Psyllid ID: psy16114

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200--
Protein Sequence
MCPKGNGFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLPHPPSLADDVEGVKSLFTYVTATPK
Secondary Structure (PSIPRED)
ccccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccEEEEEEccccccccccHHHHcccccccccccccccccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccHHccccccHHHHHcccccccccccHHHHHHHHHHHHHccc
Secondary Structure Prediction (SSPRO)
cccccHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcccEEEEEEEcccccccccHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHcccccHHHHHcccccccccccccccccEEEEccHHHHHHHHHHcccccHHccHHHHHHHHHHHHHccc
Coil and Loop (DISEMBL)
MCPKGNGFISALSALsnikftnplvskayscwdlltsnnkdvrfmwcpshcgirgnedvdqaarnptdldqlklcspddfkpLAASLVRKEWQdqwnlvpvtnklksikplitnwdtsnqenrtkEITLTRmrightrlthgfiftktdppncpcgehlsvrhILTCHRHAQiraslphppsladdveGVKSLFTYVTATPK
Flexible Loop (DISEMBL)
MCPKGNGFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPDDFKPLAASLVRKewqdqwnlvpvtnklksikplitnwdtsnqenrtkeitltrmrighTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLphppsladdveGVKSLFTYVTATPK
Low Complexity Region (SEG)
MCPKGNGFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLPHPPSLADDVEGVKSLFTYVTATPK
Disordered region (IsUnstruct)
******GFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDV*********LDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASL*********VEGVKSLFTYV*****
Disordered Region (DISOPRED)
MCPKGNGFISALSALS******PLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLP*********EGVKSLFTYVTAT**
Disordered Region (DISEMBL)
MCPKGNGFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLPHPPSLADDVEGVKSLFTYVTATPK
Disordered Region (DISPRO)
*C*KGNGFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLPHPPSLADDVEGVKSLFTYVTATPK
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MCPKGNGFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLPHPPSLADDVEGVKSLFTYVTATPK
Positional Conservation
no confident homologs detected

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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	Length	Definition	Q cover	H cover	Identity	E-value
Query	202
443695973	261	hypothetical protein CAPTEDRAFT_23017, p	0.772	0.597	0.415	2e-24
443693558	502	hypothetical protein CAPTEDRAFT_189741,	0.772	0.310	0.408	5e-24
443712830	397	hypothetical protein CAPTEDRAFT_202466 [	0.772	0.392	0.396	2e-22
443733872	400	hypothetical protein CAPTEDRAFT_197082 [	0.747	0.377	0.370	2e-22
125901787	1222	pol-like protein [Biomphalaria glabrata]	0.816	0.135	0.378	3e-22
443730613	233	hypothetical protein CAPTEDRAFT_206814 [	0.658	0.570	0.404	1e-20
443724607	397	hypothetical protein CAPTEDRAFT_208903 [	0.772	0.392	0.383	5e-20
443721618	471	hypothetical protein CAPTEDRAFT_200496,	0.811	0.348	0.362	2e-18
443682433	619	hypothetical protein CAPTEDRAFT_222606 [	0.851	0.277	0.32	3e-18
443694031	574	hypothetical protein CAPTEDRAFT_227918 [	0.549	0.193	0.412	3e-18

>gi|443695973|gb|ELT96755.1| hypothetical protein CAPTEDRAFT_23017, partial [Capitella teleta]

 Score =  117 bits (294), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 66/159 (41%), Positives = 91/159 (57%), Gaps = 3/159 (1%)

Query: 9   ISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD 68
           +S+L+ALSN   T+P +    +  + L    K V F+WCPSH GI GNE  D+ A+    
Sbjct: 101 LSSLTALSNCDITHPYLLSILTKQNNLVRKGKLVVFIWCPSHVGILGNEVADRLAKQALV 160

Query: 69  LDQLKLCSPD-DFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEI 127
           +   KL  P  D+K    S V+  WQ++W+     NKL SI+P+I+ W    Q +R  EI
Sbjct: 161 MPVTKLPLPHTDYKSPIRSYVKSLWQNEWD-EETDNKLHSIQPVISEWKQGPQIDRRGEI 219

Query: 128 TLTRMRIGHTRLTHGFIFTKTDPPNC-PCGEHLSVRHIL 165
            L R RIGH+ LTHG++  +   P C PC   LSV+HIL
Sbjct: 220 VLARARIGHSHLTHGYLLRREVAPFCIPCQSLLSVKHIL 258

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443693558|gb|ELT94903.1| hypothetical protein CAPTEDRAFT_189741, partial [Capitella teleta]

 Score =  116 bits (290), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 65/159 (40%), Positives = 91/159 (57%), Gaps = 3/159 (1%)

Query: 9   ISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD 68
           +S+L+ALSN   T+P +    +  + L    K V F+WCPSH GI GNE  D+ A+    
Sbjct: 147 LSSLTALSNCDITHPYLLSILTKQNNLVRKGKLVVFIWCPSHVGILGNEVADRLAKQALV 206

Query: 69  LDQLKLCSP-DDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEI 127
           +   KL  P  D+K    S V+  WQ++W+     NKL SI+P+I+ W    Q +R  EI
Sbjct: 207 MPVTKLPLPHTDYKSPIRSYVKSLWQNEWD-EETDNKLHSIQPVISEWKQGPQIDRRGEI 265

Query: 128 TLTRMRIGHTRLTHGFIFTKTDPPNC-PCGEHLSVRHIL 165
            L R RIGH+ LTHG++  +   P C PC   L+V+HIL
Sbjct: 266 VLARARIGHSHLTHGYLLRREVAPFCIPCQSLLTVKHIL 304

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443712830|gb|ELU05953.1| hypothetical protein CAPTEDRAFT_202466 [Capitella teleta]

 Score =  111 bits (278), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 63/159 (39%), Positives = 89/159 (55%), Gaps = 3/159 (1%)

Query: 9   ISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD 68
           +S+L+ALSN   T+P +    +  + L    K V F+WCPSH GI GNE  D+ A+    
Sbjct: 196 LSSLTALSNCDITHPYLLSILTKQNNLVRKGKKVVFIWCPSHVGILGNEVADRQAKQALV 255

Query: 69  LDQLKLCSPD-DFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEI 127
           +   KL  P  D+K    S V+  WQ++W+     NKL  I+P+I+ W    Q +R  EI
Sbjct: 256 MPVTKLPLPHTDYKSPIRSYVKSLWQNEWD-GETDNKLHIIQPVISEWKQGPQIDRRGEI 314

Query: 128 TLTRMRIGHTRLTHGFIFTKTDPPNC-PCGEHLSVRHIL 165
            L   RIGH+ LTHG++  +   P C PC   L+V+HIL
Sbjct: 315 VLACARIGHSHLTHGYLLRREVAPFCIPCQSLLTVKHIL 353

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443733872|gb|ELU18078.1| hypothetical protein CAPTEDRAFT_197082 [Capitella teleta]

 Score =  111 bits (277), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 57/154 (37%), Positives = 80/154 (51%), Gaps = 3/154 (1%)

