Psyllid ID: psy2786

---

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-------20
Protein Sequence
MSYAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTCRCGETLSVQHILTCTLHGHIRASLPAPPALTDDVES
Secondary Structure (PSIPRED)
cHHHHHHHccccccccEEEEEccHHHHcccccccHHHHHHHHHHHccccEEEEEEcccccccccHHHHHHHcccccccccccccccccccHHHHHHHHHHHHcccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHccccccHHHHHHc
Secondary Structure Prediction (SSPRO)
ccHHHHHHccccccccEEEEcccccHccccccccHHHHHHHHHHHcccEEEEEEEcccccccccHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccHHHHHHHHHHHcccccHHHHHcccccccccccccccccHHEEccHHHHHHHHHcccccHHHHHHcc
Coil and Loop (DISEMBL)
MSYAVKiascpanptysllfpdnidadiyppnkpkplclRVHLLCygkqlaflwcpshtgiqgneavdraarnpsaslpplklcspedfKPFIHKLIKDLWqnswsnipncnklksikpvigpwpssdrqnrhEEVVICRMrightrathghlfkrappstcrcgetlsvQHILTCTLHghiraslpappaltddves
Flexible Loop (DISEMBL)
MSYAVKiascpanptySLLFPDNIDADIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIgpwpssdrqnrHEEVVICRMRIGHtrathghlfkrappSTCRCGETLSVQHILTCTLHGHIraslpappaltddves
Low Complexity Region (SEG)
MSYAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTCRCGETLSVQHILTCTLHGHIRASLPAPPALTDDVES
Disordered region (IsUnstruct)
****VKIASCPANPTYSLLFPDNIDADIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQG******************KLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWP*******HEEVVICRMRIGHTRATHGHLFKRAPPSTCRCGETLSVQHILTCTLHGHIRA**************
Disordered Region (DISOPRED)
MSYAVKIASCPANPTYSLLFPDNIDAD**************HLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTCRCGETLSVQHILTCTLHGHIRASLPAPPA*******
Disordered Region (DISEMBL)
MSYAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTCRCGETLSVQHILTCTLHGHIRASLPAPP********
Disordered Region (DISPRO)
MSYAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTCRCGETLSVQHILTCTLHGHIRASLPAPPALT*****
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSYAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTCRCGETLSVQHILTCTLHGHIRASLPAPPALTDDVES
Positional Conservation
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	Length	Definition	Q cover	H cover	Identity	E-value
Query	198
443695973	261	hypothetical protein CAPTEDRAFT_23017, p	0.737	0.559	0.426	3e-22
443693558	502	hypothetical protein CAPTEDRAFT_189741,	0.737	0.290	0.42	3e-22
443733872	400	hypothetical protein CAPTEDRAFT_197082 [	0.641	0.317	0.410	9e-22
443712830	397	hypothetical protein CAPTEDRAFT_202466 [	0.737	0.367	0.406	1e-20
443721618	471	hypothetical protein CAPTEDRAFT_200496,	0.681	0.286	0.424	1e-20
443694031	574	hypothetical protein CAPTEDRAFT_227918 [	0.545	0.188	0.431	2e-19
443730613	233	hypothetical protein CAPTEDRAFT_206814 [	0.636	0.540	0.415	1e-18
443724607	397	hypothetical protein CAPTEDRAFT_208903 [	0.737	0.367	0.393	6e-18
443694523	364	hypothetical protein CAPTEDRAFT_227708 [	0.530	0.288	0.453	9e-18
443682433	619	hypothetical protein CAPTEDRAFT_222606 [	0.530	0.169	0.444	3e-16

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

 Score =  110 bits (276), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 64/150 (42%), Positives = 84/150 (56%), Gaps = 4/150 (2%)

Query: 27  DIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSP 86
           DI  P     L  + +L+  GK + F+WCPSH GI GNE  DR A+  +  +P  KL  P
Sbjct: 111 DITHPYLLSILTKQNNLVRKGKLVVFIWCPSHVGILGNEVADRLAKQ-ALVMPVTKLPLP 169

Query: 87  E-DFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGH 145
             D+K  I   +K LWQN W    + NKL SI+PVI  W    + +R  E+V+ R RIGH
Sbjct: 170 HTDYKSPIRSYVKSLWQNEWDEETD-NKLHSIQPVISEWKQGPQIDRRGEIVLARARIGH 228

Query: 146 TRATHGHLFKRAPPSTCR-CGETLSVQHIL 174
           +  THG+L +R     C  C   LSV+HIL
Sbjct: 229 SHLTHGYLLRREVAPFCIPCQSLLSVKHIL 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 =  110 bits (275), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 63/150 (42%), Positives = 84/150 (56%), Gaps = 4/150 (2%)

Query: 27  DIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSP 86
           DI  P     L  + +L+  GK + F+WCPSH GI GNE  DR A+  +  +P  KL  P
Sbjct: 157 DITHPYLLSILTKQNNLVRKGKLVVFIWCPSHVGILGNEVADRLAKQ-ALVMPVTKLPLP 215

Query: 87  -EDFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGH 145
             D+K  I   +K LWQN W    + NKL SI+PVI  W    + +R  E+V+ R RIGH
Sbjct: 216 HTDYKSPIRSYVKSLWQNEWDEETD-NKLHSIQPVISEWKQGPQIDRRGEIVLARARIGH 274

Query: 146 TRATHGHLFKRAPPSTCR-CGETLSVQHIL 174
           +  THG+L +R     C  C   L+V+HIL
Sbjct: 275 SHLTHGYLLRREVAPFCIPCQSLLTVKHIL 304

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 =  108 bits (271), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 53/129 (41%), Positives = 69/129 (53%), Gaps = 2/129 (1%)

Query: 47  GKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWS 106
           G  L   WCPSH G+ GNE  D  A+   +           DFKP  H+  K+ WQ  WS
Sbjct: 98  GIDLVMTWCPSHVGVMGNERADLLAKEALSFTTCTIRIPSSDFKPITHEFYKEKWQEQWS 157

Query: 107 NIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTCR-CG 165
           +    NKL  I+P +G W  S R+ R EE+V+ R RIGH+  THG+L +R  P  C  C 
Sbjct: 158 S-EQENKLYCIQPTLGKWAKSSREIRREEIVLARARIGHSHLTHGYLLRREMPPVCIPCQ 216

Query: 166 ETLSVQHIL 174
             LS++HI 
Sbjct: 217 NILSIKHIF 225

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 =  105 bits (262), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/150 (40%), Positives = 83/150 (55%), Gaps = 4/150 (2%)

Query: 27  DIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSP 86
           DI  P     L  + +L+  GK++ F+WCPSH GI GNE  DR A+  +  +P  KL  P
Sbjct: 206 DITHPYLLSILTKQNNLVRKGKKVVFIWCPSHVGILGNEVADRQAKQ-ALVMPVTKLPLP 264

Query: 87  E-DFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGH 145
             D+K  I   +K LWQN W    + NKL  I+PVI  W    + +R  E+V+   RIGH
Sbjct: 265 HTDYKSPIRSYVKSLWQNEWDGETD-NKLHIIQPVISEWKQGPQIDRRGEIVLACARIGH 323

Query: 146 TRATHGHLFKRAPPSTCR-CGETLSVQHIL 174
           +  THG+L +R     C  C   L+V+HIL
Sbjct: 324 SHLTHGYLLRREVAPFCIPCQSLLTVKHIL 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 =  105 bits (261), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 59/139 (42%), Positives = 78/139 (56%), Gaps = 4/139 (2%)

Query: 48  KQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSP-EDFKPFIHKLIKDLWQNSWS 106
           K + F+WCPSH GI GNE  D  A+   +S    +L  P  D +  I K I+  WQ+ W 
Sbjct: 117 KIVVFMWCPSHVGIPGNEMADTLAKEALSSTNLAELPVPASDLRCLIKKYIRSRWQHEWD 176

Query: 107 NIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTC-RCG 165
              + NKL SI P IGPWP   R+ R EE+V+ R+RIGHT  TH ++ +    + C  C 
Sbjct: 177 E-QHSNKLHSIHPTIGPWPPCQREKRREEIVLARIRIGHTHYTHDYIPRGDDQTECVACV 235

Query: 166 ETLSVQH-ILTCTLHGHIR 183
             L+VQH I+ C    HIR
Sbjct: 236 CPLTVQHIIIECADFLHIR 254

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 =  101 bits (251), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 47/109 (43%), Positives = 61/109 (55%), Gaps = 1/109 (0%)

Query: 54  WCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPEDFKPFIHKLIKDLWQNSWSNIPNCNK 113
           WCPSH G+ GNE  D  A+   +           DFKP  H+  K+ WQ  WS+    NK
Sbjct: 3   WCPSHVGVMGNERADLLAKEALSFTTCTIRIPSSDFKPITHEFFKEKWQEQWSS-EQENK 61

