Psyllid ID: psy529

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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-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------34
Protein Sequence
MWSNSQINEDKIPYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVLLFDDFHLLPFLHPAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANRDTHTQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLLDCVHHAPSNKRKPVQVQFYLLRPYFGQKFKTCKKSGLLRLKCLSKD
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccccccEEccccccccccEEEEcccccccccHHHHHHHHHHHHccccEEccccccccccEEEccccHHHHHHHHHHHHHcccccEEEEEcccccEEEccccccccccccccccccHHHHHccccEEEEEEcccccEEEEEEEcccccccccccHHHHHHHHcccccccccccccHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccEEEEEEEEccccccccccccccccccccccccccccHHHHHccccccHHHHccccccHHcccccccccHHHHHHHccccHHHHcccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccccEEEEcccccccHHHHHHHcHHccccccHHHHHHHHHHHHHccccccccccccccEEcccccccHHHHHHHHHHHHcccccEEEEEEcccEEEEEEcccccHHHHcccccccHHHHHccccEEEEEccccEEEEEEccEEEEEccccccccHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHccccccHHHHccccccccccccccccccEEEEEEEEcccccccHHHHHcccccccccccccEEEEEEEEEcccHcHHHHccccHHHHHHcccccccEEEEccccccEEEEEcccc
Coil and Loop (DISEMBL)
mwsnsqinedkipylgwdridatpsclpgerldlytteagrpdrrrYVALqpylsglpdseWLALQWVLLfddfhllpflhpapqfsfksnsrpsayKADVLLAELTrlpgkhflvLHRDTTIQitqnqqiapqfsfksnsrpsaykadvlpaeltrlpgkhflvlhrgttihitqnqqigneevdrganrdthtqainicspdDLKTMVKKLAYNNWQVLwnqtdplnklkqikpiistwktsqqsrrydEVVLSRLRightrvthsylferttpplcscgenllTVKHLLDcvhhapsnkrkpvqVQFYLLrpyfgqkfktckksgllrlkclskd
Flexible Loop (DISEMBL)
mwsnsqinedkipylgwDRIDATpsclpgerldlytteagrpdrrRYVALQPYLSGLPDSEWLALQWVLLFDDFHLLPFLHPAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTihitqnqqigneEVDRGANRDthtqainicspddLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPiistwktsqqsrrydEVVLSRLRightrvthsylferttpplcSCGENLLTVKHLLDCVHHapsnkrkpvqVQFYLLRPYFGQkfktckksgllrlkclskd
Low Complexity Region (SEG)
MWSNSQINEDKIPYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVllfddfhllpflhpAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDttiqitqnqqiAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANRDTHTQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLLDCVHHAPSNKRKPVQVQFYLLRPYFGQKFKTCKKSGLLRLKCLSKD
Disordered region (IsUnstruct)
**********KIPYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVLLFDDFHLLPFLHPAPQFSFK*****SAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIA*************YKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIG***********THTQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLLDCVHHAPSNKRKPVQVQFYLLRPYFGQKFKTCKKSGLLRLKC****
Disordered Region (DISOPRED)
*********DKIPYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVLLFDDFHLLPFLHPAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQIT*NQ*******F*SNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANRDT******ICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLLDCVHHAPSNKRKP*********PYFGQKFKTCKKSGLLRLKCL***
Disordered Region (DISEMBL)
MWSNSQINEDKIPYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVLLFDDFHLLPFLHPAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANRDTHTQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIISTW********YDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLLDCVHHAPSNKRKPVQVQFYLLRPYFGQKFKTCKKSGLLRLKCLSKD
Disordered Region (DISPRO)
*****QINEDKIPYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVLLFDDFHLLPFLHPAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANRDTHTQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLLDCVHHAPSNKRKPVQVQFYLLRPYFGQKFKTCKKSGLLRLKCLS**
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MWSNSQINEDKIPYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVLLFDDFHLLPFLHPAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANRDTHTQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLLDCVHHAPSNKRKPVQVQFYLLRPYFGQKFKTCKKSGLLRLKCLSKD
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	338
443693558	502	hypothetical protein CAPTEDRAFT_189741,	0.337	0.227	0.411	7e-14
443695973	261	hypothetical protein CAPTEDRAFT_23017, p	0.334	0.432	0.406	5e-13
443730613	233	hypothetical protein CAPTEDRAFT_206814 [	0.402	0.583	0.349	1e-12
443712830	397	hypothetical protein CAPTEDRAFT_202466 [	0.360	0.307	0.385	1e-12
427778603	1397	Putative tick transposon [Rhipicephalus	0.423	0.102	0.367	1e-11
443733872	400	hypothetical protein CAPTEDRAFT_197082 [	0.340	0.287	0.355	1e-11
328720146	164	PREDICTED: hypothetical protein LOC10056	0.319	0.658	0.396	5e-11
125901787	1222	pol-like protein [Biomphalaria glabrata]	0.334	0.092	0.379	7e-11
443724607	397	hypothetical protein CAPTEDRAFT_208903 [	0.352	0.299	0.369	7e-11
427791321	1210	Putative tick transposon, partial [Rhipi	0.328	0.091	0.345	1e-10

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

 Score = 84.3 bits (207), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 49/119 (41%), Positives = 68/119 (57%), Gaps = 5/119 (4%)

Query: 180 IGNEEVDRGANRDTHTQAINICSP-DDLKTMVKKLAYNNWQVLWNQ-TDPLNKLKQIKPI 237
           +GNE  DR A +        +  P  D K+ ++    + WQ  W++ TD  NKL  I+P+
Sbjct: 192 LGNEVADRLAKQALVMPVTKLPLPHTDYKSPIRSYVKSLWQNEWDEETD--NKLHSIQPV 249

Query: 238 ISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKH-LLDCV 295
           IS WK   Q  R  E+VL+R RIGH+ +TH YL  R   P C   ++LLTVKH L+DC+
Sbjct: 250 ISEWKQGPQIDRRGEIVLARARIGHSHLTHGYLLRREVAPFCIPCQSLLTVKHILIDCI 308

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

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

 Score = 81.6 bits (200), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 48/118 (40%), Positives = 67/118 (56%), Gaps = 5/118 (4%)

Query: 180 IGNEEVDRGANRDTHTQAINICSP-DDLKTMVKKLAYNNWQVLWNQ-TDPLNKLKQIKPI 237
           +GNE  DR A +        +  P  D K+ ++    + WQ  W++ TD  NKL  I+P+
Sbjct: 146 LGNEVADRLAKQALVMPVTKLPLPHTDYKSPIRSYVKSLWQNEWDEETD--NKLHSIQPV 203

Query: 238 ISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKH-LLDC 294
           IS WK   Q  R  E+VL+R RIGH+ +TH YL  R   P C   ++LL+VKH L+DC
Sbjct: 204 ISEWKQGPQIDRRGEIVLARARIGHSHLTHGYLLRREVAPFCIPCQSLLSVKHILIDC 261

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 = 80.5 bits (197), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 50/143 (34%), Positives = 73/143 (51%), Gaps = 7/143 (4%)

Query: 159 PGKHFLVLHRGTTIHI----TQNQQIGNEEVDRGANRDTHTQAINICSPD-DLKTMVKKL 213
           P K+ ++ +RG  + I    +    +GNE  D  A       A ++  P  D  ++    
Sbjct: 68  PQKYTILYNRGFDLVILWCPSHIGVVGNERADLLAKEALSFTACDVRIPAFDFNSVAYSF 127

Query: 214 AYNNWQVLWNQTDPLNKLKQIKPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFER 273
             + WQ LW+  +  NKL  ++PII     S +  R  E+VL+R RIGHT +TH YL  R
Sbjct: 128 YRDKWQALWS-LEQNNKLHSVQPIIKKLTNSSREDRRKEIVLARARIGHTHLTHGYLLRR 186

Query: 274 TTPPLCSCGENLLTVKH-LLDCV 295
             PP C   +  LTVKH L++CV
Sbjct: 187 ELPPFCVHCQCPLTVKHILIECV 209

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 = 80.5 bits (197), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 49/127 (38%), Positives = 70/127 (55%), Gaps = 5/127 (3%)

Query: 180 IGNEEVDRGANRDTHTQAINICSP-DDLKTMVKKLAYNNWQVLWN-QTDPLNKLKQIKPI 237
           +GNE  DR A +        +  P  D K+ ++    + WQ  W+ +TD  NKL  I+P+
Sbjct: 241 LGNEVADRQAKQALVMPVTKLPLPHTDYKSPIRSYVKSLWQNEWDGETD--NKLHIIQPV 298

Query: 238 ISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKH-LLDCVH 296
           IS WK   Q  R  E+VL+  RIGH+ +TH YL  R   P C   ++LLTVKH L+DC+ 
Sbjct: 299 ISEWKQGPQIDRRGEIVLACARIGHSHLTHGYLLRREVAPFCIPCQSLLTVKHILIDCID 358

Query: 297 HAPSNKR 303
              S ++
Sbjct: 359 FEISRRK 365

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|427778603|gb|JAA54753.1| Putative tick transposon [Rhipicephalus pulchellus]

 Score = 77.0 bits (188), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 61/166 (36%), Positives = 82/166 (49%), Gaps = 23/166 (13%)

Query: 133  PQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANRD 192
            P F+   N+   AY  + L   L  +PG      H G T         GNE VD+ A   
Sbjct: 1188 PVFNKLLNNMHEAYNQN-LSIVLCWVPG------HAGIT---------GNEMVDKNAREA 1231

Query: 193  THTQAINICS--PDDLKTMVKKLAYNNWQVLWN-QTDPLNKLKQIKPIISTWKTSQQSRR 249
                 I+I S    DL  +V++   ++WQV W+ Q D  NKL  +KP +S     Q+  R
Sbjct: 1232 ASRHTIDISSVPGVDLNPVVRRGLRSHWQVEWDKQVD--NKLHLVKPHLSK-VLPQKLNR 1288

Query: 250  YDEVVLSRLRIGHTRVTHSYLFERTTPPLC-SCGENLLTVKHLLDC 294
            + EV L+RLRIGHT  TH +L   T PP C  CGE L  +  L++C
Sbjct: 1289 FTEVTLARLRIGHTYATHKHLLTGTDPPTCIHCGETLTILHVLIEC 1334

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score = 77.0 bits (188), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 42/118 (35%), Positives = 64/118 (54%), Gaps = 3/118 (2%)

Query: 180 IGNEEVDRGANRDTHTQAINICSPD-DLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPII 238
           +GNE  D  A          I  P  D K +  +     WQ  W+ ++  NKL  I+P +
Sbjct: 113 MGNERADLLAKEALSFTTCTIRIPSSDFKPITHEFYKEKWQEQWS-SEQENKLYCIQPTL 171

Query: 239 STWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHL-LDCV 295
             W  S +  R +E+VL+R RIGH+ +TH YL  R  PP+C   +N+L++KH+ ++CV
Sbjct: 172 GKWAKSSREIRREEIVLARARIGHSHLTHGYLLRREMPPVCIPCQNILSIKHIFIECV 229

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|328720146|ref|XP_003246964.1| PREDICTED: hypothetical protein LOC100568990, partial [Acyrthosiphon pisum]

 Score = 74.7 bits (182), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 46/116 (39%), Positives = 69/116 (59%), Gaps = 8/116 (6%)

Query: 181 GNEEVDRGANRDTH---TQAINICSPDDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPI 237
           GNE+ D  A++      T  +NI + +D K  +K++    W + W   +   KL QIK  
Sbjct: 18  GNEKADLEASKAASSPDTPLLNIYTYEDKKKQIKQVLDQKWLIQW--INQHTKLNQIKNN 75

