Psyllid ID: psy12036

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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------
Protein Sequence
MNANKKYLSHLDTIHHMGIRLISRALKSSPVNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKFREKLSLPSIEIALSDNENMAEKTIKYMKMINLYSKV
Secondary Structure (PSIPRED)
ccccHHHHHHHHHHHHHHHHHHHHHcccccHHHHccccccccHHHHHHHHHHHHHHHHHHHHHHccccEEEEEEEcccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHccccccccccccccccccccccccccccccccccccccHHHHHHcccccHHHHccccHHHHHHHHHHHHHccccccc
Secondary Structure Prediction (SSPRO)
ccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHccccHHHHHHccccHHHHHHHHHHHHHccccEEEEEEEcccccccccHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHccccHHHcccccccccccccccccHHHHHHHHHHHccccHHHHHHccccccccccccccccEEEEEEcccHHHHHHHcccccHHHHccccHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
mnankkylsHLDTIHHMGIRLISRalksspvnslyaesailPLSVRRRLLFSNIIAKQEYYfastngsqisfmwipshsnialndKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQwtniqnnklrtikdNTTLWKTSLRKIRNEEILLTRLRIghtrithsylftktphpictcgfpltvkhIFECNKYKKFREKLSLPSIEIALSDNENMAEKTIKYMKMINLYSKV
Flexible Loop (DISEMBL)
mnankkylshLDTIHHMGIRLISRALKSSPVNSLYAesailplsvRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLyndqwtniqnnklrtikdnttlWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKfreklslpsieialsdnenmAEKTIKYMKMINLYSKV
Low Complexity Region (SEG)
MNANKKYLSHLDTIHHMGIRLISRALKSSPVNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKFREKLSLPSIEIALSDNENMAEKTIKYMKMINLYSKV
Disordered region (IsUnstruct)
******YLSHLDTIHHMGIRLISRALKSSPVNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKFREKLSLPSIEIALSD***MAEKTIKYMKMINL****
Disordered Region (DISOPRED)
****KKY*SHLDTIHHMGIRLISRALKSSPVNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKFREKLSLPSIEIALSDNENMAEKTIKYMKMINLYSKV
Disordered Region (DISEMBL)
MNANKKYLSHLDTIHHMGIRLISRALKSSPVNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKFREKLSLPSIEIALSDNENMAEKTIKYMKMINLYSKV
Disordered Region (DISPRO)
*NANKKYLSHLDTIHHMGIRLISRALKSSPVNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKFREKLSLPSIEIALSDNENMAEKTIKYMKMINLYSKV
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNANKKYLSHLDTIHHMGIRLISRALKSSPVNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICTCGFPLTVKHIFECNKYKKFREKLSLPSIEIALSDNENMAEKTIKYMKMINLYSKV
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	236
328720146	164	PREDICTED: hypothetical protein LOC10056	0.584	0.841	0.427	1e-19
443730613	233	hypothetical protein CAPTEDRAFT_206814 [	0.669	0.678	0.335	5e-16
443721618	471	hypothetical protein CAPTEDRAFT_200496,	0.559	0.280	0.375	6e-16
443733872	400	hypothetical protein CAPTEDRAFT_197082 [	0.605	0.357	0.355	9e-16
328696858	206	PREDICTED: hypothetical protein LOC10056	0.656	0.752	0.371	2e-15
443693558	502	hypothetical protein CAPTEDRAFT_189741,	0.559	0.262	0.355	3e-15
427791321	1210	Putative tick transposon, partial [Rhipi	0.521	0.101	0.368	6e-15
427791807	1212	Putative tick transposon, partial [Rhipi	0.512	0.099	0.373	6e-15
443695973	261	hypothetical protein CAPTEDRAFT_23017, p	0.533	0.482	0.351	3e-14
443712830	397	hypothetical protein CAPTEDRAFT_202466 [	0.699	0.415	0.315	5e-14

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

 Score =  102 bits (255), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 62/145 (42%), Positives = 82/145 (56%), Gaps = 7/145 (4%)

Query: 67  GSQISFMWIPSHSNIALNDKAD---QLAKNSINSKLLDFYIQDDLKNHLRKNIVKLYNDQ 123
           G  I +MW P H  I  N+KAD     A +S ++ LL+ Y  +D K  +++ + + +  Q
Sbjct: 2   GMDICYMWAPGHCGIQGNEKADLEASKAASSPDTPLLNIYTYEDKKKQIKQVLDQKWLIQ 61

Query: 124 WTNIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICT-C 182
           W N Q+ KL  IK+N   WK      R EE +L RLRIGHT ITH +L  K   PIC  C
Sbjct: 62  WIN-QHTKLNQIKNNIQTWKNPGLN-RKEETILNRLRIGHTFITHRHLMEKNDPPICEMC 119

Query: 183 GFPLTVKHIF-ECNKYKKFREKLSL 206
           G  LTVKHI  EC KY   R+K ++
Sbjct: 120 GVDLTVKHIITECRKYDDMRKKYNI 144

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score = 90.5 bits (223), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 56/167 (33%), Positives = 82/167 (49%), Gaps = 9/167 (5%)

Query: 43  LSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDF 102
           L++   L      A Q+Y      G  +  +W PSH  +  N++AD LAK +++    D 
Sbjct: 54  LAIYEVLTLLECAAPQKYTILYNRGFDLVILWCPSHIGVVGNERADLLAKEALSFTACDV 113

Query: 103 YIQDDLKNHLRKNIVKLYNDQWTNI----QNNKLRTIKDNTTLWKTSLRKIRNEEILLTR 158
            I     N +  +    Y D+W  +    QNNKL +++        S R+ R +EI+L R
Sbjct: 114 RIPAFDFNSVAYS---FYRDKWQALWSLEQNNKLHSVQPIIKKLTNSSREDRRKEIVLAR 170

Query: 159 LRIGHTRITHSYLFTKTPHPICT-CGFPLTVKHIF-ECNKYKKFREK 203
            RIGHT +TH YL  +   P C  C  PLTVKHI  EC  +   R++
Sbjct: 171 ARIGHTHLTHGYLLRRELPPFCVHCQCPLTVKHILIECVDFYLHRQR 217