Query: 14  ALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLK 73
            + N    +P V K      LL     D+   WCPSH G+ GNE  D  A+         
Sbjct: 73  GIGNFNIKHPYVVKILEKCTLLHKKGIDLVMTWCPSHVGVMGNERADLLAKEALSFTTCT 132

Query: 74  LCSPD-DFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRM 132
           +  P  DFKP+     +++WQ+QW+     NKL  I+P +  W  S++E R +EI L R 
Sbjct: 133 IRIPSSDFKPITHEFYKEKWQEQWS-SEQENKLYCIQPTLGKWAKSSREIRREEIVLARA 191

Query: 133 RIGHTRLTHGFIFTKTDPPNC-PCGEHLSVRHIL 165
           RIGH+ LTHG++  +  PP C PC   LS++HI 
Sbjct: 192 RIGHSHLTHGYLLRREMPPVCIPCQNILSIKHIF 225

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]

 Score =  110 bits (276), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 64/169 (37%), Positives = 91/169 (53%), Gaps = 4/169 (2%)

Query: 10   SALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDL 69
            SAL AL  +K   PLV K+    DL+T++ +DV F+W PSH GI GNE  D+ A+   + 
Sbjct: 1022 SALQALGRMKTDIPLVHKSLKLLDLITADRRDVTFIWVPSHVGIEGNEAADREAKRALNH 1081

Query: 70   DQLKLCSP-DDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEIT 128
                   P  D +   AS   +EWQ++W      +KL+ I   +    TS    R    T
Sbjct: 1082 AVSGTQIPYSDLRQSIASATYREWQNRWE-AETHSKLRQIVADVRWRPTSKGLTRRGSTT 1140

Query: 129  LTRMRIGHTRLTHGFIFTKTDPPNCP-CGEHLSVRHILT-CHRHAQIRA 175
            ++R+RIGHT +TH F+  + +PP C  C   L+V HIL  C R+  +RA
Sbjct: 1141 MSRLRIGHTYITHSFVLKREEPPLCEYCDSRLTVEHILVDCPRYQDVRA 1189

Source: Biomphalaria glabrata

Species: Biomphalaria glabrata

Genus: Biomphalaria

Family: Planorbidae

Class: Gastropoda

Phylum: Mollusca

Superkingdom: Eukaryota

>gi|443730613|gb|ELU16038.1| hypothetical protein CAPTEDRAFT_206814 [Capitella teleta]

 Score =  105 bits (262), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 55/136 (40%), Positives = 77/136 (56%), Gaps = 3/136 (2%)

Query: 32  WDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPD-DFKPLAASLVRK 90
           + +L +   D+  +WCPSH G+ GNE  D  A+         +  P  DF  +A S  R 
Sbjct: 71  YTILYNRGFDLVILWCPSHIGVVGNERADLLAKEALSFTACDVRIPAFDFNSVAYSFYRD 130

Query: 91  EWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDP 150
           +WQ  W+L    NKL S++P+I     S++E+R KEI L R RIGHT LTHG++  +  P
Sbjct: 131 KWQALWSL-EQNNKLHSVQPIIKKLTNSSREDRRKEIVLARARIGHTHLTHGYLLRRELP 189

Query: 151 PNCP-CGEHLSVRHIL 165
           P C  C   L+V+HIL
Sbjct: 190 PFCVHCQCPLTVKHIL 205

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443724607|gb|ELU12531.1| hypothetical protein CAPTEDRAFT_208903 [Capitella teleta]

 Score =  103 bits (256), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 61/159 (38%), Positives = 88/159 (55%), Gaps = 3/159 (1%)

Query: 9   ISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD 68
           +S+L+ALSN   T+P +    +  + L    K V F+WCPSH GI GNE  D+ A+    
Sbjct: 196 LSSLTALSNCDITHPYLLSILTKQNNLVRKGKLVVFIWCPSHVGILGNEVADRLAKQALV 255

Query: 69  LDQLKLCSPD-DFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEI 127
           +   KL  P  D+K    S V+   Q++W+     NKL +I+P+I+ W    Q +R  EI
Sbjct: 256 MPVTKLPLPHTDYKSPIRSYVKSLRQNEWD-EETDNKLHTIQPVISEWKQGPQIDRRGEI 314

Query: 128 TLTRMRIGHTRLTHGFIFTKTDPPNC-PCGEHLSVRHIL 165
            L    IGH+ LTHG++  +   P C PC   L+V+HIL
Sbjct: 315 VLACACIGHSHLTHGYLLRREVAPFCIPCQSLLTVKHIL 353

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443721618|gb|ELU10867.1| hypothetical protein CAPTEDRAFT_200496, partial [Capitella teleta]

 Score = 98.2 bits (243), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 62/171 (36%), Positives = 88/171 (51%), Gaps = 7/171 (4%)

Query: 9   ISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAAR---N 65
           +SA+ A+  +   +P V +       ++   K V FMWCPSH GI GNE  D  A+   +
Sbjct: 86  LSAIMAIHGMDVRHPYVLQVLYAIKSISQQEKIVVFMWCPSHVGIPGNEMADTLAKEALS 145

Query: 66  PTDLDQLKLCSPDDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTK 125
            T+L +L + +  D + L    +R  WQ +W+    +NKL SI P I  W    +E R +
Sbjct: 146 STNLAELPVPA-SDLRCLIKKYIRSRWQHEWD-EQHSNKLHSIHPTIGPWPPCQREKRRE 203

Query: 126 EITLTRMRIGHTRLTHGFIFTKTDPPNC-PCGEHLSVRHILT-CHRHAQIR 174
           EI L R+RIGHT  TH +I    D   C  C   L+V+HI+  C     IR
Sbjct: 204 EIVLARIRIGHTHYTHDYIPRGDDQTECVACVCPLTVQHIIIECADFLHIR 254

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443682433|gb|ELT87030.1| hypothetical protein CAPTEDRAFT_222606 [Capitella teleta]

 Score = 97.4 bits (241), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 56/175 (32%), Positives = 86/175 (49%), Gaps = 3/175 (1%)

Query: 9   ISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD 68
            S++ A+S+I   +  V         L   +K + F+WCPSH GI GNE  D  A+  + 
Sbjct: 61  FSSILAISSIDLIHSYVQSILQKCTNLAGRDKRIIFIWCPSHVGIPGNETADTLAQQASG 120

Query: 69  LDQLKLCSP-DDFKPLAASLVRKEWQDQWNLVPVTNKLKSIKPLITNWDTSNQENRTKEI 127
           ++ L    P  DFKP+  S V  +WQ + +     NKL  I+P I +W    +E R  EI
Sbjct: 121 MNILNCPIPHTDFKPITRSFVETQWQSESDQ-ETGNKLHDIEPDIGSWPPCQREKRRDEI 179

Query: 128 TLTRMRIGHTRLTHGFIFTKTDPPNCPCGEHLSVRHILTCHRHAQIRASLPHPPS 182
            + R+RIGHT LT+  + +  D P C  G   + R ++  +    ++    H P 
Sbjct: 180 VIARLRIGHTFLTYSHLLSGNDAPMC-YGCDCTFRAVVATNTGTLVKQEYGHIPG 233