Query: 238 ISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCS-CGENLLTVKHLL 292
           I TWK    +R+ +E +L+RLRIGHT +TH +L E+  PP+C  CG + LTVKH++
Sbjct: 76  IQTWKNPGLNRK-EETILNRLRIGHTFITHRHLMEKNDPPICEMCGVD-LTVKHII 129

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|125901787|gb|ABN58714.1| pol-like protein [Biomphalaria glabrata]

 Score = 74.3 bits (181), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 44/116 (37%), Positives = 62/116 (53%), Gaps = 3/116 (2%)

Query: 181  GNEEVDRGANRDTHTQAINICSP-DDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIIS 239
            GNE  DR A R  +        P  DL+  +    Y  WQ  W + +  +KL+QI   + 
Sbjct: 1067 GNEAADREAKRALNHAVSGTQIPYSDLRQSIASATYREWQNRW-EAETHSKLRQIVADVR 1125

Query: 240  TWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLL-DC 294
               TS+   R     +SRLRIGHT +THS++ +R  PPLC   ++ LTV+H+L DC
Sbjct: 1126 WRPTSKGLTRRGSTTMSRLRIGHTYITHSFVLKREEPPLCEYCDSRLTVEHILVDC 1181

Source: Biomphalaria glabrata

Species: Biomphalaria glabrata

Genus: Biomphalaria

Family: Planorbidae

Class: Gastropoda

Phylum: Mollusca

Superkingdom: Eukaryota

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

 Score = 74.3 bits (181), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 48/130 (36%), Positives = 67/130 (51%), Gaps = 11/130 (8%)

Query: 180 IGNEEVDRGANRDTHTQAINICSPDD-----LKTMVKKLAYNNWQVLWNQTDPLNKLKQI 234
           +GNE  DR A +        +  P       +++ VK L  N W     +TD  NKL  I
Sbjct: 241 LGNEVADRLAKQALVMPVTKLPLPHTDYKSPIRSYVKSLRQNEWD---EETD--NKLHTI 295

Query: 235 KPIISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKH-LLD 293
           +P+IS WK   Q  R  E+VL+   IGH+ +TH YL  R   P C   ++LLTVKH L+D
Sbjct: 296 QPVISEWKQGPQIDRRGEIVLACACIGHSHLTHGYLLRREVAPFCIPCQSLLTVKHILID 355

Query: 294 CVHHAPSNKR 303
           C+    S ++
Sbjct: 356 CIDFEISRRK 365

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|427791321|gb|JAA61112.1| Putative tick transposon, partial [Rhipicephalus pulchellus]

 Score = 73.6 bits (179), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 39/113 (34%), Positives = 59/113 (52%), Gaps = 2/113 (1%)

Query: 181  GNEEVDRGANRDTHTQAINICSP-DDLKTMVKKLAYNNWQVLWNQTDPLNKLKQIKPIIS 239
            GNE+ D+ A+   H     I  P  D +  ++      WQ  W+     NKL  +KP + 
Sbjct: 1046 GNEKADKCASLAAHKTLTKIRIPLKDSQRTIRLALLAKWQQQWDSCTS-NKLHLVKPTLG 1104

Query: 240  TWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVKHLL 292
             WK  +   R+ EV+L RLRIGHT +TH++L  +   P+C   +  LT+ H+L
Sbjct: 1105 EWKNCRHQERFIEVILCRLRIGHTHLTHNFLLTKEEQPMCEKCQEPLTLIHIL 1157

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

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)

No hits with e-value below 0.001 by BLAST

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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

No hit with e-value below 0.005

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	338
KOG3752|consensus	371		99.7
PRK08719	147	ribonuclease H; Reviewed	99.41
COG0328	154	RnhA Ribonuclease HI [DNA replication, recombinati	99.41
PRK00203	150	rnhA ribonuclease H; Reviewed	99.41
PRK06548	161	ribonuclease H; Provisional	99.37
PF00075	132	RNase_H: RNase H; InterPro: IPR002156 The RNase H	99.31
cd06222	130	RnaseH RNase H (RNase HI) is an endonuclease that	99.01
PRK13907	128	rnhA ribonuclease H; Provisional	98.12
COG3341	225	Predicted double-stranded RNA/RNA-DNA hybrid bindi	97.99
PRK07708	219	hypothetical protein; Validated	97.84
PF13456	87	RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH	97.71
PRK07238	372	bifunctional RNase H/acid phosphatase; Provisional	97.49
PF01693	44	Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR0	97.32
PF13966	86	zf-RVT: zinc-binding in reverse transcriptase	93.34

>KOG3752|consensus

Probab=99.70  E-value=1e-17  Score=162.91  Aligned_cols=103  Identities=16%  Similarity=0.112  Sum_probs=76.3

Q ss_pred             ceeeecC-CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCccccc---------cc
Q psy529           85 QFSFKSN-SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPSAY---------KA  148 (338)
Q Consensus        85 ~~~~kl~-~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~~~---------~~  148 (338)
                      +.++.+. ...++|.||++|    +..||+.|.+....+++|.|||+++++..      |+...+.+..         ++
T Consensus       244 N~s~pv~~g~qtNnrAEl~A----v~~ALkka~~~~~~kv~I~TDS~~~i~~l~~wv~~~k~~~~k~~~~~~~i~~~v~n  319 (371)
T KOG3752|consen  244 NVSGPLAGGRQTNNRAELIA----AIEALKKARSKNINKVVIRTDSEYFINSLTLWVQGWKKNGWKTSNGSDRICAYVKN  319 (371)
T ss_pred             cccccCCCCcccccHHHHHH----HHHHHHHHHhcCCCcEEEEechHHHHHHHHHHHhhhccCccccccCCCccceeeec
Confidence            4788887 899999999999    78889999998888999999999998842      5544433221         12


Q ss_pred             cCchhhhhccCCCccccccceEEEEeCCCCCC-CchhHhhhhcccc
Q psy529          149 DVLPAELTRLPGKHFLVLHRGTTIHITQNQQI-GNEEVDRGANRDT  193 (338)
Q Consensus       149 ~~~~~~l~~~~~~~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~  193 (338)
                      .+.-.++.++.+..  ...+|++.||+||.|| |||+||.+|++..
T Consensus       320 ~~~~~e~~~l~q~~--~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs  363 (371)
T KOG3752|consen  320 QDFFNELDELEQEI--SNKKVQQEYVGGHSGILGNEMADALARKGS  363 (371)
T ss_pred             chHHHHHHHHHhhh--ccCceEEEEecCcCCcchHHHHHHHHhhhh
Confidence            22222333332211  1267899999999999 9999999999874

>PRK08719 ribonuclease H; Reviewed

Probab=99.41  E-value=9.4e-14  Score=121.14  Aligned_cols=96  Identities=15%  Similarity=0.066  Sum_probs=70.1

Q ss_pred             eeeecCCCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCcc----ccccccCchhhh
Q psy529           86 FSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRP----SAYKADVLPAEL  155 (338)
Q Consensus        86 ~~~kl~~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~----~~~~~~~~~~~l  155 (338)
                      .++.+....++..||+.|    +..||+.+...    ..|+|||+++++.+      |+.+++.    ..+.+..+...+
T Consensus        40 ~~~~~~~~~Tnn~aEl~A----~~~aL~~~~~~----~~i~tDS~yvi~~i~~~~~~W~~~~w~~s~g~~v~n~dl~~~i  111 (147)
T PRK08719         40 QSITVNRYTDNAELELLA----LIEALEYARDG----DVIYSDSDYCVRGFNEWLDTWKQKGWRKSDKKPVANRDLWQQV  111 (147)
T ss_pred             EEecCCCCccHHHHHHHH----HHHHHHHcCCC----CEEEechHHHHHHHHHHHHHHHhCCcccCCCcccccHHHHHHH
Confidence            445566668999999999    77788877643    37999999998753      5555554    223344444444


Q ss_pred             hccCCCccccccceEEEEeCCCCCC-CchhHhhhhccccc
Q psy529          156 TRLPGKHFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTH  194 (338)
Q Consensus       156 ~~~~~~~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~  194 (338)
                      ..+..     ..+|+|.|||||+|+ |||.||++|++|+.
T Consensus       112 ~~l~~-----~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~  146 (147)
T PRK08719        112 DELRA-----RKYVEVEKVTAHSGIEGNEAADMLAQAAAE  146 (147)
T ss_pred             HHHhC-----CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence            44332     356999999999999 99999999998853

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

Probab=99.41  E-value=1.6e-13  Score=120.28  Aligned_cols=113  Identities=17%  Similarity=0.097  Sum_probs=87.2

Q ss_pred             eEEeccCCccccccCCCCceeeecCCCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccC
Q psy529           67 WVLLFDDFHLLPFLHPAPQFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSN  140 (338)
Q Consensus        67 ~~~~~~~~~~~~~~~~~~~~~~kl~~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~  140 (338)
                      .++.|++.+.        +++.... ..|+..||+.|    ++.||+.+.+...++|.|+||||++++.+      |+.+
T Consensus        23 ~vl~~~~~~~--------~~s~~~~-~tTNNraEl~A----~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~~w~~~w~~~   89 (154)
T COG0328          23 AVLRYGDGEK--------ELSGGEG-RTTNNRAELRA----LIEALEALKELGACEVTLYTDSKYVVEGITRWIVKWKKN   89 (154)
T ss_pred             EEEEcCCceE--------EEeeeee-cccChHHHHHH----HHHHHHHHHhcCCceEEEEecHHHHHHHHHHHHhhcccc
Confidence            4777777666        2444445 88999999999    88999999998899999999999998853      5555


Q ss_pred             Ccc----ccccccCchhhhhccCCCccccccceEEEEeCCCCCC-CchhHhhhhccccccc
Q psy529          141 SRP----SAYKADVLPAELTRLPGKHFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHTQ  196 (338)
Q Consensus       141 s~~----~~~~~~~~~~~l~~~~~~~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~~  196 (338)
                      ++.    .++++..++.++.++...+    ..|.+.|||||+|. |||.||++|+.++...
T Consensus        90 ~w~~~~~~pvkn~dl~~~~~~~~~~~----~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~  146 (154)
T COG0328          90 GWKTADKKPVKNKDLWEELDELLKRH----ELVFWEWVKGHAGHPENERADQLAREAARAA  146 (154)
T ss_pred             CccccccCccccHHHHHHHHHHHhhC----CeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence            554    4556666666665544221    26899999999999 9999999999996543

>PRK00203 rnhA ribonuclease H; Reviewed

Probab=99.41  E-value=7.4e-14  Score=121.56  Aligned_cols=94  Identities=14%  Similarity=0.058  Sum_probs=68.4

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCccc----cccccCchhhhhccCCC
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPS----AYKADVLPAELTRLPGK  161 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~----~~~~~~~~~~l~~~~~~  161 (338)
                      ...++..||+.|    ++.||+.+..  ...|.|+|||+++++.+      |+..++.+    .+.+..+...+..+.  
T Consensus        39 ~~~TN~~aEL~A----i~~AL~~~~~--~~~v~I~tDS~yvi~~i~~w~~~Wk~~~~~~~~g~~v~n~dl~~~i~~l~--  110 (150)
T PRK00203         39 ALTTNNRMELMA----AIEALEALKE--PCEVTLYTDSQYVRQGITEWIHGWKKNGWKTADKKPVKNVDLWQRLDAAL--  110 (150)
T ss_pred             CCCcHHHHHHHH----HHHHHHHcCC--CCeEEEEECHHHHHHHHHHHHHHHHHcCCcccCCCccccHHHHHHHHHHh--
Confidence            357889999999    7788886653  46799999999998743      55554443    333443444444332  