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 = 90.1 bits (222), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 51/136 (37%), Positives = 71/136 (52%), Gaps = 4/136 (2%)

Query: 70  ISFMWIPSHSNIALNDKADQLAKNSINSK-LLDFYI-QDDLKNHLRKNIVKLYNDQWTNI 127
           + FMW PSH  I  N+ AD LAK +++S  L +  +   DL+  ++K I   +  +W   
Sbjct: 119 VVFMWCPSHVGIPGNEMADTLAKEALSSTNLAELPVPASDLRCLIKKYIRSRWQHEWDEQ 178

Query: 128 QNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPIC-TCGFPL 186
            +NKL +I      W    R+ R EEI+L R+RIGHT  TH Y+        C  C  PL
Sbjct: 179 HSNKLHSIHPTIGPWPPCQREKRREEIVLARIRIGHTHYTHDYIPRGDDQTECVACVCPL 238

Query: 187 TVKH-IFECNKYKKFR 201
           TV+H I EC  +   R
Sbjct: 239 TVQHIIIECADFLHIR 254

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 = 89.7 bits (221), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 54/152 (35%), Positives = 79/152 (51%), Gaps = 9/152 (5%)

Query: 67  GSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYI-QDDLKNHLRKNIVKLYNDQWT 125
           G  +   W PSH  +  N++AD LAK +++       I   D K    +   + + +QW+
Sbjct: 98  GIDLVMTWCPSHVGVMGNERADLLAKEALSFTTCTIRIPSSDFKPITHEFYKEKWQEQWS 157

Query: 126 NIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPIC-TCGF 184
           + Q NKL  I+     W  S R+IR EEI+L R RIGH+ +TH YL  +   P+C  C  
Sbjct: 158 SEQENKLYCIQPTLGKWAKSSREIRREEIVLARARIGHSHLTHGYLLRREMPPVCIPCQN 217

Query: 185 PLTVKHIF-ECNKYKKFREKLSLPSIEIALSD 215
            L++KHIF EC  +     +L      IALS+
Sbjct: 218 ILSIKHIFIECVDFDILLRRL------IALSN 243

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

>gi|328696858|ref|XP_003240151.1| PREDICTED: hypothetical protein LOC100568880 [Acyrthosiphon pisum]

 Score = 89.0 bits (219), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 61/164 (37%), Positives = 89/164 (54%), Gaps = 9/164 (5%)

Query: 77  SHSNIALNDKADQLAKNSINSKLLD----FYIQDDLKNHLRKNIVKLYNDQWTNIQNNKL 132
           SHSNI  N+K D L K + NS  L+    +   +D    +   I + ++ +W   +  KL
Sbjct: 40  SHSNIEGNEKVDCLPKEAANSTNLEISEKYCTYEDTLRCINTAIEEKWSLKWRR-KETKL 98

Query: 133 RTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRIT-HSYLFTKTPHPIC-TCGFPLTVKH 190
             IK  T  WK      R EE++LTRLRIGHTR T H YL ++   P C TCG  LT+KH
Sbjct: 99  SEIKRTTDRWKNKSNLNRKEEVILTRLRIGHTRYTLHGYLMSREDQPTCATCGVHLTIKH 158

Query: 191 IF-ECNKYKKFREKLSLPS-IEIALSDNENMAEKTIKYMKMINL 232
           I  EC + +  R K S+P  +  +L  NE+  ++T+  +K + +
Sbjct: 159 ILVECRQTEAARTKYSIPEFLYQSLGPNESAIKQTLNLIKELEI 202

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score = 87.8 bits (216), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 48/135 (35%), Positives = 73/135 (54%), Gaps = 3/135 (2%)

Query: 67  GSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYI-QDDLKNHLRKNIVKLYNDQWT 125
           G  + F+W PSH  I  N+ AD+LAK ++   +    +   D K+ +R  +  L+ ++W 
Sbjct: 177 GKLVVFIWCPSHVGILGNEVADRLAKQALVMPVTKLPLPHTDYKSPIRSYVKSLWQNEWD 236

Query: 126 NIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPIC-TCGF 184
              +NKL +I+   + WK   +  R  EI+L R RIGH+ +TH YL  +   P C  C  
Sbjct: 237 EETDNKLHSIQPVISEWKQGPQIDRRGEIVLARARIGHSHLTHGYLLRREVAPFCIPCQS 296

Query: 185 PLTVKHIF-ECNKYK 198
            LTVKHI  +C  +K
Sbjct: 297 LLTVKHILIDCIDFK 311

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 = 87.0 bits (214), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 46/125 (36%), Positives = 68/125 (54%), Gaps = 2/125 (1%)

Query: 70   ISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQ-DDLKNHLRKNIVKLYNDQWTNIQ 128
            + F W+PSH  I  N+KAD+ A  + +  L    I   D +  +R  ++  +  QW +  
Sbjct: 1033 MRFCWVPSHVGIPGNEKADKCASLAAHKTLTKIRIPLKDSQRTIRLALLAKWQQQWDSCT 1092

Query: 129  NNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICT-CGFPLT 187
            +NKL  +K     WK    + R  E++L RLRIGHT +TH++L TK   P+C  C  PLT
Sbjct: 1093 SNKLHLVKPTLGEWKNCRHQERFIEVILCRLRIGHTHLTHNFLLTKEEQPMCEKCQEPLT 1152

Query: 188  VKHIF 192
            + HI 
Sbjct: 1153 LIHIL 1157

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|427791807|gb|JAA61355.1| Putative tick transposon, partial [Rhipicephalus pulchellus]

 Score = 87.0 bits (214), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 46/123 (37%), Positives = 67/123 (54%), Gaps = 2/123 (1%)

Query: 72   FMWIPSHSNIALNDKADQLAKNSINSKLLDFYIQ-DDLKNHLRKNIVKLYNDQWTNIQNN 130
            F W+PSH  I  N+KAD+ A  + +  L    I   D +  +R  ++  +  QW +  +N
Sbjct: 1038 FCWVPSHVGIPGNEKADKCASLAAHKTLTKIRIPLKDSQRTIRLALLAKWQQQWDSCTSN 1097

