Psyllid ID: psy3458

Local Sequence Feature Prediction

Prediction and (Method)Result
Residue Number Marker
Protein Sequence ?
Secondary Structure (PSIPRED) ?
Secondary Structure Prediction (SSPRO) ?
Coil and Loop (DISEMBL) ?
Flexible Loop (DISEMBL) ?
Low Complexity Region (SEG) ?
Disordered region (IsUnstruct) ?
Disordered Region (DISOPRED) ?
Disordered Region (DISEMBL) ?
Disordered Region (DISPRO) ?
Transmembrane Helix (TMHMM) ?
Transmembrane Helix (HMMTOP) ?
Transmembrane Helix (MEMSAT) ?
TM Helix, Signal Peptide (MEMSAT_SVM) ?
TM Helix, Signal Peptide (Phobius) ?
Signal Peptide (SignalP HMM Mode) ?
Signal Peptide (SignalP NN Mode) ?
Coiled Coils (COILS) ?
Positional Conservation ?
 
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-
MDPDNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKADEMARDAAGW
ccccccEEEEEccccccccccccccEEEEEEcccccEEEEcccccccHHHHHHHHHHHHHHHHHHHcccccEEEEcccHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHccccccEEEEEcccccccccHHHHHHHHHHHcc
cccccEEEEEEcccccccccccccEEEEEEcccEEEEcccccccccccccHHHHHHHHHHHHHHcccccEEEEEEccHHHHHHHHHHHHHHHHHcccccccccccccHHHHHHHHHHHHccccEEEEEEEccccccccHHHHHHHHHHccc
mdpdnhvvvftdgacprngkvgasagygvyfgennplnvagkVTGRVTNNNAEIQGAIHALKQAksanidrvcikSDSQFMIKCVQEWMpkwqsngwrkadgkpvqnKEELQELLHQIGQmesvkwefvpghgnshgnmkADEMARDAAGW
MDPDNHVVVFtdgacprngkVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHgnshgnmkadEMARDAAGW
MDPDNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKADEMARDAAGW
******VVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWR***************LLHQIGQMESVKWEFV**********************
***DNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKADEMARDAAG*
MDPDNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKA**********
***DNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKADEMARDAAGW
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
oooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
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MDPDNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKADEMARDAAGW
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

ID ?Alignment graph ?Length ? Definition ? RBH(Q2H) ? RBH(H2Q) ? Q cover ? H cover ? Identity ? E-value ?
Query151 2.2.26 [Sep-21-2011]
Q5BK46285 Ribonuclease H1 OS=Rattus yes N/A 0.940 0.498 0.447 5e-30
O70338285 Ribonuclease H1 OS=Mus mu yes N/A 0.940 0.498 0.440 1e-29
O60930286 Ribonuclease H1 OS=Homo s yes N/A 0.953 0.503 0.427 2e-28
Q9UST8264 Ribonuclease H OS=Schizos yes N/A 0.887 0.507 0.383 3e-22
B8HPS9157 Ribonuclease H OS=Cyanoth yes N/A 0.894 0.859 0.384 2e-19
C6DC65154 Ribonuclease H OS=Pectoba yes N/A 0.913 0.896 0.375 2e-17
B0TZ91152 Ribonuclease H OS=Francis yes N/A 0.913 0.907 0.368 3e-17
B6JJ39149 Ribonuclease H OS=Oligotr yes N/A 0.887 0.899 0.381 1e-16
A7ZWF6155 Ribonuclease H OS=Escheri yes N/A 0.913 0.890 0.368 1e-16
B7LHC0155 Ribonuclease H OS=Escheri yes N/A 0.913 0.890 0.368 1e-16
>sp|Q5BK46|RNH1_RAT Ribonuclease H1 OS=Rattus norvegicus GN=Rnaseh1 PE=2 SV=1 Back     alignment and function desciption
 Score =  129 bits (325), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 64/143 (44%), Positives = 89/143 (62%), Gaps = 1/143 (0%)

Query: 7   VVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKS 66
           VVV+TDG C  NG+  A AG GVY+G  +PLNV  ++ GR TN  AEI  A  A+ QAK+
Sbjct: 139 VVVYTDGCCSSNGRKRARAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAITQAKA 198

Query: 67  ANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKW 126
            NI ++ + +DS F I  +  W+  W+ NGWR + GK V NKE+  E L ++ Q   ++W
Sbjct: 199 QNISKLVLYTDSMFTINGITNWVQGWKKNGWRTSTGKDVINKEDFME-LDELTQGMDIQW 257

Query: 127 EFVPGHGNSHGNMKADEMARDAA 149
             +PGH    GN +AD +AR+ A
Sbjct: 258 MHIPGHSGFVGNEEADRLAREGA 280
Endonuclease that specifically degrades the RNA of RNA-DNA hybrids.
Rattus norvegicus (taxid: 10116)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: 4
>sp|O70338|RNH1_MOUSE Ribonuclease H1 OS=Mus musculus GN=Rnaseh1 PE=2 SV=1 Back     alignment and function description
>sp|O60930|RNH1_HUMAN Ribonuclease H1 OS=Homo sapiens GN=RNASEH1 PE=1 SV=2 Back     alignment and function description
>sp|Q9UST8|RNH1_SCHPO Ribonuclease H OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rnh1 PE=1 SV=1 Back     alignment and function description
>sp|B8HPS9|RNH_CYAP4 Ribonuclease H OS=Cyanothece sp. (strain PCC 7425 / ATCC 29141) GN=rnhA PE=3 SV=1 Back     alignment and function description
>sp|C6DC65|RNH_PECCP Ribonuclease H OS=Pectobacterium carotovorum subsp. carotovorum (strain PC1) GN=rnhA PE=3 SV=1 Back     alignment and function description
>sp|B0TZ91|RNH_FRAP2 Ribonuclease H OS=Francisella philomiragia subsp. philomiragia (strain ATCC 25017) GN=rnhA PE=3 SV=1 Back     alignment and function description
>sp|B6JJ39|RNH_OLICO Ribonuclease H OS=Oligotropha carboxidovorans (strain ATCC 49405 / DSM 1227 / OM5) GN=rnhA PE=3 SV=1 Back     alignment and function description
>sp|A7ZWF6|RNH_ECOHS Ribonuclease H OS=Escherichia coli O9:H4 (strain HS) GN=rnhA PE=3 SV=1 Back     alignment and function description
>sp|B7LHC0|RNH_ECO55 Ribonuclease H OS=Escherichia coli (strain 55989 / EAEC) GN=rnhA PE=3 SV=1 Back     alignment and function description

Close Homologs in the Non-Redundant Database Detected by BLAST ?