Q ss_pred             ccccccceEEEEeCCCCCC-CchhHhhhhccccccc
Q psy529          162 HFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHTQ  196 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~~  196 (338)
                         ...+|.|.|||||+|+ |||.||++|++|....
T Consensus       111 ---~~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~  143 (150)
T PRK00203        111 ---KRHQIKWHWVKGHAGHPENERCDELARAGAEEA  143 (150)
T ss_pred             ---ccCceEEEEecCCCCCHHHHHHHHHHHHHHHHh
Confidence               2257999999999999 9999999999997543

>PRK06548 ribonuclease H; Provisional

Probab=99.37  E-value=2.2e-13  Score=120.60  Aligned_cols=92  Identities=13%  Similarity=0.001  Sum_probs=68.2

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCcc----ccccccCchhhhhccCCCc
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRP----SAYKADVLPAELTRLPGKH  162 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~----~~~~~~~~~~~l~~~~~~~  162 (338)
                      ..++..||+.|    ++.||+.+ ......|.|+|||+||++.+      |+.+++.    .++.|..+...|.++..  
T Consensus        39 ~~TNnraEl~A----ii~aL~~~-~~~~~~v~I~TDS~yvi~~i~~W~~~Wk~~gWk~s~G~pV~N~dL~~~l~~l~~--  111 (161)
T PRK06548         39 IATNNIAELTA----VRELLIAT-RHTDRPILILSDSKYVINSLTKWVYSWKMRKWRKADGKPVLNQEIIQEIDSLME--  111 (161)
T ss_pred             CCCHHHHHHHH----HHHHHHhh-hcCCceEEEEeChHHHHHHHHHHHHHHHHCCCcccCCCccccHHHHHHHHHHHh--
Confidence            57899999999    76777643 33345799999999999953      6655554    33445555555544432  


Q ss_pred             cccccceEEEEeCCCCCC-CchhHhhhhccccc
Q psy529          163 FLVLHRGTTIHITQNQQI-GNEEVDRGANRDTH  194 (338)
Q Consensus       163 ~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~  194 (338)
                         ...|+|.|||||+|+ |||.||+||++|..
T Consensus       112 ---~~~v~~~wVkgHsg~~gNe~aD~LA~~aa~  141 (161)
T PRK06548        112 ---NRNIRMSWVNAHTGHPLNEAADSLARQAAN  141 (161)
T ss_pred             ---cCceEEEEEecCCCCHHHHHHHHHHHHHHH
Confidence               246899999999999 99999999999863

>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=99.31  E-value=5.7e-13  Score=111.43  Aligned_cols=97  Identities=18%  Similarity=0.165  Sum_probs=65.0

Q ss_pred             ceeeecCCCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccc---cCCccccccccCchhhhhccCCC
Q psy529           85 QFSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFK---SNSRPSAYKADVLPAELTRLPGK  161 (338)
Q Consensus        85 ~~~~kl~~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k---~~s~~~~~~~~~~~~~l~~~~~~  161 (338)
                      ..++.++ ..+++.||+.|    +..||+ ++  ....|.|+|||+++++..-+   ..++........+..++.++.  
T Consensus        30 ~~~~~~~-~~s~~~aEl~A----i~~AL~-~~--~~~~v~I~tDS~~v~~~l~~~~~~~~~~~~~~~~~i~~~i~~~~--   99 (132)
T PF00075_consen   30 NFSFRLG-GQSNNRAELQA----IIEALK-AL--EHRKVTIYTDSQYVLNALNKWLHGNGWKKTSNGRPIKNEIWELL--   99 (132)
T ss_dssp             EEEEEEE-SECHHHHHHHH----HHHHHH-TH--STSEEEEEES-HHHHHHHHTHHHHTTSBSCTSSSBHTHHHHHHH--
T ss_pred             EEEeccc-ccchhhhheeh----HHHHHH-Hh--hcccccccccHHHHHHHHHHhccccccccccccccchhheeecc--
Confidence            3666667 89999999999    777888 55  34899999999999884322   012211111111222222211  


Q ss_pred             ccccccceEEEEeCCCCCC--CchhHhhhhcccc
Q psy529          162 HFLVLHRGTTIHITQNQQI--GNEEVDRGANRDT  193 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~i--gNe~aD~~a~~a~  193 (338)
                        .....|.|.|||||+|+  |||.||++||.|.
T Consensus       100 --~~~~~v~~~~V~~H~~~~~~N~~aD~lAk~a~  131 (132)
T PF00075_consen  100 --SRGIKVRFRWVPGHSGVPQGNERADRLAKEAA  131 (132)
T ss_dssp             --HHSSEEEEEESSSSSSSHHHHHHHHHHHHHHH
T ss_pred             --ccceEEeeeeccCcCCCchhHHHHHHHHHHhc
Confidence              13467899999999999  9999999999874

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 ....

>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=99.01  E-value=3.9e-10  Score=90.50  Aligned_cols=92  Identities=16%  Similarity=0.091  Sum_probs=64.6

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEE
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTT  171 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~  171 (338)
                      ...+++.||+.|    ++.|++.+......++.|++||+.+++...+..... ..........+..+.    .....+.+
T Consensus        37 ~~~s~~~aEl~a----l~~al~~~~~~~~~~i~i~~Ds~~~~~~~~~~~~~~-~~~~~~~~~~i~~~~----~~~~~~~i  107 (130)
T cd06222          37 GNTTNNRAELLA----LIEALELALELGGKKVNIYTDSQYVINALTGWYEGK-PVKNVDLWQRLLALL----KRFHKVRF  107 (130)
T ss_pred             CCCcHHHHHHHH----HHHHHHHHHhCCCceEEEEECHHHHHHHhhccccCC-ChhhHHHHHHHHHHH----hCCCeEEE
Confidence            578899999999    888999998888899999999998887643322100 000010111111111    12246899


Q ss_pred             EEeCCCCCC-CchhHhhhhccc
Q psy529          172 IHITQNQQI-GNEEVDRGANRD  192 (338)
Q Consensus       172 ~wip~h~~i-gNe~aD~~a~~a  192 (338)
                      .|||+|+|+ +|+.||.+|+.+
T Consensus       108 ~~v~~h~~~~~n~~ad~la~~~  129 (130)
T cd06222         108 EWVPGHSGIEGNERADALAKEA  129 (130)
T ss_pred             EEcCCCCCCcchHHHHHHHHhh
Confidence            999999999 999999999976

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.

>PRK13907 rnhA ribonuclease H; Provisional

Probab=98.12  E-value=1.3e-06  Score=73.44  Aligned_cols=90  Identities=13%  Similarity=0.024  Sum_probs=60.5

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEE
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTT  171 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~  171 (338)
                      ...++..||+.|    ++.||+.+.......|.|+|||++++....+..  ........+..++..+...    -..+.+
T Consensus        37 ~~~tn~~AE~~A----ll~aL~~a~~~g~~~v~i~sDS~~vi~~~~~~~--~~~~~~~~l~~~~~~l~~~----f~~~~~  106 (128)
T PRK13907         37 GTMSNHEAEYHA----LLAALKYCTEHNYNIVSFRTDSQLVERAVEKEY--AKNKMFAPLLEEALQYIKS----FDLFFI  106 (128)
T ss_pred             cccCCcHHHHHH----HHHHHHHHHhCCCCEEEEEechHHHHHHHhHHH--hcChhHHHHHHHHHHHHhc----CCceEE
Confidence            457899999999    899999999888889999999998877543211  1000111122222221111    123577


Q ss_pred             EEeCCCCCCCchhHhhhhccccc
Q psy529          172 IHITQNQQIGNEEVDRGANRDTH  194 (338)
Q Consensus       172 ~wip~h~~igNe~aD~~a~~a~~  194 (338)
                      .|||.+   +|+.||.+|+.|..
T Consensus       107 ~~v~r~---~N~~Ad~LA~~a~~  126 (128)
T PRK13907        107 KWIPSS---QNKVADELARKAIL  126 (128)
T ss_pred             EEcCch---hchhHHHHHHHHHh
Confidence            999985   89999999998753

>COG3341 Predicted double-stranded RNA/RNA-DNA hybrid binding protein [General function prediction only]

Probab=97.99  E-value=2.1e-06  Score=78.80  Aligned_cols=114  Identities=17%  Similarity=0.176  Sum_probs=65.5

Q ss_pred             CCCchhhhcccCCCCCCCcccccccccCCCcccchhhhcccc-cCCCchhhhhcceEEeccCCcccc-----ccCCCC-c
Q psy529           13 PYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVALQPYL-SGLPDSEWLALQWVLLFDDFHLLP-----FLHPAP-Q   85 (338)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~-s~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~-~   85 (338)
                      -|.|||||..||++||||+||.|.+.-+|   ..|....... -+.++..-..+-..-+||. .+.+     +.+... +
T Consensus        18 IyktW~Ec~~qVkGy~ga~YKsf~s~EeA---~a~~~g~i~~~tp~~~~e~~i~~~~G~y~~-~p~t~~~k~yr~k~~~~   93 (225)
T COG3341          18 IYKTWDECEKQVKGYPGAKYKSFKSYEEA---EAYCEGNIESVTPYLDFEYIISWAKGDYDA-KPGTQEFKEYRGKCTIE   93 (225)
T ss_pred             eeccHHHHHHHhcCCCcccccccccHHHH---HHHhccCccccCcccchhccceeccCCccc-cCCCcceeEEecccccc
Confidence            48999999999999999999999999888   7777751000 0112222221111111211 1111     111111 0


Q ss_pred             ee-eecCCC---CCccchhhhhHHhchhhhhhHhhhcCCCeEEE-E----eCCccccc
Q psy529           86 FS-FKSNSR---PSAYKADVLLAELTRLPGKHFLVLHRDTTIQI-T----QNQQIAPQ  134 (338)
Q Consensus        86 ~~-~kl~~~---~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I-~----sDSq~a~~  134 (338)
                      .+ ++-.+.   .++-++|++|    ++.|+..++..++.+..| +    .|||+...
T Consensus        94 ~~~lt~~~~~~~~~n~s~d~la----~ly~~~~~~~~~nrk~~i~y~~~~~ds~a~~k  147 (225)
T COG3341          94 YSWLTESSEFSIKSNDSGDVLA----KLYGLRYEVPLDNRKSVINYLTPGNDSWAYFK  147 (225)
T ss_pred             ceeeeeecccccccCchHHHHH----HhccccccccccCccceeeccCCcchhHHHHH
Confidence            11 111222   3355789999    888899888877776655 6    68876544

>PRK07708 hypothetical protein; Validated

Probab=97.84  E-value=1.7e-05  Score=73.69  Aligned_cols=93  Identities=10%  Similarity=-0.018  Sum_probs=58.7

