Psyllid ID: psy16958

---

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-------
Protein Sequence
ILQNPKNPGYEATIHHPPQSNINFNRKHKPTSTRFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKEKKTNISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKLLPHPLTLENLLGNNKETIDSTLKYLYKTKLFGTL
Secondary Structure (PSIPRED)
ccccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccEEEccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHHHHHHHcccccccEEcccccccccccccccccccccHHHHHHHHcccHHHHHHHccccccHHHHHccccccHHHHHHHHHHHcccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHHccccEEEEccccccccEEEEEEEcccEEEEEccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccHHcEEEEEEEEcccccccHHHHHccccccccccccccEEEEEEEEccHHHHHHHHHHccccccHHHHccccHHHHHHHHHHHHHccccccc
Coil and Loop (DISEMBL)
ilqnpknpgyeatihhppqsninfnrkhkptstrFKQYFTDANinltntaymkqsippwtitlPETQLLLKekktnispneIKSKFNQLLNKVnrketfycdgskspqhcgsafvhegntitfklpnisssYTAEIIALQKCIQFITqnkkikpetqywptssrqKRIEEVIIARLRIghtrvshsylidkkprpicdtchtplSVAHILIECTKFQVERqkllphpltlenllgnnkeTIDSTLKYLYKTKLFGTL
Flexible Loop (DISEMBL)
ilqnpknpgyeatihhppqsninfnrKHKPTSTRFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKEkktnispneikskfnqLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITqnkkikpetqywptssrqkrIEEVIIARlrightrvshsylidkkprpiCDTCHTPLSVAHILIECTKFQVERQKLLPhpltlenllgnnketidsTLKYLYKTKLFGTL
Low Complexity Region (SEG)
ILQNPKNPGYEATIHHPPQSNINFNRKHKPTSTRFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKEKKTNISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKllphpltlenllGNNKETIDSTLKYLYKTKLFGTL
Disordered region (IsUnstruct)
*********************************RFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKE***********SKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKLLPHPLTLENLLGNNKETIDSTLKYLYKTKLF***
Disordered Region (DISOPRED)
********GYEATIHHPPQSNINFNRKHKPTSTRFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKEKKTNISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKLLPHPLTLENLLGNNKETIDSTLKYLYKTKLFGTL
Disordered Region (DISEMBL)
ILQNPKNPGYEATIHHPPQSNINFNRKHKPTSTRFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKEKKTNISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKLLPHPLTLENLLGNNKETIDSTLKYLYKTKLFGTL
Disordered Region (DISPRO)
***NPKNPGYEATIHHPPQSNINFNRKHKPTSTRFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKEKKTNISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKLLPHPLTLENLLGNNKETIDSTLKYLYKTKLFGTL
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
ILQNPKNPGYEATIHHPPQSNINFNRKHKPTSTRFKQYFTDANINLTNTAYMKQSIPPWTITLPETQLLLKEKKTNISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKLLPHPLTLENLLGNNKETIDSTLKYLYKTKLFGTL
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	257
328721829	152	PREDICTED: hypothetical protein LOC10057	0.350	0.592	0.473	6e-15
189242251	1808	PREDICTED: similar to pol-like protein [	0.848	0.120	0.300	4e-13
427791321	1210	Putative tick transposon, partial [Rhipi	0.463	0.098	0.36	6e-12
383864731	833	PREDICTED: protein toll-like [Megachile	0.350	0.108	0.419	7e-12
427791807	1212	Putative tick transposon, partial [Rhipi	0.463	0.098	0.36	7e-12
328725948	118	PREDICTED: hypothetical protein LOC10057	0.377	0.822	0.372	7e-11
328697314	118	PREDICTED: hypothetical protein LOC10057	0.377	0.822	0.372	7e-11
443733872	400	hypothetical protein CAPTEDRAFT_197082 [	0.284	0.182	0.410	1e-10
443730613	233	hypothetical protein CAPTEDRAFT_206814 [	0.299	0.330	0.425	2e-10
328696858	206	PREDICTED: hypothetical protein LOC10056	0.381	0.475	0.42	2e-10

>gi|328721829|ref|XP_003247415.1| PREDICTED: hypothetical protein LOC100572018 [Acyrthosiphon pisum]

 Score = 87.0 bits (214), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 44/93 (47%), Positives = 57/93 (61%), Gaps = 3/93 (3%)

Query: 144 QFITQNKK--IKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCH 201
             +T NK   +K     W  S    R E+ II R RIGH+ ++HSYLI K+PRP CDTC+
Sbjct: 40  DILTSNKLRIVKKTVSKWTYSENASRREQTIINRARIGHSNITHSYLITKEPRPNCDTCN 99

Query: 202 TPLSVAHILIECTKFQVERQKLLPHPLTLENLL 234
           TPL++ HI+I C KF   R  LL +P +LE  L
Sbjct: 100 TPLTIEHIIINCPKFASSRH-LLKNPSSLEEAL 131

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|189242251|ref|XP_001808188.1| PREDICTED: similar to pol-like protein [Tribolium castaneum]

 Score = 81.3 bits (199), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 74/246 (30%), Positives = 109/246 (44%), Gaps = 28/246 (11%)

Query: 1    ILQNPKNPGYEATIHHPPQSNINFNRKHK---PTSTRFKQYFTDANINLTNTA-YMKQSI 56
            I  N  NP +   +  P +    F+RK K   P   R K    + N++L  T  + +   
Sbjct: 1263 ISANKTNPAH--NMMFPNRKEDLFSRKVKLTPPAYRRIKIASVNLNLSLPITYPFQRSKT 1320

Query: 57   PPWTITLPETQL-LLKEKKTNISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFV 115
            PPWT   P     LL   K     + +K+K   LL  ++    FY D SKS    G+A+V
Sbjct: 1321 PPWTYNKPRVHTELLNLVKDKPLKSVLKTKLAALLTSISSNYIFYTDASKS-DTVGAAYV 1379

Query: 116  HEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSRQKRIEEVIIAR 175
                   F+L   S                  + ++  P+ + WP S+  KR EEV I R
Sbjct: 1380 TNDTQQAFRLSPES------------------KLREAYPDIKKWPPSN-LKRGEEVTINR 1420

Query: 176  LRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVERQKLLPHPLTLENLLG 235
            LR+GHTR++  Y + K   P C  C   L+V HIL+EC K+   R +    P  +E++L 
Sbjct: 1421 LRLGHTRLTQEYHLKKVDPPTCCYCEGRLTVRHILLECPKYHDIRNE-ANFPNRMEDILS 1479

Query: 236  NNKETI 241
               E +
Sbjct: 1480 PKNEAM 1485

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score = 77.4 bits (189), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 45/125 (36%), Positives = 67/125 (53%), Gaps = 6/125 (4%)

Query: 103  GSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQ---FITQNKK--IKPETQ 157
            G++    C S   H+  T   ++P   S  T  +  L K  Q     T NK   +KP   
Sbjct: 1046 GNEKADKCASLAAHKTLT-KIRIPLKDSQRTIRLALLAKWQQQWDSCTSNKLHLVKPTLG 1104

Query: 158  YWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQ 217
             W     Q+R  EVI+ RLRIGHT ++H++L+ K+ +P+C+ C  PL++ HILI C   +
Sbjct: 1105 EWKNCRHQERFIEVILCRLRIGHTHLTHNFLLTKEEQPMCEKCQEPLTLIHILILCPNIE 1164

Query: 218  VERQK 222
             +RQK
Sbjct: 1165 TQRQK 1169

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383864731|ref|XP_003707831.1| PREDICTED: protein toll-like [Megachile rotundata]

 Score = 77.0 bits (188), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 39/93 (41%), Positives = 60/93 (64%), Gaps = 3/93 (3%)

Query: 161 TSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQVER 220
           TSS Q+R ++V+I R+ IGHTR++H YL+ K+  PICD C   ++V H++I+C K+  +R
Sbjct: 89  TSSLQRR-DQVVITRITIGHTRITHQYLLTKEEPPICDLCKVSVTVDHLIIQCAKYAADR 147