Original result of BLAST against Nonredundant Database

GI ?Alignment Graph ?Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query151
328726334 401 PREDICTED: hypothetical protein LOC10057 0.986 0.371 0.483 2e-34
328707186 362 PREDICTED: hypothetical protein LOC10016 0.986 0.411 0.483 3e-34
332373760 266 unknown [Dendroctonus ponderosae] 0.966 0.548 0.486 2e-33
328792978 278 PREDICTED: ribonuclease H1 [Apis mellife 0.960 0.521 0.5 4e-33
380023892238 PREDICTED: ribonuclease H1-like [Apis fl 0.960 0.609 0.493 2e-32
345485265 302 PREDICTED: ribonuclease H1 [Nasonia vitr 0.980 0.490 0.469 5e-32
390179738 305 GA21286, isoform B [Drosophila pseudoobs 0.993 0.491 0.450 8e-32
340711175 283 PREDICTED: ribonuclease H1-like isoform 0.986 0.526 0.466 1e-31
45552509 314 ribonuclease H1, isoform B [Drosophila m 0.993 0.477 0.437 9e-31
2677845 333 ribonuclease H1 [Drosophila melanogaster 0.986 0.447 0.447 9e-31
>gi|328726334|ref|XP_003248854.1| PREDICTED: hypothetical protein LOC100570279 [Acyrthosiphon pisum] Back     alignment and taxonomy information
 Score =  150 bits (378), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 72/149 (48%), Positives = 98/149 (65%)

Query: 1   MDPDNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHA 60
            + +N VVV+TDGAC  NG  GA AG GV+FG ++PLN++ +V G  TNNNAEI   I A
Sbjct: 251 FNEENQVVVYTDGACSNNGYKGACAGAGVWFGNDHPLNLSIRVPGTQTNNNAEIFSTIKA 310

Query: 61  LKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQ 120
           +++  S  + R+ I +DS F+IK V EWMP+W S GW+ + G  V+NKE    L  +I  
Sbjct: 311 IERVYSTGLTRISIHTDSDFVIKSVNEWMPRWLSKGWKTSAGAEVKNKEMFMILNKRIQS 370

Query: 121 MESVKWEFVPGHGNSHGNMKADEMARDAA 149
           M+SV W +VPGH    GN +AD++AR  A
Sbjct: 371 MDSVSWTYVPGHKGIIGNEEADKLARIGA 399

Source: Acyrthosiphon pisum

Species: Acyrthosiphon pisum

Genus: Acyrthosiphon

Family: Aphididae

Order: Hemiptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|328707186|ref|XP_001948714.2| PREDICTED: hypothetical protein LOC100160388 [Acyrthosiphon pisum] Back     alignment and taxonomy information
>gi|332373760|gb|AEE62021.1| unknown [Dendroctonus ponderosae] Back     alignment and taxonomy information
>gi|328792978|ref|XP_395566.3| PREDICTED: ribonuclease H1 [Apis mellifera] Back     alignment and taxonomy information
>gi|380023892|ref|XP_003695743.1| PREDICTED: ribonuclease H1-like [Apis florea] Back     alignment and taxonomy information
>gi|345485265|ref|XP_001599895.2| PREDICTED: ribonuclease H1 [Nasonia vitripennis] Back     alignment and taxonomy information
>gi|390179738|ref|XP_003736961.1| GA21286, isoform B [Drosophila pseudoobscura pseudoobscura] gi|388859951|gb|EIM53034.1| GA21286, isoform B [Drosophila pseudoobscura pseudoobscura] Back     alignment and taxonomy information
>gi|340711175|ref|XP_003394155.1| PREDICTED: ribonuclease H1-like isoform 1 [Bombus terrestris] gi|340711177|ref|XP_003394156.1| PREDICTED: ribonuclease H1-like isoform 2 [Bombus terrestris] Back     alignment and taxonomy information
>gi|45552509|ref|NP_995777.1| ribonuclease H1, isoform B [Drosophila melanogaster] gi|45445652|gb|AAS64899.1| ribonuclease H1, isoform B [Drosophila melanogaster] Back     alignment and taxonomy information
>gi|2677845|gb|AAC47810.1| ribonuclease H1 [Drosophila melanogaster] Back     alignment and taxonomy information

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST ?

Original result of BLAST against Gene Ontology (AMIGO)

ID ? Alignment graph ? Length ? Definition ? Q cover ? H cover ? Identity ? E-value ?
Query151
FB|FBgn0023171333 rnh1 "ribonuclease H1" [Drosop 0.980 0.444 0.450 1.1e-32
UNIPROTKB|I3LTQ9287 RNASEH1 "Uncharacterized prote 0.940 0.494 0.468 4.2e-31
ZFIN|ZDB-GENE-040718-407276 rnaseh1 "ribonuclease H1" [Dan 0.940 0.514 0.454 1.4e-30
RGD|1309012285 Rnaseh1 "ribonuclease H1" [Rat 0.940 0.498 0.447 1.8e-30
UNIPROTKB|F1NN23293 RNASEH1 "Uncharacterized prote 0.933 0.481 0.436 2.3e-30
MGI|MGI:1335073285 Rnaseh1 "ribonuclease H1" [Mus 0.940 0.498 0.440 2.3e-30
UNIPROTKB|F1N2X2280 RNASEH1 "Uncharacterized prote 0.940 0.507 0.440 7.9e-30
UNIPROTKB|J9NUL8285 RNASEH1 "Uncharacterized prote 0.940 0.498 0.440 2.7e-29
UNIPROTKB|O60930286 RNASEH1 "Ribonuclease H1" [Hom 0.940 0.496 0.433 5.6e-29
UNIPROTKB|E2R8B0288 RNASEH1 "Uncharacterized prote 0.940 0.493 0.438 6.4e-28
FB|FBgn0023171 rnh1 "ribonuclease H1" [Drosophila melanogaster (taxid:7227)] Back     alignment and assigned GO terms
 Score = 357 (130.7 bits), Expect = 1.1e-32, P = 1.1e-32
 Identities = 68/151 (45%), Positives = 97/151 (64%)

Query:     1 MDPDNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHA 60
             +D + +V+V+TDG+C  NG+ GA AGYGVYFG+N+ LN A  V GRVTNN  EIQ AIHA
Sbjct:   176 IDAEGYVIVYTDGSCIGNGRTGACAGYGVYFGKNHQLNAAKPVEGRVTNNVGEIQAAIHA 235

Query:    61 LKQAKSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQEL--LHQI 118
             +K A    I ++CI +DSQF+I  +  W+  W+   W+  + +PV+N  + +EL  L Q 
Sbjct:   236 IKTALDLGIQKLCISTDSQFLINSITLWVAGWKKRDWKLKNNQPVKNVVDFKELDKLLQD 295