Query: 131  KLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPICT-CGFPLTVK 189
            KL  +K     WK    + R  E++L RLRIGHT +TH++L TK   P+C  C  PLT+ 
Sbjct: 1098 KLHLVKPTLGEWKNCRHQERFIEVILCRLRIGHTHLTHNFLLTKEEQPMCEKCQEPLTLI 1157

Query: 190  HIF 192
            HI 
Sbjct: 1158 HIL 1160

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score = 84.7 bits (208), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 45/128 (35%), Positives = 69/128 (53%), Gaps = 2/128 (1%)

Query: 67  GSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYI-QDDLKNHLRKNIVKLYNDQWT 125
           G  + F+W PSH  I  N+ AD+LAK ++   +    +   D K+ +R  +  L+ ++W 
Sbjct: 131 GKLVVFIWCPSHVGILGNEVADRLAKQALVMPVTKLPLPHTDYKSPIRSYVKSLWQNEWD 190

Query: 126 NIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPIC-TCGF 184
              +NKL +I+   + WK   +  R  EI+L R RIGH+ +TH YL  +   P C  C  
Sbjct: 191 EETDNKLHSIQPVISEWKQGPQIDRRGEIVLARARIGHSHLTHGYLLRREVAPFCIPCQS 250

Query: 185 PLTVKHIF 192
            L+VKHI 
Sbjct: 251 LLSVKHIL 258

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 = 84.0 bits (206), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 54/171 (31%), Positives = 86/171 (50%), Gaps = 6/171 (3%)

Query: 67  GSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFYI-QDDLKNHLRKNIVKLYNDQWT 125
           G ++ F+W PSH  I  N+ AD+ AK ++   +    +   D K+ +R  +  L+ ++W 
Sbjct: 226 GKKVVFIWCPSHVGILGNEVADRQAKQALVMPVTKLPLPHTDYKSPIRSYVKSLWQNEWD 285

Query: 126 NIQNNKLRTIKDNTTLWKTSLRKIRNEEILLTRLRIGHTRITHSYLFTKTPHPIC-TCGF 184
              +NKL  I+   + WK   +  R  EI+L   RIGH+ +TH YL  +   P C  C  
Sbjct: 286 GETDNKLHIIQPVISEWKQGPQIDRRGEIVLACARIGHSHLTHGYLLRREVAPFCIPCQS 345

Query: 185 PLTVKHIF-ECNKYKKFREK-LSLPSIEIALSDNENMAEKTIKYMKMINLY 233
            LTVKHI  +C  ++  R K  ++ S+     D      K + Y+K I L+
Sbjct: 346 LLTVKHILIDCIDFEISRRKYFNVFSMRQLFEDTH--PSKILLYLKEIGLF 394

Source: Capitella teleta

Species: Capitella teleta

Genus: Capitella

Family: Capitellidae

Order: Capitellida

Class: Polychaeta

Phylum: Annelida

Superkingdom: Eukaryota

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Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

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

ID	Length	Definition	E-value
Query	236
cd09276	128	cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom	3e-09
pfam00075	126	pfam00075, RNase_H, RNase H	8e-08
cd09277	133	cd09277, RNase_HI_bacteria_HBD, Bacterial RNase HI	7e-05
cd09280	150	cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase	0.003

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

 Score = 53.0 bits (128), Expect = 3e-09
 Identities = 15/55 (27%), Positives = 28/55 (50%)

Query: 38  SAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAK 92
           +A+  L   R      +  ++     + +G ++   W+P HS I  N++AD+LAK
Sbjct: 70  AALKALRSPRSSSPLVLRIRKAIRELANHGVKVRLHWVPGHSGIEGNERADRLAK 124

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

>gnl|CDD|215695 pfam00075, RNase_H, RNase H

 Score = 49.2 bits (118), Expect = 8e-08
 Identities = 20/80 (25%), Positives = 29/80 (36%), Gaps = 7/80 (8%)

Query: 17  MGIRLISRALKSSPVN----SLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQISF 72
           + +     AL    VN    S Y    I            +   K E +       ++  
Sbjct: 46  LALIEALEALSGQKVNIYTDSQYVIGGIT---NGWPTKSESKPIKNEIWELLQKKHKVYI 102

Query: 73  MWIPSHSNIALNDKADQLAK 92
            W+P HS I  N+ AD+LAK
Sbjct: 103 QWVPGHSGIPGNELADKLAK 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|187701 cd09277, RNase_HI_bacteria_HBD, Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus

 Score = 40.9 bits (97), Expect = 7e-05
 Identities = 11/27 (40%), Positives = 19/27 (70%)

Query: 69  QISFMWIPSHSNIALNDKADQLAKNSI 95
           +ISF+ + +HS    N+ AD+LAK ++
Sbjct: 107 KISFVKVKAHSGDKYNELADKLAKKAL 133

Ribonuclease H (RNase H) enzymes are divided into two major families, Type 1 and Type 2, based on amino acid sequence similarities and biochemical properties. RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner in the presence of divalent cations. 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. Some bacteria distinguished from other bacterial RNase HI in the presence of a hybrid binding domain (HBD) at the N-terminus which is commonly present at the N-termini of eukaryotic RNase HI. It has been reported that this domain is required for dimerization and processivity of RNase HI upon binding to RNA-DNA hybrids. Length = 133

>gnl|CDD|187704 cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase H is longer and more complex than their prokaryotic counterparts and unlike prokaryote, RNase H are essential in higher eukaryote

 Score = 36.8 bits (86), Expect = 0.003
 Identities = 12/26 (46%), Positives = 18/26 (69%)

Query: 67  GSQISFMWIPSHSNIALNDKADQLAK 92
           G ++ F  +P HS I  N++AD+LAK
Sbjct: 121 GIRVKFWHVPGHSGIYGNEEADRLAK 146

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). 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. One of the important functions of RNase H is to remove Okazaki fragments during DNA replication. RNase H is widely present in various organisms, including bacteria, archaea and eukaryote 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. Eukaryotic RNase H is longer and more complex than in prokaryotes. Almost all eukaryotic RNase HI have highly conserved regions at the N-terminal called hybrid binding domain (HBD). It is speculated that the HBD contributes to binding the RNA/DNA hybrid. Prokaryotes and some single-cell eukaryotes do not require RNase H for viability, but RNase H is essential in higher eukaryotes. RNase H knockout mice lack mitochondrial DNA replication and die as embryos. Length = 150