Query: 114 LKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRAPPSTC 162
           L SI+P +G W  S R+ R EE+V+ R RIGH+  THG+L +R  P  C
Sbjct: 62  LYSIQPTLGKWAKSSREIRREEIVLARARIGHSHLTHGYLVRREMPPVC 110

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

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

 Score = 98.2 bits (243), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 54/130 (41%), Positives = 73/130 (56%), Gaps = 4/130 (3%)

Query: 47  GKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPE-DFKPFIHKLIKDLWQNSW 105
           G  L  LWCPSH G+ GNE  D  A+  + S     +  P  DF    +   +D WQ  W
Sbjct: 78  GFDLVILWCPSHIGVVGNERADLLAKE-ALSFTACDVRIPAFDFNSVAYSFYRDKWQALW 136

Query: 106 SNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLFKRA-PPSTCRC 164
           S   N NKL S++P+I    +S R++R +E+V+ R RIGHT  THG+L +R  PP    C
Sbjct: 137 SLEQN-NKLHSVQPIIKKLTNSSREDRRKEIVLARARIGHTHLTHGYLLRRELPPFCVHC 195

Query: 165 GETLSVQHIL 174
              L+V+HIL
Sbjct: 196 QCPLTVKHIL 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 = 96.3 bits (238), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 59/150 (39%), Positives = 81/150 (54%), Gaps = 4/150 (2%)

Query: 27  DIYPPNKPKPLCLRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSP 86
           DI  P     L  + +L+  GK + F+WCPSH GI GNE  DR A+  +  +P  KL  P
Sbjct: 206 DITHPYLLSILTKQNNLVRKGKLVVFIWCPSHVGILGNEVADRLAKQ-ALVMPVTKLPLP 264

Query: 87  E-DFKPFIHKLIKDLWQNSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGH 145
             D+K  I   +K L QN W    + NKL +I+PVI  W    + +R  E+V+    IGH
Sbjct: 265 HTDYKSPIRSYVKSLRQNEWDEETD-NKLHTIQPVISEWKQGPQIDRRGEIVLACACIGH 323

Query: 146 TRATHGHLFKRAPPSTCR-CGETLSVQHIL 174
           +  THG+L +R     C  C   L+V+HIL
Sbjct: 324 SHLTHGYLLRREVAPFCIPCQSLLTVKHIL 353

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|443694523|gb|ELT95634.1| hypothetical protein CAPTEDRAFT_227708 [Capitella teleta]

 Score = 95.5 bits (236), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 49/108 (45%), Positives = 61/108 (56%), Gaps = 3/108 (2%)

Query: 48  KQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSPE-DFKPFIHKLIKDLWQNSWS 106
           K++ F+WCPSH GI GNE  D  A+  +  +  L    P  DFKP     +K  WQ+ W 
Sbjct: 64  KRIIFIWCPSHVGIPGNETADTLAKQ-ALGMNILNCPIPHTDFKPITRSFVKTQWQSEWD 122

Query: 107 NIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLF 154
                NKL  I+P IG WP   R+ R EE+VI R+RIGHT  TH HL 
Sbjct: 123 Q-ETGNKLHDIQPDIGSWPPCQREKRREEIVIARVRIGHTFLTHSHLL 169

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 = 90.5 bits (223), Expect = 3e-16,   Method: Compositional matrix adjust.
 Identities = 48/108 (44%), Positives = 62/108 (57%), Gaps = 3/108 (2%)

Query: 48  KQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPLKLCSP-EDFKPFIHKLIKDLWQNSWS 106
           K++ F+WCPSH GI GNE  D  A+  S  +  L    P  DFKP     ++  WQ S S
Sbjct: 92  KRIIFIWCPSHVGIPGNETADTLAQQASG-MNILNCPIPHTDFKPITRSFVETQWQ-SES 149

Query: 107 NIPNCNKLKSIKPVIGPWPSSDRQNRHEEVVICRMRIGHTRATHGHLF 154
           +    NKL  I+P IG WP   R+ R +E+VI R+RIGHT  T+ HL 
Sbjct: 150 DQETGNKLHDIEPDIGSWPPCQREKRRDEIVIARLRIGHTFLTYSHLL 197

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

---

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	198
ASPGD|ASPL0000075333	486	AN10625 [Emericella nidulans (	0.702	0.286	0.269	2.9e-08

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

 Score = 142 (55.0 bits), Expect = 2.9e-08, P = 2.9e-08
 Identities = 41/152 (26%), Positives = 68/152 (44%)

Query:    47 GKQLAFLWCPSHTGIQGNEAVDRAARNPSASLPPL----KLCSPEDFKPFIHKLIKDLWQ 102
             G  + F W P+H G++GNE  DR A+  +          ++      K   H+++   W+
Sbjct:   283 GLNVHFRWIPAHRGVEGNEQADRRAKEATGWRRIRGHRGRMTIRSAVKRRAHEVVNARWE 342

Query:   103 NSWSNIPNCNKLKSIKPVIGPWPSSDRQNRHEEV--VICRMRIGHTRATHGHLFKRAPP- 159
             N W +  +  +L  + P          Q+ H  +  +I +MR G     H +L++R  P 
Sbjct:   343 NDWKSCHHGRELYELTPTPTRKVLRVHQDLHRALSTIIVQMRTGKIGLRH-YLYQRGVPD 401

Query:   160 ---STCRCGE-TLSVQHIL-TCTLHGHIRASL 186
                S C+CG  T SV+HIL  C     +R  +
Sbjct:   402 VPNSDCQCGRATQSVRHILLACPTFSGLREEI 433


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        0.321   0.137   0.456    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      198       198   0.00083  111 3  11 22  0.46    32
                                                     31  0.45    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:  607 (65 KB)
  Total size of DFA:  198 KB (2111 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  19.49u 0.08s 19.57t   Elapsed:  00:00:07
  Total cpu time:  19.49u 0.08s 19.57t   Elapsed:  00:00:07
  Start:  Thu Aug 15 11:13:06 2013   End:  Thu Aug 15 11:13:13 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

---

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!

---

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	198
cd09276	128	cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom	2e-08
pfam00075	126	pfam00075, RNase_H, RNase H	3e-05
cd09278	139	cd09278, RNase_HI_prokaryote_like, RNase HI family	0.004

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

 Score = 50.3 bits (121), Expect = 2e-08
 Identities = 23/79 (29%), Positives = 37/79 (46%), Gaps = 10/79 (12%)

Query: 3   YAVKIAS-CPANPTYSLLFPDN---IDADIYPPNKPKPLCLRVH-----LLCYGKQLAFL 53
            A+++A           +F D+   + A +  P    PL LR+      L  +G ++   
Sbjct: 47  EALQLALREGRRARKITIFSDSQAALKA-LRSPRSSSPLVLRIRKAIRELANHGVKVRLH 105

Query: 54  WCPSHTGIQGNEAVDRAAR 72
           W P H+GI+GNE  DR A+
Sbjct: 106 WVPGHSGIEGNERADRLAK 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 = 41.9 bits (99), Expect = 3e-05
 Identities = 14/42 (33%), Positives = 23/42 (54%), Gaps = 1/42 (2%)

Query: 32  NKPKPLCLRVH-LLCYGKQLAFLWCPSHTGIQGNEAVDRAAR 72
           ++ KP+   +  LL    ++   W P H+GI GNE  D+ A+
Sbjct: 81  SESKPIKNEIWELLQKKHKVYIQWVPGHSGIPGNELADKLAK 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

>gnl|CDD|187702 cd09278, RNase_HI_prokaryote_like, RNase HI family found mainly in prokaryotes

 Score = 35.9 bits (84), Expect = 0.004
 Identities = 10/29 (34%), Positives = 12/29 (41%)

Query: 44  LCYGKQLAFLWCPSHTGIQGNEAVDRAAR 72
           L    Q+ + W   H G  GNE  D  A 
Sbjct: 107 LLAKHQVTWHWVKGHAGHPGNERADELAN 135

Ribonuclease H (RNase H) is classified into two evolutionarily unrelated 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). RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner. RNase H is involved in DNA replication, repair and transcription. RNase H is widely present in various organisms, including bacteria, archaea and eukaryotes and most prokaryotic and eukaryotic genomes contain multiple RNase H genes. Despite the lack of amino acid sequence homology, Type 1 and type 2 RNase H share a main-chain fold and steric configurations of the four acidic active-site (DEDD), residues and have the same catalytic mechanism and functions in cells. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. Prokaryotic RNase H varies greatly in domain structures and substrate specificities. Prokaryotes and some single-cell eukaryotes do not require RNase H for viability. Length = 139