Query:   119 GQMESVKWEFVPGHGNSHGNMKADEMARDAA 149
               + +VKW +V  H    GN  AD++AR  +
Sbjct:   296 NNI-TVKWNYVEAHKGIEGNEMADKLARQGS 325
GO:0004523 "ribonuclease H activity" evidence=ISS;IDA
GO:0000287 "magnesium ion binding" evidence=IEA
GO:0003676 "nucleic acid binding" evidence=IEA
UNIPROTKB|I3LTQ9 RNASEH1 "Uncharacterized protein" [Sus scrofa (taxid:9823)] Back     alignment and assigned GO terms
ZFIN|ZDB-GENE-040718-407 rnaseh1 "ribonuclease H1" [Danio rerio (taxid:7955)] Back     alignment and assigned GO terms
RGD|1309012 Rnaseh1 "ribonuclease H1" [Rattus norvegicus (taxid:10116)] Back     alignment and assigned GO terms
UNIPROTKB|F1NN23 RNASEH1 "Uncharacterized protein" [Gallus gallus (taxid:9031)] Back     alignment and assigned GO terms
MGI|MGI:1335073 Rnaseh1 "ribonuclease H1" [Mus musculus (taxid:10090)] Back     alignment and assigned GO terms
UNIPROTKB|F1N2X2 RNASEH1 "Uncharacterized protein" [Bos taurus (taxid:9913)] Back     alignment and assigned GO terms
UNIPROTKB|J9NUL8 RNASEH1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms
UNIPROTKB|O60930 RNASEH1 "Ribonuclease H1" [Homo sapiens (taxid:9606)] Back     alignment and assigned GO terms
UNIPROTKB|E2R8B0 RNASEH1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)] Back     alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries ?

Original result of BLAST against SWISS-PROT

ID ?Name ?Annotated EC number ?Identity ?Query coverage ?Hit coverage ?RBH(Q2H) ?RBH(H2Q) ?
B7LHC0RNH_ECO553, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
Q325T2RNH_SHIBS3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B0TZ91RNH_FRAP23, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
A4IYE6RNH_FRATW3, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
B1LHM3RNH_ECOSM3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
C4ZRV1RNH_ECOBW3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
Q0TLC3RNH_ECOL53, ., 1, ., 2, 6, ., 40.37060.90720.8838yesN/A
Q02KV8RNH_PSEAB3, ., 1, ., 2, 6, ., 40.33790.92050.9391yesN/A
B7N876RNH_ECOLU3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
Q3Z5E9RNH_SHISS3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
A7ZHV1RNH_ECO243, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B7UJB0RNH_ECO273, ., 1, ., 2, 6, ., 40.37060.90720.8838yesN/A
Q5QZL3RNH_IDILO3, ., 1, ., 2, 6, ., 40.34210.92710.8917yesN/A
B7M213RNH_ECO8A3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B1XD78RNH_ECODH3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B2SFV9RNH_FRATM3, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
Q7WCJ8RNH_BORBR3, ., 1, ., 2, 6, ., 40.37140.88740.8645yesN/A
B6JJ39RNH_OLICO3, ., 1, ., 2, 6, ., 40.38190.88740.8993yesN/A
B7VB62RNH_PSEA83, ., 1, ., 2, 6, ., 40.33790.92050.9391yesN/A
B1IPU4RNH_ECOLC3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
Q1QH30RNH_NITHX3, ., 1, ., 2, 6, ., 40.3750.88740.8874yesN/A
B7MQ23RNH_ECO813, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B7LW89RNH_ESCF33, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
Q14IN1RNH_FRAT13, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
A7NBM9RNH_FRATF3, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
B2U352RNH_SHIB33, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B5Z0I8RNH_ECO5E3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
C6DC65RNH_PECCP3, ., 1, ., 2, 6, ., 40.3750.91390.8961yesN/A
Q7VRX8RNH_BORPE3, ., 1, ., 2, 6, ., 40.37140.88740.8645yesN/A
Q9I2S9RNH_PSEAE3, ., 1, ., 2, 6, ., 40.33790.92050.9391yesN/A
B6HZS7RNH_ECOSE3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
A0Q6W0RNH_FRATN3, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
Q0BMB7RNH_FRATO3, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
Q2A3X6RNH_FRATH3, ., 1, ., 2, 6, ., 40.36800.91390.9078yesN/A
P0A7Y5RNH_ECOL63, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
A7ZWF6RNH_ECOHS3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
Q2KV56RNH_BORA13, ., 1, ., 2, 6, ., 40.37930.89400.8823yesN/A
A6V705RNH_PSEA73, ., 1, ., 2, 6, ., 40.33790.92050.9391yesN/A
B7MBJ0RNH_ECO453, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
Q32JP9RNH_SHIDS3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B7NKW4RNH_ECO7I3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A
B8HPS9RNH_CYAP43, ., 1, ., 2, 6, ., 40.38460.89400.8598yesN/A
P0A7Y7RNH_SHIFL3, ., 1, ., 2, 6, ., 40.36800.91390.8903yesN/A

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
3rd Layer3.1.260.766
3rd Layer3.1.26.40.824

Prediction of Functionally Associated Proteins

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST ?

Original result of RPS-BLAST against CDD database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query151
cd09280150 cd09280, RNase_HI_eukaryote_like, Eukaryotic RNase 4e-61
COG0328154 COG0328, RnhA, Ribonuclease HI [DNA replication, r 7e-38
cd09278139 cd09278, RNase_HI_prokaryote_like, RNase HI family 6e-34
PRK00203150 PRK00203, rnhA, ribonuclease H; Reviewed 6e-27
pfam00075126 pfam00075, RNase_H, RNase H 3e-25
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 2e-22
PRK08719147 PRK08719, PRK08719, ribonuclease H; Reviewed 3e-16
cd09276128 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom 6e-15
cd09279128 cd09279, RNase_HI_archaeal_like, RNAse HI family t 1e-13
PRK06548161 PRK06548, PRK06548, ribonuclease H; Provisional 2e-12
cd09273135 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase 3e-10
PRK07238 372 PRK07238, PRK07238, bifunctional RNase H/acid phos 1e-05
cd09277133 cd09277, RNase_HI_bacteria_HBD, Bacterial RNase HI 3e-05
pfam1345688 pfam13456, RVT_3, Reverse transcriptase-like 3e-05
PRK13907128 PRK13907, rnhA, ribonuclease H; Provisional 0.002
>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 Back     alignment and domain information 
 Score =  185 bits (471), Expect = 4e-61
 Identities = 65/149 (43%), Positives = 96/149 (64%), Gaps = 7/149 (4%)

