709]

 Score = 35.3 bits (80), Expect = 0.003
 Identities = 9/26 (34%), Positives = 14/26 (53%)

Query: 241 NKDVHFLWCPSHCGIRGNEAVDEAAR 266
            + ++  W P+H GI GN+ VD    
Sbjct: 98  KEAIYVAWVPAHKGIGGNQEVDHLVS 123
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Length = 147 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 ?
Query326
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 99.92
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 99.92
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 99.91
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 99.78
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 99.67
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} 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: HIV RNase H (Domain of reverse transcriptase)
species: Human immunodeficiency virus type 2 [TaxId: 11709]

Probab=99.92  E-value=7.9e-26  Score=186.04  Aligned_cols=119  Identities=24%  Similarity=0.330  Sum_probs=87.4

Q ss_pred             CCcEEEEecCCCCCCC--cccEEEEcCe-eEEeecCCCCchHHHHHHHHHHHHHHHHhCCCCeEEEEeChHHHHHHhhcC
Q psy8162         103 VNHTICYTDGSKTMNS--TSCAYSINDV-ISSSQLNPVNSIFSAELIAIYLCLEAITVHPSDHFLIVSDSRSALAALSNV  179 (326)
Q Consensus       103 ~~~i~IyTDGS~~~~~--~G~gvv~~~~-~~~~~l~~~~sv~~AEl~AI~~AL~~~~~~~~~~i~I~tDS~~ai~~i~~~  179 (326)
                      ++..++||||||..++  +|+|+++... .....+ ...|+++|||.||++||+.    ....+.|+|||++|+..++++
T Consensus         5 ~~~~t~YTDGS~~~n~~~~~~g~~~~~~~~~~~~~-~~~tnn~AEl~Ai~~al~~----~~~~i~I~tDS~~v~~~~~~~   79 (126)
T d1mu2a1           5 PGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKL-EQTTNQQAELEAFAMALTD----SGPKVNIIVDSQYVMGIVASQ   79 (126)
T ss_dssp             TTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-SSCCHHHHHHHHHHHHHHT----SCSEEEEEESCHHHHHHHHTC
T ss_pred             CCCcEEEEcCCCCCCCCcEEEEEEecCCCEEEEec-CCCcchHHHHHHHHHHhcc----CCcceEEEechHHHHHHHhcC
Confidence            3567899999998653  5677766543 233334 3578999999999999975    356899999999999999886


Q ss_pred             CCCCccccccccchhhhhhcccccccccccchhHhhhhccCCcchHHHHHHHHHHHHHHhCCCcEEEEEeeccCCCccch
Q psy8162         180 SFTNPLVSKVYSCWDLLKTLNKDVHFVLKPSQSALAALSNVSFTNPLVSKVYSCWDLLKTLNKDVHFLWCPSHCGIRGNE  259 (326)
Q Consensus       180 ~~~~~~~~~i~~~~~~~k~~~~~~~~i~~~~~~~~~a~~n~~~~~~l~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~GNE  259 (326)
                      ...+.  ...                                     +.+   .++.+. ....|.|.|||||+|++|||
T Consensus        80 ~~~~~--~~~-------------------------------------~~~---~~~~~~-~~~~v~~~wV~gH~g~~gNe  116 (126)
T d1mu2a1          80 PTESE--SKI-------------------------------------VNQ---IIEEMI-KKEAIYVAWVPAHKGIGGNQ  116 (126)
T ss_dssp             CSEES--CHH-------------------------------------HHH---HHHHHH-HCSEEEEEECCSSSCCTTHH
T ss_pred             Ccccc--chH-------------------------------------HHH---HHHHhh-hcceeEEEEEeCCCCCcchH
Confidence            54321  000                                     111   122333 34689999999999999999


Q ss_pred             HHhHHhcCCC
Q psy8162         260 AVDEAARNPV  269 (326)
Q Consensus       260 ~AD~LAk~Aa  269 (326)
                      .||+||++|+
T Consensus       117 ~AD~LA~~ai  126 (126)
T d1mu2a1         117 EVDHLVSQGI  126 (126)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHhhC
Confidence            9999999985
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 1 [TaxId: 11676]} Back     information, alignment and structure
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} Back     information, alignment and structure