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	198
PF00075	132	RNase_H: RNase H; InterPro: IPR002156 The RNase H	99.29
PRK08719	147	ribonuclease H; Reviewed	99.19
PRK00203	150	rnhA ribonuclease H; Reviewed	99.12
PRK06548	161	ribonuclease H; Provisional	99.07
cd06222	130	RnaseH RNase H (RNase HI) is an endonuclease that	98.87
COG0328	154	RnhA Ribonuclease HI [DNA replication, recombinati	98.79
KOG3752|consensus	371		98.17
PRK13907	128	rnhA ribonuclease H; Provisional	97.07
PF13966	86	zf-RVT: zinc-binding in reverse transcriptase	96.97
PRK07708	219	hypothetical protein; Validated	96.2
PF13456	87	RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH	96.12
PRK07238	372	bifunctional RNase H/acid phosphatase; Provisional	95.31

>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=99.29  E-value=9.1e-13  Score=97.67  Aligned_cols=67  Identities=30%  Similarity=0.433  Sum_probs=46.2

Q ss_pred             hhhhhhhcCCCCCCeEEEEecchhhhccCCCC-------CC---c----hhHHHHHHHhCCeEEEEEecCCCCC-CcchH
Q psy2786           2 SYAVKIASCPANPTYSLLFPDNIDADIYPPNK-------PK---P----LCLRVHLLCYGKQLAFLWCPSHTGI-QGNEA   66 (198)
Q Consensus         2 ~~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~-------~~---~----~~~~~~l~~~~~~i~l~WvPgH~gI-~GNE~   66 (198)
                      ..||+.+  .  ...+.|||||+++ +..++.       +.   .    ..+...+ ..+..|.|.|||||+|+ .|||.
T Consensus        49 ~~AL~~~--~--~~~v~I~tDS~~v-~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~-~~~~~v~~~~V~~H~~~~~~N~~  122 (132)
T PF00075_consen   49 IEALKAL--E--HRKVTIYTDSQYV-LNALNKWLHGNGWKKTSNGRPIKNEIWELL-SRGIKVRFRWVPGHSGVPQGNER  122 (132)
T ss_dssp             HHHHHTH--S--TSEEEEEES-HHH-HHHHHTHHHHTTSBSCTSSSBHTHHHHHHH-HHSSEEEEEESSSSSSSHHHHHH
T ss_pred             HHHHHHh--h--cccccccccHHHH-HHHHHHhccccccccccccccchhheeecc-ccceEEeeeeccCcCCCchhHHH
Confidence            3567733  1  2788899999999 442221       11   1    1222333 55899999999999999 69999


Q ss_pred             HHHHHhCC
Q psy2786          67 VDRAARNP   74 (198)
Q Consensus        67 AD~aAk~a   74 (198)
                      ||++||.+
T Consensus       123 aD~lAk~a  130 (132)
T PF00075_consen  123 ADRLAKEA  130 (132)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99999865

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 ....

>PRK08719 ribonuclease H; Reviewed

Probab=99.19  E-value=1.6e-11  Score=93.68  Aligned_cols=68  Identities=26%  Similarity=0.275  Sum_probs=46.5

Q ss_pred             hhhhhhhcCCCCCCeEEEEecchhhhccCCC----------------CCCc-hhH-HH--HHHHhCCeEEEEEecCCCCC
Q psy2786           2 SYAVKIASCPANPTYSLLFPDNIDADIYPPN----------------KPKP-LCL-RV--HLLCYGKQLAFLWCPSHTGI   61 (198)
Q Consensus         2 ~~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~----------------~~~~-~~~-~~--~l~~~~~~i~l~WvPgH~gI   61 (198)
                      ..||+.+...     ..|+|||+-+ +..++                .|.. ..+ +.  .+. ....|+|.|||||+|+
T Consensus        59 ~~aL~~~~~~-----~~i~tDS~yv-i~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i~~l~-~~~~i~~~~VkgH~g~  131 (147)
T PRK08719         59 IEALEYARDG-----DVIYSDSDYC-VRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQVDELR-ARKYVEVEKVTAHSGI  131 (147)
T ss_pred             HHHHHHcCCC-----CEEEechHHH-HHHHHHHHHHHHhCCcccCCCcccccHHHHHHHHHHh-CCCcEEEEEecCCCCC
Confidence            3577777643     2689999999 65541                1111 111 11  122 3567999999999999


Q ss_pred             CcchHHHHHHhCCCC
Q psy2786          62 QGNEAVDRAARNPSA   76 (198)
Q Consensus        62 ~GNE~AD~aAk~a~~   76 (198)
                      +|||.||++|+.|+.
T Consensus       132 ~~Ne~aD~lA~~a~~  146 (147)
T PRK08719        132 EGNEAADMLAQAAAE  146 (147)
T ss_pred             hhHHHHHHHHHHHhh
Confidence            999999999998753

>PRK00203 rnhA ribonuclease H; Reviewed

Probab=99.12  E-value=3e-11  Score=92.34  Aligned_cols=70  Identities=21%  Similarity=0.206  Sum_probs=47.7

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CCch-hH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PKPL-CL-RVHL-LCYGKQLAFLWCPSHTGIQG   63 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~~~-~~-~~~l-~~~~~~i~l~WvPgH~gI~G   63 (198)
                      .||+.+..   ...+.|||||+.+ +..++.                |... .+ +.+. ......|.|.|||||+|++|
T Consensus        53 ~AL~~~~~---~~~v~I~tDS~yv-i~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~~~~~v~~~wV~~H~~~~~  128 (150)
T PRK00203         53 EALEALKE---PCEVTLYTDSQYV-RQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAALKRHQIKWHWVKGHAGHPE  128 (150)
T ss_pred             HHHHHcCC---CCeEEEEECHHHH-HHHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHhccCceEEEEecCCCCCHH
Confidence            56776653   2468899999999 554331                2111 11 1111 12347899999999999999


Q ss_pred             chHHHHHHhCCCC
Q psy2786          64 NEAVDRAARNPSA   76 (198)
Q Consensus        64 NE~AD~aAk~a~~   76 (198)
                      ||.||++|+.+..
T Consensus       129 N~~AD~lA~~a~~  141 (150)
T PRK00203        129 NERCDELARAGAE  141 (150)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999987754

>PRK06548 ribonuclease H; Provisional

Probab=99.07  E-value=5.9e-11  Score=91.61  Aligned_cols=71  Identities=21%  Similarity=0.202  Sum_probs=46.8

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCC---------CCCch--------hH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPN---------KPKPL--------CL-RVHL-LCYGKQLAFLWCPSHTGIQG   63 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~---------~~~~~--------~~-~~~l-~~~~~~i~l~WvPgH~gI~G   63 (198)
                      .||+.+..+  ...+.|||||+-+ +..++         ....+        .+ +.+. ......|+|.|||||+|++|
T Consensus        52 ~aL~~~~~~--~~~v~I~TDS~yv-i~~i~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~~~~v~~~wVkgHsg~~g  128 (161)
T PRK06548         52 ELLIATRHT--DRPILILSDSKYV-INSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLMENRNIRMSWVNAHTGHPL  128 (161)
T ss_pred             HHHHhhhcC--CceEEEEeChHHH-HHHHHHHHHHHHHCCCcccCCCccccHHHHHHHHHHHhcCceEEEEEecCCCCHH
Confidence            466544422  2458899999999 65543         22111        11 1111 12235799999999999999


Q ss_pred             chHHHHHHhCCCC
Q psy2786          64 NEAVDRAARNPSA   76 (198)
Q Consensus        64 NE~AD~aAk~a~~   76 (198)
                      ||.||++|++++.
T Consensus       129 Ne~aD~LA~~aa~  141 (161)
T PRK06548        129 NEAADSLARQAAN  141 (161)
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999987653

>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=98.87  E-value=4e-09  Score=75.73  Aligned_cols=70  Identities=26%  Similarity=0.309  Sum_probs=50.7

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCCC---chhHHH------HHHHhCCeEEEEEecCCCCCCcchHHHHHHhC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPK---PLCLRV------HLLCYGKQLAFLWCPSHTGIQGNEAVDRAARN   73 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~---~~~~~~------~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~   73 (198)
                      .|++.+.. .....+.|++||+.+ +...+.+.   +.....      .+...+..+.|.|||+|+|+++|+.||.+|+.
T Consensus        51 ~al~~~~~-~~~~~i~i~~Ds~~~-~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~  128 (130)
T cd06222          51 EALELALE-LGGKKVNIYTDSQYV-INALTGWYEGKPVKNVDLWQRLLALLKRFHKVRFEWVPGHSGIEGNERADALAKE  128 (130)
T ss_pred             HHHHHHHh-CCCceEEEEECHHHH-HHHhhccccCCChhhHHHHHHHHHHHhCCCeEEEEEcCCCCCCcchHHHHHHHHh
Confidence            46777663 345777899999999 66665543   122111      11235789999999999999999999999987


Q ss_pred             C
Q psy2786          74 P   74 (198)
Q Consensus        74 a   74 (198)
                      +
T Consensus       129 ~  129 (130)
T cd06222         129 A  129 (130)
T ss_pred             h
Confidence            5

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=98.79  E-value=1.1e-08  Score=78.19  Aligned_cols=72  Identities=21%  Similarity=0.191  Sum_probs=50.1