Query: 8   VVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRV-TNNNAEIQGAIHALKQAKS 66
           VV+TDGAC  NG+ GA AGYGVYFG  +P NV+ ++ G   TN  AE++  IHAL+  K 
Sbjct: 1   VVYTDGACRGNGRSGARAGYGVYFGPGHPRNVSERLPGPPQTNQRAELRAVIHALRLIKE 60

Query: 67  ANID--RVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQME-- 122
                 ++ I +DS++++  V EW+PKW+ NGW+ + GKPV NK+ ++EL   + ++E  
Sbjct: 61  VGEGLTKLVIATDSEYVVNGVTEWIPKWKKNGWKTSKGKPVANKDLIKELDKLLEELEER 120

Query: 123 --SVKWEFVPGHGNSHGNMKADEMARDAA 149
              VK+  VPGH   +GN +AD +A+  A
Sbjct: 121 GIRVKFWHVPGHSGIYGNEEADRLAKKGA 149

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
>gnl|CDD|223405 COG0328, RnhA, Ribonuclease HI [DNA replication, recombination, and repair] Back     alignment and domain information
>gnl|CDD|187702 cd09278, RNase_HI_prokaryote_like, RNase HI family found mainly in prokaryotes Back     alignment and domain information
>gnl|CDD|178927 PRK00203, rnhA, ribonuclease H; Reviewed Back     alignment and domain information
>gnl|CDD|215695 pfam00075, RNase_H, RNase H Back     alignment and domain information
>gnl|CDD|187690 cd06222, RNase_H, RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner Back     alignment and domain information
>gnl|CDD|236334 PRK08719, PRK08719, ribonuclease H; Reviewed Back     alignment and domain information
>gnl|CDD|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse transcriptases Back     alignment and domain information
>gnl|CDD|187703 cd09279, RNase_HI_archaeal_like, RNAse HI family that includes Archaeal RNase HI Back     alignment and domain information
>gnl|CDD|75628 PRK06548, PRK06548, ribonuclease H; Provisional Back     alignment and domain information
>gnl|CDD|187697 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase HI in long-term repeat retroelements Back     alignment and domain information
>gnl|CDD|180903 PRK07238, PRK07238, bifunctional RNase H/acid phosphatase; Provisional Back     alignment and domain information
>gnl|CDD|187701 cd09277, RNase_HI_bacteria_HBD, Bacterial RNase HI containing a hybrid binding domain (HBD) at the N-terminus Back     alignment and domain information
>gnl|CDD|205634 pfam13456, RVT_3, Reverse transcriptase-like Back     alignment and domain information
>gnl|CDD|139967 PRK13907, rnhA, ribonuclease H; Provisional Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 151
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 100.0
PRK06548161 ribonuclease H; Provisional 100.0
PRK08719147 ribonuclease H; Reviewed 100.0
PRK00203150 rnhA ribonuclease H; Reviewed 100.0
KOG3752|consensus371 100.0
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 99.96
PRK13907128 rnhA ribonuclease H; Provisional 99.96
PRK07708219 hypothetical protein; Validated 99.93
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 99.92
PRK07238 372 bifunctional RNase H/acid phosphatase; Provisional 99.9
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 99.74
KOG1812|consensus 384 93.73
PF05380159 Peptidase_A17: Pao retrotransposon peptidase ; Int 92.62
.; GO: 0004523 ribonuclease H activity" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF00336">PF00336245 DNA_pol_viral_C: DNA polymerase (viral) C-terminal 82.16
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] Back     alignment and domain information 
Probab=100.00  E-value=3.1e-42  Score=228.33  Aligned_cols=141  Identities=37%  Similarity=0.651  Sum_probs=127.8

Q ss_pred             CcEEEEEccCCCCCCCCCCceEEEEEEcCCC-ccccccccCCcchHHHHHHHHHHHHHHHcHhcCCceEEEEcCcHHHHH
Q psy3458           5 NHVVVFTDGACPRNGKVGASAGYGVYFGENN-PLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIK   83 (151)
Q Consensus         5 ~~~~iytDGs~~~~~~~~~~ag~gv~~~~~~-~~~~~~~~~~~~t~~~aEl~Al~~aL~~~~~~~~~~v~i~tDs~~vi~   83 (151)
                      ..+.|||||||.++|++   +|||+++..+. ....+.... .+|||+|||+|+++||+.+++.+++.|.|+|||++|++
T Consensus         2 ~~v~if~DGa~~gNpG~---gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~   77 (154)
T COG0328           2 KKVEIFTDGACLGNPGP---GGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVE   77 (154)
T ss_pred             CceEEEecCccCCCCCC---ceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHH
Confidence            46899999999999987   48888776443 334555554 89999999999999999999988999999999999999


Q ss_pred             HHHhhHHHHHHcCccccCCCccCCHHHHHHHHHHhcCCC-ceEEEEecCCCCCcchHHHHHHHHhhhc
Q psy3458          84 CVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQME-SVKWEFVPGHGNSHGNMKADEMARDAAG  150 (151)
Q Consensus        84 ~l~~~~~~w~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~-~v~~~~v~~h~~~~~N~~AD~lA~~a~~  150 (151)
                      +|+.|+.+|++++|+++.++|++|.+||+++.+++. ++ .|.++|||+|+|+++|++||+||+.|++
T Consensus        78 ~i~~w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~-~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~  144 (154)
T COG0328          78 GITRWIVKWKKNGWKTADKKPVKNKDLWEELDELLK-RHELVFWEWVKGHAGHPENERADQLAREAAR  144 (154)
T ss_pred             HHHHHHhhccccCccccccCccccHHHHHHHHHHHh-hCCeEEEEEeeCCCCChHHHHHHHHHHHHHH
Confidence            999999999999999999999999999999999999 66 7999999999999999999999999864

>PRK06548 ribonuclease H; Provisional Back     alignment and domain information
>PRK08719 ribonuclease H; Reviewed Back     alignment and domain information
>PRK00203 rnhA ribonuclease H; Reviewed Back     alignment and domain information
>KOG3752|consensus Back     alignment and domain information
>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 Back     alignment and domain information
>PRK13907 rnhA ribonuclease H; Provisional Back     alignment and domain information
>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>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 Back     alignment and domain information
>PRK07238 bifunctional RNase H/acid phosphatase; Provisional Back     alignment and domain information
>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B Back     alignment and domain information
>KOG1812|consensus Back     alignment and domain information
>PF05380 Peptidase_A17: Pao retrotransposon peptidase ; InterPro: IPR008042 This signature identifies members of the Pao retrotransposon family Back     alignment and domain information
>PF00336 DNA_pol_viral_C: DNA polymerase (viral) C-terminal domain; InterPro: IPR001462 This domain is at the C terminus of hepatitis B-type viruses P proteins and represents a functional domain that controls the RNase H activities of the protein Back     alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST ?

