Psyllid ID: psy4044

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-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460
MGHPVFRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGINPISTSYDPHGENQP
ccccHHHHHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHccEEEEEEccccccccEEEEEccccccccccHHcccccccccccccccccccccccEEEEEEcccccccccccccccccEEEEEccccEEEcccccccccHHHHHHHHHHHHHHHHHHcccEEEEEEccEEEEcccHHHHHHHHHHHHHHHHHcccEEEEcccEEccccEEEEEcEEccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccccEEEEccccccccEEEccccccccccHHHHHccHHHHHHHHHHHHHHHHcccccccEEEEEEccHHHHHHHHHccccccHHHHHHHHHHHHHHHHccccEEEEEEcccccccccccccccccccccccHHHHHHHHHHHccccccEEcccccccccccccccccccccccccccccccccccc
ccccccHccccEEEccccEEEEEccccccHHHHHHHHHccccccEEEEEEEccccEEEEEEcccEEccEEEEEccccccEEEEcEEEccccccccccHHHHHHHHcccEEEEEEEcccccEEEEEcccccccEEEEEccccEEEEEEcccccccHHHHHHHHHHHHHHHHccccEEEEEEccEEEEEccHHHHHHHHHHHHHHHHHcccEEcccHcHHccHHEHHHEcEEEcccccccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccEEEEEcccccccHHEEEcccccccccHHHcccccHHHHHHHHHHHHHHHHHHHcccEEEEEEccHHHHHHHccccccHHHHHHHHHHHHHHHHccccccEEEEEccccHcHHHHHHHcccccccccccHHHHHHHHHHHccccEEEEEccccEEEEEEcccEEcccccccccccccccccccc
MGHPVFRQILKAISLKRAIGLLEKREIWDVSTLISWisdhppnqdsfFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLinhfrvpdflqrgdFLVKIDlsqayfhvpirpshqRFLSVVYrdtlycmtclpfglasaPQVFAKLTNWIANYLRNLGMRVIVYLDdlllgnqdsvLLRSQARAAVATLQSLRWsvnlersvlwpvqtcqylgimwnptldskslplekQSTIQRYLLTLTQIQWWSVAlhrsspifpqapqvfvstdasnsgwgaivdnhslggvwsdhQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIhkeggtksFKLLREVEALFDLAVRHNITLMARYipgkfntwadslsrqkelpdwhllpeVTQHIFaqwgvpeidlfatanSAAFlvqggplkfpdginpistsydphgenqp
MGHPVFRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYfhvpirpshqRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQslrwsvnlersVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIhkeggtksfKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGINPIstsydphgenqp
MGHPVFRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGINPISTSYDPHGENQP
****VFRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGI***************
******R*ILKAISL*********REIWDV**************************LLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEG*******LREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGINPISTSYDPHG****
MGHPVFRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGINPISTSY********
***PVFRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGINPISTSYD*******
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MGHPVFRQILKAISLKRAIGLLEKREIWDVSTLISWISDHPPNQDSFFEVARHTAILLLLCSGRRVHDLTLLLSSRDGFQDLGDRAFLSLKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLPLEKQSTIQRYLLTLTQIQWWSVALHRSSPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANSAAFLVQGGPLKFPDGINPISTSYDPHGENQP
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 ?
Query460 2.2.26 [Sep-21-2011]
Q66403788 Protein P OS=Duck hepatit N/A N/A 0.317 0.185 0.256 4e-08
Q7LHG5 1498 Transposon Ty3-I Gag-Pol yes N/A 0.641 0.196 0.228 1e-07
P17192788 Protein P OS=Duck hepatit N/A N/A 0.280 0.163 0.261 1e-07
Q99315 1547 Transposon Ty3-G Gag-Pol yes N/A 0.641 0.190 0.228 2e-07
P30028787 Protein P OS=Duck hepatit N/A N/A 0.280 0.163 0.261 2e-07
P17193788 Protein P OS=Duck hepatit N/A N/A 0.280 0.163 0.261 3e-07
P03162836 Protein P OS=Duck hepatit N/A N/A 0.254 0.139 0.262 4e-07
P0C691786 Protein P OS=Duck hepatit N/A N/A 0.254 0.148 0.271 5e-07
P13846788 Protein P OS=Heron hepati N/A N/A 0.254 0.148 0.271 6e-06
Q89703652 Putative enzymatic polypr N/A N/A 0.606 0.427 0.197 6e-06
>sp|Q66403|DPOL_DHBVQ Protein P OS=Duck hepatitis B virus (isolate Shanghai/DHBVQCA34) GN=P PE=3 SV=1 Back     alignment and function desciption
 Score = 59.7 bits (143), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 39/152 (25%), Positives = 75/152 (49%), Gaps = 6/152 (3%)