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443694031|gb|ELT95266.1| hypothetical protein CAPTEDRAFT_227918 [Capitella teleta]

 Score = 97.1 bits (240), Expect = 3e-18,   Method: Compositional matrix adjust.
 Identities = 47/114 (41%), Positives = 65/114 (57%), Gaps = 3/114 (2%)

Query: 44  FMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSPD-DFKPLAASLVRKEWQDQWNLVPVT 102
             WCPSH G+ GNE  D  A+         +  P  DFKP+     +++WQ+QW+     
Sbjct: 1   MAWCPSHVGVMGNERADLLAKEALSFTTCTIRIPSSDFKPITHEFFKEKWQEQWS-SEQE 59

Query: 103 NKLKSIKPLITNWDTSNQENRTKEITLTRMRIGHTRLTHGFIFTKTDPPNC-PC 155
           NKL SI+P +  W  S++E R +EI L R RIGH+ LTHG++  +  PP C PC
Sbjct: 60  NKLYSIQPTLGKWAKSSREIRREEIVLARARIGHSHLTHGYLVRREMPPVCIPC 113

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	202
ASPGD|ASPL0000075333	486	AN10625 [Emericella nidulans (	0.777	0.323	0.284	7.4e-08

ASPGD|ASPL0000075333 AN10625 [Emericella nidulans (taxid:162425)]

 Score = 141 (54.7 bits), Expect = 7.4e-08, P = 7.4e-08
 Identities = 50/176 (28%), Positives = 78/176 (44%)

Query:    41 DVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLK-----LCSPDDFKPLAASLVRKEWQDQ 95
             +V F W P+H G+ GNE  D+ A+  T   +++     +      K  A  +V   W++ 
Sbjct:   285 NVHFRWIPAHRGVEGNEQADRRAKEATGWRRIRGHRGRMTIRSAVKRRAHEVVNARWEND 344

Query:    96 WNLVPVTNKLKSIKPLITNWDTS-NQE-NRTKEITLTRMRIGHTRLTHGFIFTK--TDPP 151
             W       +L  + P  T      +Q+ +R     + +MR G   L H +++ +   D P
Sbjct:   345 WKSCHHGRELYELTPTPTRKVLRVHQDLHRALSTIIVQMRTGKIGLRH-YLYQRGVPDVP 403

Query:   152 N--CPCGEHL-SVRHIL-TCHRHAQIRASLPHPPSLADDVEG-VKSLFTYVTATPK 202
             N  C CG    SVRHIL  C   + +R  +    S   + EG VK +F     TPK
Sbjct:   404 NSDCQCGRATQSVRHILLACPTFSGLREEIFGGRSGGPEGEGSVKKIFN----TPK 455


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.320   0.134   0.433    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      202       202   0.00090  111 3  11 22  0.48    32
                                                     31  0.46    35


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  1
  No. of states in DFA:  616 (65 KB)
  Total size of DFA:  198 KB (2111 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:01
  No. of threads or processors used:  24
  Search cpu time:  19.79u 0.08s 19.87t   Elapsed:  00:00:07
  Total cpu time:  19.79u 0.08s 19.87t   Elapsed:  00:00:08
  Start:  Thu Aug 15 11:58:00 2013   End:  Thu Aug 15 11:58:08 2013

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

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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

No EC number assignment, probably not an enzyme!

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	202
cd09276	128	cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom	2e-15
pfam00075	126	pfam00075, RNase_H, RNase H	1e-07

>gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse transcriptases

 Score = 69.2 bits (170), Expect = 2e-15
 Identities = 20/55 (36%), Positives = 30/55 (54%)

Query: 10  SALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAAR 64
           +AL AL + + ++PLV +       L ++   VR  W P H GI GNE  D+ A+
Sbjct: 70  AALKALRSPRSSSPLVLRIRKAIRELANHGVKVRLHWVPGHSGIEGNERADRLAK 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

 Score = 48.4 bits (116), Expect = 1e-07
 Identities = 15/55 (27%), Positives = 23/55 (41%), Gaps = 4/55 (7%)

Query: 10  SALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAAR 64
              +       + P+ ++    W+LL      V   W P H GI GNE  D+ A+
Sbjct: 72  GITNGWPTKSESKPIKNE---IWELL-QKKHKVYIQWVPGHSGIPGNELADKLAK 122

RNase H digests the RNA strand of an RNA/DNA hybrid. Important enzyme in retroviral replication cycle, and often found as a domain associated with reverse transcriptases. Structure is a mixed alpha+beta fold with three a/b/a layers. Length = 126

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	202
PRK08719	147	ribonuclease H; Reviewed	99.14
PRK06548	161	ribonuclease H; Provisional	99.09
PF00075	132	RNase_H: RNase H; InterPro: IPR002156 The RNase H	99.05
PRK00203	150	rnhA ribonuclease H; Reviewed	99.03
cd06222	130	RnaseH RNase H (RNase HI) is an endonuclease that	98.75
COG0328	154	RnhA Ribonuclease HI [DNA replication, recombinati	98.44
KOG3752|consensus	371		97.77
PF13966	86	zf-RVT: zinc-binding in reverse transcriptase	96.8
PRK13907	128	rnhA ribonuclease H; Provisional	96.73
PF13456	87	RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH	96.51
PRK07238	372	bifunctional RNase H/acid phosphatase; Provisional	94.76
PRK07708	219	hypothetical protein; Validated	94.1

>PRK08719 ribonuclease H; Reviewed

Probab=99.14  E-value=6.1e-11  Score=90.37  Aligned_cols=60  Identities=22%  Similarity=0.236  Sum_probs=48.3

Q ss_pred             ChHHHHHHH--------Hcc---cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCC
Q psy16114          7 GFISALSAL--------SNI---KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPT   67 (202)
Q Consensus         7 ~s~sal~al--------~~~---~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~   67 (202)
                      ||+-++++|        +|.   +.+.|+. .++++.+..|.. ...|+|.|||||+|++|||.||+||+.+.
T Consensus        74 DS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~~-~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~  145 (147)
T PRK08719         74 DSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELRA-RKYVEVEKVTAHSGIEGNEAADMLAQAAA  145 (147)
T ss_pred             chHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHhC-CCcEEEEEecCCCCChhHHHHHHHHHHHh
Confidence            899999998        444   3344543 468888888876 56799999999999999999999999654

>PRK06548 ribonuclease H; Provisional

Probab=99.09  E-value=1.5e-10  Score=89.30  Aligned_cols=60  Identities=23%  Similarity=0.365  Sum_probs=51.6

Q ss_pred             ChHHHHHHHH---------cc--cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCC
Q psy16114          7 GFISALSALS---------NI--KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPT   67 (202)
Q Consensus         7 ~s~sal~al~---------~~--~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~   67 (202)
                      ||+-++++|.         ++  .+|+|+. +++++.+..+... ..|+|.|||||+|++|||.||+||+.+.
T Consensus        69 DS~yvi~~i~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa  140 (161)
T PRK06548         69 DSKYVINSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAA  140 (161)
T ss_pred             ChHHHHHHHHHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHH
Confidence            8999999999         33  6788877 6788888888765 5799999999999999999999999644