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCC---------CCCchh--------H-HH--HHHHhCCeEEEEEecCCCCCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPN---------KPKPLC--------L-RV--HLLCYGKQLAFLWCPSHTGIQ   62 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~---------~~~~~~--------~-~~--~l~~~~~~i~l~WvPgH~gI~   62 (198)
                      +||+.+.. .....+.|+|||+-+ +..++         .+....        + +.  .+...-..|.+.|||||.|.+
T Consensus        53 ~AL~~l~~-~~~~~v~l~tDS~yv-~~~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~  130 (154)
T COG0328          53 EALEALKE-LGACEVTLYTDSKYV-VEGITRWIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHP  130 (154)
T ss_pred             HHHHHHHh-cCCceEEEEecHHHH-HHHHHHHHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCCh
Confidence            68888885 345778899999999 44432         222111        1 11  223333499999999999999


Q ss_pred             cchHHHHHHhCCCC
Q psy2786          63 GNEAVDRAARNPSA   76 (198)
Q Consensus        63 GNE~AD~aAk~a~~   76 (198)
                      +||+||++|+.+..
T Consensus       131 ~NeraD~LA~~~~~  144 (154)
T COG0328         131 ENERADQLAREAAR  144 (154)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999976643

>KOG3752|consensus

Probab=98.17  E-value=2.5e-06  Score=73.03  Aligned_cols=74  Identities=23%  Similarity=0.183  Sum_probs=51.6

Q ss_pred             hhhhhhhcCCCCCCeEEEEecchhhhccCCC---------------CCCchh--------H--HH-HHHH-hCCeEEEEE
Q psy2786           2 SYAVKIASCPANPTYSLLFPDNIDADIYPPN---------------KPKPLC--------L--RV-HLLC-YGKQLAFLW   54 (198)
Q Consensus         2 ~~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~---------------~~~~~~--------~--~~-~l~~-~~~~i~l~W   54 (198)
                      ..||+-|.+... ..++|.|||.=. |..++               .+...+        +  .. +++. .+..|++.|
T Consensus       265 ~~ALkka~~~~~-~kv~I~TDS~~~-i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n~~~~~e~~~l~q~~~~~~vq~~~  342 (371)
T KOG3752|consen  265 IEALKKARSKNI-NKVVIRTDSEYF-INSLTLWVQGWKKNGWKTSNGSDRICAYVKNQDFFNELDELEQEISNKKVQQEY  342 (371)
T ss_pred             HHHHHHHHhcCC-CcEEEEechHHH-HHHHHHHHhhhccCccccccCCCccceeeecchHHHHHHHHHhhhccCceEEEE
Confidence            468888876544 477899999988 55432               111001        0  11 2222 468999999


Q ss_pred             ecCCCCCCcchHHHHHHhCCCCC
Q psy2786          55 CPSHTGIQGNEAVDRAARNPSAS   77 (198)
Q Consensus        55 vPgH~gI~GNE~AD~aAk~a~~~   77 (198)
                      ||||.||.|||+||.+|+.++.+
T Consensus       343 V~Gh~gi~gne~Ad~lARkgs~~  365 (371)
T KOG3752|consen  343 VGGHSGILGNEMADALARKGSTL  365 (371)
T ss_pred             ecCcCCcchHHHHHHHHhhhhhh
Confidence            99999999999999999987654

>PRK13907 rnhA ribonuclease H; Provisional

Probab=97.07  E-value=0.00055  Score=50.44  Aligned_cols=66  Identities=18%  Similarity=0.077  Sum_probs=43.5

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCCC-----chhH-HH--HHHHhCCeEEEEEecCCCCCCcchHHHHHHhCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPK-----PLCL-RV--HLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNP   74 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~-----~~~~-~~--~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a   74 (198)
                      .||+.|.... ...+.|++||+-. +..++...     .... +.  .+...-..+.|.|||.+    .|+.||.+|+.+
T Consensus        51 ~aL~~a~~~g-~~~v~i~sDS~~v-i~~~~~~~~~~~~~~~l~~~~~~l~~~f~~~~~~~v~r~----~N~~Ad~LA~~a  124 (128)
T PRK13907         51 AALKYCTEHN-YNIVSFRTDSQLV-ERAVEKEYAKNKMFAPLLEEALQYIKSFDLFFIKWIPSS----QNKVADELARKA  124 (128)
T ss_pred             HHHHHHHhCC-CCEEEEEechHHH-HHHHhHHHhcChhHHHHHHHHHHHHhcCCceEEEEcCch----hchhHHHHHHHH
Confidence            4677777544 3568889999999 66655421     1111 11  11233346778999994    899999999865

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

Probab=96.97  E-value=0.00051  Score=47.30  Aligned_cols=40  Identities=20%  Similarity=0.392  Sum_probs=30.4

Q ss_pred             eeecccccc---cccccCCCCCCCc-ccCC-CCCcceeee-ccccH
Q psy2786         141 MRIGHTRAT---HGHLFKRAPPSTC-RCGE-TLSVQHILT-CTLHG  180 (198)
Q Consensus       141 lrtGH~~~~---hl~~~~~~~~p~C-~Cg~-~~t~~Hil~-Cp~~~  180 (198)
                      .+.-|.++.   -+.+.+...++.| .|+. .||++|+|+ ||...
T Consensus        38 W~~~~~rL~t~~~l~~r~~~~~~~C~~C~~~~Et~~Hlf~~C~~a~   83 (86)
T PF13966_consen   38 WRALHNRLPTKDNLQRRGIQVDPICPLCGNEEETIEHLFFHCPFAR   83 (86)
T ss_pred             eeeccccchhhhhhhccCCccCCccccCCCccccccceeccCcCcc
Confidence            444555554   4566777889999 9997 899999999 99654

>PRK07708 hypothetical protein; Validated

Probab=96.20  E-value=0.0062  Score=49.41  Aligned_cols=72  Identities=10%  Similarity=-0.076  Sum_probs=45.9

Q ss_pred             hhhhhhcCCCCC-CeEEEEecchhhhccCCCCC------CchhH----HHHHHHhCCeEEEEEecCCCCCCcchHHHHHH
Q psy2786           3 YAVKIASCPANP-TYSLLFPDNIDADIYPPNKP------KPLCL----RVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAA   71 (198)
Q Consensus         3 ~a~~~~~~~~~~-~~~~i~sDn~aa~i~~~~~~------~~~~~----~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~aA   71 (198)
                      .||+.|...+-. ..+.|++||+-+ +..++.-      .-...    ...+......+.+.|||-.    -|+.||++|
T Consensus       128 ~aL~~A~e~g~~~~~V~I~~DSqlV-i~qi~g~wk~~~~~l~~y~~~i~~l~~~~~l~~~~~~VpR~----~N~~AD~LA  202 (219)
T PRK07708        128 YAMQELEELGVKHEPVTFRGDSQVV-LNQLAGEWPCYDEHLNHWLDRIEQKLKQLKLTPVYEPISRK----QNKEADQLA  202 (219)
T ss_pred             HHHHHHHHcCCCcceEEEEeccHHH-HHHhCCCceeCChhHHHHHHHHHHHHhhCCceEEEEECCch----hhhHHHHHH
Confidence            577777765432 347889999999 5554432      11111    1123334456788899774    599999999


Q ss_pred             hCCCCCCC
Q psy2786          72 RNPSASLP   79 (198)
Q Consensus        72 k~a~~~~~   79 (198)
                      +.|....+
T Consensus       203 k~Al~~~~  210 (219)
T PRK07708        203 TQALEGTV  210 (219)
T ss_pred             HHHHhcCC
Confidence            98876543

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

Probab=96.12  E-value=0.0054  Score=41.29  Aligned_cols=66  Identities=17%  Similarity=0.018  Sum_probs=41.5

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCCCch--hH----HH--HHHHhCCeEEEEEecCCCCCCcchHHHHHHhCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPL--CL----RV--HLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNP   74 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~~~--~~----~~--~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a   74 (198)
                      .||++|..-+ -+.+.|+|||+.+ +..++.....  ..    +.  .+...-..+.|.|||--    +|..||.+||.+
T Consensus        11 ~al~~a~~~g-~~~i~v~sDs~~v-v~~i~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~i~r~----~N~~A~~LA~~a   84 (87)
T PF13456_consen   11 EALQLAWELG-IRKIIVESDSQLV-VDAINGRSSSRSELRPLIQDIRSLLDRFWNVSVSHIPRE----QNKVADALAKFA   84 (87)
T ss_dssp             HHHHHHHCCT--SCEEEEES-HHH-HHHHTTSS---SCCHHHHHHHHHHHCCCSCEEEEE--GG----GSHHHHHHHHHH
T ss_pred             HHHHHHHHCC-CCEEEEEecCccc-cccccccccccccccccchhhhhhhccccceEEEEEChH----HhHHHHHHHHHH
Confidence            5788888655 5677889999999 6665543211  11    11  22333578999999974    799999999854