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	236
PRK08719	147	ribonuclease H; Reviewed	98.27
PF00075	132	RNase_H: RNase H; InterPro: IPR002156 The RNase H	98.26
PRK00203	150	rnhA ribonuclease H; Reviewed	98.19
PRK06548	161	ribonuclease H; Provisional	98.11
COG0328	154	RnhA Ribonuclease HI [DNA replication, recombinati	97.94
cd06222	130	RnaseH RNase H (RNase HI) is an endonuclease that	97.43
KOG3752|consensus	371		96.89
PF13966	86	zf-RVT: zinc-binding in reverse transcriptase	96.77
PRK13907	128	rnhA ribonuclease H; Provisional	87.78

>PRK08719 ribonuclease H; Reviewed

Probab=98.27  E-value=9.7e-07  Score=69.77  Aligned_cols=34  Identities=24%  Similarity=0.238  Sum_probs=29.1

Q ss_pred             HHhhCCCceEEEEeccCCCCCcchHHHHHHhhhhc
Q psy12036         62 FASTNGSQISFMWIPSHSNIALNDKADQLAKNSIN   96 (236)
Q Consensus        62 ~~~~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~   96 (236)
                      .+.. ...|.|.|||||+|++|||.||++|++|++
T Consensus       113 ~l~~-~~~i~~~~VkgH~g~~~Ne~aD~lA~~a~~  146 (147)
T PRK08719        113 ELRA-RKYVEVEKVTAHSGIEGNEAADMLAQAAAE  146 (147)
T ss_pred             HHhC-CCcEEEEEecCCCCChhHHHHHHHHHHHhh
Confidence            3434 466999999999999999999999999864

>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=98.26  E-value=5.6e-07  Score=68.91  Aligned_cols=31  Identities=39%  Similarity=0.831  Sum_probs=28.6

Q ss_pred             hCCCceEEEEeccCCCC-CcchHHHHHHhhhh
Q psy12036         65 TNGSQISFMWIPSHSNI-ALNDKADQLAKNSI   95 (236)
Q Consensus        65 ~~~~~v~~~wip~H~gi-~gNE~Ad~~Ak~a~   95 (236)
                      .++..|.|.|||||+|+ .|||.||++||+|+
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            56889999999999999 69999999999885

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

>PRK00203 rnhA ribonuclease H; Reviewed

Probab=98.19  E-value=1.3e-06  Score=69.12  Aligned_cols=33  Identities=24%  Similarity=0.544  Sum_probs=29.1

Q ss_pred             CCCceEEEEeccCCCCCcchHHHHHHhhhhccC
Q psy12036         66 NGSQISFMWIPSHSNIALNDKADQLAKNSINSK   98 (236)
Q Consensus        66 ~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~~   98 (236)
                      ....|.|.|||+|+|++|||.||++|++++..+
T Consensus       111 ~~~~v~~~wV~~H~~~~~N~~AD~lA~~a~~~~  143 (150)
T PRK00203        111 KRHQIKWHWVKGHAGHPENERCDELARAGAEEA  143 (150)
T ss_pred             ccCceEEEEecCCCCCHHHHHHHHHHHHHHHHh
Confidence            346899999999999999999999999987643

>PRK06548 ribonuclease H; Provisional

Probab=98.11  E-value=3.1e-06  Score=67.82  Aligned_cols=40  Identities=33%  Similarity=0.494  Sum_probs=31.8

Q ss_pred             HHHHHHHhhCCCceEEEEeccCCCCCcchHHHHHHhhhhcc
Q psy12036         57 KQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINS   97 (236)
Q Consensus        57 ~~~~~~~~~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~   97 (236)
                      .+++..+..+ ..|.|.|||||+|.+|||.||+||++++..
T Consensus       103 ~~~l~~l~~~-~~v~~~wVkgHsg~~gNe~aD~LA~~aa~~  142 (161)
T PRK06548        103 IQEIDSLMEN-RNIRMSWVNAHTGHPLNEAADSLARQAANN  142 (161)
T ss_pred             HHHHHHHHhc-CceEEEEEecCCCCHHHHHHHHHHHHHHHH
Confidence            3444444444 479999999999999999999999998743

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

Probab=97.94  E-value=8.6e-06  Score=64.54  Aligned_cols=41  Identities=22%  Similarity=0.342  Sum_probs=35.0

Q ss_pred             HHHHHHHhhCCCceEEEEeccCCCCCcchHHHHHHhhhhcc
Q psy12036         57 KQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINS   97 (236)
Q Consensus        57 ~~~~~~~~~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~   97 (236)
                      .+++..+..+-..|.+.|||||.|.++||.||++|+.++..
T Consensus       105 ~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~  145 (154)
T COG0328         105 WEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARA  145 (154)
T ss_pred             HHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHh
Confidence            55556666676789999999999999999999999998764

>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=97.43  E-value=0.00021  Score=52.70  Aligned_cols=33  Identities=36%  Similarity=0.607  Sum_probs=29.0

Q ss_pred             HHhhCCCceEEEEeccCCCCCcchHHHHHHhhh
Q psy12036         62 FASTNGSQISFMWIPSHSNIALNDKADQLAKNS   94 (236)
Q Consensus        62 ~~~~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a   94 (236)
                      ........+.|.|||+|+|+.+|+.||.+|+.+
T Consensus        97 ~~~~~~~~~~i~~v~~h~~~~~n~~ad~la~~~  129 (130)
T cd06222          97 ALLKRFHKVRFEWVPGHSGIEGNERADALAKEA  129 (130)
T ss_pred             HHHhCCCeEEEEEcCCCCCCcchHHHHHHHHhh
Confidence            333577889999999999999999999999986

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.