Query: 221 QKLLPHPLTLENLLGNNKETIDSTLKYLYKTKL 253
           QK    P   +NL   + +T  + L +L  TKL
Sbjct: 148 QKYDIKPAWNDNL--KDDKTTQNLLNFLKDTKL 178

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score = 77.0 bits (188), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 45/125 (36%), Positives = 67/125 (53%), Gaps = 6/125 (4%)

Query: 103  GSKSPQHCGSAFVHEGNTITFKLPNISSSYTAEIIALQKCIQ---FITQNKK--IKPETQ 157
            G++    C S   H+  T   ++P   S  T  +  L K  Q     T NK   +KP   
Sbjct: 1049 GNEKADKCASLAAHKTLT-KIRIPLKDSQRTIRLALLAKWQQQWDSCTSNKLHLVKPTLG 1107

Query: 158  YWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQ 217
             W     Q+R  EVI+ RLRIGHT ++H++L+ K+ +P+C+ C  PL++ HILI C   +
Sbjct: 1108 EWKNCRHQERFIEVILCRLRIGHTHLTHNFLLTKEEQPMCEKCQEPLTLIHILILCPNIE 1167

Query: 218  VERQK 222
             +RQK
Sbjct: 1168 TQRQK 1172

Source: Rhipicephalus pulchellus

Species: Rhipicephalus pulchellus

Genus: Rhipicephalus

Family: Ixodidae

Order: Ixodida

Class: Arachnida

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328725948|ref|XP_003248683.1| PREDICTED: hypothetical protein LOC100573436 [Acyrthosiphon pisum]

 Score = 73.9 bits (180), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 61/102 (59%), Gaps = 5/102 (4%)

Query: 158 YWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQ 217
           Y  T+ +  R EE ++ RLRIGHTR++H +L+ ++  PIC TC T L+V HI+ +C ++ 
Sbjct: 20  YRWTNPKLTRKEETVLNRLRIGHTRITHGFLMAREDPPICQTCETALTVKHIIADCLRYN 79

Query: 218 VERQKLLPHPLT--LENLLGNNKETIDSTLKYLYKTKLFGTL 257
            ER     H ++  L   LG N++ I   + +  +TKLF  +
Sbjct: 80  QERAD---HTISNHLNTALGPNQDKILDIINFTKQTKLFNCI 118

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328697314|ref|XP_003240305.1| PREDICTED: hypothetical protein LOC100572200 [Acyrthosiphon pisum]

 Score = 73.9 bits (180), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 38/102 (37%), Positives = 61/102 (59%), Gaps = 5/102 (4%)

Query: 158 YWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILIECTKFQ 217
           Y  T+ +  R EE ++ RLRIGHTR++H +L+ ++  PIC TC T L+V HI+ +C ++ 
Sbjct: 20  YRWTNPKLTRKEETVLNRLRIGHTRITHGFLMAREDPPICQTCETALTVKHIIADCLRYN 79

Query: 218 VERQKLLPHPLT--LENLLGNNKETIDSTLKYLYKTKLFGTL 257
            ER     H ++  L   LG N++ I   + +  +TKLF  +
Sbjct: 80  QERAD---HTISNHLNTALGPNQDKILDIINFTKQTKLFNCI 118

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

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

 Score = 73.2 bits (178), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 30/73 (41%), Positives = 47/73 (64%)

Query: 152 IKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHTPLSVAHILI 211
           I+P    W  SSR+ R EE+++AR RIGH+ ++H YL+ ++  P+C  C   LS+ HI I
Sbjct: 167 IQPTLGKWAKSSREIRREEIVLARARIGHSHLTHGYLLRREMPPVCIPCQNILSIKHIFI 226

Query: 212 ECTKFQVERQKLL 224
           EC  F +  ++L+
Sbjct: 227 ECVDFDILLRRLI 239

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 = 72.4 bits (176), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 34/80 (42%), Positives = 51/80 (63%), Gaps = 3/80 (3%)

Query: 146 ITQNKK---IKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDKKPRPICDTCHT 202
           + QN K   ++P  +    SSR+ R +E+++AR RIGHT ++H YL+ ++  P C  C  
Sbjct: 138 LEQNNKLHSVQPIIKKLTNSSREDRRKEIVLARARIGHTHLTHGYLLRRELPPFCVHCQC 197

Query: 203 PLSVAHILIECTKFQVERQK 222
           PL+V HILIEC  F + RQ+
Sbjct: 198 PLTVKHILIECVDFYLHRQR 217

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 = 72.4 bits (176), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 42/100 (42%), Positives = 56/100 (56%), Gaps = 2/100 (2%)

Query: 147 TQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVS-HSYLIDKKPRPICDTCHTPLS 205
           T+  +IK  T  W   S   R EEVI+ RLRIGHTR + H YL+ ++ +P C TC   L+
Sbjct: 96  TKLSEIKRTTDRWKNKSNLNRKEEVILTRLRIGHTRYTLHGYLMSREDQPTCATCGVHLT 155

Query: 206 VAHILIECTKFQVERQKLLPHPLTLENLLGNNKETIDSTL 245
           + HIL+EC + +  R K    P  L   LG N+  I  TL
Sbjct: 156 IKHILVECRQTEAARTK-YSIPEFLYQSLGPNESAIKQTL 194

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

No hits with e-value below 0.001 by BLAST

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	257
cd09276	128	cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom	1e-09
pfam00075	126	pfam00075, RNase_H, RNase H	4e-04

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

 Score = 54.6 bits (132), Expect = 1e-09
 Identities = 15/57 (26%), Positives = 28/57 (49%), Gaps = 3/57 (5%)

Query: 98  TFYCDGSKSPQHCGSAFV--HEGN-TITFKLPNISSSYTAEIIALQKCIQFITQNKK 151
             Y DGSK     G+ F    +G  + ++KL    S + AE++A+ + +Q   +  +
Sbjct: 1   VIYTDGSKLEGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAILEALQLALREGR 57

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 = 39.2 bits (92), Expect = 4e-04
 Identities = 28/97 (28%), Positives = 44/97 (45%), Gaps = 13/97 (13%)

Query: 97  ETFYCDGS--KSPQHCGSAFV-HEGNTITFKLPNISSSYTAEIIALQKCIQ-FITQNKKI 152
            T Y DGS   +P   G+ +V   G   +  LP  +++  AE++AL + ++    Q   I
Sbjct: 4   VTVYTDGSCNGNPGPGGAGYVTDGGKQRSKPLPG-TTNQRAELLALIEALEALSGQKVNI 62

Query: 153 KPETQY--------WPTSSRQKRIEEVIIARLRIGHT 181
             ++QY        WPT S  K I+  I   L+  H 
Sbjct: 63  YTDSQYVIGGITNGWPTKSESKPIKNEIWELLQKKHK 99

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	257
PF00075	132	RNase_H: RNase H; InterPro: IPR002156 The RNase H	97.65
cd06222	130	RnaseH RNase H (RNase HI) is an endonuclease that	96.95
PRK08719	147	ribonuclease H; Reviewed	96.65
PF13966	86	zf-RVT: zinc-binding in reverse transcriptase	96.24
PRK00203	150	rnhA ribonuclease H; Reviewed	96.16
PRK13907	128	rnhA ribonuclease H; Provisional	96.02
KOG3752|consensus	371		94.76
PRK07708	219	hypothetical protein; Validated	93.18
PRK06548	161	ribonuclease H; Provisional	93.08
COG0328	154	RnhA Ribonuclease HI [DNA replication, recombinati	92.93
PRK07238	372	bifunctional RNase H/acid phosphatase; Provisional	91.06
PF05380	159	Peptidase_A17: Pao retrotransposon peptidase ; Int	85.67

>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=97.65  E-value=4.5e-05  Score=60.66  Aligned_cols=51  Identities=27%  Similarity=0.485  Sum_probs=37.7