>PRK07238 bifunctional RNase H/acid phosphatase; Provisional

Probab=95.31  E-value=0.022  Score=49.52  Aligned_cols=66  Identities=15%  Similarity=0.099  Sum_probs=44.1

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCCC---chhHHH------HHHHhCCeEEEEEecCCCCCCcchHHHHHHhC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPK---PLCLRV------HLLCYGKQLAFLWCPSHTGIQGNEAVDRAARN   73 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~---~~~~~~------~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~   73 (198)
                      .||+.+.... ...+.|++||+-+ +..++.-.   ......      .+...-..+.+.|||.    .+|+.||.+|+.
T Consensus        55 ~gL~~a~~~g-~~~v~i~~DS~lv-i~~i~~~~~~~~~~l~~~~~~i~~l~~~f~~~~i~~v~r----~~N~~AD~LA~~  128 (372)
T PRK07238         55 AGLEAAAELG-ATEVEVRMDSKLV-VEQMSGRWKVKHPDMKPLAAQARELASQFGRVTYTWIPR----ARNAHADRLANE  128 (372)
T ss_pred             HHHHHHHhCC-CCeEEEEeCcHHH-HHHhCCCCccCChHHHHHHHHHHHHHhcCCceEEEECCc----hhhhHHHHHHHH
Confidence            5778777554 3578899999999 66555321   111111      1223336799999998    689999998875


Q ss_pred             C
Q psy2786          74 P   74 (198)
Q Consensus        74 a   74 (198)
                      +
T Consensus       129 a  129 (372)
T PRK07238        129 A  129 (372)
T ss_pred             H
Confidence            4

---

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

No hit with e-value below 0.005

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	198
3h08_A	146	RNH (ribonuclease H); RNAse H, 3D-structure, endon	99.29
2qkb_A	154	Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy	99.25
2e4l_A	158	Ribonuclease HI, RNAse HI; hydrolase, endoribonucl	99.25
3qio_A	150	GAG-POL polyprotein; RNAse H, inhibitor, nuclease,	99.24
1jl1_A	155	Ribonuclease HI; RNAse HI, protein stability, ther	99.23
3p1g_A	165	Xenotropic murine leukemia virus-related virus (X	99.15
2kq2_A	147	Ribonuclease H-related protein; PSI, NESG, protein	99.15
1ril_A	166	Ribonuclease H; hydrolase(endoribonuclease); 2.80A	99.11
2zd1_A	557	Reverse transcriptase/ribonuclease H; P51/P66, het	98.94
1mu2_A	555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	98.88
2lsn_A	165	Reverse transcriptase; RNAse H, viral protein; NMR	98.82
3hst_B	141	Protein RV2228C/MT2287; ribonuclease H1, RV2228C N	98.36
3u3g_D	140	Ribonuclease H, RNAse H1; hydrolase, cleave the RN	98.32
2ehg_A	149	Ribonuclease HI; RNAse HI, hyperthermophilic archa	98.16

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

Probab=99.29  E-value=3.9e-13  Score=100.91  Aligned_cols=69  Identities=20%  Similarity=0.192  Sum_probs=47.3

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCC-----------------CCc-hhH-HHHH-HHhCCeEEEEEecCCCCCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK-----------------PKP-LCL-RVHL-LCYGKQLAFLWCPSHTGIQ   62 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~-----------------~~~-~~~-~~~l-~~~~~~i~l~WvPgH~gI~   62 (198)
                      .||+.+..   ...+.|||||+.+ +..++.                 |.. ... +.+. ......|.|.|||||+|++
T Consensus        54 ~AL~~~~~---~~~v~I~tDS~~v-i~~i~~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~~~~~v~~~~V~gH~g~~  129 (146)
T 3h08_A           54 KGLEALKE---PARVQLYSDSAYL-VNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLTTLHRVTFHKVKGHSDNP  129 (146)
T ss_dssp             HHHHTCSS---CCEEEEEESCHHH-HHHHHSSHHHHHHHTTCC----CCCTTHHHHHHHHHHHHHSEEEEEECCC-CCSH
T ss_pred             HHHHhcCc---cCcEEEEeChHHH-HHHHHHHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHHhhCceEEEEcCCcCCcH
Confidence            57777764   4788999999998 554433                 111 111 1111 1124679999999999999


Q ss_pred             cchHHHHHHhCCC
Q psy2786          63 GNEAVDRAARNPS   75 (198)
Q Consensus        63 GNE~AD~aAk~a~   75 (198)
                      |||.||++||.|.
T Consensus       130 ~N~~AD~LA~~a~  142 (146)
T 3h08_A          130 YNSRADELARLAI  142 (146)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH
Confidence            9999999998764

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

Probab=99.25  E-value=1.9e-12  Score=98.01  Aligned_cols=72  Identities=22%  Similarity=0.263  Sum_probs=50.0

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CCc-hhH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PKP-LCL-RVHL-LCYGKQLAFLWCPSHTGIQG   63 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~~-~~~-~~~l-~~~~~~i~l~WvPgH~gI~G   63 (198)
                      .||+.+...+ ...+.|||||+.+ +..++.                |.. ..+ +.+. ...+..|.|.|||||+|++|
T Consensus        60 ~aL~~~~~~~-~~~v~i~tDS~~v-i~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~~~~v~~~~V~~H~g~~~  137 (154)
T 2qkb_A           60 KAIEQAKTQN-INKLVLYTNSMFT-INGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMDIQWMHVPGHSGFIG  137 (154)
T ss_dssp             HHHHHHHHTT-CCEEEEEESCHHH-HHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHTTCEEEEEECCTTSSCHH
T ss_pred             HHHHHHHhCC-CceEEEEECcHHH-HhhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHcCCceEEEEccCCCCCHh
Confidence            5788887543 4678899999998 543322                111 111 1111 12367899999999999999


Q ss_pred             chHHHHHHhCCCC
Q psy2786          64 NEAVDRAARNPSA   76 (198)
Q Consensus        64 NE~AD~aAk~a~~   76 (198)
                      ||.||++||.+..
T Consensus       138 N~~AD~LA~~a~~  150 (154)
T 2qkb_A          138 NEEADRLAREGAK  150 (154)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999987654

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

Probab=99.25  E-value=2.1e-12  Score=98.36  Aligned_cols=71  Identities=21%  Similarity=0.193  Sum_probs=49.7

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CCch-hH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PKPL-CL-RVHL-LCYGKQLAFLWCPSHTGIQG   63 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~~~-~~-~~~l-~~~~~~i~l~WvPgH~gI~G   63 (198)
                      .||+.+..+   ..+.|||||+.+ +..++.                |... .+ +.+. ...+..|.|.|||||+|++|
T Consensus        56 ~AL~~~~~~---~~v~I~tDS~~v-i~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~  131 (158)
T 2e4l_A           56 VALEALKEP---CKIILTSDSQYM-RQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQLHQIDWRWVKGHAGHAE  131 (158)
T ss_dssp             HHHHTCSSC---CEEEEEECCHHH-HHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHTTSEEEEEECCTTCCCHH
T ss_pred             HHHHHhccC---CeEEEEeCHHHH-HHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHccCcEEEEEccCCCCchh
Confidence            577877643   788899999999 554332                2211 11 1111 12357999999999999999


Q ss_pred             chHHHHHHhCCCCC
Q psy2786          64 NEAVDRAARNPSAS   77 (198)
Q Consensus        64 NE~AD~aAk~a~~~   77 (198)
                      ||.||++|+.+...
T Consensus       132 Ne~AD~LAk~a~~~  145 (158)
T 2e4l_A          132 NERCDQLARAAAEA  145 (158)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999877644

>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=99.24  E-value=2.8e-12  Score=96.99  Aligned_cols=69  Identities=23%  Similarity=0.305  Sum_probs=48.3

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CC-chhH-HHHH--HHhCCeEEEEEecCCCCCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PK-PLCL-RVHL--LCYGKQLAFLWCPSHTGIQ   62 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~-~~~~-~~~l--~~~~~~i~l~WvPgH~gI~   62 (198)
                      .||+.+     ...+.|||||+.+ +..++.                |. -... +.++  ......|.|.|||||+|++
T Consensus        59 ~AL~~~-----~~~v~i~tDS~~v-~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~~~~~v~~~wV~gH~g~~  132 (150)
T 3qio_A           59 LALQDS-----GLEVNIVTDSQYA-LGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLIKKEKVYLAWVPAHKGIG  132 (150)
T ss_dssp             HHHHHS-----CSEEEEEESCHHH-HHHHHHHHHHHCC------------CHHHHHHHHHHHTTCSEEEEEECCTTSCCH
T ss_pred             HHHHhC-----CCcEEEEeCcHHH-HHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHhhcCceEEEEccCcCCCh
Confidence            456653     3678899999999 554332                11 1111 2222  2357899999999999999