>KOG3752|consensus

Probab=96.89  E-value=0.00089  Score=59.70  Aligned_cols=31  Identities=26%  Similarity=0.384  Sum_probs=28.2

Q ss_pred             CCCceEEEEeccCCCCCcchHHHHHHhhhhc
Q psy12036         66 NGSQISFMWIPSHSNIALNDKADQLAKNSIN   96 (236)
Q Consensus        66 ~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~   96 (236)
                      ++..|.+.|||||.||.|||+||.+|++++.
T Consensus       334 ~~~~vq~~~V~Gh~gi~gne~Ad~lARkgs~  364 (371)
T KOG3752|consen  334 SNKKVQQEYVGGHSGILGNEMADALARKGST  364 (371)
T ss_pred             ccCceEEEEecCcCCcchHHHHHHHHhhhhh
Confidence            4689999999999999999999999998753

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

Probab=96.77  E-value=0.00067  Score=48.42  Aligned_cols=31  Identities=29%  Similarity=0.548  Sum_probs=26.0

Q ss_pred             cccccCCCCCCCc-ccC-CCCCcchhc-cccCch
Q psy12036        168 HSYLFTKTPHPIC-TCG-FPLTVKHIF-ECNKYK  198 (236)
Q Consensus       168 ~l~~~~~~~~p~C-~CG-~~eTv~HiL-~Cp~~~  198 (236)
                      .+.+.+...++.| .|| +.||++|+| .||...
T Consensus        50 ~l~~r~~~~~~~C~~C~~~~Et~~Hlf~~C~~a~   83 (86)
T PF13966_consen   50 NLQRRGIQVDPICPLCGNEEETIEHLFFHCPFAR   83 (86)
T ss_pred             hhhccCCccCCccccCCCccccccceeccCcCcc
Confidence            4566777888999 999 599999999 999764

>PRK13907 rnhA ribonuclease H; Provisional

Probab=87.78  E-value=0.77  Score=34.75  Aligned_cols=31  Identities=32%  Similarity=0.383  Sum_probs=24.3

Q ss_pred             HHhhCCCceEEEEeccCCCCCcchHHHHHHhhhhc
Q psy12036         62 FASTNGSQISFMWIPSHSNIALNDKADQLAKNSIN   96 (236)
Q Consensus        62 ~~~~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~   96 (236)
                      .+..+-..+.+.|||.+    .|+.||.+|+.|..
T Consensus        96 ~l~~~f~~~~~~~v~r~----~N~~Ad~LA~~a~~  126 (128)
T PRK13907         96 QYIKSFDLFFIKWIPSS----QNKVADELARKAIL  126 (128)
T ss_pred             HHHhcCCceEEEEcCch----hchhHHHHHHHHHh
Confidence            34455567778999995    89999999998864

---

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	236
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05
2kq2_A	147	Ribonuclease H-related protein; PSI, NESG, protein	8e-05
1jl1_A	155	Ribonuclease HI; RNAse HI, protein stability, ther	3e-04

>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 = 44.1 bits (103), Expect = 2e-05
 Identities = 38/251 (15%), Positives = 79/251 (31%), Gaps = 72/251 (28%)

Query: 5   KKYLSHLDTIHHMGIRLISRALKSSPVNSL--------YAESAILPLSVRRRLLFSNIIA 56
           +  L+  D   H+    ++  ++SS +N L        +   ++ P S        +I  
Sbjct: 338 RDGLATWDNWKHVNCDKLTTIIESS-LNVLEPAEYRKMFDRLSVFPPSA-------HIPT 389

Query: 57  KQEYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNS------------INSKLLDFYI 104
                        +S +W     +  +    ++L K S            I S  L+  +
Sbjct: 390 IL-----------LSLIWFDVIKSDVMVV-VNKLHKYSLVEKQPKESTISIPSIYLELKV 437

Query: 105 QDDLKNHLRKNIVKLYNDQWTNIQNNKLRTIKDNTTLWKTS--LRKIRNEE--ILLTRLR 160
           + + +  L ++IV  YN   T   ++ +    D          L+ I + E   L   + 
Sbjct: 438 KLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMV- 496

Query: 161 IGHTRITHSYL---F--TKTPHPICTCGFPLTVKHIF-ECNKYKKFREKLSLPSIEIALS 214
                    +L   F   K  H         ++ +   +   YK +            + 
Sbjct: 497 ---------FLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPY------------IC 535

Query: 215 DNENMAEKTIK 225
           DN+   E+ + 
Sbjct: 536 DNDPKYERLVN 546

>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A Length = 147

 Score = 40.8 bits (96), Expect = 8e-05
 Identities = 9/30 (30%), Positives = 15/30 (50%)

Query: 69  QISFMWIPSHSNIALNDKADQLAKNSINSK 98
             SF  + +HS    ND  D  AK+++  +
Sbjct: 109 IYSFEKVKAHSGNEFNDYVDMKAKSALGIR 138

>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 ... Length = 155

 Score = 39.4 bits (93), Expect = 3e-04
 Identities = 10/33 (30%), Positives = 20/33 (60%)

Query: 69  QISFMWIPSHSNIALNDKADQLAKNSINSKLLD 101
           QI + W+  H+    N++AD+LA+ +  +  L+
Sbjct: 115 QIKWEWVKGHAGHPENERADELARAAAMNPTLE 147

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	236
3qio_A	150	GAG-POL polyprotein; RNAse H, inhibitor, nuclease,	98.43
3h08_A	146	RNH (ribonuclease H); RNAse H, 3D-structure, endon	98.24
2qkb_A	154	Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy	98.23
2kq2_A	147	Ribonuclease H-related protein; PSI, NESG, protein	98.23
1jl1_A	155	Ribonuclease HI; RNAse HI, protein stability, ther	98.21
3p1g_A	165	Xenotropic murine leukemia virus-related virus (X	98.21
2e4l_A	158	Ribonuclease HI, RNAse HI; hydrolase, endoribonucl	98.15
1ril_A	166	Ribonuclease H; hydrolase(endoribonuclease); 2.80A	98.02
2lsn_A	165	Reverse transcriptase; RNAse H, viral protein; NMR	97.85
1mu2_A	555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	97.74
2zd1_A	557	Reverse transcriptase/ribonuclease H; P51/P66, het	97.52
3hst_B	141	Protein RV2228C/MT2287; ribonuclease H1, RV2228C N	96.26
3u3g_D	140	Ribonuclease H, RNAse H1; hydrolase, cleave the RN	96.03
2ehg_A	149	Ribonuclease HI; RNAse HI, hyperthermophilic archa	95.37