Q ss_pred             CcceEEecCCCC--CCceeeEE-eeCCceEEeeCCCCccchHHHHHHHHHHHHHH
Q psy16958         95 RKETFYCDGSKS--PQHCGSAF-VHEGNTITFKLPNISSSYTAEIIALQKCIQFI  146 (257)
Q Consensus        95 ~~~~iyTDgSK~--~~~vG~ai-~~~~~~~~~kLp~~~SIftAE~~AIl~Al~~i  146 (257)
                      ++..||||||-.  .+..|+++ +..+....+.++ ..|.+.||..||..||+.+
T Consensus         2 ~~~~iytDgS~~~~~~~~~~g~v~~~~~~~~~~~~-~~s~~~aEl~Ai~~AL~~~   55 (132)
T PF00075_consen    2 KAIIIYTDGSCRPNPGKGGAGYVVWGGRNFSFRLG-GQSNNRAELQAIIEALKAL   55 (132)
T ss_dssp             TSEEEEEEEEECTTTTEEEEEEEEETTEEEEEEEE-SECHHHHHHHHHHHHHHTH
T ss_pred             CcEEEEEeCCccCCCCceEEEEEEECCeEEEeccc-ccchhhhheehHHHHHHHh
Confidence            467899999943  33334444 455555667777 7899999999999999955

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=96.95  E-value=0.0026  Score=47.87  Aligned_cols=51  Identities=24%  Similarity=0.432  Sum_probs=35.6

Q ss_pred             eEEecCCCCCC--ceeeEEe--eCCceEEee---CCCCccchHHHHHHHHHHHHHHhh
Q psy16958         98 TFYCDGSKSPQ--HCGSAFV--HEGNTITFK---LPNISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        98 ~iyTDgSK~~~--~vG~ai~--~~~~~~~~k---Lp~~~SIftAE~~AIl~Al~~i~q  148 (257)
                      .+|||||-..+  +.|++++  ..+....+.   .....|++.||..|++.|++++.+
T Consensus         1 ~~~~Dgs~~~~~~~~g~g~v~~~~~~~~~~~~~~~~~~~s~~~aEl~al~~al~~~~~   58 (130)
T cd06222           1 VIYTDGSCRGNPGPAGAGVVLRDPGGEVLLSGGLLGGNTTNNRAELLALIEALELALE   58 (130)
T ss_pred             CEEecccCCCCCCceEEEEEEEeCCCeEEEeccccCCCCcHHHHHHHHHHHHHHHHHh
Confidence            48999998765  5666665  333222222   224679999999999999998764

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.

>PRK08719 ribonuclease H; Reviewed

Probab=96.65  E-value=0.0049  Score=51.87  Aligned_cols=57  Identities=16%  Similarity=0.332  Sum_probs=38.4

Q ss_pred             CCcceEEecCCCCCCc-----eeeEEe--eCC--ce--EEeeCCCCccchHHHHHHHHHHHHHHhhhc
Q psy16958         94 NRKETFYCDGSKSPQH-----CGSAFV--HEG--NT--ITFKLPNISSSYTAEIIALQKCIQFITQNK  150 (257)
Q Consensus        94 ~~~~~iyTDgSK~~~~-----vG~ai~--~~~--~~--~~~kLp~~~SIftAE~~AIl~Al~~i~q~~  150 (257)
                      +....||||||...+.     .|++++  +.+  ..  ....+....+-..||..|++.||+.+....
T Consensus         2 ~~~~~iYtDGs~~~n~~~~~~~G~G~vv~~~~~~~~~~~~~~~~~~~Tnn~aEl~A~~~aL~~~~~~~   69 (147)
T PRK08719          2 RASYSIYIDGAAPNNQHGCVRGGIGLVVYDEAGEIVDEQSITVNRYTDNAELELLALIEALEYARDGD   69 (147)
T ss_pred             CceEEEEEecccCCCCCCCCCcEEEEEEEeCCCCeeEEEEecCCCCccHHHHHHHHHHHHHHHcCCCC
Confidence            3567899999986543     366654  332  22  334454556778899999999999876543

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

Probab=96.24  E-value=0.0026  Score=48.36  Aligned_cols=42  Identities=21%  Similarity=0.447  Sum_probs=31.9

Q ss_pred             hhcCcccc-c--cccccCCCCCCCCCCCCC-ccccceeeccccccH
Q psy16958        176 LRIGHTRV-S--HSYLIDKKPRPICDTCHT-PLSVAHILIECTKFQ  217 (257)
Q Consensus       176 LRtGHt~l-t--h~~~i~~~~~p~C~~Cg~-~~Tv~HIL~eCp~~~  217 (257)
                      -|.-|.+| |  -+++.+...++.|..||. .||+.|++++||.-.
T Consensus        38 W~~~~~rL~t~~~l~~r~~~~~~~C~~C~~~~Et~~Hlf~~C~~a~   83 (86)
T PF13966_consen   38 WRALHNRLPTKDNLQRRGIQVDPICPLCGNEEETIEHLFFHCPFAR   83 (86)
T ss_pred             eeeccccchhhhhhhccCCccCCccccCCCccccccceeccCcCcc
Confidence            34556666 3  355566678899999995 899999999999753

>PRK00203 rnhA ribonuclease H; Reviewed

Probab=96.16  E-value=0.011  Score=49.35  Aligned_cols=53  Identities=13%  Similarity=0.201  Sum_probs=34.7

Q ss_pred             cceEEecCCCCC--CceeeEEe--eCCceE--EeeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         96 KETFYCDGSKSP--QHCGSAFV--HEGNTI--TFKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        96 ~~~iyTDgSK~~--~~vG~ai~--~~~~~~--~~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ...||||||...  +..|.+++  .++...  ....+ ..+--.||+.|++.||+.+...
T Consensus         3 ~v~iytDGs~~~n~~~~g~g~v~~~~~~~~~~~~~~~-~~TN~~aEL~Ai~~AL~~~~~~   61 (150)
T PRK00203          3 QVEIYTDGACLGNPGPGGWGAILRYKGHEKELSGGEA-LTTNNRMELMAAIEALEALKEP   61 (150)
T ss_pred             eEEEEEEecccCCCCceEEEEEEEECCeeEEEecCCC-CCcHHHHHHHHHHHHHHHcCCC
Confidence            478999999764  33555544  444332  22233 3455679999999999987654

>PRK13907 rnhA ribonuclease H; Provisional

Probab=96.02  E-value=0.012  Score=47.36  Aligned_cols=53  Identities=23%  Similarity=0.344  Sum_probs=34.4

Q ss_pred             ceEEecCCCCC--CceeeEEe--eCCceEEeeCC-CCccchHHHHHHHHHHHHHHhhh
Q psy16958         97 ETFYCDGSKSP--QHCGSAFV--HEGNTITFKLP-NISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        97 ~~iyTDgSK~~--~~vG~ai~--~~~~~~~~kLp-~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      .+||||||-..  +..|++++  +.+....+..+ ..++=..||..|++.||+++...
T Consensus         2 ~~iy~DGa~~~~~g~~G~G~vi~~~~~~~~~~~~~~~~tn~~AE~~All~aL~~a~~~   59 (128)
T PRK13907          2 IEVYIDGASKGNPGPSGAGVFIKGVQPAVQLSLPLGTMSNHEAEYHALLAALKYCTEH   59 (128)
T ss_pred             EEEEEeeCCCCCCCccEEEEEEEECCeeEEEEecccccCCcHHHHHHHHHHHHHHHhC
Confidence            57999998653  34666655  33222222222 23455679999999999988765

>KOG3752|consensus

Probab=94.76  E-value=0.053  Score=52.32  Aligned_cols=58  Identities=19%  Similarity=0.204  Sum_probs=45.0