Q ss_pred             ecCCCCCccchhhhhHHhchhhhhhHhhhcCCC--eEEEEeCCccccccc---cccCCccccccccCchhhhhccCCCcc
Q psy529           89 KSNSRPSAYKADVLLAELTRLPGKHFLVLHRDT--TIQITQNQQIAPQFS---FKSNSRPSAYKADVLPAELTRLPGKHF  163 (338)
Q Consensus        89 kl~~~~s~~~AE~~A~el~i~~gl~~a~~~~~~--~i~I~sDSq~a~~~~---~k~~s~~~~~~~~~~~~~l~~~~~~~~  163 (338)
                      .++...++..||..|    ++.||+.|......  .|.|++|||.++...   |++....   ...+. ..+..+... +
T Consensus       111 ~l~~~~TNN~AEy~A----li~aL~~A~e~g~~~~~V~I~~DSqlVi~qi~g~wk~~~~~---l~~y~-~~i~~l~~~-~  181 (219)
T PRK07708        111 YIEGIYDNNEAEYAA----LYYAMQELEELGVKHEPVTFRGDSQVVLNQLAGEWPCYDEH---LNHWL-DRIEQKLKQ-L  181 (219)
T ss_pred             cccccccCcHHHHHH----HHHHHHHHHHcCCCcceEEEEeccHHHHHHhCCCceeCChh---HHHHH-HHHHHHHhh-C
Confidence            455568999999999    88999999887654  489999999887642   3222110   00000 111111100 0


Q ss_pred             ccccceEEEEeCCCCCCCchhHhhhhcccccc
Q psy529          164 LVLHRGTTIHITQNQQIGNEEVDRGANRDTHT  195 (338)
Q Consensus       164 ~~~~~i~~~wip~h~~igNe~aD~~a~~a~~~  195 (338)
                        ..++.+.|||-.   -|+.||++|+.|.+.
T Consensus       182 --~l~~~~~~VpR~---~N~~AD~LAk~Al~~  208 (219)
T PRK07708        182 --KLTPVYEPISRK---QNKEADQLATQALEG  208 (219)
T ss_pred             --CceEEEEECCch---hhhHHHHHHHHHHhc
Confidence              123567787533   699999999999764

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

Probab=97.71  E-value=2e-05  Score=60.69  Aligned_cols=84  Identities=17%  Similarity=0.126  Sum_probs=51.8

Q ss_pred             cchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEEEEeCC
Q psy529           97 YKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTIHITQ  176 (338)
Q Consensus        97 ~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~wip~  176 (338)
                      ..||+.|    ++.|++.+...+-.+|.|.|||+.+++.+-+.......+..  +..++..+...    -.++.+.|||-
T Consensus         2 ~~aE~~a----l~~al~~a~~~g~~~i~v~sDs~~vv~~i~~~~~~~~~~~~--~~~~i~~~~~~----~~~~~~~~i~r   71 (87)
T PF13456_consen    2 LEAEALA----LLEALQLAWELGIRKIIVESDSQLVVDAINGRSSSRSELRP--LIQDIRSLLDR----FWNVSVSHIPR   71 (87)
T ss_dssp             HHHHHHH----HHHHHHHHHCCT-SCEEEEES-HHHHHHHTTSS---SCCHH--HHHHHHHHHCC----CSCEEEEE--G
T ss_pred             cHHHHHH----HHHHHHHHHHCCCCEEEEEecCccccccccccccccccccc--cchhhhhhhcc----ccceEEEEECh
Confidence            4699999    99999999999999999999999887765332111111111  11122222211    14578889863


Q ss_pred             CCCCCchhHhhhhcccc
Q psy529          177 NQQIGNEEVDRGANRDT  193 (338)
Q Consensus       177 h~~igNe~aD~~a~~a~  193 (338)
                      -   +|..||.+||.|.
T Consensus        72 ~---~N~~A~~LA~~a~   85 (87)
T PF13456_consen   72 E---QNKVADALAKFAL   85 (87)
T ss_dssp             G---GSHHHHHHHHHHH
T ss_pred             H---HhHHHHHHHHHHh
Confidence            2   8999999999763

>PRK07238 bifunctional RNase H/acid phosphatase; Provisional

Probab=97.49  E-value=0.00011  Score=72.80  Aligned_cols=93  Identities=14%  Similarity=0.019  Sum_probs=62.4

Q ss_pred             eecCCCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCcccccc
Q psy529           88 FKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLH  167 (338)
Q Consensus        88 ~kl~~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~  167 (338)
                      ..+. .+++..||..|    ++.||+.+.......|.|++||+++++.+.+  .+  ..++..+...+.++.. ....-.
T Consensus        38 ~~~~-~~tnn~AE~~A----ll~gL~~a~~~g~~~v~i~~DS~lvi~~i~~--~~--~~~~~~l~~~~~~i~~-l~~~f~  107 (372)
T PRK07238         38 EAIG-RATNNVAEYRG----LIAGLEAAAELGATEVEVRMDSKLVVEQMSG--RW--KVKHPDMKPLAAQARE-LASQFG  107 (372)
T ss_pred             cccC-CCCchHHHHHH----HHHHHHHHHhCCCCeEEEEeCcHHHHHHhCC--CC--ccCChHHHHHHHHHHH-HHhcCC
Confidence            3344 67788999999    9999999998888899999999988875322  11  0122222222222111 010114


Q ss_pred             ceEEEEeCCCCCCCchhHhhhhcccc
Q psy529          168 RGTTIHITQNQQIGNEEVDRGANRDT  193 (338)
Q Consensus       168 ~i~~~wip~h~~igNe~aD~~a~~a~  193 (338)
                      .+.+.|||.   -+|+.||.+|+.|.
T Consensus       108 ~~~i~~v~r---~~N~~AD~LA~~a~  130 (372)
T PRK07238        108 RVTYTWIPR---ARNAHADRLANEAM  130 (372)
T ss_pred             ceEEEECCc---hhhhHHHHHHHHHH
Confidence            689999996   37999999999984

>PF01693 Cauli_VI: Caulimovirus viroplasmin; InterPro: IPR011320 This entry represents the N-terminal domain of RNase HI, which has a 3-layer alpha/beta/alpha structure []

Probab=97.32  E-value=2.3e-05  Score=54.79  Aligned_cols=28  Identities=21%  Similarity=0.424  Sum_probs=24.9

Q ss_pred             CCchhhhcccCCCCCCCcccccccccCC
Q psy529           14 YLGWDRIDATPSCLPGERLDLYTTEAGR   41 (338)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~t~~~~   41 (338)
                      |.+|++|..||+++||+.||.|.|+.+|
T Consensus        14 y~~W~~~~~~v~g~~ga~~k~F~t~~eA   41 (44)
T PF01693_consen   14 YTSWAECKKQVSGYPGAIYKSFKTREEA   41 (44)
T ss_dssp             ECCHHHHHHHCTT-TT-EEEEESSHHHH
T ss_pred             ECCHHHHHHHhCCCCCceECCcCCHHHH
Confidence            7999999999999999999999999887

This domain is lacking in retroviral and prokaryotic enzymes, but shows a striking structural similarity to the ribosomal protein L9 N-terminal domain, and may function as a regulatory RNA-binding module. However, the topology of this domain differs from structures of known RNA binding domains such as the double-stranded RNA binding domain (dsRBD), the hnRNP K homology (KH) domain and the RNP motif. Eukaryotic RNases HI possess either one or two copies of this small N-terminal domain, in addition to the well-conserved catalytic RNase H domain. RNase HI belongs to the family of ribonuclease H enzymes that recognise RNA:DNA hybrids and degrade the RNA component. ; PDB: 1QHK_A 3BSU_C.

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

Probab=93.34  E-value=0.045  Score=43.05  Aligned_cols=43  Identities=26%  Similarity=0.366  Sum_probs=29.6

Q ss_pred             hhhhcCccccc-cccc--ccCCCCCCCCCCCC-ccchhhh-hhccCcc
Q psy529          256 SRLRIGHTRVT-HSYL--FERTTPPLCSCGEN-LLTVKHL-LDCVHHA  298 (338)
Q Consensus       256 ~RLRTGH~~l~-H~~l--~~~~dsp~C~~Cg~-~eTv~HI-~~Cp~~~  298 (338)
                      .-.|.-|.++. ...+  .+...++.|..|+. .||+.|+ ++||...
T Consensus        36 f~W~~~~~rL~t~~~l~~r~~~~~~~C~~C~~~~Et~~Hlf~~C~~a~   83 (86)
T PF13966_consen   36 FLWRALHNRLPTKDNLQRRGIQVDPICPLCGNEEETIEHLFFHCPFAR   83 (86)
T ss_pred             EeeeeccccchhhhhhhccCCccCCccccCCCccccccceeccCcCcc
Confidence            33445555552 1222  35567899999996 8999999 9999864

---

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	338
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	6e-06

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.2 bits (111), Expect = 6e-06
 Identities = 43/307 (14%), Positives = 83/307 (27%), Gaps = 95/307 (30%)

Query: 35  YTTEAGRPDRRRYVALQPYLSGLPDSEWLALQWVLLFDDF----HLLPFLHPAPQFSFKS 90
               + + + RR +  +PY + L           L+  +                F+   
Sbjct: 225 LRIHSIQAELRRLLKSKPYENCL-----------LVLLNVQNAKAWNA-------FNLSC 266

Query: 91  N----SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAY 146
                +R      D L A  T     H  + H   T+   + + +        + RP   
Sbjct: 267 KILLTTRFKQV-TDFLSAATT----THISLDHHSMTLTPDEVKSL---LLKYLDCRPQD- 317

Query: 147 KADVLPAE-LTRLPGKHFLVLHRGTTIHITQNQQIGNEEVDRGANR---------DTHTQ 196
               LP E LT  P      L             I  E +  G            D  T 
Sbjct: 318 ----LPREVLTTNP----RRL-----------SIIA-ESIRDGLATWDNWKHVNCDKLTT 357

Query: 197 AINIC----SPDDLKTMVKKLA---YNNW------QVLWNQTDP------LNKLKQIKPI 237
            I        P + + M  +L+    +         ++W           +NKL +   +
Sbjct: 358 IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHK-YSL 416

Query: 238 ISTWKTSQQSRRYDEVVLSRLRIGHTRVTHSYLFERTTPPLCSCGENLLTVK-------H 290
           +               +  ++++ +    H  + +    P     ++L+          H
Sbjct: 417 VEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH 476

Query: 291 LLDCVHH 297
           +    HH
Sbjct: 477 I---GHH 480

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	338
2qkb_A	154	Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy	99.59
3p1g_A	165	Xenotropic murine leukemia virus-related virus (X	99.52
1jl1_A	155	Ribonuclease HI; RNAse HI, protein stability, ther	99.46
3h08_A	146	RNH (ribonuclease H); RNAse H, 3D-structure, endon	99.46
3qio_A	150	GAG-POL polyprotein; RNAse H, inhibitor, nuclease,	99.45
2e4l_A	158	Ribonuclease HI, RNAse HI; hydrolase, endoribonucl	99.42
2kq2_A	147	Ribonuclease H-related protein; PSI, NESG, protein	99.37
1ril_A	166	Ribonuclease H; hydrolase(endoribonuclease); 2.80A	99.34
2lsn_A	165	Reverse transcriptase; RNAse H, viral protein; NMR	99.3
2zd1_A	557	Reverse transcriptase/ribonuclease H; P51/P66, het	99.03
1mu2_A	555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	99.02
2ehg_A	149	Ribonuclease HI; RNAse HI, hyperthermophilic archa	98.91
3u3g_D	140	Ribonuclease H, RNAse H1; hydrolase, cleave the RN	98.85
3hst_B	141	Protein RV2228C/MT2287; ribonuclease H1, RV2228C N	98.7
1qhk_A	47	RNAse HI, protein (ribonuclease HI); ribonuclease	98.24
3bsu_A	53	Ribonuclease H1, RNAse H1; RNAse H, RNA/DNA hybrid	98.17
1zbf_A	142	Ribonuclease H-related protein; RNAse H, RNA/DNA h	97.43
4htu_A	134	Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine,	96.4

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

Probab=99.59  E-value=6.5e-16  Score=133.13  Aligned_cols=101  Identities=16%  Similarity=0.113  Sum_probs=75.5