>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=98.43  E-value=1.3e-07  Score=73.85  Aligned_cols=34  Identities=24%  Similarity=0.558  Sum_probs=30.5

Q ss_pred             hhCCCceEEEEeccCCCCCcchHHHHHHhhhhcc
Q psy12036         64 STNGSQISFMWIPSHSNIALNDKADQLAKNSINS   97 (236)
Q Consensus        64 ~~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~   97 (236)
                      -.+...|.|.|||||+|++|||.||+||++|+..
T Consensus       114 l~~~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~  147 (150)
T 3qio_A          114 LIKKEKVYLAWVPAHKGIGGNEQVDKLVSAGIRK  147 (150)
T ss_dssp             HTTCSEEEEEECCTTSCCHHHHHHHHHHHTTTSC
T ss_pred             HhhcCceEEEEccCcCCChhHHHHHHHHHHHHHH
Confidence            3467889999999999999999999999998764

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

Probab=98.24  E-value=2.5e-07  Score=71.55  Aligned_cols=30  Identities=30%  Similarity=0.522  Sum_probs=26.4

Q ss_pred             CceEEEEeccCCCCCcchHHHHHHhhhhcc
Q psy12036         68 SQISFMWIPSHSNIALNDKADQLAKNSINS   97 (236)
Q Consensus        68 ~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~   97 (236)
                      ..|.|.|||||+|++|||.||+||++|+..
T Consensus       115 ~~v~~~~V~gH~g~~~N~~AD~LA~~a~~~  144 (146)
T 3h08_A          115 HRVTFHKVKGHSDNPYNSRADELARLAIKE  144 (146)
T ss_dssp             SEEEEEECCC-CCSHHHHHHHHHHHHHHHH
T ss_pred             CceEEEEcCCcCCcHhHHHHHHHHHHHHHh
Confidence            469999999999999999999999998754

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

Probab=98.23  E-value=6.7e-07  Score=69.80  Aligned_cols=32  Identities=34%  Similarity=0.624  Sum_probs=28.9

Q ss_pred             CCceEEEEeccCCCCCcchHHHHHHhhhhccC
Q psy12036         67 GSQISFMWIPSHSNIALNDKADQLAKNSINSK   98 (236)
Q Consensus        67 ~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~~   98 (236)
                      +..|.|.|||+|+|++|||.||+||++|+..+
T Consensus       121 ~~~v~~~~V~~H~g~~~N~~AD~LA~~a~~~~  152 (154)
T 2qkb_A          121 GMDIQWMHVPGHSGFIGNEEADRLAREGAKQS  152 (154)
T ss_dssp             TCEEEEEECCTTSSCHHHHHHHHHHHHHHTCC
T ss_pred             CCceEEEEccCCCCCHhHHHHHHHHHHHHHhc
Confidence            56799999999999999999999999998653

>2kq2_A Ribonuclease H-related protein; PSI, NESG, protein structure, APO enzyme, structural genomics, protein structure initiative; NMR {Desulfitobacterium hafniense dcb-2} PDB: 2kw4_A

Probab=98.23  E-value=1.8e-07  Score=72.62  Aligned_cols=31  Identities=29%  Similarity=0.306  Sum_probs=28.7

Q ss_pred             ceEEEEeccCCCCCcchHHHHHHhhhhccCc
Q psy12036         69 QISFMWIPSHSNIALNDKADQLAKNSINSKL   99 (236)
Q Consensus        69 ~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~~~   99 (236)
                      .|.|.|||||+|++|||.||+||++|+....
T Consensus       109 ~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~~  139 (147)
T 2kq2_A          109 IYSFEKVKAHSGNEFNDYVDMKAKSALGIRD  139 (147)
T ss_dssp             TCCBCCCCCCCCCHHHHHHHHHHHHHHTCCC
T ss_pred             CeeEEEecCcCCCcchHHHHHHHHHHHhccc
Confidence            7999999999999999999999999987654

>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=98.21  E-value=8.3e-07  Score=69.44  Aligned_cols=33  Identities=27%  Similarity=0.516  Sum_probs=30.1

Q ss_pred             CCceEEEEeccCCCCCcchHHHHHHhhhhccCc
Q psy12036         67 GSQISFMWIPSHSNIALNDKADQLAKNSINSKL   99 (236)
Q Consensus        67 ~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~~~   99 (236)
                      ...|.|.|||||+|++|||.||+||++|+..+.
T Consensus       113 ~~~v~~~wV~gH~g~~~Ne~AD~LA~~a~~~~~  145 (155)
T 1jl1_A          113 QHQIKWEWVKGHAGHPENERADELARAAAMNPT  145 (155)
T ss_dssp             TCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCC
T ss_pred             cCceEEEEcCCCCCCHHHHHHHHHHHHHHhccc
Confidence            468999999999999999999999999987654

>3p1g_A Xenotropic murine leukemia virus-related virus (X H domain; XMRV, RNAse H, reverse transcriptase, transcription; 1.50A {Xenotropic mulv-related virus} PDB: 3v1q_A 3v1o_A 3v1r_A* 2hb5_A 4e89_A

Probab=98.21  E-value=5.2e-07  Score=71.52  Aligned_cols=35  Identities=23%  Similarity=0.258  Sum_probs=30.8

Q ss_pred             hCCCceEEEEeccCCC-----CCcchHHHHHHhhhhccCc
Q psy12036         65 TNGSQISFMWIPSHSN-----IALNDKADQLAKNSINSKL   99 (236)
Q Consensus        65 ~~~~~v~~~wip~H~g-----i~gNE~Ad~~Ak~a~~~~~   99 (236)
                      ..+..|.|.|||||+|     ++|||.||++|++|+..+.
T Consensus       119 ~~~~~v~~~wVkgH~g~~~~~~~gNe~AD~LA~~aa~~~~  158 (165)
T 3p1g_A          119 FLPKRLSIIHCPGHQKGNSAEARGNRMADQAAREAAMKAV  158 (165)
T ss_dssp             TSBSEEEEEECCSSCCSCSHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcCCceEEEEecCCCCCCcCcchHHHHHHHHHHHHHhcCC
Confidence            3678899999999999     9999999999999876543