Q ss_pred             cCCcceEEecCCCCC-----CceeeEEeeC---CceEEeeCC-CCccchHHHHHHHHHHHHHHhhhc
Q psy16958         93 VNRKETFYCDGSKSP-----QHCGSAFVHE---GNTITFKLP-NISSSYTAEIIALQKCIQFITQNK  150 (257)
Q Consensus        93 ~~~~~~iyTDgSK~~-----~~vG~ai~~~---~~~~~~kLp-~~~SIftAE~~AIl~Al~~i~q~~  150 (257)
                      +.+...+|||||-.-     -++|.+|+-+   .....++|. .--.-|.||.+|+.+||+-+.+..
T Consensus       209 ~~~~~vvytDGS~~~ng~~~~~AGyGvywg~~~e~N~s~pv~~g~qtNnrAEl~Av~~ALkka~~~~  275 (371)
T KOG3752|consen  209 EIEIQVVYTDGSSSGNGRKSSRAGYGVYWGPGHELNVSGPLAGGRQTNNRAELIAAIEALKKARSKN  275 (371)
T ss_pred             cccceEEEecCccccCCCCCCcceeEEeeCCCCcccccccCCCCcccccHHHHHHHHHHHHHHHhcC
Confidence            345589999999765     3589999843   356788887 555889999999999999887643

>PRK07708 hypothetical protein; Validated

Probab=93.18  E-value=0.3  Score=43.86  Aligned_cols=56  Identities=20%  Similarity=0.179  Sum_probs=36.7

Q ss_pred             CCcceEEecCCCC--CCceeeEEe--eCCceEE------eeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         94 NRKETFYCDGSKS--PQHCGSAFV--HEGNTIT------FKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        94 ~~~~~iyTDgSK~--~~~vG~ai~--~~~~~~~------~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      .+...+|+|||-.  .++.|++++  .......      ..|...++=-.||..|++.||+.+...
T Consensus        71 p~~~~vY~DGs~~~n~g~aG~GvVI~~~~g~~~~~~~~~~~l~~~~TNN~AEy~Ali~aL~~A~e~  136 (219)
T PRK07708         71 PHEILVYFDGGFDKETKLAGLGIVIYYKQGNKRYRIRRNAYIEGIYDNNEAEYAALYYAMQELEEL  136 (219)
T ss_pred             CCcEEEEEeeccCCCCCCcEEEEEEEECCCCEEEEEEeeccccccccCcHHHHHHHHHHHHHHHHc
Confidence            4468999999853  344555544  4332222      245544566679999999999988764

>PRK06548 ribonuclease H; Provisional

Probab=93.08  E-value=0.24  Score=42.58  Aligned_cols=52  Identities=17%  Similarity=0.064  Sum_probs=31.6

Q ss_pred             CcceEEecCCCCC--CceeeEEeeCCc-eEEeeCCCCccchHHHHHHHHHHHHHHh
Q psy16958         95 RKETFYCDGSKSP--QHCGSAFVHEGN-TITFKLPNISSSYTAEIIALQKCIQFIT  147 (257)
Q Consensus        95 ~~~~iyTDgSK~~--~~vG~ai~~~~~-~~~~kLp~~~SIftAE~~AIl~Al~~i~  147 (257)
                      +...||||||-..  +..|.+++..+. ......+.. +==.||..|++.||+.+.
T Consensus         4 ~~~~IytDGa~~gnpg~~G~g~~~~~~~~~~g~~~~~-TNnraEl~Aii~aL~~~~   58 (161)
T PRK06548          4 NEIIAATDGSSLANPGPSGWAWYVDENTWDSGGWDIA-TNNIAELTAVRELLIATR   58 (161)
T ss_pred             CEEEEEEeeccCCCCCceEEEEEEeCCcEEccCCCCC-CHHHHHHHHHHHHHHhhh
Confidence            4578999998664  346677663332 221112111 112499999999998665

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

Probab=92.93  E-value=0.33  Score=41.62  Aligned_cols=54  Identities=15%  Similarity=0.195  Sum_probs=35.3

Q ss_pred             CcceEEecCCCCC----CceeeEEeeCCceEEeeCCC-CccchHHHHHHHHHHHHHHhh
Q psy16958         95 RKETFYCDGSKSP----QHCGSAFVHEGNTITFKLPN-ISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        95 ~~~~iyTDgSK~~----~~vG~ai~~~~~~~~~kLp~-~~SIftAE~~AIl~Al~~i~q  148 (257)
                      ....||||||-..    ++.|+.+.+++....+..+- .++==.||..|+++||+++..
T Consensus         2 ~~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~~tTNNraEl~A~i~AL~~l~~   60 (154)
T COG0328           2 KKVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEGRTTNNRAELRALIEALEALKE   60 (154)
T ss_pred             CceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeeecccChHHHHHHHHHHHHHHHh
Confidence            3578999999653    34555554444433233322 344456999999999999984

>PRK07238 bifunctional RNase H/acid phosphatase; Provisional

Probab=91.06  E-value=0.58  Score=44.36  Aligned_cols=51  Identities=14%  Similarity=0.099  Sum_probs=33.9

Q ss_pred             ceEEecCCCCCC--ceeeEEe--eCC-c----eEEeeCCCCccchHHHHHHHHHHHHHHhh
Q psy16958         97 ETFYCDGSKSPQ--HCGSAFV--HEG-N----TITFKLPNISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        97 ~~iyTDgSK~~~--~vG~ai~--~~~-~----~~~~kLp~~~SIftAE~~AIl~Al~~i~q  148 (257)
                      +.||||||-..+  ..|++++  +.+ .    .....+. .++--.||..|++.||+++..
T Consensus         3 ~~i~~DGa~~~n~g~aG~G~vi~~~~~~~~~~~~~~~~~-~~tnn~AE~~All~gL~~a~~   62 (372)
T PRK07238          3 VVVEADGGSRGNPGPAGYGAVVWDADRGEVLAERAEAIG-RATNNVAEYRGLIAGLEAAAE   62 (372)
T ss_pred             EEEEecCCCCCCCCceEEEEEEEeCCCCcEEEEeecccC-CCCchHHHHHHHHHHHHHHHh
Confidence            579999996643  3555544  432 1    1233344 456668999999999998775

>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family

Probab=85.67  E-value=1.9  Score=36.35  Aligned_cols=53  Identities=13%  Similarity=0.260  Sum_probs=33.9

Q ss_pred             CCcceEEecCCCCCCceeeEEe--e-CCceEE-------eeC--CCCccchHHHHHHHHHHHHHHhh
Q psy16958         94 NRKETFYCDGSKSPQHCGSAFV--H-EGNTIT-------FKL--PNISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        94 ~~~~~iyTDgSK~~~~vG~ai~--~-~~~~~~-------~kL--p~~~SIftAE~~AIl~Al~~i~q  148 (257)
                      ....++|+|||+..  .|+.++  . .+....       -|+  -+..||-.-|..|++.|+.++..
T Consensus        79 ~~~L~~F~DAS~~a--ygavvYlr~~~~~~~~~~ll~aKsrv~P~k~~tIPRlEL~a~~l~~~l~~~  143 (159)
T PF05380_consen   79 SVELHVFCDASESA--YGAVVYLRSYSDGSVQVRLLFAKSRVAPLKTVTIPRLELLAALLGVRLANT  143 (159)
T ss_pred             ceeeeEeecccccc--eeeEeEeeeccCCceeeeeeeecccccCCCCCcHHHHHHHHHHHHHHHHHH
Confidence            34688999999554  455544  1 222111       122  13459999999999999887664

---

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	257
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-04
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-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 = 41.4 bits (96), Expect = 2e-04
 Identities = 42/317 (13%), Positives = 82/317 (25%), Gaps = 97/317 (30%)

Query: 1   ILQNPKNPGYEATIHHPPQSNINF-----NRKHKPTSTRFKQYFTDANINLTNTAYMKQS 55
           +L   +    +  +    + N  F       + +  S   + Y    +  L N     Q 
Sbjct: 71  LLSKQEE-MVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD-RLYNDN---QV 125

Query: 56  IPPWTITLPETQLLLKEKKTNISPNEI----------KSKFNQLLNKVNRKETFYCDGSK 105
              + ++  +  L L++    + P +           K+    +   V       C    
Sbjct: 126 FAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKT---WVALDVCLSYKVQC---- 178