Q ss_pred             eeeecCCCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCccc----cccccCchhhh
Q psy529           86 FSFKSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPS----AYKADVLPAEL  155 (338)
Q Consensus        86 ~~~kl~~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~----~~~~~~~~~~l  155 (338)
                      ++..+....+++.||+.|    ++.||+.+......+|.|+|||+++++.+      |+.+++.+    ..++..+..++
T Consensus        40 ~~~~l~~~~tn~~aEl~A----~~~aL~~~~~~~~~~v~i~tDS~~vi~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i  115 (154)
T 2qkb_A           40 VGIRLPGRQTNQRAEIHA----ACKAIEQAKTQNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVAL  115 (154)
T ss_dssp             EEEECCSSCCHHHHHHHH----HHHHHHHHHHTTCCEEEEEESCHHHHHHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHH
T ss_pred             EEeecCCCCchHHHHHHH----HHHHHHHHHhCCCceEEEEECcHHHHhhhhhhHHHHHhccccccCCCccccHHHHHHH
Confidence            566777789999999999    88899999887778999999999998753      34444432    22333333333


Q ss_pred             hccCCCccccccceEEEEeCCCCCC-CchhHhhhhcccccc
Q psy529          156 TRLPGKHFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHT  195 (338)
Q Consensus       156 ~~~~~~~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~  195 (338)
                      ..+..     ..+|.|.|||||+|+ |||.||+||++|...
T Consensus       116 ~~l~~-----~~~v~~~~V~~H~g~~~N~~AD~LA~~a~~~  151 (154)
T 2qkb_A          116 ERLTQ-----GMDIQWMHVPGHSGFIGNEEADRLAREGAKQ  151 (154)
T ss_dssp             HHHHT-----TCEEEEEECCTTSSCHHHHHHHHHHHHHHTC
T ss_pred             HHHHc-----CCceEEEEccCCCCCHhHHHHHHHHHHHHHh
Confidence            33221     246999999999999 999999999998654

>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=99.52  E-value=3.2e-15  Score=131.34  Aligned_cols=95  Identities=17%  Similarity=0.144  Sum_probs=72.9

Q ss_pred             ecCCCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhh-hccCCCcccccc
Q psy529           89 KSNSRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAEL-TRLPGKHFLVLH  167 (338)
Q Consensus        89 kl~~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l-~~~~~~~~~~~~  167 (338)
                      .+....+++.||+.|    ++.||+.+   ...+|.|+||||++++.+|.. +....+++..+..++ .++.     ...
T Consensus        56 ~~~~~~Tnn~aEl~A----i~~AL~~~---~~~~v~I~tDS~~vi~~iw~~-~~g~~v~n~dl~~~l~~~l~-----~~~  122 (165)
T 3p1g_A           56 ALPAGTSAQRAELIA----LTQALKMA---EGKKLNVYTDSRYAFATAHVH-SEGREIKNKNEILALLKALF-----LPK  122 (165)
T ss_dssp             EECTTCCHHHHHHHH----HHHHHHHT---BTSEEEEEECCHHHHHHHHSC-CCSCCCSSHHHHHHHHHHTT-----SBS
T ss_pred             cCCCCCcHHHHHHHH----HHHHHHHc---cCceEEEEEchHHHHhhhhcc-cCCCcccCHHHHHHHHHHHh-----cCC
Confidence            456778999999999    88888887   368999999999999987753 333445555444444 2222     246


Q ss_pred             ceEEEEeCCCCC-----C-CchhHhhhhccccccc
Q psy529          168 RGTTIHITQNQQ-----I-GNEEVDRGANRDTHTQ  196 (338)
Q Consensus       168 ~i~~~wip~h~~-----i-gNe~aD~~a~~a~~~~  196 (338)
                      +|.|.|||||+|     + |||.||++|++|+..+
T Consensus       123 ~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~aa~~~  157 (165)
T 3p1g_A          123 RLSIIHCPGHQKGNSAEARGNRMADQAAREAAMKA  157 (165)
T ss_dssp             EEEEEECCSSCCSCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEecCCCCCCcCcchHHHHHHHHHHHHHhcC
Confidence            799999999999     9 9999999999997543

>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=99.46  E-value=1.1e-14  Score=125.90  Aligned_cols=96  Identities=15%  Similarity=0.114  Sum_probs=69.9

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCccc----cccccCchhhhhccCCC
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPS----AYKADVLPAELTRLPGK  161 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~----~~~~~~~~~~l~~~~~~  161 (338)
                      ...++..||+.|    ++.||+.+..  ..+|.|+|||+++++.+      |+.+++.+    .+++..+...+..+.. 
T Consensus        40 ~~~tn~~aEl~A----~~~aL~~~~~--~~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~-  112 (155)
T 1jl1_A           40 TRTTNNRMELMA----AIVALEALKE--HAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAALG-  112 (155)
T ss_dssp             EEECHHHHHHHH----HHHHHHTCCS--CCEEEEEECCHHHHHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHTT-
T ss_pred             CCCcHHHHHHHH----HHHHHHHhCc--CCcEEEEeCHHHHHHHHHHHHHHHhhcccccccCCccCCHHHHHHHHHHHc-
Confidence            357899999999    8888888765  37899999999998743      44444432    2333334444443332 


Q ss_pred             ccccccceEEEEeCCCCCC-CchhHhhhhccccccccc
Q psy529          162 HFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHTQAI  198 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~~~~  198 (338)
                          ...|.|.|||||+|+ |||.||+||+.|...+.+
T Consensus       113 ----~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~~~  146 (155)
T 1jl1_A          113 ----QHQIKWEWVKGHAGHPENERADELARAAAMNPTL  146 (155)
T ss_dssp             ----TCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCCB
T ss_pred             ----cCceEEEEcCCCCCCHHHHHHHHHHHHHHhccch
Confidence                247999999999999 999999999999765543

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

Probab=99.46  E-value=7.1e-15  Score=125.29  Aligned_cols=91  Identities=16%  Similarity=0.142  Sum_probs=64.8

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc-------cccCCcccc----ccccCchhhhhccCCC
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS-------FKSNSRPSA----YKADVLPAELTRLPGK  161 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~-------~k~~s~~~~----~~~~~~~~~l~~~~~~  161 (338)
                      ..++..||+.|    ++.||+.+..  ..+|.|+|||+++++.+       |+.+++.+.    +.+..+...+..+.  
T Consensus        41 ~~Tnn~aEl~A----~~~AL~~~~~--~~~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~~~~v~n~~l~~~~~~~~--  112 (146)
T 3h08_A           41 ATTNNRMELMA----AIKGLEALKE--PARVQLYSDSAYLVNAMNEGWLKRWVKNGWKTAAKKPVENIDLWQEILKLT--  112 (146)
T ss_dssp             EECHHHHHHHH----HHHHHHTCSS--CCEEEEEESCHHHHHHHHSSHHHHHHHTTCC----CCCTTHHHHHHHHHHH--
T ss_pred             CCcHHHHHHHH----HHHHHHhcCc--cCcEEEEeChHHHHHHHHHHHHHHHHHCCCccCCCCCcCCHHHHHHHHHHH--
Confidence            57899999999    8888888865  57999999999998753       333444322    23333333333322  


Q ss_pred             ccccccceEEEEeCCCCCC-CchhHhhhhccccc
Q psy529          162 HFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTH  194 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~  194 (338)
                         ...+|.|.|||||+|+ |||.||+||++|..
T Consensus       113 ---~~~~v~~~~V~gH~g~~~N~~AD~LA~~a~~  143 (146)
T 3h08_A          113 ---TLHRVTFHKVKGHSDNPYNSRADELARLAIK  143 (146)
T ss_dssp             ---HHSEEEEEECCC-CCSHHHHHHHHHHHHHHH
T ss_pred             ---hhCceEEEEcCCcCCcHhHHHHHHHHHHHHH
Confidence               2346999999999999 99999999999864

>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=99.45  E-value=1.7e-14  Score=124.66  Aligned_cols=91  Identities=16%  Similarity=0.146  Sum_probs=64.5

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCcccc----ccccCchhhhhc-cCC
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPSA----YKADVLPAELTR-LPG  160 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~~----~~~~~~~~~l~~-~~~  160 (338)
                      ...++..||+.|    ++.||+.+    ..+|.|+|||+++++.+      |+.+++.+.    +++..+..++.. +. 
T Consensus        45 ~~~Tnn~aEl~A----~i~AL~~~----~~~v~i~tDS~~v~~~i~~w~~~W~~~gw~~~~g~~v~n~~l~~~l~~~l~-  115 (150)
T 3qio_A           45 TDTTNQKTELQA----IYLALQDS----GLEVNIVTDSQYALGIITQWIHNWKKRGWKTADKKPVKNVDLVNQIIEQLI-  115 (150)
T ss_dssp             SSCCHHHHHHHH----HHHHHHHS----CSEEEEEESCHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHT-
T ss_pred             CCCCHHHHHHHH----HHHHHHhC----CCcEEEEeCcHHHHHHHHHHHHHHhhcCcCcCcCcccccHHHHHHHHHHHh-
Confidence            578999999999    77888874    58999999999998843      566665532    333334333322 21 


Q ss_pred             CccccccceEEEEeCCCCCC-CchhHhhhhcccccc
Q psy529          161 KHFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHT  195 (338)
Q Consensus       161 ~~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~  195 (338)
                          ...+|.|.|||||+|+ |||.||+||++|+..
T Consensus       116 ----~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~  147 (150)
T 3qio_A          116 ----KKEKVYLAWVPAHKGIGGNEQVDKLVSAGIRK  147 (150)
T ss_dssp             ----TCSEEEEEECCTTSCCHHHHHHHHHHHTTTSC
T ss_pred             ----hcCceEEEEccCcCCChhHHHHHHHHHHHHHH
Confidence                2357999999999999 999999999999754

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

Probab=99.42  E-value=2.7e-14  Score=123.87  Aligned_cols=92  Identities=17%  Similarity=0.098  Sum_probs=67.0

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCccc----cccccCchhhhhccCCCc
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPS----AYKADVLPAELTRLPGKH  162 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~----~~~~~~~~~~l~~~~~~~  162 (338)
                      ..++..||+.|    ++.||+.+..  ..+|.|+|||+++++.+      |+.+++.+    .+++..+...+..+..  
T Consensus        43 ~~tn~~aEl~A----~~~AL~~~~~--~~~v~I~tDS~~vi~~i~~w~~~W~~n~~~~~~g~~v~n~~l~~~i~~l~~--  114 (158)
T 2e4l_A           43 LTTNNRMELLA----PIVALEALKE--PCKIILTSDSQYMRQGIMTWIHGWKKKGWMTSNRTPVKNVDLWKRLDKAAQ--  114 (158)
T ss_dssp             EECHHHHHHHH----HHHHHHTCSS--CCEEEEEECCHHHHHHHHTHHHHHHHTTTBCTTSSBCTTHHHHHHHHHHHT--
T ss_pred             CCccHHHHHHH----HHHHHHHhcc--CCeEEEEeCHHHHHHHHHHHHHHHHHccccccCCCcccCHHHHHHHHHHHc--
Confidence            57899999999    8888887754  38999999999998843      33334332    2333333333333221  