Q ss_pred             cchHHHHHHhCCCCC
Q psy2786          63 GNEAVDRAARNPSAS   77 (198)
Q Consensus        63 GNE~AD~aAk~a~~~   77 (198)
                      |||.||++|+.|...
T Consensus       133 ~Ne~AD~LA~~a~~~  147 (150)
T 3qio_A          133 GNEQVDKLVSAGIRK  147 (150)
T ss_dssp             HHHHHHHHHHTTTSC
T ss_pred             hHHHHHHHHHHHHHH
Confidence            999999999988654

>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=99.23  E-value=2.5e-12  Score=97.59  Aligned_cols=71  Identities=20%  Similarity=0.178  Sum_probs=49.9

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCC----------------CCc-hhH-HHHH-HHhCCeEEEEEecCCCCCCc
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK----------------PKP-LCL-RVHL-LCYGKQLAFLWCPSHTGIQG   63 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~----------------~~~-~~~-~~~l-~~~~~~i~l~WvPgH~gI~G   63 (198)
                      .||+.+...   ..+.|+|||+.+ +..++.                |.. ... +.+. ......|.|.|||||+|++|
T Consensus        54 ~aL~~~~~~---~~v~I~tDS~~v-i~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~~  129 (155)
T 1jl1_A           54 VALEALKEH---AEVILSTDSQYV-RQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALGQHQIKWEWVKGHAGHPE  129 (155)
T ss_dssp             HHHHTCCSC---CEEEEEECCHHH-HHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTTTCEEEEEECCSSTTCHH
T ss_pred             HHHHHhCcC---CcEEEEeCHHHH-HHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHccCceEEEEcCCCCCCHH
Confidence            577777643   678899999999 554432                211 122 1111 12356899999999999999


Q ss_pred             chHHHHHHhCCCCC
Q psy2786          64 NEAVDRAARNPSAS   77 (198)
Q Consensus        64 NE~AD~aAk~a~~~   77 (198)
                      ||.||++|+.+...
T Consensus       130 Ne~AD~LA~~a~~~  143 (155)
T 1jl1_A          130 NERADELARAAAMN  143 (155)
T ss_dssp             HHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999877543

>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=99.15  E-value=1.1e-11  Score=95.19  Aligned_cols=70  Identities=24%  Similarity=0.341  Sum_probs=50.2

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCC-----CCCCch-h-HHHHHHH--hCCeEEEEEecCCCC-----CCcchHHH
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPP-----NKPKPL-C-LRVHLLC--YGKQLAFLWCPSHTG-----IQGNEAVD   68 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~-----~~~~~~-~-~~~~l~~--~~~~i~l~WvPgH~g-----I~GNE~AD   68 (198)
                      .||+.+.    ...+.|||||+.+ +..+     ..|... . .+.++..  .+..|.|.|||||+|     ++|||+||
T Consensus        73 ~AL~~~~----~~~v~I~tDS~~v-i~~iw~~~~g~~v~n~dl~~~l~~~l~~~~~v~~~wVkgH~g~~~~~~~gNe~AD  147 (165)
T 3p1g_A           73 QALKMAE----GKKLNVYTDSRYA-FATAHVHSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMAD  147 (165)
T ss_dssp             HHHHHTB----TSEEEEEECCHHH-HHHHHSCCCSCCCSSHHHHHHHHHHTTSBSEEEEEECCSSCCSCSHHHHHHHHHH
T ss_pred             HHHHHcc----CceEEEEEchHHH-HhhhhcccCCCcccCHHHHHHHHHHHhcCCceEEEEecCCCCCCcCcchHHHHHH
Confidence            5778772    5788999999988 4332     233222 2 2333232  568999999999999     99999999


Q ss_pred             HHHhCCCCC
Q psy2786          69 RAARNPSAS   77 (198)
Q Consensus        69 ~aAk~a~~~   77 (198)
                      ++|+.+...
T Consensus       148 ~LA~~aa~~  156 (165)
T 3p1g_A          148 QAAREAAMK  156 (165)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHhc
Confidence            999877643

>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=99.15  E-value=8.2e-13  Score=99.52  Aligned_cols=74  Identities=22%  Similarity=0.145  Sum_probs=48.8

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCCCchh-----HHHHHHHhCCeEEEEEecCCCCCCcchHHHHHHhCCCCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPLC-----LRVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPSAS   77 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~~~~-----~~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a~~~   77 (198)
                      .||+.|...+.  .+.|||||+++..+..+.-....     .+..++.....|.|.|||||+|++|||+||++||.|...
T Consensus        60 ~AL~~a~~~~~--~v~I~tDS~~i~~w~~~~w~~~~~~~~~~~~l~~~l~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~  137 (147)
T 2kq2_A           60 YAVKKASQLGV--KIRILHDYAGIAFWATGEWKAKNEFTQAYAKLMNQYRGIYSFEKVKAHSGNEFNDYVDMKAKSALGI  137 (147)
T ss_dssp             HHHHHHHHHTC--CCCBSSCCSTHHHHTTSSSSCCHHHHHHHHCGGGGGSTTCCBCCCCCCCCCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHCCC--eEEEEECcHHHHHHHhCCCccCCcchHHHHHHHHHhcCCeeEEEecCcCCCcchHHHHHHHHHHHhc
Confidence            57776654443  67789999987333333221111     111222222389999999999999999999999987655


Q ss_pred             C
Q psy2786          78 L   78 (198)
Q Consensus        78 ~   78 (198)
                      .
T Consensus       138 ~  138 (147)
T 2kq2_A          138 R  138 (147)
T ss_dssp             C
T ss_pred             c
Confidence            4

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

Probab=99.11  E-value=1.2e-11  Score=94.98  Aligned_cols=72  Identities=26%  Similarity=0.241  Sum_probs=49.5

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCC-----------------CCch-hH-HHHH-HHhCCeEEEEEecCCCCCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNK-----------------PKPL-CL-RVHL-LCYGKQLAFLWCPSHTGIQ   62 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~-----------------~~~~-~~-~~~l-~~~~~~i~l~WvPgH~gI~   62 (198)
                      .||+.+...   ..+.|||||+.+ +..++.                 |... .+ +.+. ......|.|.|||||+|++
T Consensus        58 ~AL~~~~~~---~~v~I~tDS~~v-i~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~~~~v~~~wV~gH~g~~  133 (166)
T 1ril_A           58 EGLKALKEP---CEVDLYTDSHYL-KKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHP  133 (166)
T ss_dssp             HHHHSCCSC---CEEEEECCCHHH-HHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGGGSCT
T ss_pred             HHHHHhccC---CeEEEEeChHHH-HHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHhcCeEEEEEeeCCCCch
Confidence            577777643   478899999998 544333                 1111 11 1111 1234699999999999999


Q ss_pred             cchHHHHHHhCCCCCC
Q psy2786          63 GNEAVDRAARNPSASL   78 (198)
Q Consensus        63 GNE~AD~aAk~a~~~~   78 (198)
                      |||.||++||.+....
T Consensus       134 ~Ne~AD~LAk~a~~~~  149 (166)
T 1ril_A          134 ENERVDREARRQAQSQ  149 (166)
T ss_dssp             HHHHHHHHHHHHHTSS
T ss_pred             hHHHHHHHHHHHHHHh
Confidence            9999999998776543

>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=98.94  E-value=2.7e-10  Score=102.56  Aligned_cols=66  Identities=23%  Similarity=0.248  Sum_probs=45.8

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCCCch---hH-HHH--HHHhCCeEEEEEecCCCCCCcchHHHHHHhCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKPKPL---CL-RVH--LLCYGKQLAFLWCPSHTGIQGNEAVDRAARNP   74 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~~~~---~~-~~~--l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a   74 (198)
                      .||+.+     ...+.|+||||.+ +..++.....   .. +..  .......|.|.|||||+|++|||.||++|++|
T Consensus       486 ~aL~~~-----~~~v~I~tDS~~v-i~~i~~~~~~~~~~l~~~~~~~l~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a  557 (557)
T 2zd1_A          486 LALQDS-----GLEVNIVTDSQYA-LGIIQAQPDKSESELVNQIIEQLIKKEKVYLAWVPAHKGIGGNEQVDKLVSAG  557 (557)
T ss_dssp             HHHHHS-----CSEEEEEECCHHH-HHHHTTCCSEESSHHHHHHHHHHHHCSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred             HHHHhC-----CCcEEEEeChHHH-HHHHhcCCccCCHHHHHHHHHHHhcCCCEEEEEcCCCCCChhHHHHHHHHhcC
Confidence            577777     3678899999999 6665443211   11 111  12235689999999999999999999999875

>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=98.88  E-value=1.1e-09  Score=98.65  Aligned_cols=61  Identities=16%  Similarity=0.188  Sum_probs=44.3