Query: 106 SPQHCGSAF-VHEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKKIKPETQYWPTSSR 164
             +     F ++  N          +S    +  LQK +  I  N   + +      SS 
Sbjct: 179 --KMDFKIFWLNLKN---------CNSPETVLEMLQKLLYQIDPNWTSRSD-----HSSN 222

Query: 165 QKRIEEVIIARLR--IGHTRVSHSYLI-----DKKPRPICDT----CHTPL-----SVAH 208
            K     I A LR  +      +  L+     + K     +     C   L      V  
Sbjct: 223 IKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAK---AWNAFNLSCKILLTTRFKQVTD 279

Query: 209 ILIECTKFQV----------ERQKL-------------LP------HPLTLENLLG---- 235
            L   T   +            +               LP      +P  L +++     
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRL-SIIAESIR 338

Query: 236 NNKETIDSTLKYLYKTK 252
           +   T D+         
Sbjct: 339 DGLATWDNWKHVNCDKL 355

>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 = 40.6 bits (94), Expect = 4e-04
 Identities = 44/265 (16%), Positives = 76/265 (28%), Gaps = 85/265 (32%)

Query: 11  EATIHHPPQSNI--NFNRKHKPTSTRFKQYFTD-------ANINLTNTAYMKQS------ 55
           E    +P + +I     R    T   +K    D       +++N+   A  ++       
Sbjct: 321 EVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV 380

Query: 56  ------IPP------W----------------------------TITLPETQLLLKEKKT 75
                 IP       W                            TI++P   L LK K  
Sbjct: 381 FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVK-- 438

Query: 76  NISPNEIKSKFNQLLNKVNRKETFYCDGSKSPQHCGSAFVHEGNTITFKLPNISSSYTAE 135
                   +    +++  N  +TF  D    P      + H    I   L NI      E
Sbjct: 439 ---LENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSH----IGHHLKNIEH---PE 488

Query: 136 IIALQKCI----QFITQNKKIKPETQYWPTSSRQKRIEEVIIARLRIGHTRVSHSYLIDK 191
            + L + +    +F+ Q  KI+ ++  W  S          + +L+         Y+ D 
Sbjct: 489 RMTLFRMVFLDFRFLEQ--KIRHDSTAWNASGSILN----TLQQLKF-----YKPYICDN 537

Query: 192 KP---RPICDTCHTPLSVAHILIEC 213
            P   R +         +   LI  
Sbjct: 538 DPKYERLVNAILDFLPKIEENLICS 562

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	257
2qkb_A	154	Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy	97.52
2kq2_A	147	Ribonuclease H-related protein; PSI, NESG, protein	97.5
3u3g_D	140	Ribonuclease H, RNAse H1; hydrolase, cleave the RN	96.92
3hst_B	141	Protein RV2228C/MT2287; ribonuclease H1, RV2228C N	96.91
3p1g_A	165	Xenotropic murine leukemia virus-related virus (X	96.89
3h08_A	146	RNH (ribonuclease H); RNAse H, 3D-structure, endon	96.59
1jl1_A	155	Ribonuclease HI; RNAse HI, protein stability, ther	96.1
2ehg_A	149	Ribonuclease HI; RNAse HI, hyperthermophilic archa	96.01
3qio_A	150	GAG-POL polyprotein; RNAse H, inhibitor, nuclease,	95.96
2e4l_A	158	Ribonuclease HI, RNAse HI; hydrolase, endoribonucl	95.89
1ril_A	166	Ribonuclease H; hydrolase(endoribonuclease); 2.80A	95.66
2zd1_A	557	Reverse transcriptase/ribonuclease H; P51/P66, het	94.59
1mu2_A	555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	93.32
1zbf_A	142	Ribonuclease H-related protein; RNAse H, RNA/DNA h	93.21
4htu_A	134	Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine,	90.28
2lsn_A	165	Reverse transcriptase; RNAse H, viral protein; NMR	89.11

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

Probab=97.52  E-value=7.9e-05  Score=60.78  Aligned_cols=55  Identities=24%  Similarity=0.262  Sum_probs=42.4

Q ss_pred             CcceEEecCCCCCC-----ceeeEEeeCC---ceEEeeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         95 RKETFYCDGSKSPQ-----HCGSAFVHEG---NTITFKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        95 ~~~~iyTDgSK~~~-----~vG~ai~~~~---~~~~~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      +...||||||...+     ..|++++..+   ......|+..++...||+.|++.||+++...
T Consensus         6 ~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~   68 (154)
T 2qkb_A            6 DFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQ   68 (154)
T ss_dssp             TEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHT
T ss_pred             CeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhC
Confidence            56789999997643     2688877432   2456778777899999999999999998754

>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=97.50  E-value=0.00016  Score=58.99  Aligned_cols=55  Identities=20%  Similarity=0.195  Sum_probs=39.7

Q ss_pred             CcceEEecCCCCCCceeeEEe--eCCce--EEe-eC--CC--CccchHHHHHHHHHHHHHHhhh
Q psy16958         95 RKETFYCDGSKSPQHCGSAFV--HEGNT--ITF-KL--PN--ISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        95 ~~~~iyTDgSK~~~~vG~ai~--~~~~~--~~~-kL--p~--~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      +...||||||...+..|++++  .++..  ... .+  |.  ..+.+.||+.|++.||+++...
T Consensus         5 ~~i~iytDGs~~~g~~G~G~vi~~~g~~~~~~~~~~~~~~~~~~tNn~aEl~A~~~AL~~a~~~   68 (147)
T 2kq2_A            5 TEYDVYTDGSYVNGQYAWAYAFVKDGKVHYEDADVGKNPAAATMRNVAGEIAAALYAVKKASQL   68 (147)
T ss_dssp             SCCEEECCCCCBTTBCEEEEEEEETTEEEEEEEEECCCGGGGGTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCCCcEEEEEEEECCEEEEEEeccccccccccccHHHHHHHHHHHHHHHHHHC
Confidence            567899999988877777766  34432  233 33  43  2578999999999999987654

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

Probab=96.92  E-value=0.00052  Score=53.62  Aligned_cols=53  Identities=21%  Similarity=0.223  Sum_probs=36.6

Q ss_pred             cceEEecCCCCCC--ceeeEEe--eCC--c--eEEeeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         96 KETFYCDGSKSPQ--HCGSAFV--HEG--N--TITFKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        96 ~~~iyTDgSK~~~--~vG~ai~--~~~--~--~~~~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ...||||||...+  ..|++++  ..+  .  .....++ .++...||..|++.||+++.+.
T Consensus         3 ~~~iy~DGs~~~n~g~~G~G~v~~~~~g~~~~~~~~~~~-~~tn~~aEl~A~~~aL~~a~~~   63 (140)
T 3u3g_D            3 KIIIYTDGGARGNPGPAGIGVVITDEKGNTLHESSAYIG-ETTNNVAEYEALIRALEDLQMF   63 (140)
T ss_dssp             EEEEEEEEEESSTTEEEEEEEEEECTTSCEEEEEEEEEE-EECHHHHHHHHHHHHHHHHGGG
T ss_pred             eEEEEEecCCCCCCCCcEEEEEEEeCCCCEEEEEEeeCC-CCchHHHHHHHHHHHHHHHHHc
Confidence            4689999997643  4666655  322  1  2233343 4688899999999999998753

>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=96.91  E-value=0.00076  Score=53.10  Aligned_cols=53  Identities=15%  Similarity=0.083  Sum_probs=36.7

Q ss_pred             cceEEecCCCCCC--ceeeEEe--eCC--c---eEEeeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         96 KETFYCDGSKSPQ--HCGSAFV--HEG--N---TITFKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        96 ~~~iyTDgSK~~~--~vG~ai~--~~~--~---~~~~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ...||||||...+  ..|++++  +.+  .   .....++ .++...||..|++.||+++.+.
T Consensus         3 ~~~iy~DGs~~~~~g~~g~G~v~~~~~~~~~~~~~~~~~~-~~tn~~aEl~A~~~aL~~a~~~   64 (141)
T 3hst_B            3 KVVIEADGGSRGNPGPAGYGAVVWTADHSTVLAESKQAIG-RATNNVAEYRGLIAGLDDAVKL   64 (141)
T ss_dssp             EEEEEEEEEESSSSEEEEEEEEEEETTSCSEEEEEEEEEE-EECHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEecCCCCCCCCcEEEEEEEeCCCCcEEEeeeccCC-CCchHHHHHHHHHHHHHHHHHC
Confidence            4689999997643  4566654  432  1   2233343 5677899999999999998764