Q ss_pred             cccccceEEEEeCCCCCC-CchhHhhhhcccccc
Q psy529          163 FLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHT  195 (338)
Q Consensus       163 ~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~  195 (338)
                         ...|.|.|||||+|+ |||.||+||++|...
T Consensus       115 ---~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~  145 (158)
T 2e4l_A          115 ---LHQIDWRWVKGHAGHAENERCDQLARAAAEA  145 (158)
T ss_dssp             ---TSEEEEEECCTTCCCHHHHHHHHHHHHHHHS
T ss_pred             ---cCcEEEEEccCCCCchhHHHHHHHHHHHHHh
Confidence               247999999999999 999999999999765

>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=99.37  E-value=6.1e-14  Score=120.37  Aligned_cols=90  Identities=9%  Similarity=-0.038  Sum_probs=62.8

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEEE
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTI  172 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~  172 (338)
                      ..+++.||+.|    ++.||+.++.... +|.|+|||+.+.+  |-...+...   ...+..+..++....   .+|.|.
T Consensus        47 ~~tNn~aEl~A----~~~AL~~a~~~~~-~v~I~tDS~~i~~--w~~~~w~~~---~~~~~~~~~l~~~l~---~~v~~~  113 (147)
T 2kq2_A           47 TMRNVAGEIAA----ALYAVKKASQLGV-KIRILHDYAGIAF--WATGEWKAK---NEFTQAYAKLMNQYR---GIYSFE  113 (147)
T ss_dssp             GTCTTHHHHHH----HHHHHHHHHHHTC-CCCBSSCCSTHHH--HTTSSSSCC---HHHHHHHHCGGGGGS---TTCCBC
T ss_pred             cccHHHHHHHH----HHHHHHHHHHCCC-eEEEEECcHHHHH--HHhCCCccC---CcchHHHHHHHHHhc---CCeeEE
Confidence            36899999999    8888998877655 9999999986553  222222211   112222222222211   178999


Q ss_pred             EeCCCCCC-CchhHhhhhcccccc
Q psy529          173 HITQNQQI-GNEEVDRGANRDTHT  195 (338)
Q Consensus       173 wip~h~~i-gNe~aD~~a~~a~~~  195 (338)
                      |||||+|+ |||.||+||++|...
T Consensus       114 wV~gH~g~~~Ne~AD~LA~~a~~~  137 (147)
T 2kq2_A          114 KVKAHSGNEFNDYVDMKAKSALGI  137 (147)
T ss_dssp             CCCCCCCCHHHHHHHHHHHHHHTC
T ss_pred             EecCcCCCcchHHHHHHHHHHHhc
Confidence            99999999 999999999999754

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

Probab=99.34  E-value=9.3e-14  Score=121.61  Aligned_cols=92  Identities=15%  Similarity=0.140  Sum_probs=66.0

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc-------cccCCccc----cccccCchhhhhccCCC
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS-------FKSNSRPS----AYKADVLPAELTRLPGK  161 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~-------~k~~s~~~----~~~~~~~~~~l~~~~~~  161 (338)
                      ..++..||+.|    ++.||+.+...  .+|.|+|||+++++.+       |+.+++.+    .+++..+...+..+.. 
T Consensus        45 ~~Tnn~aEl~A----i~~AL~~~~~~--~~v~I~tDS~~vi~~i~~~w~~~W~~~~w~~~~g~~v~n~~l~~~i~~l~~-  117 (166)
T 1ril_A           45 CTTNNRMELKA----AIEGLKALKEP--CEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMA-  117 (166)
T ss_dssp             EECHHHHHHHH----HHHHHHSCCSC--CEEEEECCCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHT-
T ss_pred             CCcHHHHHHHH----HHHHHHHhccC--CeEEEEeChHHHHHHHhhhHHHHHHhcccccccCCccCcHHHHHHHHHHHh-
Confidence            57899999999    88888877543  5899999999998743       23333332    2333333333433321 


Q ss_pred             ccccccceEEEEeCCCCCC-CchhHhhhhcccccc
Q psy529          162 HFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHT  195 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~  195 (338)
                          ...|.|.|||||+|+ |||.||+||++|...
T Consensus       118 ----~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~  148 (166)
T 1ril_A          118 ----PHRVRFHFVKGHTGHPENERVDREARRQAQS  148 (166)
T ss_dssp             ----TSEEECCCCCGGGSCTHHHHHHHHHHHHHTS
T ss_pred             ----cCeEEEEEeeCCCCchhHHHHHHHHHHHHHH
Confidence                247899999999999 999999999999654

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

Probab=99.30  E-value=3.4e-13  Score=118.48  Aligned_cols=93  Identities=14%  Similarity=0.017  Sum_probs=64.7

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCccc----cccccCchhhhhccCCC
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPS----AYKADVLPAELTRLPGK  161 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~----~~~~~~~~~~l~~~~~~  161 (338)
                      +..+...||+.|    +..|++.++.. ..+|.|+|||+|+++.+      |+.++|.+    ++++..+...|.++.  
T Consensus        52 nn~te~~Aei~A----l~~al~~al~~-~~~v~I~TDS~Yvi~~it~w~~~Wk~ngw~~~~~~pVkN~dL~~~l~~~~--  124 (165)
T 2lsn_A           52 GNHTAQMAEIAA----VEFACKKALKI-PGPVLVITDSFYVAESANKELPYWKSNGFVNNKKKPLKHISKWKSIAECL--  124 (165)
T ss_dssp             SSCCHHHHHHHH----HHHHHHHHHHS-SSCEEEEESCHHHHHHHHTHHHHHHHTTSCSCSSSCCSSHHHHHHHHHHH--
T ss_pred             hHHHHHHHHHHH----HHHHHHHHhcC-CCeEEEEeChHHHHhhhhhhhhhheeccccccCCCcccCHHHHHHHHHHH--
Confidence            456677788888    54556666544 46799999999998853      66555543    345554544443321  


Q ss_pred             ccccccceEEEEeCCCCC------C-CchhHhhhhcccc
Q psy529          162 HFLVLHRGTTIHITQNQQ------I-GNEEVDRGANRDT  193 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~------i-gNe~aD~~a~~a~  193 (338)
                        ....+|.|.|||||+|      . |||.||+||++++
T Consensus       125 --~~~~~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~gA  161 (165)
T 2lsn_A          125 --SMKPDITIQHEKGHQPTNTSIHTEGNALADKLATQGS  161 (165)
T ss_dssp             --HHCTTCEEEECCSSSCSSSCHHHHHHHHHHHHHHHHH
T ss_pred             --hCCCCEEEEEEeCCCCccCCCCChHHHHHHHHHHHhh
Confidence              1235799999999998      4 6999999999875

>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=99.03  E-value=7.2e-11  Score=120.94  Aligned_cols=84  Identities=15%  Similarity=0.163  Sum_probs=58.8

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhh-ccCCCccccccceE
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELT-RLPGKHFLVLHRGT  170 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~-~~~~~~~~~~~~i~  170 (338)
                      ...++..||+.|    ++.||+.+    ..+|.|+||||+|++.+.+   +... .+..+..++. ++.     ...+|.
T Consensus       472 ~~~TNn~aEl~A----i~~aL~~~----~~~v~I~tDS~~vi~~i~~---~~~~-~~~~l~~~~~~~l~-----~~~~v~  534 (557)
T 2zd1_A          472 TNTTNQKTELQA----IYLALQDS----GLEVNIVTDSQYALGIIQA---QPDK-SESELVNQIIEQLI-----KKEKVY  534 (557)
T ss_dssp             CSCCHHHHHHHH----HHHHHHHS----CSEEEEEECCHHHHHHHTT---CCSE-ESSHHHHHHHHHHH-----HCSEEE
T ss_pred             CCCCHHHHHHHH----HHHHHHhC----CCcEEEEeChHHHHHHHhc---CCcc-CCHHHHHHHHHHHh-----cCCCEE
Confidence            468999999999    88888887    6789999999999886533   1100 0222222221 111     235799


Q ss_pred             EEEeCCCCCC-CchhHhhhhccc
Q psy529          171 TIHITQNQQI-GNEEVDRGANRD  192 (338)
Q Consensus       171 ~~wip~h~~i-gNe~aD~~a~~a  192 (338)
                      +.|||||+|+ |||.||++|++|
T Consensus       535 ~~wV~~H~g~~~Ne~AD~LA~~a  557 (557)
T 2zd1_A          535 LAWVPAHKGIGGNEQVDKLVSAG  557 (557)
T ss_dssp             EEECCSSSCCTTCCGGGGCC---
T ss_pred             EEEcCCCCCChhHHHHHHHHhcC
Confidence            9999999999 999999999976

>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=99.02  E-value=9e-11  Score=120.14  Aligned_cols=86  Identities=12%  Similarity=0.126  Sum_probs=61.4

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEE
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTT  171 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~  171 (338)
                      ...++..||+.|    ++.||+.    ...++.|+||||+|++.+.+   +.+. .+..+..++.+.    .....+|.+
T Consensus       469 ~~~TNn~aEl~A----~i~aL~~----~~~~v~I~tDS~~v~~~i~~---~~~~-~~~~l~~~~~~~----~~~~~~v~~  532 (555)
T 1mu2_A          469 EQTTNQQAELEA----FAMALTD----SGPKVNIIVDSQYVMGIVAS---QPTE-SESKIVNQIIEE----MIKKEAIYV  532 (555)
T ss_dssp             SSCCHHHHHHHH----HHHHHHT----SCSEEEEEESCHHHHHHHHT---CCSE-ESCHHHHHHHHH----HHHCSEEEE
T ss_pred             CCCCHHHHHHHH----HHHHHHc----CCCeEEEEEehHHHHHHHhc---cccc-ccHHHHHHHHHH----hccCCcEEE
Confidence            467899999999    7777776    56899999999999886532   2211 222222222111    012356899


Q ss_pred             EEeCCCCCC-CchhHhhhhcccc
Q psy529          172 IHITQNQQI-GNEEVDRGANRDT  193 (338)
Q Consensus       172 ~wip~h~~i-gNe~aD~~a~~a~  193 (338)
                      .|||||+|+ |||.||+||++|+
T Consensus       533 ~wV~~H~g~~~Ne~AD~LA~~a~  555 (555)
T 1mu2_A          533 AWVPAHKGIGGNQEVDHLVSQGI  555 (555)
T ss_dssp             EECCSSSCCTTHHHHHHHHHTTC
T ss_pred             EEEECCCCChhHHHHHHHHHhhC
Confidence            999999999 9999999999874

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

Probab=98.91  E-value=4.7e-10  Score=95.35  Aligned_cols=89  Identities=13%  Similarity=-0.022  Sum_probs=62.4

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccc-cccccCchhhhhccCCCccccccceE
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPS-AYKADVLPAELTRLPGKHFLVLHRGT  170 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~-~~~~~~~~~~l~~~~~~~~~~~~~i~  170 (338)
                      ...++..||+.|    ++.||+.+......+|.|+|||+++++.+-+.  +.. .-....+..++..+.     ...+|.
T Consensus        44 ~~~tnn~aEl~A----~~~aL~~a~~~g~~~v~i~tDS~~vi~~i~~~--w~~~~~~~~~l~~~i~~l~-----~~~~v~  112 (149)
T 2ehg_A           44 INSTNNVAEYSG----LICLMETMLRLGISSPIIKGDSQLVIKQMNGE--YKVKAKRIIPLYEKAIELK-----KKLNAT  112 (149)
T ss_dssp             TTCCHHHHHHHH----HHHHHHHHHHHTCCSCEEEESCHHHHHHHTTS--SCCCCTTHHHHHHHHHHHH-----HHHTCE
T ss_pred             CCccHHHHHHHH----HHHHHHHHHHcCCCEEEEEeChHHHHHHHhCc--cccCCHHHHHHHHHHHHHH-----hcCCEE
Confidence            478899999999    88999999888778999999999998764221  110 001111222222221     122589