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

Probab=98.15  E-value=1.2e-06  Score=68.83  Aligned_cols=31  Identities=32%  Similarity=0.589  Sum_probs=28.7

Q ss_pred             CCceEEEEeccCCCCCcchHHHHHHhhhhcc
Q psy12036         67 GSQISFMWIPSHSNIALNDKADQLAKNSINS   97 (236)
Q Consensus        67 ~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~   97 (236)
                      +..|.|.|||||+|++|||.||+||++|+..
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            4689999999999999999999999999875

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

Probab=98.02  E-value=1.8e-06  Score=68.28  Aligned_cols=33  Identities=18%  Similarity=0.392  Sum_probs=29.6

Q ss_pred             CCceEEEEeccCCCCCcchHHHHHHhhhhccCc
Q psy12036         67 GSQISFMWIPSHSNIALNDKADQLAKNSINSKL   99 (236)
Q Consensus        67 ~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~~~   99 (236)
                      ...|.|.|||||+|.+|||.||+||++|+....
T Consensus       118 ~~~v~~~wV~gH~g~~~Ne~AD~LAk~a~~~~~  150 (166)
T 1ril_A          118 PHRVRFHFVKGHTGHPENERVDREARRQAQSQA  150 (166)
T ss_dssp             TSEEECCCCCGGGSCTHHHHHHHHHHHHHTSSC
T ss_pred             cCeEEEEEeeCCCCchhHHHHHHHHHHHHHHhh
Confidence            358999999999999999999999999987643

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

Probab=97.85  E-value=5.6e-06  Score=65.52  Aligned_cols=38  Identities=18%  Similarity=0.071  Sum_probs=29.6

Q ss_pred             HHHHHhhCCCceEEEEeccCCCC------CcchHHHHHHhhhhc
Q psy12036         59 EYYFASTNGSQISFMWIPSHSNI------ALNDKADQLAKNSIN   96 (236)
Q Consensus        59 ~~~~~~~~~~~v~~~wip~H~gi------~gNE~Ad~~Ak~a~~   96 (236)
                      ++..+......|.|.|||||+|+      +|||.||+||++++.
T Consensus       119 ~l~~~~~~~~~v~~~~VkgH~g~~~~~~~~gNe~AD~LA~~gA~  162 (165)
T 2lsn_A          119 SIAECLSMKPDITIQHEKGHQPTNTSIHTEGNALADKLATQGSY  162 (165)
T ss_dssp             HHHHHHHHCTTCEEEECCSSSCSSSCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCEEEEEEeCCCCccCCCCChHHHHHHHHHHHhhh
Confidence            33333344567999999999996      589999999999874

>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=97.74  E-value=1.6e-05  Score=74.28  Aligned_cols=31  Identities=29%  Similarity=0.586  Sum_probs=27.9

Q ss_pred             hCCCceEEEEeccCCCCCcchHHHHHHhhhh
Q psy12036         65 TNGSQISFMWIPSHSNIALNDKADQLAKNSI   95 (236)
Q Consensus        65 ~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~   95 (236)
                      ..+..|.+.|||||+|++|||.||+||++|+
T Consensus       525 ~~~~~v~~~wV~~H~g~~~Ne~AD~LA~~a~  555 (555)
T 1mu2_A          525 IKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI  555 (555)
T ss_dssp             HHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred             ccCCcEEEEEEECCCCChhHHHHHHHHHhhC
Confidence            3467899999999999999999999999874

>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=97.52  E-value=2.6e-05  Score=72.87  Aligned_cols=28  Identities=25%  Similarity=0.647  Sum_probs=23.7

Q ss_pred             CCceEEEEeccCCCCCcchHHHHHHhhh
Q psy12036         67 GSQISFMWIPSHSNIALNDKADQLAKNS   94 (236)
Q Consensus        67 ~~~v~~~wip~H~gi~gNE~Ad~~Ak~a   94 (236)
                      ...|.|.|||||+|++|||.||+||++|
T Consensus       530 ~~~v~~~wV~~H~g~~~Ne~AD~LA~~a  557 (557)
T 2zd1_A          530 KEKVYLAWVPAHKGIGGNEQVDKLVSAG  557 (557)
T ss_dssp             CSEEEEEECCSSSCCTTCCGGGGCC---
T ss_pred             CCCEEEEEcCCCCCChhHHHHHHHHhcC
Confidence            4579999999999999999999999875

>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=96.26  E-value=0.0035  Score=47.12  Aligned_cols=33  Identities=27%  Similarity=0.543  Sum_probs=26.6

Q ss_pred             HHHhhCCCceEEEEeccCCCCCcchHHHHHHhhhhcc
Q psy12036         61 YFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINS   97 (236)
Q Consensus        61 ~~~~~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~   97 (236)
                      ..+......|.|.|||+    ++||.||+||++|...
T Consensus       101 ~~l~~~~~~v~~~~V~~----~~N~~AD~LA~~a~~~  133 (141)
T 3hst_B          101 QALASQFRRINYEWVPR----ARNTYADRLANDAMDA  133 (141)
T ss_dssp             HHHHTTSSEEEEEECCG----GGCHHHHHHHHHHHHH
T ss_pred             HHHHhcCCeEEEEEcCC----cccHHHHHHHHHHHHH
Confidence            34445568899999996    7999999999988643

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

Probab=96.03  E-value=0.0042  Score=46.46  Aligned_cols=28  Identities=29%  Similarity=0.537  Sum_probs=23.5

Q ss_pred             hCCCceEEEEeccCCCCCcchHHHHHHhhhhc
Q psy12036         65 TNGSQISFMWIPSHSNIALNDKADQLAKNSIN   96 (236)
Q Consensus        65 ~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~   96 (236)
                      .+-..|.|.|||.    ++||.||+||++|+.
T Consensus       109 ~~~~~v~~~~V~~----~~N~~AD~LA~~a~~  136 (140)
T 3u3g_D          109 ERVPNLVFVHIPR----EKNARADELVNEAID  136 (140)
T ss_dssp             HHCTTCEEEECCG----GGGHHHHHHHHHHHH
T ss_pred             cCCCcEEEEEcCc----hhhHHHHHHHHHHHH
Confidence            3335899999995    799999999999864