Q ss_pred             CCeEEEEecchhhhccCCCCCC---chhH-HHH--HHHhCCeEEEEEecCCCCCCcchHHHHHHhCCC
Q psy2786          14 PTYSLLFPDNIDADIYPPNKPK---PLCL-RVH--LLCYGKQLAFLWCPSHTGIQGNEAVDRAARNPS   75 (198)
Q Consensus        14 ~~~~~i~sDn~aa~i~~~~~~~---~~~~-~~~--l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a~   75 (198)
                      ...+.|+|||+-+ +..++.-.   .... +..  +...+..|.|.|||||+|++|||.||++|+.|.
T Consensus       489 ~~~v~I~tDS~~v-~~~i~~~~~~~~~~l~~~~~~~~~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a~  555 (555)
T 1mu2_A          489 GPKVNIIVDSQYV-MGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI  555 (555)
T ss_dssp             CSEEEEEESCHHH-HHHHHTCCSEESCHHHHHHHHHHHHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred             CCeEEEEEehHHH-HHHHhcccccccHHHHHHHHHHhccCCcEEEEEEECCCCChhHHHHHHHHHhhC
Confidence            4688899999999 55544321   1111 111  223468899999999999999999999999873

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

Probab=98.82  E-value=8.7e-10  Score=84.51  Aligned_cols=70  Identities=20%  Similarity=0.196  Sum_probs=45.5

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCC----------------CCCCc-hhH-HHH--HHHhCCeEEEEEecCCCCC-
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPP----------------NKPKP-LCL-RVH--LLCYGKQLAFLWCPSHTGI-   61 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~----------------~~~~~-~~~-~~~--l~~~~~~i~l~WvPgH~gI-   61 (198)
                      +|++.|...+  ..+.|+|||+=+ +..+                ..|-. ..+ +.+  +......|.|.|||||+|+ 
T Consensus        66 ~al~~al~~~--~~v~I~TDS~Yv-i~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~~~~~~v~~~~VkgH~g~~  142 (165)
T 2lsn_A           66 FACKKALKIP--GPVLVITDSFYV-AESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECLSMKPDITIQHEKGHQPTN  142 (165)
T ss_dssp             HHHHHHHHSS--SCEEEEESCHHH-HHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHHHHCTTCEEEECCSSSCSS
T ss_pred             HHHHHHhcCC--CeEEEEeChHHH-HhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHHhCCCCEEEEEEeCCCCcc
Confidence            4455554332  458899999988 4432                22322 222 211  2234568999999999996 


Q ss_pred             -----CcchHHHHHHhCCC
Q psy2786          62 -----QGNEAVDRAARNPS   75 (198)
Q Consensus        62 -----~GNE~AD~aAk~a~   75 (198)
                           +|||+||++|++++
T Consensus       143 ~~~~~~gNe~AD~LA~~gA  161 (165)
T 2lsn_A          143 TSIHTEGNALADKLATQGS  161 (165)
T ss_dssp             SCHHHHHHHHHHHHHHHHH
T ss_pred             CCCCChHHHHHHHHHHHhh
Confidence                 48999999998764

>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=98.36  E-value=1.8e-07  Score=68.79  Aligned_cols=67  Identities=18%  Similarity=0.132  Sum_probs=46.4

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCC---CchhHHH------HHHHhCCeEEEEEecCCCCCCcchHHHHHHhC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKP---KPLCLRV------HLLCYGKQLAFLWCPSHTGIQGNEAVDRAARN   73 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~---~~~~~~~------~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~   73 (198)
                      .||+.|...+ .+.+.|+|||+.+ +..++..   .......      .+......|.|.|||+    +|||.||++||.
T Consensus        56 ~aL~~a~~~~-~~~v~i~tDS~~v-v~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~v~~~~V~~----~~N~~AD~LA~~  129 (141)
T 3hst_B           56 AGLDDAVKLG-ATEAAVLMDSKLV-VEQMSGRWKVKHPDLLKLYVQAQALASQFRRINYEWVPR----ARNTYADRLAND  129 (141)
T ss_dssp             HHHHHHHHHT-CSEEEEEESCHHH-HHHHTTSSCCCSHHHHHHHHHHHHHHTTSSEEEEEECCG----GGCHHHHHHHHH
T ss_pred             HHHHHHHHCC-CceEEEEeChHHH-HHHHhCCcccCCHHHHHHHHHHHHHHhcCCeEEEEEcCC----cccHHHHHHHHH
Confidence            5777777533 3678899999999 6655442   2222221      1223457999999996    899999999986


Q ss_pred             CC
Q psy2786          74 PS   75 (198)
Q Consensus        74 a~   75 (198)
                      |.
T Consensus       130 a~  131 (141)
T 3hst_B          130 AM  131 (141)
T ss_dssp             HH
T ss_pred             HH
Confidence            53

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

Probab=98.32  E-value=2.1e-07  Score=68.17  Aligned_cols=67  Identities=15%  Similarity=0.082  Sum_probs=44.4

Q ss_pred             hhhhhhcCCCC---CCeEEEEecchhhhccCCCCC---CchhHH----H--HH-HHhCCeEEEEEecCCCCCCcchHHHH
Q psy2786           3 YAVKIASCPAN---PTYSLLFPDNIDADIYPPNKP---KPLCLR----V--HL-LCYGKQLAFLWCPSHTGIQGNEAVDR   69 (198)
Q Consensus         3 ~a~~~~~~~~~---~~~~~i~sDn~aa~i~~~~~~---~~~~~~----~--~l-~~~~~~i~l~WvPgH~gI~GNE~AD~   69 (198)
                      .||+.|...+.   ...+.|+|||+.+ +..++..   ......    .  .+ ......|.|.|||+    +|||.||+
T Consensus        55 ~aL~~a~~~~~~~~~~~v~i~tDS~~v-i~~i~~~~~~~~~~l~~~~~~i~~l~~~~~~~v~~~~V~~----~~N~~AD~  129 (140)
T 3u3g_D           55 RALEDLQMFGDKLVDMEVEVRMDSELI-VRQMQGVYKVKEPTLKEKFAKIAHIKMERVPNLVFVHIPR----EKNARADE  129 (140)
T ss_dssp             HHHHHHGGGGGGGTTCEEEEEESCHHH-HHHHTTSSCCCCGGGHHHHHHHHHHHHHHCTTCEEEECCG----GGGHHHHH
T ss_pred             HHHHHHHHcCCCCCCceEEEEeChHHH-HHHhCCCcccCCHHHHHHHHHHHHHhhcCCCcEEEEEcCc----hhhHHHHH
Confidence            57777765332   2278899999999 6655432   111111    1  12 23335899999995    89999999


Q ss_pred             HHhCC
Q psy2786          70 AARNP   74 (198)
Q Consensus        70 aAk~a   74 (198)
                      +||.|
T Consensus       130 LA~~a  134 (140)
T 3u3g_D          130 LVNEA  134 (140)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            99865

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

Probab=98.16  E-value=4e-07  Score=67.89  Aligned_cols=66  Identities=15%  Similarity=0.135  Sum_probs=44.0

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCCCC------CchhH----HHHHHHhCCeEEEEEecCCCCCCcchHHHHHHh
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPNKP------KPLCL----RVHLLCYGKQLAFLWCPSHTGIQGNEAVDRAAR   72 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~~~------~~~~~----~~~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk   72 (198)
                      .||+.|...+ .+.+.|+|||+.+ +..++..      .-...    ...+...  .|.|.|||+    ++||.||++|+
T Consensus        58 ~aL~~a~~~g-~~~v~i~tDS~~v-i~~i~~~w~~~~~~~~~l~~~i~~l~~~~--~v~~~~V~~----~~N~~AD~LA~  129 (149)
T 2ehg_A           58 CLMETMLRLG-ISSPIIKGDSQLV-IKQMNGEYKVKAKRIIPLYEKAIELKKKL--NATLIWVPR----EENKEADRLSR  129 (149)
T ss_dssp             HHHHHHHHHT-CCSCEEEESCHHH-HHHHTTSSCCCCTTHHHHHHHHHHHHHHH--TCEEEECCG----GGCHHHHHHHH
T ss_pred             HHHHHHHHcC-CCEEEEEeChHHH-HHHHhCccccCCHHHHHHHHHHHHHHhcC--CEEEEEcCC----cccHHHHHHHH
Confidence            4777776543 3567789999999 6554332      11111    1223333  599999999    59999999998


Q ss_pred             CCCC
Q psy2786          73 NPSA   76 (198)
Q Consensus        73 ~a~~   76 (198)
                      .|..
T Consensus       130 ~a~~  133 (149)
T 2ehg_A          130 VAYE  133 (149)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            7653

---

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	198
d1mu2a1	126	c.55.3.1 (A:430-555) HIV RNase H (Domain of revers	0.002

>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 = 34.9 bits (79), Expect = 0.002
 Identities = 11/77 (14%), Positives = 24/77 (31%), Gaps = 5/77 (6%)