Q ss_pred             EEEeCCCCCCCchhHhhhhccccc
Q psy529          171 TIHITQNQQIGNEEVDRGANRDTH  194 (338)
Q Consensus       171 ~~wip~h~~igNe~aD~~a~~a~~  194 (338)
                      |.|||+|   |||.||+||+.|..
T Consensus       113 ~~~V~~~---~N~~AD~LA~~a~~  133 (149)
T 2ehg_A          113 LIWVPRE---ENKEADRLSRVAYE  133 (149)
T ss_dssp             EEECCGG---GCHHHHHHHHHHHH
T ss_pred             EEEcCCc---ccHHHHHHHHHHHH
Confidence            9999996   89999999999964

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

Probab=98.85  E-value=3.8e-10  Score=93.72  Aligned_cols=91  Identities=11%  Similarity=0.096  Sum_probs=61.0

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCC----eEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccc
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDT----TIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHR  168 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~----~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~  168 (338)
                      .++++.||+.|    ++.||+.+......    +|.|+|||+++++..-+.  +  ..++..+...+.++..........
T Consensus        42 ~~tn~~aEl~A----~~~aL~~a~~~~~~~~~~~v~i~tDS~~vi~~i~~~--~--~~~~~~l~~~~~~i~~l~~~~~~~  113 (140)
T 3u3g_D           42 ETTNNVAEYEA----LIRALEDLQMFGDKLVDMEVEVRMDSELIVRQMQGV--Y--KVKEPTLKEKFAKIAHIKMERVPN  113 (140)
T ss_dssp             EECHHHHHHHH----HHHHHHHHGGGGGGGTTCEEEEEESCHHHHHHHTTS--S--CCCCGGGHHHHHHHHHHHHHHCTT
T ss_pred             CCchHHHHHHH----HHHHHHHHHHcCCCCCCceEEEEeChHHHHHHhCCC--c--ccCCHHHHHHHHHHHHHhhcCCCc
Confidence            47899999999    88899998876656    999999999998864321  1  112322322222211100111147


Q ss_pred             eEEEEeCCCCCCCchhHhhhhccccc
Q psy529          169 GTTIHITQNQQIGNEEVDRGANRDTH  194 (338)
Q Consensus       169 i~~~wip~h~~igNe~aD~~a~~a~~  194 (338)
                      |+|.|||+   -|||.||+||+.|..
T Consensus       114 v~~~~V~~---~~N~~AD~LA~~a~~  136 (140)
T 3u3g_D          114 LVFVHIPR---EKNARADELVNEAID  136 (140)
T ss_dssp             CEEEECCG---GGGHHHHHHHHHHHH
T ss_pred             EEEEEcCc---hhhHHHHHHHHHHHH
Confidence            89999992   399999999998854

>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=98.70  E-value=2.7e-09  Score=89.00  Aligned_cols=91  Identities=14%  Similarity=-0.000  Sum_probs=62.6

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEEE
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTTI  172 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~~  172 (338)
                      .+++..||+.|    ++.||+.+......+|.|+|||+++++..-+  .+.  .++..+...+.++.. .......|.|.
T Consensus        43 ~~tn~~aEl~A----~~~aL~~a~~~~~~~v~i~tDS~~vv~~i~~--~~~--~~~~~l~~~~~~i~~-l~~~~~~v~~~  113 (141)
T 3hst_B           43 RATNNVAEYRG----LIAGLDDAVKLGATEAAVLMDSKLVVEQMSG--RWK--VKHPDLLKLYVQAQA-LASQFRRINYE  113 (141)
T ss_dssp             EECHHHHHHHH----HHHHHHHHHHHTCSEEEEEESCHHHHHHHTT--SSC--CCSHHHHHHHHHHHH-HHTTSSEEEEE
T ss_pred             CCchHHHHHHH----HHHHHHHHHHCCCceEEEEeChHHHHHHHhC--Ccc--cCCHHHHHHHHHHHH-HHhcCCeEEEE
Confidence            67899999999    8899999988878899999999999886432  111  122222221211110 00012568999


Q ss_pred             EeCCCCCCCchhHhhhhcccccc
Q psy529          173 HITQNQQIGNEEVDRGANRDTHT  195 (338)
Q Consensus       173 wip~h~~igNe~aD~~a~~a~~~  195 (338)
                      |||+   -|||.||+||+.|...
T Consensus       114 ~V~~---~~N~~AD~LA~~a~~~  133 (141)
T 3hst_B          114 WVPR---ARNTYADRLANDAMDA  133 (141)
T ss_dssp             ECCG---GGCHHHHHHHHHHHHH
T ss_pred             EcCC---cccHHHHHHHHHHHHH
Confidence            9993   4999999999998643

>1qhk_A RNAse HI, protein (ribonuclease HI); ribonuclease HI N-terminal domain, hydrolase; NMR {Saccharomyces cerevisiae} SCOP: d.100.1.2

Probab=98.24  E-value=6.3e-08  Score=67.86  Aligned_cols=33  Identities=9%  Similarity=0.273  Sum_probs=30.3

Q ss_pred             CCCchhhhcccCCCCCCCcccccccccCCCcccchh
Q psy529           13 PYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYV   48 (338)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~   48 (338)
                      -|.+|+||.+||++|||++||+|.|+.||   +.|+
T Consensus        14 Iy~sW~ec~~qV~g~~ga~yK~F~t~~eA---~~~l   46 (47)
T 1qhk_A           14 IYNTWNECKNQVDGYGGAIYKKFNSYEQA---KSFL   46 (47)
T ss_dssp             EEEEHHHHHHHSSSCSSCCCEEESCHHHH---HHHH
T ss_pred             eECCHHHHHHHhcCCCCCccCCCCCHHHH---HHHh
Confidence            48999999999999999999999999998   6664

>3bsu_A Ribonuclease H1, RNAse H1; RNAse H, RNA/DNA hybrid; HET: DNA 5IU; 2.10A {Homo sapiens}

Probab=98.17  E-value=9.3e-08  Score=68.65  Aligned_cols=35  Identities=23%  Similarity=0.471  Sum_probs=32.0

Q ss_pred             CCCchhhhcccCCCCCCCcccccccccCCCcccchhhh
Q psy529           13 PYLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYVAL   50 (338)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~   50 (338)
                      -|.+|+||.+||++|||++||+|.|+.||   +.|+..
T Consensus        16 Iy~sW~ec~~qV~g~~ga~yK~F~t~~eA---~~~l~~   50 (53)
T 3bsu_A           16 VFLTWNECRAQVDRFPAARFKKFATEDEA---WAFVRK   50 (53)
T ss_dssp             EESSHHHHHHHHTTCTTCEEEEESSHHHH---HHHHHC
T ss_pred             eECCHHHHHHHhcCCCCCccCCCCCHHHH---HHHHHh
Confidence            48999999999999999999999999999   777654

>1zbf_A Ribonuclease H-related protein; RNAse H, RNA/DNA hybrid, DDE motif, hydrolase; 1.50A {Bacillus halodurans} SCOP: c.55.3.1 PDB: 1zbi_A 2g8u_A 2g8i_A 2g8h_A 2g8k_A 2g8f_A 2g8v_A 2g8w_A 3ey1_A* 1zbl_A 3d0p_A* 3i8d_A* 2r7y_A*

Probab=97.43  E-value=9.4e-06  Score=69.28  Aligned_cols=88  Identities=14%  Similarity=0.090  Sum_probs=61.5

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccc---cCCccccccccCchhhhhccCCCccccccce
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFK---SNSRPSAYKADVLPAELTRLPGKHFLVLHRG  169 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k---~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i  169 (338)
                      ..++..||..|    ++.||+.+..... +|.|+||||+++.-..+   ..+.....++..+...|.+..  .....+.+
T Consensus        48 ~~TNN~aEl~A----~i~aL~~~~~~~~-~v~i~tDS~~vi~w~~~~~~k~~~~~~v~n~dLw~~l~~~~--~w~~~~~~  120 (142)
T 1zbf_A           48 IGTNNMGEFLA----IVHGLRYLKERNS-RKPIYSNSQTAIKWVKDKKAKSTLVRNEETALIWKLVDEAE--EWLNTHTY  120 (142)
T ss_dssp             EECHHHHHHHH----HHHHHHHHHHTTC-CCCEEESCHHHHHHHHHTCCCCCCCCSTTTHHHHHHHHHHH--HHHHHCCC
T ss_pred             CcCcHHHHHHH----HHHHHHHHHhCCC-eEEEEEehHHHHHHHHcCCccCCCCCCcccHHHHHHHHHHH--HHHhhCCC
Confidence            46899999999    8899999987655 89999999999874321   122233445555555544321  12223566


Q ss_pred             EEEEeCCCCCC-CchhHhh
Q psy529          170 TTIHITQNQQI-GNEEVDR  187 (338)
Q Consensus       170 ~~~wip~h~~i-gNe~aD~  187 (338)
                      +...|.-|++. ||.-||.
T Consensus       121 ~~~~~kw~~~~~ge~pad~  139 (142)
T 1zbf_A          121 ETPILKWQTDKWGEIKADY  139 (142)
T ss_dssp             CCCEEECCHHHHCSCTTCC
T ss_pred             ceeEEEeccCccCcCcccc
Confidence            77888999999 9999995

>4htu_A Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, W-C base PAIR, wobble base PAIR, D helix; HET: DNA UCL; 1.49A {Bacillus halodurans} PDB: 3d0p_A* 4hue_A* 4huf_A* 4hug_A* 1zbf_A 1zbi_A 2g8u_A 3uld_A* 3ey1_A* 3twh_A* 2g8f_A 2g8v_A 2g8w_A 2g8i_A 2g8h_A 2g8k_A 3i8d_A* 2r7y_A* 1zbl_A

Probab=96.40  E-value=0.00068  Score=57.33  Aligned_cols=60  Identities=12%  Similarity=0.082  Sum_probs=42.9

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccc--c-CCccccccccCchhhhhc
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFK--S-NSRPSAYKADVLPAELTR  157 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k--~-~s~~~~~~~~~~~~~l~~  157 (338)
                      ..++..||..|    ++.||+.+.... .++.|+||||++++-+.+  . .+...++++..+...|.+
T Consensus        42 ~tTNN~aEl~A----~i~aL~~l~~~~-~~v~i~tDSqyVi~wi~~~~~kt~~~~~vkN~dLw~~ld~  104 (134)
T 4htu_A           42 IGTNNMGEFLA----IVHGLRYLKERN-SRKPIYSNSQTAIKWVKDKKAKSTLVRNEETALIWKLVDE  104 (134)
T ss_dssp             EECHHHHHHHH----HHHHHHHHHHTT-CCCCEEESCHHHHHHHHHTCCCCCCCCSSTTHHHHHHHHH
T ss_pred             CCchHHHHHHH----HHHHHHHHHhCC-CCEEEEcchHHHHHHHHcCCcccCCCCCccCHHHHHHHHH
Confidence            67899999999    889999887753 348999999999874322  1 223345566666666554

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	338
d1mu2a1	126	HIV RNase H (Domain of reverse transcriptase) {Hum	99.5
d1jl1a_	152	RNase H (RNase HI) {Escherichia coli [TaxId: 562]}	99.36
d1rila_	147	RNase H (RNase HI) {Thermus thermophilus [TaxId: 2	99.32
d1s1ta1	110	HIV RNase H (Domain of reverse transcriptase) {Hum	98.35
d1qhka_	47	N-terminal domain of RNase HI {Baker's yeast (Sacc	98.0
d1zbfa1	132	BH0863-like Ribonuclease H {Bacillus halodurans [T	97.93