>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

Probab=99.05  E-value=5.7e-11  Score=88.00  Aligned_cols=56  Identities=30%  Similarity=0.547  Sum_probs=43.0

Q ss_pred             ChHHHHHHHHc-----c---cCCC-HHHHHHHHHHHHHHhCCCceEEEEecccCCC-ccchhhhhhhcCC
Q psy16114          7 GFISALSALSN-----I---KFTN-PLVSKAYSCWDLLTSNNKDVRFMWCPSHCGI-RGNEDVDQAARNP   66 (202)
Q Consensus         7 ~s~sal~al~~-----~---~~~~-~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI-~GNE~AD~~Ak~a   66 (202)
                      ||++++++|..     .   .+.. ++..+|++.+    ..+..|.|.|||||+|+ .|||.||+|||.+
T Consensus        65 DS~~v~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~----~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a  130 (132)
T PF00075_consen   65 DSQYVLNALNKWLHGNGWKKTSNGRPIKNEIWELL----SRGIKVRFRWVPGHSGVPQGNERADRLAKEA  130 (132)
T ss_dssp             S-HHHHHHHHTHHHHTTSBSCTSSSBHTHHHHHHH----HHSSEEEEEESSSSSSSHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHhccccccccccccccchhheeecc----ccceEEeeeeccCcCCCchhHHHHHHHHHHh
Confidence            89999998877     2   2222 4666665554    45899999999999999 6999999999853

This domain is a part of a large family of homologous RNase H enzymes of which the RNase HI protein from Escherichia coli is the best characterised []. Secondary structure predictions for the enzymes from E. coli, yeast, human liver and diverse retroviruses (such as Rous sarcoma virus and the Foamy viruses) supported, in every case, the five beta-strands (1 to 5) and four or five alpha-helices (A, B/C, D, E) that have been identified by crystallography in the RNase H domain of Human immunodeficiency virus 1 (HIV-1) reverse transcriptase and in E. coli RNase H []. Reverse transcriptase (RT) is a modular enzyme carrying polymerase and ribonuclease H (RNase H) activities in separable domains. Reverse transcriptase (RT) converts the single-stranded RNA genome of a retrovirus into a double-stranded DNA copy for integration into the host genome. This process requires ribonuclease H as well as RNA- and DNA-directed DNA polymerase activities. Retroviral RNase H is synthesised as part of the POL polyprotein that contains; an aspartyl protease, a reverse transcriptase, RNase H and integrase. POL polyprotein undergoes specific enzymatic cleavage to yield the mature proteins. Bacterial RNase H 3.1.26.4 from EC catalyses endonucleolytic cleavage to 5'-phosphomonoester acting on RNA-DNA hybrids. The 3D structure of the RNase H domain from diverse bacteria and retroviruses has been solved [, , ]. All have four beta strands and four to five alpha helices. The E. coli RNase H1 protein binds a single Mg2+ ion cofactor in the active site of the enzyme. The divalent cation is bound by the carboxyl groups of four acidic residues, Asp-10, Glu-48, Asp-70, and Asp-134 []. The first three acidic residues are highly conserved in all bacterial and retroviral RNase H sequences. ; GO: 0003676 nucleic acid binding, 0004523 ribonuclease H activity; PDB: 3LP3_B 2KW4_A 3P1G_A 1RIL_A 2RPI_A 4EQJ_G 4EP2_B 3OTY_P 3U3G_D 2ZQB_D ....

>PRK00203 rnhA ribonuclease H; Reviewed

Probab=99.03  E-value=1.8e-10  Score=88.06  Aligned_cols=62  Identities=16%  Similarity=0.276  Sum_probs=47.9

Q ss_pred             ChHHHHHHHHc---------c--cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCCC
Q psy16114          7 GFISALSALSN---------I--KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDL   69 (202)
Q Consensus         7 ~s~sal~al~~---------~--~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~~   69 (202)
                      ||+.++++|..         .  +.|.|+. .++++.+..+.. ...|.|.|||||+|++|||.||+|||.+...
T Consensus        69 DS~yvi~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~-~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~  142 (150)
T PRK00203         69 DSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALK-RHQIKWHWVKGHAGHPENERCDELARAGAEE  142 (150)
T ss_pred             CHHHHHHHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHhc-cCceEEEEecCCCCCHHHHHHHHHHHHHHHH
Confidence            88889998885         2  3566654 346666666653 4789999999999999999999999966543

>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

Probab=98.75  E-value=2.7e-08  Score=71.46  Aligned_cols=60  Identities=27%  Similarity=0.348  Sum_probs=49.0

Q ss_pred             ChHHHHHHHHcccC-CCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114          7 GFISALSALSNIKF-TNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus         7 ~s~sal~al~~~~~-~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      ||..++..+.+... ..+.....+..+..+......++|.|||+|+|+.+|+.||.+||.+
T Consensus        69 Ds~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~  129 (130)
T cd06222          69 DSQYVINALTGWYEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKEA  129 (130)
T ss_pred             CHHHHHHHhhccccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhh
Confidence            88999999998833 4445555666666666788999999999999999999999999864

One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. The retroviral reverse transcriptase contains an RNase H domain that plays an important role in converting a single stranded retroviral genomic RNA into a dsDNA for integration into host chromosomes. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription.

>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]

Probab=98.44  E-value=2.2e-07  Score=70.89  Aligned_cols=43  Identities=28%  Similarity=0.392  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCC
Q psy16114         26 SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD   68 (202)
Q Consensus        26 ~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~   68 (202)
                      .+.++.+.++...-..|.+.|||||.|.++||.||+||+.++.
T Consensus       102 ~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~  144 (154)
T COG0328         102 KDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAAR  144 (154)
T ss_pred             HHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHH
Confidence            3578888888877779999999999999999999999996544

>KOG3752|consensus

Probab=97.77  E-value=2.9e-05  Score=66.57  Aligned_cols=29  Identities=41%  Similarity=0.539  Sum_probs=26.9

Q ss_pred             CCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114         38 NNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus        38 ~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      ++..|++.|||||.||.|||+||.+|+..
T Consensus       334 ~~~~vq~~~V~Gh~gi~gne~Ad~lARkg  362 (371)
T KOG3752|consen  334 SNKKVQQEYVGGHSGILGNEMADALARKG  362 (371)
T ss_pred             ccCceEEEEecCcCCcchHHHHHHHHhhh
Confidence            47899999999999999999999999954

>PF13966 zf-RVT: zinc-binding in reverse transcriptase

Probab=96.80  E-value=0.00062  Score=46.85  Aligned_cols=30  Identities=23%  Similarity=0.472  Sum_probs=24.8