>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=96.89  E-value=0.00077  Score=56.39  Aligned_cols=52  Identities=33%  Similarity=0.465  Sum_probs=37.9

Q ss_pred             cceEEecCCCC--CCc--eeeEEeeCCceE-EeeCCCCccchHHHHHHHHHHHHHHh
Q psy16958         96 KETFYCDGSKS--PQH--CGSAFVHEGNTI-TFKLPNISSSYTAEIIALQKCIQFIT  147 (257)
Q Consensus        96 ~~~iyTDgSK~--~~~--vG~ai~~~~~~~-~~kLp~~~SIftAE~~AIl~Al~~i~  147 (257)
                      ...||||||..  .+.  .|++++.++... ...++..++...||..|++.||+++.
T Consensus        23 ~i~iytDGs~~~npG~~g~G~vi~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~   79 (165)
T 3p1g_A           23 DYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAE   79 (165)
T ss_dssp             SEEEEEEEEEEEETTEEEEEEEEECSSCEEEEEEECTTCCHHHHHHHHHHHHHHHTB
T ss_pred             CEEEEEEcccCCCCCceEEEEEEEECCEEEEEecCCCCCcHHHHHHHHHHHHHHHcc
Confidence            47899999986  343  444444544332 33577888999999999999999983

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

Probab=96.59  E-value=0.00072  Score=54.35  Aligned_cols=53  Identities=21%  Similarity=0.272  Sum_probs=36.7

Q ss_pred             CcceEEecCCCCCC--ceeeEEe--eCCce--EEeeCCCCccchHHHHHHHHHHHHHHhh
Q psy16958         95 RKETFYCDGSKSPQ--HCGSAFV--HEGNT--ITFKLPNISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        95 ~~~~iyTDgSK~~~--~vG~ai~--~~~~~--~~~kLp~~~SIftAE~~AIl~Al~~i~q  148 (257)
                      +...||||||-..+  ..|++++  .++..  ....++ .++...||..|++.||+.+..
T Consensus         3 ~~i~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~~~~~-~~Tnn~aEl~A~~~AL~~~~~   61 (146)
T 3h08_A            3 KTITIYTDGAASGNPGKGGWGALLMYGSSRKEISGYDP-ATTNNRMELMAAIKGLEALKE   61 (146)
T ss_dssp             CEEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEE-EECHHHHHHHHHHHHHHTCSS
T ss_pred             ceEEEEEecCCCCCCCceEEEEEEEECCeeEEeecCCC-CCcHHHHHHHHHHHHHHhcCc
Confidence            46789999996543  3666655  44422  233344 467778999999999998864

>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=96.10  E-value=0.0028  Score=51.74  Aligned_cols=53  Identities=13%  Similarity=0.216  Sum_probs=36.6

Q ss_pred             cceEEecCCCCCC--ceeeEEe--eCCc--eEEeeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         96 KETFYCDGSKSPQ--HCGSAFV--HEGN--TITFKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        96 ~~~iyTDgSK~~~--~vG~ai~--~~~~--~~~~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ...||||||...+  ..|++++  ..+.  .....++ .++...||..|++.||+++.+.
T Consensus         4 ~~~iytDGs~~~n~~~~G~G~v~~~~~~~~~~~~~~~-~~tn~~aEl~A~~~aL~~~~~~   62 (155)
T 1jl1_A            4 QVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYT-RTTNNRMELMAAIVALEALKEH   62 (155)
T ss_dssp             CEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEE-EECHHHHHHHHHHHHHHTCCSC
T ss_pred             eEEEEEccccCCCCCceEEEEEEEECCeEEEEecCCC-CCcHHHHHHHHHHHHHHHhCcC
Confidence            5789999998643  3566655  3332  2233343 4577899999999999988653

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

Probab=96.01  E-value=0.0074  Score=48.29  Aligned_cols=53  Identities=19%  Similarity=0.142  Sum_probs=35.6

Q ss_pred             ceEEecCCCC---CCceee-EEe--eCCce-EEe--eCC---CCccchHHHHHHHHHHHHHHhhh
Q psy16958         97 ETFYCDGSKS---PQHCGS-AFV--HEGNT-ITF--KLP---NISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        97 ~~iyTDgSK~---~~~vG~-ai~--~~~~~-~~~--kLp---~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ..||||||..   .+..|+ +++  +++.. ..+  .+.   ..++...||..|++.||+++...
T Consensus         2 ~~iy~DGs~~~~n~g~~G~~G~vi~~~g~~~~~~~~~~~~~~~~~tnn~aEl~A~~~aL~~a~~~   66 (149)
T 2ehg_A            2 IIGYFDGLCEPKNPGGIATFGFVIYLDNRKIEGYGLAEKPFSINSTNNVAEYSGLICLMETMLRL   66 (149)
T ss_dssp             CEEEEEEEEESSSSSSEEEEEEEEECSSCEEEEEEECSCTTCTTCCHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEeeccCCCCCChheEEEEEEEECCEEEEEeccccCCCCCCccHHHHHHHHHHHHHHHHHHc
Confidence            5799999976   245664 543  43332 222  222   36788899999999999988754

>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=95.96  E-value=0.0087  Score=48.95  Aligned_cols=53  Identities=23%  Similarity=0.309  Sum_probs=35.8

Q ss_pred             CCcceEEecCCCCCC--ceeeEEee-CCceEEeeCCCCccchHHHHHHHHHHHHHHh
Q psy16958         94 NRKETFYCDGSKSPQ--HCGSAFVH-EGNTITFKLPNISSSYTAEIIALQKCIQFIT  147 (257)
Q Consensus        94 ~~~~~iyTDgSK~~~--~vG~ai~~-~~~~~~~kLp~~~SIftAE~~AIl~Al~~i~  147 (257)
                      .+...||||||-..+  .-|++++. .+....+.++ .++.-.||..|++.||+...
T Consensus        10 ~~~~~iytDGs~~~n~g~~g~G~v~~~~~~~~~~~~-~~Tnn~aEl~A~i~AL~~~~   65 (150)
T 3qio_A           10 VGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLT-DTTNQKTELQAIYLALQDSG   65 (150)
T ss_dssp             TTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEES-SCCHHHHHHHHHHHHHHHSC
T ss_pred             CCCEEEEEccCCCCCCCCeEEEEEEEcCCEEEEeCC-CCCHHHHHHHHHHHHHHhCC
Confidence            457899999996432  34555552 2233334453 46778899999999999863

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

Probab=95.89  E-value=0.0037  Score=51.26  Aligned_cols=54  Identities=17%  Similarity=0.263  Sum_probs=36.9

Q ss_pred             CcceEEecCCCCC--CceeeEEe--eCCce--EEeeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         95 RKETFYCDGSKSP--QHCGSAFV--HEGNT--ITFKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        95 ~~~~iyTDgSK~~--~~vG~ai~--~~~~~--~~~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ....||||||...  +..|++++  +.+..  ....++ .++...||+.|++.||+++.+.
T Consensus         5 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~~-~~tn~~aEl~A~~~AL~~~~~~   64 (158)
T 2e4l_A            5 KLIHIFTDGSCLGNPGPGGYGIVMNYKGHTKEMSDGFS-LTTNNRMELLAPIVALEALKEP   64 (158)
T ss_dssp             CEEEEEEEEEESSSSEEEEEEEEEEETTEEEEEEEEEE-EECHHHHHHHHHHHHHHTCSSC
T ss_pred             CeEEEEEcccccCCCCcEEEEEEEEECCEEEEEecCcC-CCccHHHHHHHHHHHHHHhccC
Confidence            3578999999764  33566665  34322  233444 3677889999999999987643