>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=99.50  E-value=2.7e-15  Score=123.19  Aligned_cols=86  Identities=12%  Similarity=0.144  Sum_probs=58.5

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEE
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTT  171 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~  171 (338)
                      ...|++.||+.|    ++.|++    ....+|.|+||||++++...+   +............+.++.     ...+|.|
T Consensus        40 ~~~tnn~AEl~A----i~~al~----~~~~~i~I~tDS~~v~~~~~~---~~~~~~~~~~~~~~~~~~-----~~~~v~~  103 (126)
T d1mu2a1          40 EQTTNQQAELEA----FAMALT----DSGPKVNIIVDSQYVMGIVAS---QPTESESKIVNQIIEEMI-----KKEAIYV  103 (126)
T ss_dssp             SSCCHHHHHHHH----HHHHHH----TSCSEEEEEESCHHHHHHHHT---CCSEESCHHHHHHHHHHH-----HCSEEEE
T ss_pred             CCCcchHHHHHH----HHHHhc----cCCcceEEEechHHHHHHHhc---CCccccchHHHHHHHHhh-----hcceeEE
Confidence            467999999999    666555    346789999999999875422   111111111111122211     2357899


Q ss_pred             EEeCCCCCC-CchhHhhhhcccc
Q psy529          172 IHITQNQQI-GNEEVDRGANRDT  193 (338)
Q Consensus       172 ~wip~h~~i-gNe~aD~~a~~a~  193 (338)
                      .|||||+|+ |||.||+||++|.
T Consensus       104 ~wV~gH~g~~gNe~AD~LA~~ai  126 (126)
T d1mu2a1         104 AWVPAHKGIGGNQEVDHLVSQGI  126 (126)
T ss_dssp             EECCSSSCCTTHHHHHHHHHTTC
T ss_pred             EEEeCCCCCcchHHHHHHHHhhC
Confidence            999999999 9999999999873

>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=99.36  E-value=7.8e-14  Score=116.48  Aligned_cols=101  Identities=13%  Similarity=0.067  Sum_probs=66.6

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc------cccCCccc----cccccCchhhhhccCCC
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS------FKSNSRPS----AYKADVLPAELTRLPGK  161 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~------~k~~s~~~----~~~~~~~~~~l~~~~~~  161 (338)
                      +..++..||+.|    ++.|++.+.  ....+.|++||++++...      |....+..    ...+..+...+..+.  
T Consensus        38 ~~~tnn~aE~~A----i~~Al~~~~--~~~~i~i~tds~~~i~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~i~~~~--  109 (152)
T d1jl1a_          38 TRTTNNRMELMA----AIVALEALK--EHAEVILSTDSQYVRQGITQWIHNWKKRGWKTADKKPVKNVDLWQRLDAAL--  109 (152)
T ss_dssp             EEECHHHHHHHH----HHHHHHTCC--SCCEEEEEECCHHHHHHHHTTHHHHHHTTTBCTTSCBCTTHHHHHHHHHHT--
T ss_pred             CcccHHHHHHhh----hhhhhhhhc--ccceEEEeecceeeEEcccchhhHhHhccchhcccCeeecHHHHHHHHHHh--
Confidence            346788999999    666665432  345789999999887632      22122211    111211222232222  


Q ss_pred             ccccccceEEEEeCCCCCC-CchhHhhhhccccccccccccCh
Q psy529          162 HFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHTQAINICSP  203 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~~~~~~~~~  203 (338)
                         ...+|+|.|||||+|+ |||.||+|||+|+..+.++..+|
T Consensus       110 ---~~~~V~~~wV~gH~g~~gNe~AD~LAk~aa~~~~~~d~~~  149 (152)
T d1jl1a_         110 ---GQHQIKWEWVKGHAGHPENERADELARAAAMNPTLEDTGY  149 (152)
T ss_dssp             ---TTCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCCBCCTTC
T ss_pred             ---hcceeEEEEecccCCCccHHHHHHHHHHHHhCCCCCccCC
Confidence               2357999999999999 99999999999988777666554

>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=99.32  E-value=9.1e-14  Score=116.33  Aligned_cols=92  Identities=15%  Similarity=0.144  Sum_probs=62.6

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc-------cccCCc----cccccccCchhhhhccCCC
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS-------FKSNSR----PSAYKADVLPAELTRLPGK  161 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~-------~k~~s~----~~~~~~~~~~~~l~~~~~~  161 (338)
                      ..|+..||+.|    ++.||+.+.  ....+.|++||+++++..       |+.+..    ...+.+..+...+..+.  
T Consensus        40 ~~Tnn~aEl~A----i~~AL~~~~--~~~~i~i~tds~~~~~~~~~~~~~~~~~~~~~~~~~~~v~n~dL~~~l~~~~--  111 (147)
T d1rila_          40 CTTNNRMELKA----AIEGLKALK--EPCEVDLYTDSHYLKKAFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAM--  111 (147)
T ss_dssp             EECHHHHHHHH----HHHHHHSCC--SCCEEEEECCCHHHHHHHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHH--
T ss_pred             cccHHHHHHHH----HHHHhhhcc--CCceEEEecchhhhhccccccchhhhhhccccccccccchhHHHHHHHHHHh--
Confidence            35789999999    777776543  456899999999988642       111221    12222332333332221  


Q ss_pred             ccccccceEEEEeCCCCCC-CchhHhhhhcccccc
Q psy529          162 HFLVLHRGTTIHITQNQQI-GNEEVDRGANRDTHT  195 (338)
Q Consensus       162 ~~~~~~~i~~~wip~h~~i-gNe~aD~~a~~a~~~  195 (338)
                         ...+|.|.|||||+|+ |||.||+||++|+..
T Consensus       112 ---~~~~v~~~wVkgHsg~~gNe~AD~LAk~aa~~  143 (147)
T d1rila_         112 ---APHRVRFHFVKGHTGHPENERVDREARRQAQS  143 (147)
T ss_dssp             ---TTSEEECCCCCGGGSCTHHHHHHHHHHHHHTS
T ss_pred             ---hhcccceEEccCCCCCcchHHHHHHHHHHHHH
Confidence               2357999999999999 999999999999754

>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=98.35  E-value=4.5e-08  Score=78.24  Aligned_cols=70  Identities=7%  Similarity=0.034  Sum_probs=44.4

Q ss_pred             CCCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccccccCCccccccccCchhhhhccCCCccccccceEE
Q psy529           92 SRPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFSFKSNSRPSAYKADVLPAELTRLPGKHFLVLHRGTT  171 (338)
Q Consensus        92 ~~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~~k~~s~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~  171 (338)
                      ...|+..||+.|    ++.||+.    ...+|.|+|||+|++....+..   ..+ ...+..++..    .+....+|.+
T Consensus        41 ~~~TNn~aEl~A----vi~aL~~----~~~~v~I~TDS~yvi~~i~~~~---~~~-~~~l~~~il~----~l~~~~~v~i  104 (110)
T d1s1ta1          41 TDTTNQKTELQA----IYLALQD----SGLEVNIVTDSQYALGIIQAQP---DQS-ESELVNQIIE----QLIKKEKVYL  104 (110)
T ss_dssp             SSCCHHHHHHHH----HHHHHHH----SCSEEEEEECCHHHHHHHHHCC---SEE-SCHHHHHHHH----HHHHCSEEEE
T ss_pred             ccCcHHHHHHHH----HHHHHHh----CCCeEEEEEehHHHHHHHhcCc---ccc-chHHHHHHHH----HHhcCCceEE
Confidence            467999999999    6666653    4668999999999988643211   111 1112222111    1113467999


Q ss_pred             EEeCCC
Q psy529          172 IHITQN  177 (338)
Q Consensus       172 ~wip~h  177 (338)
                      .|||||
T Consensus       105 ~WVpgH  110 (110)
T d1s1ta1         105 AWVPAH  110 (110)
T ss_dssp             EECCSS
T ss_pred             EEeCCC
Confidence            999999

>d1qhka_ d.100.1.2 (A:) N-terminal domain of RNase HI {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a+b)
fold: MbtH/L9 domain-like
superfamily: L9 N-domain-like
family: N-terminal domain of RNase HI
domain: N-terminal domain of RNase HI
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.00  E-value=1.7e-07  Score=63.96  Aligned_cols=32  Identities=9%  Similarity=0.309  Sum_probs=29.7

Q ss_pred             CCchhhhcccCCCCCCCcccccccccCCCcccchh
Q psy529           14 YLGWDRIDATPSCLPGERLDLYTTEAGRPDRRRYV   48 (338)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~   48 (338)
                      |.+|+||..||++|||+.||+|.|..||   +.|+
T Consensus        15 y~~W~e~~~~V~g~~ga~~k~F~t~~eA---~~~l   46 (47)
T d1qhka_          15 YNTWNECKNQVDGYGGAIYKKFNSYEQA---KSFL   46 (47)
T ss_dssp             EEEHHHHHHHSSSCSSCCCEEESCHHHH---HHHH
T ss_pred             cCCHHHHHHHhcCCCCCeECCcCCHHHH---HHhh
Confidence            8999999999999999999999999998   6664

>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=97.93  E-value=2.1e-07  Score=76.72  Aligned_cols=87  Identities=15%  Similarity=0.123  Sum_probs=62.7

Q ss_pred             CCCccchhhhhHHhchhhhhhHhhhcCCCeEEEEeCCccccccc--cccC-CccccccccCchhhhhccCCCccccccce
Q psy529           93 RPSAYKADVLLAELTRLPGKHFLVLHRDTTIQITQNQQIAPQFS--FKSN-SRPSAYKADVLPAELTRLPGKHFLVLHRG  169 (338)
Q Consensus        93 ~~s~~~AE~~A~el~i~~gl~~a~~~~~~~i~I~sDSq~a~~~~--~k~~-s~~~~~~~~~~~~~l~~~~~~~~~~~~~i  169 (338)
                      ..++..||..|    +..||+.+... +.++.|+|||++++..+  ++.. +.....++..+...+.+..  .+...+.+
T Consensus        41 ~~TNN~aEl~A----~i~aL~~~~~~-~~~i~I~tDS~yvi~wv~~~~~kt~~~~~vkN~~l~~~i~~a~--~~lk~h~~  113 (132)
T d1zbfa1          41 IGTNNMGEFLA----IVHGLRYLKER-NSRKPIYSNSQTAIKWVKDKKAKSTLVRNEETALIWKLVDEAE--EWLNTHTY  113 (132)
T ss_dssp             EECHHHHHHHH----HHHHHHHHHHT-TCCCCEEESCHHHHHHHHHTCCCCCCCCSTTTHHHHHHHHHHH--HHHHHCCC
T ss_pred             ccchHHHHHHH----HHHHHHHhhcC-CceEEEEeccHHHHHHHHhCceecCcCCCcccHHHHHHHHHHH--HHHHhCCc
Confidence            46789999999    88999988765 36799999999998743  2222 2234455555555554432  22344678


Q ss_pred             EEEEeCCCCCC-CchhHh
Q psy529          170 TTIHITQNQQI-GNEEVD  186 (338)
Q Consensus       170 ~~~wip~h~~i-gNe~aD  186 (338)
                      .+.|+..|+.- ||..||
T Consensus       114 ~~~~~KW~~~~wG~i~AD  131 (132)
T d1zbfa1         114 ETPILKWQTDKWGEIKAD  131 (132)
T ss_dssp             CCCEEECCHHHHCSCTTC
T ss_pred             CceeEEecCcccccCCCC
Confidence            99999999999 999998