Q ss_pred             ccccCCCCCCCcc-CCC-CCcccccc-cccccH
Q psy16114        142 GFIFTKTDPPNCP-CGE-HLSVRHIL-TCHRHA  171 (202)
Q Consensus       142 ~~~~~~~~~~~C~-Cg~-~et~~H~l-~Cp~~~  171 (202)
                      +.+.+...++.|. |+. .||++|+| .||...
T Consensus        51 l~~r~~~~~~~C~~C~~~~Et~~Hlf~~C~~a~   83 (86)
T PF13966_consen   51 LQRRGIQVDPICPLCGNEEETIEHLFFHCPFAR   83 (86)
T ss_pred             hhccCCccCCccccCCCccccccceeccCcCcc
Confidence            3456667889999 995 89999999 999764

>PRK13907 rnhA ribonuclease H; Provisional

Probab=96.73  E-value=0.0038  Score=45.96  Aligned_cols=57  Identities=16%  Similarity=0.055  Sum_probs=41.2

Q ss_pred             ChHHHHHHHHcccCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCC
Q psy16114          7 GFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPT   67 (202)
Q Consensus         7 ~s~sal~al~~~~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~   67 (202)
                      ||+-.+.+|.+.....+-....++.+..|..+-..+.|.|||.+    +|+.||.+|+.+.
T Consensus        69 DS~~vi~~~~~~~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~----~N~~Ad~LA~~a~  125 (128)
T PRK13907         69 DSQLVERAVEKEYAKNKMFAPLLEEALQYIKSFDLFFIKWIPSS----QNKVADELARKAI  125 (128)
T ss_pred             chHHHHHHHhHHHhcChhHHHHHHHHHHHHhcCCceEEEEcCch----hchhHHHHHHHHH
Confidence            78888888877522233445556666666666667888999995    9999999998653

>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B

Probab=96.51  E-value=0.0034  Score=42.32  Aligned_cols=55  Identities=13%  Similarity=0.013  Sum_probs=40.2

Q ss_pred             ChHHHHHHHHcccCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcC
Q psy16114          7 GFISALSALSNIKFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARN   65 (202)
Q Consensus         7 ~s~sal~al~~~~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~   65 (202)
                      ||+.++.+|.+.......+..+...+..+...-.++.|.|||-    ++|..||.+||.
T Consensus        29 Ds~~vv~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~r----~~N~~A~~LA~~   83 (87)
T PF13456_consen   29 DSQLVVDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIPR----EQNKVADALAKF   83 (87)
T ss_dssp             S-HHHHHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--G----GGSHHHHHHHHH
T ss_pred             cCccccccccccccccccccccchhhhhhhccccceEEEEECh----HHhHHHHHHHHH
Confidence            8999999999883332256667777777777888899999995    589999999984

>PRK07238 bifunctional RNase H/acid phosphatase; Provisional

Probab=94.76  E-value=0.069  Score=46.51  Aligned_cols=56  Identities=20%  Similarity=0.232  Sum_probs=40.6

Q ss_pred             ChHHHHHHHHcc-cCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114          7 GFISALSALSNI-KFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus         7 ~s~sal~al~~~-~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      ||.-.++.+.+. +..++-+...+..+..|...-..++|.|||.    .+|+.||.+|+.+
T Consensus        73 DS~lvi~~i~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~a  129 (372)
T PRK07238         73 DSKLVVEQMSGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANEA  129 (372)
T ss_pred             CcHHHHHHhCCCCccCChHHHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHHH
Confidence            677777777654 3344555555556666766667899999998    5899999999943

>PRK07708 hypothetical protein; Validated

Probab=94.10  E-value=0.096  Score=42.50  Aligned_cols=58  Identities=12%  Similarity=0.045  Sum_probs=37.1

Q ss_pred             ChHHHHHHHHcc-cCCCHHHHHHHHHHHH-HHhCCCceEEEEecccCCCccchhhhhhhcCCCC
Q psy16114          7 GFISALSALSNI-KFTNPLVSKAYSCWDL-LTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD   68 (202)
Q Consensus         7 ~s~sal~al~~~-~~~~~~~~~i~~~~~~-l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~   68 (202)
                      ||+-.+..+..- +..++.....++.+.. +..-...+.+.|||-.    -|+.||.||+.+..
T Consensus       148 DSqlVi~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~----~N~~AD~LAk~Al~  207 (219)
T PRK07708        148 DSQVVLNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRK----QNKEADQLATQALE  207 (219)
T ss_pred             ccHHHHHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCch----hhhHHHHHHHHHHh
Confidence            666666666665 4444444444444443 3333455788999864    69999999997654

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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	Length	Definition	E-value
Query	202
2kq2_A	147	Ribonuclease H-related protein; PSI, NESG, protein	4e-05

>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

 Score = 41.2 bits (97), Expect = 4e-05
 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 2/53 (3%)

Query: 21  TNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLK 73
                ++AY    L+        F    +H G   N+ VD  A++   +  L+
Sbjct: 91  AKNEFTQAY--AKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKSALGIRDLE 141

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	202
3qio_A	150	GAG-POL polyprotein; RNAse H, inhibitor, nuclease,	99.17
3h08_A	146	RNH (ribonuclease H); RNAse H, 3D-structure, endon	99.04
2qkb_A	154	Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy	99.03
1jl1_A	155	Ribonuclease HI; RNAse HI, protein stability, ther	99.01
2e4l_A	158	Ribonuclease HI, RNAse HI; hydrolase, endoribonucl	98.96
3p1g_A	165	Xenotropic murine leukemia virus-related virus (X	98.93
2kq2_A	147	Ribonuclease H-related protein; PSI, NESG, protein	98.91
1ril_A	166	Ribonuclease H; hydrolase(endoribonuclease); 2.80A	98.87
1mu2_A	555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	98.77
2zd1_A	557	Reverse transcriptase/ribonuclease H; P51/P66, het	98.77
2lsn_A	165	Reverse transcriptase; RNAse H, viral protein; NMR	98.47
3hst_B	141	Protein RV2228C/MT2287; ribonuclease H1, RV2228C N	98.28
3u3g_D	140	Ribonuclease H, RNAse H1; hydrolase, cleave the RN	98.16
2ehg_A	149	Ribonuclease HI; RNAse HI, hyperthermophilic archa	97.93

>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

Probab=99.17  E-value=1.9e-11  Score=92.32  Aligned_cols=63  Identities=22%  Similarity=0.276  Sum_probs=43.9

Q ss_pred             CChHHHHHHHHcc-----------cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCC
Q psy16114          6 NGFISALSALSNI-----------KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD   68 (202)
Q Consensus         6 ~~s~sal~al~~~-----------~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~   68 (202)
                      -||+.++++|...           ..+.|.. .++++.+..+..+...|.|.|||||+|++|||.||+||+.+..
T Consensus        72 tDS~~v~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~  146 (150)
T 3qio_A           72 TDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIR  146 (150)
T ss_dssp             ESCHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCHHHHHHHHHHHTTTS
T ss_pred             eCcHHHHHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCChhHHHHHHHHHHHHH
Confidence            3888899988875           2333322 2344444433346788999999999999999999999998765

>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum}

Probab=99.04  E-value=1.4e-10  Score=86.92  Aligned_cols=56  Identities=16%  Similarity=0.048  Sum_probs=39.6