Original result of BLAST against Protein Data Bank

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query151
2qkb_A154 Human Rnase H Catalytic Domain Mutant D210n In Comp 5e-29
2qk9_A154 Human Rnase H Catalytic Domain Mutant D210n In Comp 8e-29
1rbt_A155 Structural Study Of Mutants Of Escherichia Coli Rib 2e-18
2yv0_X155 Structural And Thermodynamic Analyses Of E. Coli Ri 2e-18
1rbs_A155 Structural Study Of Mutants Of Escherichia Coli Rib 3e-18
2z1g_A155 Crystal Structure Of E.Coli Rnase Hi Surface Charge 5e-18
1gob_A155 Cooperative Stabilization Of Escherichia Coli Ribon 7e-18
1lav_A155 Stabilization Of Escherichia Coli Ribonuclease Hi B 8e-18
1rbv_A155 Structural Study Of Mutants Of Escherichia Coli Rib 8e-18
1rbr_A155 Structural Study Of Mutants Of Escherichia Coli Rib 1e-17
1law_A155 Stabilization Of Escherichia Coli Ribonuclease Hi B 1e-17
1rbu_A155 Structural Study Of Mutants Of Escherichia Coli Rib 1e-17
1rnh_A155 Structure Of Ribonuclease H Phased At 2 Angstroms R 1e-17
1rch_A155 Solution Nmr Structure Of Ribonuclease Hi From Esch 1e-17
2z1i_A155 Crystal Structure Of E.Coli Rnase Hi Surface Charge 2e-17
2z1j_A155 Crystal Structure Of E.Coli Rnase Hi Surface Charge 2e-17
1g15_A155 Co-Crystal Of E. Coli Rnase Hi With Two Mn2+ Ions B 2e-17
2z1h_A155 Crystal Structure Of E.Coli Rnase Hi Surface Charge 3e-17
1f21_A155 Divalent Metal Cofactor Binding In The Kinetic Fold 3e-17
1rdb_A155 Crystal Structures Of Ribonuclease Hi Active Site M 3e-17
3aa4_A155 A52v E.Coli Rnase Hi Length = 155 4e-17
1wsh_A155 Crystal Structure Of E.Coli Rnase Hi Active Site Mu 4e-17
3aa2_A155 A52i E. Coli Rnase Hi Length = 155 4e-17
3aa3_A155 A52l E. Coli Rnase Hi Length = 155 4e-17
1rda_A155 Crystal Structures Of Ribonuclease Hi Active Site M 6e-17
1rdc_A155 Crystal Structures Of Ribonuclease Hi Active Site M 6e-17
1kvc_A155 E. Coli Ribonuclease Hi D134n Mutant Length = 155 6e-17
3aa5_X155 A52f E.Coli Rnase Hi Length = 155 6e-17
1wsf_A155 Co-crystal Structure Of E.coli Rnase Hi Active Site 8e-17
1kvb_A155 E. Coli Ribonuclease Hi D134h Mutant Length = 155 9e-17
1wsj_A155 Crystal Structure Of E.Coli Rnase Hi Active Site Mu 1e-16
1kva_A155 E. Coli Ribonuclease Hi D134a Mutant Length = 155 1e-16
1goc_A156 Cooperative Stabilization Of Escherichia Coli Ribon 1e-16
1jxb_A155 I53a, A Point Mutant Of The Cysteine-Free Variant O 1e-16
1wsi_A155 Crystal Structure Of E.Coli Rnase Hi Active Site Mu 2e-16
1jl1_A155 D10a E. Coli Ribonuclease Hi Length = 155 2e-16
1goa_A156 Cooperative Stabilization Of Escherichia Coli Ribon 2e-16
1jl2_A156 Crystal Structure Of Tceo Rnase H-A Chimera Combini 5e-16
1ril_A166 Crystal Structure Of Ribonuclease H From Thermus Th 3e-14
3h08_A146 Crystal Structure Of The Ribonuclease H1 From Chlor 3e-14
2zqb_A158 Crystal Structure Of A Psychrotrophic Rnasehi Varia 8e-14
2e4l_A158 Thermodynamic And Structural Analysis Of Thermolabi 9e-14
3hyf_A150 Crystal Structure Of Hiv-1 Rnase H P15 With Enginee 8e-13
2rpi_A112 The Nmr Structure Of The Submillisecond Folding Int 5e-09
4e89_A157 Crystal Structure Of Rnaseh From Gammaretrovirus Le 4e-04
3v1o_A180 Crystal Structures Of The Reverse Transcriptase-Ass 5e-04
>pdb|2QKB|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex With 20-Mer RnaDNA HYBRID Length = 154 Back     alignment and structure 
Iteration: 1