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

Probab=95.66  E-value=0.0037  Score=51.78  Aligned_cols=54  Identities=11%  Similarity=0.158  Sum_probs=36.3

Q ss_pred             CcceEEecCCCCCC--ceeeEEe--eCCce--EEeeCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         95 RKETFYCDGSKSPQ--HCGSAFV--HEGNT--ITFKLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        95 ~~~~iyTDgSK~~~--~vG~ai~--~~~~~--~~~kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ....||||||...+  ..|++++  +.+..  ....+ ..++...||+.|++.||+++...
T Consensus         7 ~~i~iytDGs~~~n~g~~G~G~v~~~~~~~~~~~~~~-~~~Tnn~aEl~Ai~~AL~~~~~~   66 (166)
T 1ril_A            7 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGE-ACTTNNRMELKAAIEGLKALKEP   66 (166)
T ss_dssp             CCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEE-EEECHHHHHHHHHHHHHHSCCSC
T ss_pred             ccEEEEECccccCCCCCEEEEEEEEECCEEEEEecCC-CCCcHHHHHHHHHHHHHHHhccC
Confidence            35789999997743  3666666  33322  22222 24577889999999999987654

>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=94.59  E-value=0.028  Score=54.66  Aligned_cols=67  Identities=21%  Similarity=0.240  Sum_probs=42.2

Q ss_pred             CCcceEEecCCCCCC--ceeeEEe-eCCceEEeeCCCCccchHHHHHHHHHHHHHHhhhcc-------ccccccCCCC
Q psy16958         94 NRKETFYCDGSKSPQ--HCGSAFV-HEGNTITFKLPNISSSYTAEIIALQKCIQFITQNKK-------IKPETQYWPT  161 (257)
Q Consensus        94 ~~~~~iyTDgSK~~~--~vG~ai~-~~~~~~~~kLp~~~SIftAE~~AIl~Al~~i~q~~~-------IK~~i~~W~~  161 (257)
                      .+...||||||...+  ..|++++ ..+....+.+ ..++-..||..|++.||+.+...-.       +...+..|..
T Consensus       437 ~~~~~iytDGs~~~n~g~~g~g~v~~~~~~~~~~~-~~~TNn~aEl~Ai~~aL~~~~~~v~I~tDS~~vi~~i~~~~~  513 (557)
T 2zd1_A          437 VGAETFYVDGAANRETKLGKAGYVTNKGRQKVVPL-TNTTNQKTELQAIYLALQDSGLEVNIVTDSQYALGIIQAQPD  513 (557)
T ss_dssp             TTSCEEEEEEEECTTTCCEEEEEEETTSCEEEEEE-CSCCHHHHHHHHHHHHHHHSCSEEEEEECCHHHHHHHTTCCS
T ss_pred             CCCEEEEEccCCCCCCCceEEEEEEECCcEEEecC-CCCCHHHHHHHHHHHHHHhCCCcEEEEeChHHHHHHHhcCCc
Confidence            345899999996532  2455555 2333333343 3567889999999999998832212       2344566765

>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=93.32  E-value=0.068  Score=51.90  Aligned_cols=50  Identities=28%  Similarity=0.310  Sum_probs=34.4

Q ss_pred             CCcceEEecCCCCCCc--eeeEEe--eCCceEEeeCCCCccchHHHHHHHHHHHHH
Q psy16958         94 NRKETFYCDGSKSPQH--CGSAFV--HEGNTITFKLPNISSSYTAEIIALQKCIQF  145 (257)
Q Consensus        94 ~~~~~iyTDgSK~~~~--vG~ai~--~~~~~~~~kLp~~~SIftAE~~AIl~Al~~  145 (257)
                      .+...||||||...++  .|++++  .++ .....+. .++-..||..|++.||+.
T Consensus       434 ~~~~~iytDGs~~~n~g~~g~G~v~~~~~-~~~~~~~-~~TNn~aEl~A~i~aL~~  487 (555)
T 1mu2_A          434 PGAETFYTDGSCNRQSKEGKAGYVTDRGK-DKVKKLE-QTTNQQAELEAFAMALTD  487 (555)
T ss_dssp             TTCEEEEEEEEECTTTCCEEEEEEETTSC-EEEEEES-SCCHHHHHHHHHHHHHHT
T ss_pred             CCceEEEEcccccCCCCCceEEEEEEeCC-EeeccCC-CCCHHHHHHHHHHHHHHc
Confidence            3468999999976432  456655  333 2334443 466789999999999987

>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=93.21  E-value=0.067  Score=43.61  Aligned_cols=55  Identities=15%  Similarity=0.196  Sum_probs=36.1

Q ss_pred             CcceEEecCCCCC--CceeeEEee--CCceEEeeCC-CCccchHHHHHHHHHHHHHHhhh
Q psy16958         95 RKETFYCDGSKSP--QHCGSAFVH--EGNTITFKLP-NISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        95 ~~~~iyTDgSK~~--~~vG~ai~~--~~~~~~~kLp-~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ....||||||-..  +..|.+++.  .+......-+ ..++--.||..|++.||+.+.+.
T Consensus        10 ~~~~iy~DGa~~gNpG~~G~G~vl~~~g~~~~~~~~~~~~TNN~aEl~A~i~aL~~~~~~   69 (142)
T 1zbf_A           10 IWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGTNNMGEFLAIVHGLRYLKER   69 (142)
T ss_dssp             CSSSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEEEECHHHHHHHHHHHHHHHHHHT
T ss_pred             CeEEEEEeeccCCCCCCeEEEEEEEeCCEEEEEecccCCcCcHHHHHHHHHHHHHHHHhC
Confidence            5678999998653  346777663  2333322222 13455569999999999988764

>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=90.28  E-value=0.14  Score=41.71  Aligned_cols=54  Identities=13%  Similarity=0.220  Sum_probs=33.5

Q ss_pred             CcceEEecCCCCC--Cceee-EEe-eCCceEEe--eCCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         95 RKETFYCDGSKSP--QHCGS-AFV-HEGNTITF--KLPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        95 ~~~~iyTDgSK~~--~~vG~-ai~-~~~~~~~~--kLp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ....||||||-..  +..|. +|+ ..+.....  .++ .++-=.||..|++.||+.+.+.
T Consensus         4 ~~~~iytDGac~GNPGp~G~ggV~~~~g~~~~~~g~~~-~tTNN~aEl~A~i~aL~~l~~~   63 (134)
T 4htu_A            4 IWESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIP-IGTNNMGEFLAIVHGLRYLKER   63 (134)
T ss_dssp             CSSSEEEEEEEETTTEEEEEEEEETTTCCEEEEEEEEE-EECHHHHHHHHHHHHHHHHHHT
T ss_pred             cceEEEEeeccCCCCCCeEEEEEEEECCEEEEEecCCC-CCchHHHHHHHHHHHHHHHHhC
Confidence            4568999999553  33566 444 32222222  222 3344469999999999988753

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

Probab=89.11  E-value=0.33  Score=40.29  Aligned_cols=53  Identities=23%  Similarity=0.301  Sum_probs=30.1

Q ss_pred             cceEEecCCCCCC-------ceeeEEe--eCC----ceEEeeCC-CCccchHHHHHHHHHHHHHHhh
Q psy16958         96 KETFYCDGSKSPQ-------HCGSAFV--HEG----NTITFKLP-NISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        96 ~~~iyTDgSK~~~-------~vG~ai~--~~~----~~~~~kLp-~~~SIftAE~~AIl~Al~~i~q  148 (257)
                      ...||||||-..+       +-|++|+  ..+    ....+.++ +..+=..||..|+..|++....
T Consensus         7 evviYTDGsc~gNpgp~~~~~aG~Gv~~~~~~~~~~~~~~~~~~tnn~te~~Aei~Al~~al~~al~   73 (165)
T 2lsn_A            7 EGVFYTDGSAIKSPDPTKSNNAGMGIVHATYKPEYQVLNQWSIPLGNHTAQMAEIAAVEFACKKALK   73 (165)
T ss_dssp             SEEEEEEEEEEECSSCTTCEEEEEEEEEECCSSSCCEEEEEEEEESSCCHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCCCCCCCCCcEEEEEEEEECCCccEEeccccCCchHHHHHHHHHHHHHHHHHHHhc
Confidence            4679999995432       2566665  222    12334443 3334456777777777765543