Q ss_pred             CChHHHHHHHHc-c-----------cCC-----CHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114          6 NGFISALSALSN-I-----------KFT-----NPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus         6 ~~s~sal~al~~-~-----------~~~-----~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      -||+.++++|.. .           ..+     +.++.+|...+.     ...|+|.|||||+|++|||.||+|||.+
T Consensus        69 tDS~~vi~~i~~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~-----~~~v~~~~V~gH~g~~~N~~AD~LA~~a  141 (146)
T 3h08_A           69 SDSAYLVNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTT-----LHRVTFHKVKGHSDNPYNSRADELARLA  141 (146)
T ss_dssp             ESCHHHHHHHHSSHHHHHHHTTCC----CCCTTHHHHHHHHHHHH-----HSEEEEEECCC-CCSHHHHHHHHHHHHH
T ss_pred             eChHHHHHHHHHHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHh-----hCceEEEEcCCcCCcHhHHHHHHHHHHH
Confidence            389999999887 1           122     234444444333     2469999999999999999999999954

>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A*

Probab=99.03  E-value=8.9e-11  Score=88.78  Aligned_cols=61  Identities=23%  Similarity=0.473  Sum_probs=43.7

Q ss_pred             ChHHHHHHHHcc-----------cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCC
Q psy16114          7 GFISALSALSNI-----------KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD   68 (202)
Q Consensus         7 ~s~sal~al~~~-----------~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~   68 (202)
                      ||+.++++|...           ..+.|.. .++++.+..+.. +..|.|.|||||+|++|||.||+|||.+..
T Consensus        78 DS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~-~~~v~~~~V~~H~g~~~N~~AD~LA~~a~~  150 (154)
T 2qkb_A           78 NSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ-GMDIQWMHVPGHSGFIGNEEADRLAREGAK  150 (154)
T ss_dssp             SCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT-TCEEEEEECCTTSSCHHHHHHHHHHHHHHT
T ss_pred             CcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc-CCceEEEEccCCCCCHhHHHHHHHHHHHHH
Confidence            889999998863           2232221 234444454543 567999999999999999999999996543

>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 ...

Probab=99.01  E-value=1.4e-10  Score=87.89  Aligned_cols=65  Identities=15%  Similarity=0.242  Sum_probs=46.4

Q ss_pred             CChHHHHHHHHcc-----------cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCCCCc
Q psy16114          6 NGFISALSALSNI-----------KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQ   71 (202)
Q Consensus         6 ~~s~sal~al~~~-----------~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~~~~   71 (202)
                      -||+.++++|...           .+|.|+. .++++.+..+.. ...|.|.|||||+|++|||.||+|||.+...+.
T Consensus        69 tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~~  145 (155)
T 1jl1_A           69 TDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALG-QHQIKWEWVKGHAGHPENERADELARAAAMNPT  145 (155)
T ss_dssp             ECCHHHHHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTT-TCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCC
T ss_pred             eCHHHHHHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHc-cCceEEEEcCCCCCCHHHHHHHHHHHHHHhccc
Confidence            3899999999861           2233321 234444555543 468999999999999999999999997655443

>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A

Probab=98.96  E-value=4.5e-10  Score=85.35  Aligned_cols=63  Identities=17%  Similarity=0.243  Sum_probs=44.8

Q ss_pred             CChHHHHHHHHc--------c---cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCCC
Q psy16114          6 NGFISALSALSN--------I---KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDL   69 (202)
Q Consensus         6 ~~s~sal~al~~--------~---~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~~   69 (202)
                      -||+.++++|..        .   ..+.+.. .++++.+..+.. +..|.|.|||||+|++|||.||+|||.+...
T Consensus        71 tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~  145 (158)
T 2e4l_A           71 SDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQ-LHQIDWRWVKGHAGHAENERCDQLARAAAEA  145 (158)
T ss_dssp             ECCHHHHHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHT-TSEEEEEECCTTCCCHHHHHHHHHHHHHHHS
T ss_pred             eCHHHHHHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHc-cCcEEEEEccCCCCchhHHHHHHHHHHHHHh
Confidence            389999999988        1   2233321 134444454543 4689999999999999999999999965543

>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

Probab=98.93  E-value=3.5e-10  Score=86.68  Aligned_cols=62  Identities=23%  Similarity=0.225  Sum_probs=45.1

Q ss_pred             CChHHHHHHHHcccCCCHHH-HHHHHHH-HHHHhCCCceEEEEecccCC-----CccchhhhhhhcCCCC
Q psy16114          6 NGFISALSALSNIKFTNPLV-SKAYSCW-DLLTSNNKDVRFMWCPSHCG-----IRGNEDVDQAARNPTD   68 (202)
Q Consensus         6 ~~s~sal~al~~~~~~~~~~-~~i~~~~-~~l~~~~~~i~l~WvPgH~g-----I~GNE~AD~~Ak~a~~   68 (202)
                      -||+.++++|...+.+.|+. .+.++.+ ..+. .+..|.|.|||||+|     ++|||.||+|||.+..
T Consensus        87 tDS~~vi~~iw~~~~g~~v~n~dl~~~l~~~l~-~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~aa~  155 (165)
T 3p1g_A           87 TDSRYAFATAHVHSEGREIKNKNEILALLKALF-LPKRLSIIHCPGHQKGNSAEARGNRMADQAAREAAM  155 (165)
T ss_dssp             ECCHHHHHHHHSCCCSCCCSSHHHHHHHHHHTT-SBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHHHHH
T ss_pred             EchHHHHhhhhcccCCCcccCHHHHHHHHHHHh-cCCceEEEEecCCCCCCcCcchHHHHHHHHHHHHHh
Confidence            48899999986545555532 1323333 3343 678999999999999     9999999999996543

>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

Probab=98.91  E-value=4.2e-11  Score=90.12  Aligned_cols=43  Identities=16%  Similarity=0.127  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCCC
Q psy16114         24 LVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDL   69 (202)
Q Consensus        24 ~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~~   69 (202)
                      ......+.+..|..   .|.|.|||||+|++|||.||+|||.+...
T Consensus        95 ~~~~~~~l~~~l~~---~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~  137 (147)
T 2kq2_A           95 FTQAYAKLMNQYRG---IYSFEKVKAHSGNEFNDYVDMKAKSALGI  137 (147)
T ss_dssp             HHHHHHCGGGGGST---TCCBCCCCCCCCCHHHHHHHHHHHHHHTC
T ss_pred             chHHHHHHHHHhcC---CeeEEEecCcCCCcchHHHHHHHHHHHhc
Confidence            33444555555543   89999999999999999999999965543

>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A

Probab=98.87  E-value=6.9e-10  Score=85.06  Aligned_cols=62  Identities=23%  Similarity=0.277  Sum_probs=44.7