Query: 1   MSYAVKIASCPANPTYSLLFPDNIDADIY-----PPNKPKPLCLRVHLLCYGKQLAFLWC 55
                   +   +     +  D+             ++ K +   +  +   + +   W 
Sbjct: 47  AELEAFAMALTDSGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKEAIYVAWV 106

Query: 56  PSHTGIQGNEAVDRAAR 72
           P+H GI GN+ VD    
Sbjct: 107 PAHKGIGGNQEVDHLVS 123

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	198
d1mu2a1	126	HIV RNase H (Domain of reverse transcriptase) {Hum	99.42
d1rila_	147	RNase H (RNase HI) {Thermus thermophilus [TaxId: 2	99.13
d1jl1a_	152	RNase H (RNase HI) {Escherichia coli [TaxId: 562]}	99.12
d1s1ta1	110	HIV RNase H (Domain of reverse transcriptase) {Hum	97.34
d1zbfa1	132	BH0863-like Ribonuclease H {Bacillus halodurans [T	80.46

>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=99.42  E-value=4.6e-14  Score=101.87  Aligned_cols=60  Identities=18%  Similarity=0.288  Sum_probs=43.3

Q ss_pred             CCeEEEEecchhhhccCCCC-CCch--hH-H--HHHHHhCCeEEEEEecCCCCCCcchHHHHHHhCC
Q psy2786          14 PTYSLLFPDNIDADIYPPNK-PKPL--CL-R--VHLLCYGKQLAFLWCPSHTGIQGNEAVDRAARNP   74 (198)
Q Consensus        14 ~~~~~i~sDn~aa~i~~~~~-~~~~--~~-~--~~l~~~~~~i~l~WvPgH~gI~GNE~AD~aAk~a   74 (198)
                      ...+.|||||+.+ +..++. +...  .. .  .........|.|.|||||+|++|||+||++|++|
T Consensus        60 ~~~i~I~tDS~~v-~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~wV~gH~g~~gNe~AD~LA~~a  125 (126)
T d1mu2a1          60 GPKVNIIVDSQYV-MGIVASQPTESESKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVDHLVSQG  125 (126)
T ss_dssp             CSEEEEEESCHHH-HHHHHTCCSEESCHHHHHHHHHHHHCSEEEEEECCSSSCCTTHHHHHHHHHTT
T ss_pred             CcceEEEechHHH-HHHHhcCCccccchHHHHHHHHhhhcceeEEEEEeCCCCCcchHHHHHHHHhh
Confidence            3568899999999 554332 2211  11 1  1223346799999999999999999999999976

>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=99.13  E-value=3.6e-12  Score=93.85  Aligned_cols=71  Identities=28%  Similarity=0.287  Sum_probs=47.3

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCCC-----------------CCCch-hH-H-HHHHHhCCeEEEEEecCCCCCC
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPPN-----------------KPKPL-CL-R-VHLLCYGKQLAFLWCPSHTGIQ   62 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~~-----------------~~~~~-~~-~-~~l~~~~~~i~l~WvPgH~gI~   62 (198)
                      .||+.+.   ....+.|++||+.+ +..+.                 .|... .+ + .........|.|.|||||+|++
T Consensus        53 ~AL~~~~---~~~~i~i~tds~~~-~~~~~~~~~~~~~~~~~~~~~~~~v~n~dL~~~l~~~~~~~~v~~~wVkgHsg~~  128 (147)
T d1rila_          53 EGLKALK---EPCEVDLYTDSHYL-KKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMAPHRVRFHFVKGHTGHP  128 (147)
T ss_dssp             HHHHSCC---SCCEEEEECCCHHH-HHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHTTSEEECCCCCGGGSCT
T ss_pred             HHhhhcc---CCceEEEecchhhh-hccccccchhhhhhccccccccccchhHHHHHHHHHHhhhcccceEEccCCCCCc
Confidence            4555443   34567899999998 43221                 11111 11 1 1123456789999999999999


Q ss_pred             cchHHHHHHhCCCCC
Q psy2786          63 GNEAVDRAARNPSAS   77 (198)
Q Consensus        63 GNE~AD~aAk~a~~~   77 (198)
                      |||.||++||+|+..
T Consensus       129 gNe~AD~LAk~aa~~  143 (147)
T d1rila_         129 ENERVDREARRQAQS  143 (147)
T ss_dssp             HHHHHHHHHHHHHTS
T ss_pred             chHHHHHHHHHHHHH
Confidence            999999999977544

>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=99.12  E-value=4.1e-12  Score=93.63  Aligned_cols=32  Identities=28%  Similarity=0.467  Sum_probs=28.7

Q ss_pred             hCCeEEEEEecCCCCCCcchHHHHHHhCCCCC
Q psy2786          46 YGKQLAFLWCPSHTGIQGNEAVDRAARNPSAS   77 (198)
Q Consensus        46 ~~~~i~l~WvPgH~gI~GNE~AD~aAk~a~~~   77 (198)
                      ....|.|+|||||+|++|||+||++||.|+..
T Consensus       110 ~~~~V~~~wV~gH~g~~gNe~AD~LAk~aa~~  141 (152)
T d1jl1a_         110 GQHQIKWEWVKGHAGHPENERADELARAAAMN  141 (152)
T ss_dssp             TTCEEEEEECCSSTTCHHHHHHHHHHHHHHHS
T ss_pred             hcceeEEEEecccCCCccHHHHHHHHHHHHhC
Confidence            45689999999999999999999999988653

>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=97.34  E-value=2.7e-05  Score=53.66  Aligned_cols=44  Identities=16%  Similarity=0.115  Sum_probs=28.2

Q ss_pred             CCeEEEEecchhhhccCCCCCC---chhH-HHH--HHHhCCeEEEEEecCC
Q psy2786          14 PTYSLLFPDNIDADIYPPNKPK---PLCL-RVH--LLCYGKQLAFLWCPSH   58 (198)
Q Consensus        14 ~~~~~i~sDn~aa~i~~~~~~~---~~~~-~~~--l~~~~~~i~l~WvPgH   58 (198)
                      ...+.|||||+.+ +..++.-.   ...+ +..  +......|.|.|||||
T Consensus        61 ~~~v~I~TDS~yv-i~~i~~~~~~~~~~l~~~il~~l~~~~~v~i~WVpgH  110 (110)
T d1s1ta1          61 GLEVNIVTDSQYA-LGIIQAQPDQSESELVNQIIEQLIKKEKVYLAWVPAH  110 (110)
T ss_dssp             CSEEEEEECCHHH-HHHHHHCCSEESCHHHHHHHHHHHHCSEEEEEECCSS
T ss_pred             CCeEEEEEehHHH-HHHHhcCccccchHHHHHHHHHHhcCCceEEEEeCCC
Confidence            3568899999999 66654321   1111 111  1233578999999999

>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: BH0863-like Ribonuclease H
species: Bacillus halodurans [TaxId: 86665]

Probab=80.46  E-value=0.11  Score=36.08  Aligned_cols=63  Identities=8%  Similarity=-0.041  Sum_probs=40.8

Q ss_pred             hhhhhhcCCCCCCeEEEEecchhhhccCC---------CC-CCchhHHHHH-----HHhCCeEEEEEecCCCCCCcchHH
Q psy2786           3 YAVKIASCPANPTYSLLFPDNIDADIYPP---------NK-PKPLCLRVHL-----LCYGKQLAFLWCPSHTGIQGNEAV   67 (198)
Q Consensus         3 ~a~~~~~~~~~~~~~~i~sDn~aa~i~~~---------~~-~~~~~~~~~l-----~~~~~~i~l~WvPgH~gI~GNE~A   67 (198)
                      .||+.+...+  ..+.|||||+=+ |.-+         .. +....+-..+     ......+.+.|+..|+.--||..|
T Consensus        54 ~aL~~~~~~~--~~i~I~tDS~yv-i~wv~~~~~kt~~~~~vkN~~l~~~i~~a~~~lk~h~~~~~~~KW~~~~wG~i~A  130 (132)
T d1zbfa1          54 HGLRYLKERN--SRKPIYSNSQTA-IKWVKDKKAKSTLVRNEETALIWKLVDEAEEWLNTHTYETPILKWQTDKWGEIKA  130 (132)
T ss_dssp             HHHHHHHHTT--CCCCEEESCHHH-HHHHHHTCCCCCCCCSTTTHHHHHHHHHHHHHHHHCCCCCCEEECCHHHHCSCTT
T ss_pred             HHHHHhhcCC--ceEEEEeccHHH-HHHHHhCceecCcCCCcccHHHHHHHHHHHHHHHhCCcCceeEEecCcccccCCC
Confidence            4788887554  346789999998 4321         11 2222221111     133567899999999999999999


Q ss_pred             H
Q psy2786          68 D   68 (198)
Q Consensus        68 D   68 (198)
                      |
T Consensus       131 D  131 (132)
T d1zbfa1         131 D  131 (132)
T ss_dssp             C
T ss_pred             C
Confidence            8