---

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	257
d1mu2a1	126	HIV RNase H (Domain of reverse transcriptase) {Hum	97.3
d1jl1a_	152	RNase H (RNase HI) {Escherichia coli [TaxId: 562]}	97.3
d1rila_	147	RNase H (RNase HI) {Thermus thermophilus [TaxId: 2	97.18
d1s1ta1	110	HIV RNase H (Domain of reverse transcriptase) {Hum	96.99
d1zbfa1	132	BH0863-like Ribonuclease H {Bacillus halodurans [T	95.07

>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=97.30  E-value=0.00012  Score=56.01  Aligned_cols=53  Identities=28%  Similarity=0.370  Sum_probs=35.5

Q ss_pred             CcceEEecCCCC-CCcee-eEEee-CCceEEeeCCCCccchHHHHHHHHHHHHHHhh
Q psy16958         95 RKETFYCDGSKS-PQHCG-SAFVH-EGNTITFKLPNISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        95 ~~~~iyTDgSK~-~~~vG-~ai~~-~~~~~~~kLp~~~SIftAE~~AIl~Al~~i~q  148 (257)
                      .-..+|||||.. ++++| ++++. .+......++ ..|...||..||++|+++..+
T Consensus         6 ~~~t~YTDGS~~~n~~~~~~g~~~~~~~~~~~~~~-~~tnn~AEl~Ai~~al~~~~~   61 (126)
T d1mu2a1           6 GAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLE-QTTNQQAELEAFAMALTDSGP   61 (126)
T ss_dssp             TCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEES-SCCHHHHHHHHHHHHHHTSCS
T ss_pred             CCcEEEEcCCCCCCCCcEEEEEEecCCCEEEEecC-CCcchHHHHHHHHHHhccCCc
Confidence            345899999954 44444 33443 3344455555 467899999999999986443

>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=97.30  E-value=4.6e-05  Score=59.12  Aligned_cols=54  Identities=15%  Similarity=0.233  Sum_probs=35.5

Q ss_pred             cceEEecCCCCCC--ceeeEEe--eCCceEEeeCC-CCccchHHHHHHHHHHHHHHhhh
Q psy16958         96 KETFYCDGSKSPQ--HCGSAFV--HEGNTITFKLP-NISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        96 ~~~iyTDgSK~~~--~vG~ai~--~~~~~~~~kLp-~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      .+.||||||...+  ..|++++  .++....+..+ ...+-.+||..|++.|++++...
T Consensus         2 ~I~IYtDGS~~~N~g~aG~G~vi~~~~~~~~~~~~~~~~tnn~aE~~Ai~~Al~~~~~~   60 (152)
T d1jl1a_           2 QVEIFTAGSALGNPGPGGYGAILRYRGREKTFSAGYTRTTNNRMELMAAIVALEALKEH   60 (152)
T ss_dssp             CEEEEEEEEESSTTEEEEEEEEEEETTEEEEEEEEEEEECHHHHHHHHHHHHHHTCCSC
T ss_pred             EEEEEEeCCCCCCCCcEEEEEEEEECCeEEEeccccCcccHHHHHHhhhhhhhhhhccc
Confidence            4689999996653  3555544  55544333322 33456789999999999876643

>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=97.18  E-value=3.9e-05  Score=59.88  Aligned_cols=54  Identities=11%  Similarity=0.147  Sum_probs=35.1

Q ss_pred             CcceEEecCCCCCC--ceeeEEe--eCC-ceEEeeCCCCccchHHHHHHHHHHHHHHhh
Q psy16958         95 RKETFYCDGSKSPQ--HCGSAFV--HEG-NTITFKLPNISSSYTAEIIALQKCIQFITQ  148 (257)
Q Consensus        95 ~~~~iyTDgSK~~~--~vG~ai~--~~~-~~~~~kLp~~~SIftAE~~AIl~Al~~i~q  148 (257)
                      ..+.||||||...+  ..|.+++  ..+ ....+......|.-+||..|++.||+++..
T Consensus         2 ~~i~iytDGs~~~N~g~~G~g~vi~~~~~~~~~~~~~~~~Tnn~aEl~Ai~~AL~~~~~   60 (147)
T d1rila_           2 KRVALFTDGACLGNPGPGGWAALLRFHAHEKLLSGGEACTTNNRMELKAAIEGLKALKE   60 (147)
T ss_dssp             CCCCEEEEEEESSTTEEEEEEEEECBTTBCCEECCEEEEECHHHHHHHHHHHHHHSCCS
T ss_pred             CEEEEEEccCCCCCCCccEEEEEEEECCcceEEecccccccHHHHHHHHHHHHhhhccC
Confidence            45789999997653  3555554  333 222222233346678999999999987654

>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=96.99  E-value=0.00038  Score=52.75  Aligned_cols=53  Identities=26%  Similarity=0.383  Sum_probs=34.3

Q ss_pred             CCcceEEecCCCC-CCceeeE-Ee-eCCceEEeeCCCCccchHHHHHHHHHHHHHHh
Q psy16958         94 NRKETFYCDGSKS-PQHCGSA-FV-HEGNTITFKLPNISSSYTAEIIALQKCIQFIT  147 (257)
Q Consensus        94 ~~~~~iyTDgSK~-~~~vG~a-i~-~~~~~~~~kLp~~~SIftAE~~AIl~Al~~i~  147 (257)
                      ..-..+|||||.. +++.|.+ ++ .........+. ..|--.||..||+.||+...
T Consensus         6 ~~~~t~ytDGs~~~n~~~g~~g~~~~~~~~~~~~~~-~~TNn~aEl~Avi~aL~~~~   61 (110)
T d1s1ta1           6 VGAETFYVDGAANRETKLGKAGYVTNRGRQKVVTLT-DTTNQKTELQAIYLALQDSG   61 (110)
T ss_dssp             TTSEEEEEEEEEETTTTEEEEEEEETTSCEEEEEES-SCCHHHHHHHHHHHHHHHSC
T ss_pred             CCCcEEEEeCCCCCCCCCcEEEEEEecCCeEEEecc-cCcHHHHHHHHHHHHHHhCC
Confidence            3456799999943 4444444 33 33334444454 45778999999999998543

>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=95.07  E-value=0.0076  Score=47.20  Aligned_cols=52  Identities=13%  Similarity=0.212  Sum_probs=32.9

Q ss_pred             ceEEecCCCCC--CceeeEEee--CCceEEee--CCCCccchHHHHHHHHHHHHHHhhh
Q psy16958         97 ETFYCDGSKSP--QHCGSAFVH--EGNTITFK--LPNISSSYTAEIIALQKCIQFITQN  149 (257)
Q Consensus        97 ~~iyTDgSK~~--~~vG~ai~~--~~~~~~~k--Lp~~~SIftAE~~AIl~Al~~i~q~  149 (257)
                      ..||||||-..  +..|.++|.  .+....++  ++..+ ==.||..|++.||+++.+.
T Consensus         5 ~sIy~DGa~~GNPGp~g~g~v~~~~~~~~~~sg~~~~~T-NN~aEl~A~i~aL~~~~~~   62 (132)
T d1zbfa1           5 ESLSVDVGSQGNPGIVEYKGVDTKTGEVLFEREPIPIGT-NNMGEFLAIVHGLRYLKER   62 (132)
T ss_dssp             SSEEEEEEECSSSEEEEEEEEETTTCCEEEECCCEEEEC-HHHHHHHHHHHHHHHHHHT
T ss_pred             eeEEEeecCCCCCchheEEEEEEcCCEEEEEEcCcCccc-hHHHHHHHHHHHHHHhhcC
Confidence            35999999664  346666553  23333333  23322 2259999999999998754