Q ss_pred             CChHHHHHHHHc----------c--cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCC
Q psy16114          6 NGFISALSALSN----------I--KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTD   68 (202)
Q Consensus         6 ~~s~sal~al~~----------~--~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~   68 (202)
                      -||+.++.+|..          .  +++.++. .++++.+..+.. ...|.|.|||||+|++|||.||+|||.+..
T Consensus        73 tDS~~vi~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~-~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~  147 (166)
T 1ril_A           73 TDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMA-PHRVRFHFVKGHTGHPENERVDREARRQAQ  147 (166)
T ss_dssp             CCCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHT-TSEEECCCCCGGGSCTHHHHHHHHHHHHHT
T ss_pred             eChHHHHHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHh-cCeEEEEEeeCCCCchhHHHHHHHHHHHHH
Confidence            489999999988          2  2333321 234444555543 468999999999999999999999995443

>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

Probab=98.77  E-value=7.5e-09  Score=93.19  Aligned_cols=56  Identities=18%  Similarity=0.381  Sum_probs=46.0

Q ss_pred             ChHHHHHHHHcc--cCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114          7 GFISALSALSNI--KFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus         7 ~s~sal~al~~~--~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      ||+-++++|...  .+++++..++.+.   +. .+..|.|.|||||+|++|||.||+|||.+
T Consensus       497 DS~~v~~~i~~~~~~~~~~l~~~~~~~---~~-~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a  554 (555)
T 1mu2_A          497 DSQYVMGIVASQPTESESKIVNQIIEE---MI-KKEAIYVAWVPAHKGIGGNQEVDHLVSQG  554 (555)
T ss_dssp             SCHHHHHHHHTCCSEESCHHHHHHHHH---HH-HCSEEEEEECCSSSCCTTHHHHHHHHHTT
T ss_pred             ehHHHHHHHhcccccccHHHHHHHHHH---hc-cCCcEEEEEEECCCCChhHHHHHHHHHhh
Confidence            899999999976  4677776655443   32 36789999999999999999999999976

>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* ...

Probab=98.77  E-value=5.1e-09  Score=94.29  Aligned_cols=56  Identities=30%  Similarity=0.436  Sum_probs=44.1

Q ss_pred             ChHHHHHHHHcc--cCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114          7 GFISALSALSNI--KFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus         7 ~s~sal~al~~~--~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      ||+.++++|...  ++++++..++.+.   +.. ...|.|.|||||+|++|||.||+|||.+
T Consensus       500 DS~~vi~~i~~~~~~~~~~l~~~~~~~---l~~-~~~v~~~wV~~H~g~~~Ne~AD~LA~~a  557 (557)
T 2zd1_A          500 DSQYALGIIQAQPDKSESELVNQIIEQ---LIK-KEKVYLAWVPAHKGIGGNEQVDKLVSAG  557 (557)
T ss_dssp             CCHHHHHHHTTCCSEESSHHHHHHHHH---HHH-CSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred             ChHHHHHHHhcCCccCCHHHHHHHHHH---Hhc-CCCEEEEEcCCCCCChhHHHHHHHHhcC
Confidence            899999999987  5578887766544   333 4579999999999999999999999864

>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus}

Probab=98.47  E-value=5.6e-08  Score=74.33  Aligned_cols=39  Identities=18%  Similarity=0.127  Sum_probs=29.7

Q ss_pred             HHHHHHHHHhCCCceEEEEecccCCC------ccchhhhhhhcCC
Q psy16114         28 AYSCWDLLTSNNKDVRFMWCPSHCGI------RGNEDVDQAARNP   66 (202)
Q Consensus        28 i~~~~~~l~~~~~~i~l~WvPgH~gI------~GNE~AD~~Ak~a   66 (202)
                      .++.+..+......|+|.|||||+|+      +|||+||+||+.+
T Consensus       116 L~~~l~~~~~~~~~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~g  160 (165)
T 2lsn_A          116 KWKSIAECLSMKPDITIQHEKGHQPTNTSIHTEGNALADKLATQG  160 (165)
T ss_dssp             HHHHHHHHHHHCTTCEEEECCSSSCSSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCCEEEEEEeCCCCccCCCCChHHHHHHHHHHHh
Confidence            44445544444568999999999996      5899999999853

>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis}

Probab=98.28  E-value=1.4e-06  Score=63.97  Aligned_cols=58  Identities=21%  Similarity=0.290  Sum_probs=49.0

Q ss_pred             CChHHHHHHHHcc-cCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCC
Q psy16114          6 NGFISALSALSNI-KFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPT   67 (202)
Q Consensus         6 ~~s~sal~al~~~-~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~   67 (202)
                      -||+.++++|... +..++.+..+++.+..+......|+|.|||+    +|||.||+|||.+.
T Consensus        73 tDS~~vv~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~~----~~N~~AD~LA~~a~  131 (141)
T 3hst_B           73 MDSKLVVEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVPR----ARNTYADRLANDAM  131 (141)
T ss_dssp             ESCHHHHHHHTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECCG----GGCHHHHHHHHHHH
T ss_pred             eChHHHHHHHhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcCC----cccHHHHHHHHHHH
Confidence            3899999999886 6777777788888888887778999999996    79999999999543

>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism}

Probab=98.16  E-value=1.7e-06  Score=63.26  Aligned_cols=57  Identities=11%  Similarity=0.211  Sum_probs=42.9

Q ss_pred             CChHHHHHHHHcc-cCCCHHHHHHHHHHHHH-HhCCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114          6 NGFISALSALSNI-KFTNPLVSKAYSCWDLL-TSNNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus         6 ~~s~sal~al~~~-~~~~~~~~~i~~~~~~l-~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      -||+.++++|... +..++.+..+++.+..+ ...-..|+|.|||.    +|||.||+|||.+
T Consensus        76 tDS~~vi~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~~v~~~~V~~----~~N~~AD~LA~~a  134 (140)
T 3u3g_D           76 MDSELIVRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNLVFVHIPR----EKNARADELVNEA  134 (140)
T ss_dssp             ESCHHHHHHHTTSSCCCCGGGHHHHHHHHHHHHHHCTTCEEEECCG----GGGHHHHHHHHHH
T ss_pred             eChHHHHHHhCCCcccCCHHHHHHHHHHHHHhhcCCCcEEEEEcCc----hhhHHHHHHHHHH
Confidence            3899999999886 44455455555556665 55556899999995    7999999999854

>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A

Probab=97.93  E-value=6.4e-06  Score=61.26  Aligned_cols=57  Identities=14%  Similarity=0.220  Sum_probs=38.3

Q ss_pred             CChHHHHHHHHcc-cCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCC
Q psy16114          6 NGFISALSALSNI-KFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPT   67 (202)
Q Consensus         6 ~~s~sal~al~~~-~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~   67 (202)
                      -||+.++..|... +..++.....++.+..+...- .|.|.|||+|    +||.||+|||.+.
T Consensus        75 tDS~~vi~~i~~~w~~~~~~~~~l~~~i~~l~~~~-~v~~~~V~~~----~N~~AD~LA~~a~  132 (149)
T 2ehg_A           75 GDSQLVIKQMNGEYKVKAKRIIPLYEKAIELKKKL-NATLIWVPRE----ENKEADRLSRVAY  132 (149)
T ss_dssp             ESCHHHHHHHTTSSCCCCTTHHHHHHHHHHHHHHH-TCEEEECCGG----GCHHHHHHHHHHH
T ss_pred             eChHHHHHHHhCccccCCHHHHHHHHHHHHHHhcC-CEEEEEcCCc----ccHHHHHHHHHHH
Confidence            3888999999886 332233334444444333322 4999999994    9999999999543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	202
d1mu2a1	126	c.55.3.1 (A:430-555) HIV RNase H (Domain of revers	0.003
d1jl1a_	152	c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli	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