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

Probab=95.37  E-value=0.0065  Score=46.35  Aligned_cols=24  Identities=25%  Similarity=0.684  Sum_probs=21.4

Q ss_pred             ceEEEEeccCCCCCcchHHHHHHhhhhc
Q psy12036         69 QISFMWIPSHSNIALNDKADQLAKNSIN   96 (236)
Q Consensus        69 ~v~~~wip~H~gi~gNE~Ad~~Ak~a~~   96 (236)
                      .|.|.|||+|    +|+.||+||++|+.
T Consensus       110 ~v~~~~V~~~----~N~~AD~LA~~a~~  133 (149)
T 2ehg_A          110 NATLIWVPRE----ENKEADRLSRVAYE  133 (149)
T ss_dssp             TCEEEECCGG----GCHHHHHHHHHHHH
T ss_pred             CEEEEEcCCc----ccHHHHHHHHHHHH
Confidence            4999999994    89999999998864

---

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	236
d1mu2a1	126	c.55.3.1 (A:430-555) HIV RNase H (Domain of revers	8e-05
d1jl1a_	152	c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli	3e-04
d1rila_	147	c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermoph	5e-04

>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 = 39.1 bits (90), Expect = 8e-05
 Identities = 16/84 (19%), Positives = 27/84 (32%), Gaps = 1/84 (1%)

Query: 13  TIHHMGIRLISRALKSSP-VNSLYAESAILPLSVRRRLLFSNIIAKQEYYFASTNGSQIS 71
           T     +   + AL  S    ++  +S  +   V  +   S      +          I 
Sbjct: 43  TNQQAELEAFAMALTDSGPKVNIIVDSQYVMGIVASQPTESESKIVNQIIEEMIKKEAIY 102

Query: 72  FMWIPSHSNIALNDKADQLAKNSI 95
             W+P+H  I  N + D L    I
Sbjct: 103 VAWVPAHKGIGGNQEVDHLVSQGI 126

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

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

 Score = 38.1 bits (87), Expect = 3e-04
 Identities = 11/43 (25%), Positives = 23/43 (53%)

Query: 59  EYYFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLD 101
           +   A+    QI + W+  H+    N++AD+LA+ +  +  L+
Sbjct: 103 QRLDAALGQHQIKWEWVKGHAGHPENERADELARAAAMNPTLE 145

>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Length = 147

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]

 Score = 37.2 bits (85), Expect = 5e-04
 Identities = 6/38 (15%), Positives = 17/38 (44%)

Query: 61  YFASTNGSQISFMWIPSHSNIALNDKADQLAKNSINSK 98
              +    ++ F ++  H+    N++ D+ A+    S+
Sbjct: 107 LLLAMAPHRVRFHFVKGHTGHPENERVDREARRQAQSQ 144

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	236
d1jl1a_	152	RNase H (RNase HI) {Escherichia coli [TaxId: 562]}	98.81
d1mu2a1	126	HIV RNase H (Domain of reverse transcriptase) {Hum	98.56
d1rila_	147	RNase H (RNase HI) {Thermus thermophilus [TaxId: 2	98.53

>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=98.81  E-value=1e-09  Score=83.39  Aligned_cols=39  Identities=26%  Similarity=0.432  Sum_probs=33.7

Q ss_pred             hCCCceEEEEeccCCCCCcchHHHHHHhhhhccCccccC
Q psy12036         65 TNGSQISFMWIPSHSNIALNDKADQLAKNSINSKLLDFY  103 (236)
Q Consensus        65 ~~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~~~~~~~  103 (236)
                      .....|.|.|||||+|++|||.||+|||+|+..+.+++.
T Consensus       109 ~~~~~V~~~wV~gH~g~~gNe~AD~LAk~aa~~~~~~d~  147 (152)
T d1jl1a_         109 LGQHQIKWEWVKGHAGHPENERADELARAAAMNPTLEDT  147 (152)
T ss_dssp             TTTCEEEEEECCSSTTCHHHHHHHHHHHHHHHSCCBCCT
T ss_pred             hhcceeEEEEecccCCCccHHHHHHHHHHHHhCCCCCcc
Confidence            345689999999999999999999999999988775443

>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=98.56  E-value=1.7e-08  Score=74.50  Aligned_cols=30  Identities=30%  Similarity=0.612  Sum_probs=27.2

Q ss_pred             CCCceEEEEeccCCCCCcchHHHHHHhhhh
Q psy12036         66 NGSQISFMWIPSHSNIALNDKADQLAKNSI   95 (236)
Q Consensus        66 ~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~   95 (236)
                      +...|.|.|||||+|++|||.||+||++|.
T Consensus        97 ~~~~v~~~wV~gH~g~~gNe~AD~LA~~ai  126 (126)
T d1mu2a1          97 KKEAIYVAWVPAHKGIGGNQEVDHLVSQGI  126 (126)
T ss_dssp             HCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred             hcceeEEEEEeCCCCCcchHHHHHHHHhhC
Confidence            356899999999999999999999999873

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

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

Probab=98.53  E-value=8.3e-09  Score=78.15  Aligned_cols=33  Identities=18%  Similarity=0.401  Sum_probs=29.7

Q ss_pred             CCCceEEEEeccCCCCCcchHHHHHHhhhhccC
Q psy12036         66 NGSQISFMWIPSHSNIALNDKADQLAKNSINSK   98 (236)
Q Consensus        66 ~~~~v~~~wip~H~gi~gNE~Ad~~Ak~a~~~~   98 (236)
                      ....|.|.|||||+|++|||.||+||++|+...
T Consensus       112 ~~~~v~~~wVkgHsg~~gNe~AD~LAk~aa~~~  144 (147)
T d1rila_         112 APHRVRFHFVKGHTGHPENERVDREARRQAQSQ  144 (147)
T ss_dssp             TTSEEECCCCCGGGSCTHHHHHHHHHHHHHTSS
T ss_pred             hhcccceEEccCCCCCcchHHHHHHHHHHHHHh
Confidence            456799999999999999999999999998753