 Score =  122 bits (307), Expect = 5e-29,   Method: Compositional matrix adjust.
 Identities = 61/145 (42%), Positives = 90/145 (62%), Gaps = 1/145 (0%)
Query: 5   NHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQA 64
           + VVV+TDG C  NG+    AG GVY+G  +PLNV  ++ GR TN  AEI  A  A++QA
Sbjct: 6   DFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQA 65
Query: 65  KSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESV 124
           K+ NI+++ + ++S F I  +  W+  W+ NGW+ + GK V NKE+    L ++ Q   +
Sbjct: 66  KTQNINKLVLYTNSXFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVA-LERLTQGXDI 124
Query: 125 KWEFVPGHGNSHGNMKADEMARDAA 149
           +W  VPGH    GN +AD +AR+ A
Sbjct: 125 QWXHVPGHSGFIGNEEADRLAREGA 149
>pdb|2QK9|A Chain A, Human Rnase H Catalytic Domain Mutant D210n In Complex With 18-Mer RnaDNA HYBRID Length = 154 Back     alignment and structure
>pdb|1RBT|A Chain A, Structural Study Of Mutants Of Escherichia Coli Ribonuclease Hi With Enhanced Thermostability Length = 155 Back     alignment and structure
>pdb|2YV0|X Chain X, Structural And Thermodynamic Analyses Of E. Coli Ribonuclease Hi Variant With Quintuple Thermostabilizing Mutations Length = 155 Back     alignment and structure
>pdb|1RBS|A Chain A, Structural Study Of Mutants Of Escherichia Coli Ribonuclease Hi With Enhanced Thermostability Length = 155 Back     alignment and structure
>pdb|2Z1G|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged Mutant(Q4rT40EQ72HQ76KQ80ET92KQ105K) Length = 155 Back     alignment and structure
>pdb|1GOB|A Chain A, Cooperative Stabilization Of Escherichia Coli Ribonuclease Hi By Insertion Of Gly-80b And Gly-77-> Ala Substitution Length = 155 Back     alignment and structure
>pdb|1LAV|A Chain A, Stabilization Of Escherichia Coli Ribonuclease Hi By Cavity- Filling Mutations Within A Hydrophobic Core Length = 155 Back     alignment and structure
>pdb|1RBV|A Chain A, Structural Study Of Mutants Of Escherichia Coli Ribonuclease Hi With Enhanced Thermostability Length = 155 Back     alignment and structure
>pdb|1RBR|A Chain A, Structural Study Of Mutants Of Escherichia Coli Ribonuclease Hi With Enhanced Thermostability Length = 155 Back     alignment and structure
>pdb|1LAW|A Chain A, Stabilization Of Escherichia Coli Ribonuclease Hi By Cavity- Filling Mutations Within A Hydrophobic Core Length = 155 Back     alignment and structure
>pdb|1RBU|A Chain A, Structural Study Of Mutants Of Escherichia Coli Ribonuclease Hi With Enhanced Thermostability Length = 155 Back     alignment and structure
>pdb|1RNH|A Chain A, Structure Of Ribonuclease H Phased At 2 Angstroms Resolution By Mad Analysis Of The Selenomethionyl Protein Length = 155 Back     alignment and structure
>pdb|1RCH|A Chain A, Solution Nmr Structure Of Ribonuclease Hi From Escherichia Coli, 8 Structures Length = 155 Back     alignment and structure
>pdb|2Z1I|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged Mutant(Q4rT40EQ72HQ76KQ80ET92KQ105KQ113RQ115K) Length = 155 Back     alignment and structure
>pdb|2Z1J|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged Mutant(Q4rT40EQ72HQ76KQ80ET92KQ105KQ113RQ115KN143K T145K) Length = 155 Back     alignment and structure
>pdb|1G15|A Chain A, Co-Crystal Of E. Coli Rnase Hi With Two Mn2+ Ions Bound In The The Active Site Length = 155 Back     alignment and structure
>pdb|2Z1H|A Chain A, Crystal Structure Of E.Coli Rnase Hi Surface Charged Mutant(Q4rT92KQ105KQ113RQ115KN143KT145K) Length = 155 Back     alignment and structure
>pdb|1F21|A Chain A, Divalent Metal Cofactor Binding In The Kinetic Folding Trajectory Of E. Coli Ribonuclease Hi Length = 155 Back     alignment and structure
>pdb|1RDB|A Chain A, Crystal Structures Of Ribonuclease Hi Active Site Mutants From Escherichia Coli Length = 155 Back     alignment and structure
>pdb|3AA4|A Chain A, A52v E.Coli Rnase Hi Length = 155 Back     alignment and structure
>pdb|1WSH|A Chain A, Crystal Structure Of E.Coli Rnase Hi Active Site Mutant (E48aK87A) Length = 155 Back     alignment and structure
>pdb|3AA2|A Chain A, A52i E. Coli Rnase Hi Length = 155 Back     alignment and structure
>pdb|3AA3|A Chain A, A52l E. Coli Rnase Hi Length = 155 Back     alignment and structure
>pdb|1RDA|A Chain A, Crystal Structures Of Ribonuclease Hi Active Site Mutants From Escherichia Coli Length = 155 Back     alignment and structure
>pdb|1RDC|A Chain A, Crystal Structures Of Ribonuclease Hi Active Site Mutants From Escherichia Coli Length = 155 Back     alignment and structure
>pdb|1KVC|A Chain A, E. Coli Ribonuclease Hi D134n Mutant Length = 155 Back     alignment and structure
>pdb|3AA5|X Chain X, A52f E.Coli Rnase Hi Length = 155 Back     alignment and structure
>pdb|1WSF|A Chain A, Co-crystal Structure Of E.coli Rnase Hi Active Site Mutant (d134a*) With Mn2+ Length = 155 Back     alignment and structure
>pdb|1KVB|A Chain A, E. Coli Ribonuclease Hi D134h Mutant Length = 155 Back     alignment and structure
>pdb|1WSJ|A Chain A, Crystal Structure Of E.Coli Rnase Hi Active Site Mutant (K87aH124A) Length = 155 Back     alignment and structure
>pdb|1KVA|A Chain A, E. Coli Ribonuclease Hi D134a Mutant Length = 155 Back     alignment and structure
>pdb|1GOC|A Chain A, Cooperative Stabilization Of Escherichia Coli Ribonuclease Hi By Insertion Of Gly-80b And Gly-77-> Ala Substitution Length = 156 Back     alignment and structure
>pdb|1JXB|A Chain A, I53a, A Point Mutant Of The Cysteine-Free Variant Of E. Coli Rnase Hi Length = 155 Back     alignment and structure
>pdb|1WSI|A Chain A, Crystal Structure Of E.Coli Rnase Hi Active Site Mutant (E48aK87AD134N) Length = 155 Back     alignment and structure
>pdb|1JL1|A Chain A, D10a E. Coli Ribonuclease Hi Length = 155 Back     alignment and structure
>pdb|1GOA|A Chain A, Cooperative Stabilization Of Escherichia Coli Ribonuclease Hi By Insertion Of Gly-80b And Gly-77-> Ala Substitution Length = 156 Back     alignment and structure
>pdb|1JL2|A Chain A, Crystal Structure Of Tceo Rnase H-A Chimera Combining The Folding Core From T. Thermophilus Rnase H And The Remaining Region Of E. Coli Rnase H Length = 156 Back     alignment and structure
>pdb|1RIL|A Chain A, Crystal Structure Of Ribonuclease H From Thermus Thermophilus Hb8 Refined At 2.8 Angstroms Resolution Length = 166 Back     alignment and structure
>pdb|3H08|A Chain A, Crystal Structure Of The Ribonuclease H1 From Chlorobium Tepidum Length = 146 Back     alignment and structure
>pdb|2ZQB|A Chain A, Crystal Structure Of A Psychrotrophic Rnasehi Variant With Sextuple Thermostabilizing Mutations Length = 158 Back     alignment and structure
>pdb|2E4L|A Chain A, Thermodynamic And Structural Analysis Of Thermolabile Rnase Hi From Shewanella Oneidensis Mr-1 Length = 158 Back     alignment and structure
>pdb|3HYF|A Chain A, Crystal Structure Of Hiv-1 Rnase H P15 With Engineered E. Coli Loop And Active Site Inhibitor Length = 150 Back     alignment and structure
>pdb|2RPI|A Chain A, The Nmr Structure Of The Submillisecond Folding Intermediate Of The Thermus Thermophilus Ribonuclease H Length = 112 Back     alignment and structure
>pdb|4E89|A Chain A, Crystal Structure Of Rnaseh From Gammaretrovirus Length = 157 Back     alignment and structure
>pdb|3V1O|A Chain A, Crystal Structures Of The Reverse Transcriptase-Associated Ribonuclease H Domain Of Xenotropic Murine Leukemia-Virus Related Virus Length = 180 Back     alignment and structure

Structure Templates Detected by RPS-BLAST ?