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 = 34.1 bits (77), Expect = 0.003
 Identities = 10/38 (26%), Positives = 16/38 (42%)

Query: 27  KAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAAR 64
           K  +         + +   W P+H GI GN++VD    
Sbjct: 86  KIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVS 123

>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} Length = 152

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: RNase H (RNase HI)
species: Escherichia coli [TaxId: 562]

 Score = 34.2 bits (77), Expect = 0.004
 Identities = 12/37 (32%), Positives = 15/37 (40%), Gaps = 4/37 (10%)

Query: 38  NNKDVRFMWCPSHCGIRGNEDVD----QAARNPTDLD 70
               +++ W   H G   NE  D     AA NPT  D
Sbjct: 110 GQHQIKWEWVKGHAGHPENERADELARAAAMNPTLED 146

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	202
d1mu2a1	126	HIV RNase H (Domain of reverse transcriptase) {Hum	99.28
d1jl1a_	152	RNase H (RNase HI) {Escherichia coli [TaxId: 562]}	99.15
d1rila_	147	RNase H (RNase HI) {Thermus thermophilus [TaxId: 2	98.98
d1s1ta1	110	HIV RNase H (Domain of reverse transcriptase) {Hum	97.13

>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]}

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=99.28  E-value=2.5e-12  Score=92.47  Aligned_cols=56  Identities=18%  Similarity=0.391  Sum_probs=44.0

Q ss_pred             ChHHHHHHHHcc--cCCCHHHHHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCC
Q psy16114          7 GFISALSALSNI--KFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNP   66 (202)
Q Consensus         7 ~s~sal~al~~~--~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a   66 (202)
                      ||+.++.+|.+.  .+......++   +..+. ....|.|.|||||+|++|||+||+|||.+
T Consensus        68 DS~~v~~~~~~~~~~~~~~~~~~~---~~~~~-~~~~v~~~wV~gH~g~~gNe~AD~LA~~a  125 (126)
T d1mu2a1          68 DSQYVMGIVASQPTESESKIVNQI---IEEMI-KKEAIYVAWVPAHKGIGGNQEVDHLVSQG  125 (126)
T ss_dssp             SCHHHHHHHHTCCSEESCHHHHHH---HHHHH-HCSEEEEEECCSSSCCTTHHHHHHHHHTT
T ss_pred             chHHHHHHHhcCCccccchHHHHH---HHHhh-hcceeEEEEEeCCCCCcchHHHHHHHHhh
Confidence            899999999987  4445554333   34443 35689999999999999999999999976

>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: RNase H (RNase HI)
species: Escherichia coli [TaxId: 562]

Probab=99.15  E-value=4.8e-12  Score=93.29  Aligned_cols=49  Identities=20%  Similarity=0.313  Sum_probs=37.3

Q ss_pred             HHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCCCCCccCCCCc
Q psy16114         28 AYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPTDLDQLKLCSP   77 (202)
Q Consensus        28 i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~~~~~~~~~~~   77 (202)
                      .+..+..+. ....|+|+|||||+|++|||+||+|||.+...|...+.++
T Consensus       101 ~~~~i~~~~-~~~~V~~~wV~gH~g~~gNe~AD~LAk~aa~~~~~~d~~~  149 (152)
T d1jl1a_         101 LWQRLDAAL-GQHQIKWEWVKGHAGHPENERADELARAAAMNPTLEDTGY  149 (152)
T ss_dssp             HHHHHHHHT-TTCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCCBCCTTC
T ss_pred             HHHHHHHHh-hcceeEEEEecccCCCccHHHHHHHHHHHHhCCCCCccCC
Confidence            334444443 4568999999999999999999999998776666555544

>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: RNase H (RNase HI)
species: Thermus thermophilus [TaxId: 274]

Probab=98.98  E-value=7.8e-11  Score=86.48  Aligned_cols=60  Identities=23%  Similarity=0.256  Sum_probs=41.0

Q ss_pred             ChHHHHHHHHcc------------cCCCHHH-HHHHHHHHHHHhCCCceEEEEecccCCCccchhhhhhhcCCC
Q psy16114          7 GFISALSALSNI------------KFTNPLV-SKAYSCWDLLTSNNKDVRFMWCPSHCGIRGNEDVDQAARNPT   67 (202)
Q Consensus         7 ~s~sal~al~~~------------~~~~~~~-~~i~~~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~~Ak~a~   67 (202)
                      ||+.++..|...            ..+.|+. .+.++.+..+. ....|+|.|||||+|++|||.||+|||.+.
T Consensus        69 ds~~~~~~~~~~~~~~~~~~~~~~~~~~~v~n~dL~~~l~~~~-~~~~v~~~wVkgHsg~~gNe~AD~LAk~aa  141 (147)
T d1rila_          69 DSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAM-APHRVRFHFVKGHTGHPENERVDREARRQA  141 (147)
T ss_dssp             CCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHH-TTSEEECCCCCGGGSCTHHHHHHHHHHHHH
T ss_pred             chhhhhccccccchhhhhhccccccccccchhHHHHHHHHHHh-hhcccceEEccCCCCCcchHHHHHHHHHHH
Confidence            677777666431            2333322 22344444554 467899999999999999999999999654

>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 1 [TaxId: 11676]}

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 1 [TaxId: 11676]

Probab=97.13  E-value=0.00026  Score=48.45  Aligned_cols=40  Identities=23%  Similarity=0.361  Sum_probs=31.9

Q ss_pred             ChHHHHHHHHcc--cCCCHHHHHHHHHHHHHHhCCCceEEEEeccc
Q psy16114          7 GFISALSALSNI--KFTNPLVSKAYSCWDLLTSNNKDVRFMWCPSH   50 (202)
Q Consensus         7 ~s~sal~al~~~--~~~~~~~~~i~~~~~~l~~~~~~i~l~WvPgH   50 (202)
                      ||+.++.+|...  +..+++..+|.+.   |.. ...|.|.|||||
T Consensus        69 DS~yvi~~i~~~~~~~~~~l~~~il~~---l~~-~~~v~i~WVpgH  110 (110)
T d1s1ta1          69 DSQYALGIIQAQPDQSESELVNQIIEQ---LIK-KEKVYLAWVPAH  110 (110)
T ss_dssp             CCHHHHHHHHHCCSEESCHHHHHHHHH---HHH-CSEEEEEECCSS
T ss_pred             ehHHHHHHHhcCccccchHHHHHHHHH---Hhc-CCceEEEEeCCC
Confidence            899999999986  7778887776544   433 467999999999