Original result of RPS-BLAST against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query151
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 6e-54
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 2e-35
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 7e-31
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 5e-30
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 2e-29
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 2e-28
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 6e-27
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 3e-25
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 1e-18
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 1e-18
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 2e-15
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 3e-13
1mu2_A555 HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym 2e-06
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 1e-05
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A* Length = 154 Back     alignment and structure
 Score =  166 bits (422), Expect = 6e-54
 Identities = 61/145 (42%), Positives = 89/145 (61%), Gaps = 1/145 (0%)

Query: 5   NHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQA 64
           + VVV+TDG C  NG+    AG GVY+G  +PLNV  ++ GR TN  AEI  A  A++QA
Sbjct: 6   DFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQA 65

Query: 65  KSANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESV 124
           K+ NI+++ + ++S F I  +  W+  W+ NGW+ + GK V NKE+   L      M+ +
Sbjct: 66  KTQNINKLVLYTNSMFTINGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQGMD-I 124

Query: 125 KWEFVPGHGNSHGNMKADEMARDAA 149
           +W  VPGH    GN +AD +AR+ A
Sbjct: 125 QWMHVPGHSGFIGNEEADRLAREGA 149
>3qio_A GAG-POL polyprotein; RNAse H, inhibitor, nuclease, transferase, hydrolase- complex; HET: QID; 1.40A {Hiv-1 M} PDB: 3qin_A* 3hyf_A* 1o1w_A 3lp3_A* 1hrh_A 3k2p_A* 1rdh_A Length = 150 Back     alignment and structure
>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 Length = 165 Back     alignment and structure
>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 Back     alignment and structure
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A Length = 158 Back     alignment and structure
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A Length = 166 Back     alignment and structure
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} Length = 146 Back     alignment and structure
>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 Back     alignment and structure
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis} Length = 141 Back     alignment and structure
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} Length = 140 Back     alignment and structure
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A Length = 149 Back     alignment and structure
>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* Length = 142 Back     alignment and structure
>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 Length = 555 Back     alignment and structure
>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* ... Length = 557 Back     alignment and structure

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query151
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 100.0
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 100.0
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 100.0
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 100.0
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 100.0
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 100.0
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 100.0
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 100.0
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 99.97
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 99.97
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 99.96
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 99.96
1mu2_A555 HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym 99.94
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 99.93
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 99.93
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 99.92
2zd1_B428 P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleosid 89.9
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 89.22
>2qkb_A Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hybrid; 2.40A {Homo sapiens} PDB: 2qk9_A 2qkk_A* Back     alignment and structure
Probab=100.00  E-value=5.1e-44  Score=240.76  Aligned_cols=147  Identities=41%  Similarity=0.754  Sum_probs=136.2

Q ss_pred             CCCcEEEEEccCCCCCCCCCCceEEEEEEcCCCccccccccCCcchHHHHHHHHHHHHHHHcHhcCCceEEEEcCcHHHH
Q psy3458           3 PDNHVVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMI   82 (151)
Q Consensus         3 ~~~~~~iytDGs~~~~~~~~~~ag~gv~~~~~~~~~~~~~~~~~~t~~~aEl~Al~~aL~~~~~~~~~~v~i~tDs~~vi   82 (151)
                      +++.++|||||||.++++.++.+|+|+++.+++....+..+.+.+||++|||+|++.||+.+.+.+.++|+|+|||++|+
T Consensus         4 ~~~~~~iytDGs~~~n~~~~~~aG~Gvv~~~~~~~~~~~~l~~~~tn~~aEl~A~~~aL~~~~~~~~~~v~i~tDS~~vi   83 (154)
T 2qkb_A            4 MGDFVVVYTDGCCSSNGRRRPRAGIGVYWGPGHPLNVGIRLPGRQTNQRAEIHAACKAIEQAKTQNINKLVLYTNSMFTI   83 (154)
T ss_dssp             ETTEEEEEEEEEEETTTSSSCEEEEEEECSTTCTTCEEEECCSSCCHHHHHHHHHHHHHHHHHHTTCCEEEEEESCHHHH
T ss_pred             CCCeEEEEEccCcCCCCCCCCcEEEEEEEECCCceeEEeecCCCCchHHHHHHHHHHHHHHHHhCCCceEEEEECcHHHH
Confidence            35789999999999888776678999999887666667777778999999999999999999998889999999999999


Q ss_pred             HHHHhhHHHHHHcCccccCCCccCCHHHHHHHHHHhcCCCceEEEEecCCCCCcchHHHHHHHHhhhc
Q psy3458          83 KCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKADEMARDAAG  150 (151)
Q Consensus        83 ~~l~~~~~~w~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~v~~~~v~~h~~~~~N~~AD~lA~~a~~  150 (151)
                      ++|++|+.+|++++|+++.+.+++|.++|+++..++. .++|+|.|||+|+|+++|+.||+||++|++
T Consensus        84 ~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~-~~~v~~~~V~~H~g~~~N~~AD~LA~~a~~  150 (154)
T 2qkb_A           84 NGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ-GMDIQWMHVPGHSGFIGNEEADRLAREGAK  150 (154)
T ss_dssp             HHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT-TCEEEEEECCTTSSCHHHHHHHHHHHHHHT
T ss_pred             hhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc-CCceEEEEccCCCCCHhHHHHHHHHHHHHH
Confidence            9999999999999999999999999999999999998 889999999999999999999999999975
>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 Back     alignment and structure
>3h08_A RNH (ribonuclease H); RNAse H, 3D-structure, endonuclease, hydrolase, magnesium, metal-binding; 1.60A {Chlorobaculum tepidum} Back     alignment and structure
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} Back     alignment and structure
>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 ... Back     alignment and structure
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_A Back     alignment and structure
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A Back     alignment and structure
>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 Back     alignment and structure
>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 Back     alignment and structure
>3hst_B Protein RV2228C/MT2287; ribonuclease H1, RV2228C N-terminal domain, fusion protein, maltose binding protein, HYDR; HET: MLR TAR; 2.25A {Mycobacterium tuberculosis} Back     alignment and structure
>3u3g_D Ribonuclease H, RNAse H1; hydrolase, cleave the RNA strand of RNA/DNA hybrid; 1.40A {Uncultured organism} Back     alignment and structure
>2ehg_A Ribonuclease HI; RNAse HI, hyperthermophilic archaeon, D stranded RNA-dependent RNAse, hydrolase; 1.60A {Sulfolobus tokodaii} PDB: 3aly_A Back     alignment and structure
>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 Back     alignment and structure
>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* ... Back     alignment and structure
>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* Back     alignment and structure
>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 Back     alignment and structure
>2zd1_B P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleoside inhibitor, AIDS, HIV, rilpivirine, diarylpyrimidine, DAPY, DNA recombination; HET: T27; 1.80A {Human immunodeficiency virus 1} SCOP: e.8.1.2 PDB: 2ykm_B* 2ykn_B* 2ze2_B* 3bgr_B* 3ig1_B* 3irx_B* 3is9_B* 3qo9_B* 3v4i_B* 3v6d_B* 3v81_B* 3klf_B* 3kk1_B* 3kjv_B* 3kk2_B* 3kk3_B* 2be2_B* 1n5y_B* 1bqm_B* 1n6q_B* ... Back     alignment and structure
>1rw3_A POL polyprotein; RNA and DNA dependent DNA polymerase, reverse transcriptase, transferase, replication; 3.00A {Moloney murine leukemia virus} SCOP: e.8.1.2 Back     alignment and structure

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST ?

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

ID ?Alignment Graph ?Length ? Definition ? E-value ?
Query 151
d1s1ta1110 c.55.3.1 (A:430-539) HIV RNase H (Domain of revers 2e-20
d1rila_147 c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermoph 5e-18
d1jl1a_152 c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli 3e-17
d1zbfa1132 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Ba 3e-15
d1mu2a1126 c.55.3.1 (A:430-555) HIV RNase H (Domain of revers 5e-14
>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 1 [TaxId: 11676]} Length = 110 Back     information, alignment and structure

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]

 Score = 78.5 bits (193), Expect = 2e-20
 Identities = 29/126 (23%), Positives = 46/126 (36%), Gaps = 24/126 (19%)

Query: 7   VVVFTDGACPRNGKVGASAGYGVYFGENNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKS 66
              + DGA  R  K+G  AGY    G               TN   E+Q    AL+ +  
Sbjct: 9   ETFYVDGAANRETKLGK-AGYVTNRGRQKV-----VTLTDTTNQKTELQAIYLALQDSG- 61

Query: 67  ANIDRVCIKSDSQFMIKCVQEWMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKW 126
                V I +DSQ+ +  +Q    + +S                  +++ Q+ + E V  
Sbjct: 62  ---LEVNIVTDSQYALGIIQAQPDQSESELV--------------NQIIEQLIKKEKVYL 104

Query: 127 EFVPGH 132
            +VP H
Sbjct: 105 AWVPAH 110
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Length = 147 Back     information, alignment and structure
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} Length = 152 Back     information, alignment and structure
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} Length = 132 Back     information, alignment and structure
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} Length = 126 Back     information, alignment and structure

Homologous Domains Detected by HHsearch ?

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

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query151
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 100.0
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 100.0
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 99.98
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 99.94
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 99.93
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
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=100.00  E-value=3.7e-38  Score=209.04  Aligned_cols=139  Identities=34%  Similarity=0.591  Sum_probs=120.0

Q ss_pred             CcEEEEEccCCCCCCCCCCceEEEEEEcC-CCccccccccCCcchHHHHHHHHHHHHHHHcHhcCCceEEEEcCcHHHHH
Q psy3458           5 NHVVVFTDGACPRNGKVGASAGYGVYFGE-NNPLNVAGKVTGRVTNNNAEIQGAIHALKQAKSANIDRVCIKSDSQFMIK   83 (151)
Q Consensus         5 ~~~~iytDGs~~~~~~~~~~ag~gv~~~~-~~~~~~~~~~~~~~t~~~aEl~Al~~aL~~~~~~~~~~v~i~tDs~~vi~   83 (151)
                      ..++|||||||.+|++.   +|||+++.. +.....+... +.+||++|||.|+++||+.+...  ..+.|+|||+++++
T Consensus         2 ~~i~iytDGs~~~N~g~---~G~g~vi~~~~~~~~~~~~~-~~~Tnn~aEl~Ai~~AL~~~~~~--~~i~i~tds~~~~~   75 (147)
T d1rila_           2 KRVALFTDGACLGNPGP---GGWAALLRFHAHEKLLSGGE-ACTTNNRMELKAAIEGLKALKEP--CEVDLYTDSHYLKK   75 (147)
T ss_dssp             CCCCEEEEEEESSTTEE---EEEEEEECBTTBCCEECCEE-EEECHHHHHHHHHHHHHHSCCSC--CEEEEECCCHHHHH
T ss_pred             CEEEEEEccCCCCCCCc---cEEEEEEEECCcceEEeccc-ccccHHHHHHHHHHHHhhhccCC--ceEEEecchhhhhc
Confidence            46899999999988765   688887643 3222233332 37899999999999999987653  68999999999999


Q ss_pred             HHHh-hHHHHHHcCccccCCCccCCHHHHHHHHHHhcCCCceEEEEecCCCCCcchHHHHHHHHhhhc
Q psy3458          84 CVQE-WMPKWQSNGWRKADGKPVQNKEELQELLHQIGQMESVKWEFVPGHGNSHGNMKADEMARDAAG  150 (151)
Q Consensus        84 ~l~~-~~~~w~~~~~~~~~~~~~~~~~l~~~i~~~~~~~~~v~~~~v~~h~~~~~N~~AD~lA~~a~~  150 (151)
                      .++. +...|+.++|.+..+++++|.+||+++..++. .+.|+|+|||+|+|+++|+.||+||++|++
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~~~v~n~dL~~~l~~~~~-~~~v~~~wVkgHsg~~gNe~AD~LAk~aa~  142 (147)
T d1rila_          76 AFTEGWLEGWRKRGWRTAEGKPVKNRDLWEALLLAMA-PHRVRFHFVKGHTGHPENERVDREARRQAQ  142 (147)
T ss_dssp             HHHSSHHHHHHHTTSBCTTSSBCTTHHHHHHHHHHHT-TSEEECCCCCGGGSCTHHHHHHHHHHHHHT
T ss_pred             cccccchhhhhhccccccccccchhHHHHHHHHHHhh-hcccceEEccCCCCCcchHHHHHHHHHHHH
Confidence            9998 78899999999999999999999999999998 889999999999999999999999999975
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure
>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} Back     information, alignment and structure
>d1s1ta1 c.55.3.1 (A:430-539) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 1 [TaxId: 11676]} Back     information, alignment and structure