Query: 112 VKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYL-R 170
           + +DLSQA++H+P+ P+    L+V     +Y     P G+  +P +    T  + + + R
Sbjct: 445 ISLDLSQAFYHLPLNPASSSRLAVSDGQHVYYFRKAPMGVGLSPFLLHLFTTALGSEIAR 504

Query: 171 NLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIM 230
              +    Y+DD LL + ++  L S + A  + LQ L   +N +++   PV   ++LG  
Sbjct: 505 RFNVWTFTYMDDFLLCHPNARHLNSISHAVCSFLQELGIRINFDKTTPSPVNDIRFLGYQ 564

Query: 231 WNPTLDSKSLPLEKQSTIQ-RYLLTLTQIQWW 261
               +D K + +E+   I+ R ++   +I  W
Sbjct: 565 ----IDQKFMKIEESRWIELRTVIKKIKIGAW 592
Multifunctional enzyme that converts the viral RNA genome into dsDNA in viral cytoplasmic capsids. This enzyme displays a DNA polymerase activity that can copy either DNA or RNA templates, and a ribonuclease H (RNase H) activity that cleaves the RNA strand of RNA-DNA heteroduplexes in a partially processive 3'- to 5'-endonucleasic mode. Neo-synthesized pregenomic RNA (pgRNA) are encapsidated together with the P protein, and reverse-transcribed inside the nucleocapsid. Initiation of reverse-transcription occurs first by binding the epsilon loop on the pgRNA genome, and is initiated by protein priming, thereby the 5'-end of (-)DNA is covalently linked to P protein. Partial (+)DNA is synthesized from the (-)DNA template and generates the relaxed circular DNA (RC-DNA) genome. After budding and infection, the RC-DNA migrates in the nucleus, and is converted into a plasmid-like covalently closed circular DNA (cccDNA). The activity of P protein does not seem to be necessary for cccDNA generation, and is presumably released from (+)DNA by host nuclear DNA repair machinery.
Anas (taxid: 8835)
EC: 3EC: .EC: 1EC: .EC: 2EC: 6EC: .EC: 4
>sp|Q7LHG5|YI31B_YEAST Transposon Ty3-I Gag-Pol polyprotein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TY3B-I PE=3 SV=2 Back     alignment and function description
>sp|P17192|DPOL_HPBDB Protein P OS=Duck hepatitis B virus (isolate brown Shanghai duck S5) GN=P PE=3 SV=1 Back     alignment and function description
>sp|Q99315|YG31B_YEAST Transposon Ty3-G Gag-Pol polyprotein OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=TY3B-G PE=1 SV=3 Back     alignment and function description
>sp|P30028|DPOL_HPBDC Protein P OS=Duck hepatitis B virus (strain China) GN=P PE=3 SV=1 Back     alignment and function description
>sp|P17193|DPOL_HPBDW Protein P OS=Duck hepatitis B virus (isolate white Shanghai duck S31) GN=P PE=3 SV=1 Back     alignment and function description
>sp|P03162|DPOL_DHBV1 Protein P OS=Duck hepatitis B virus (strain United States/DHBV-16) GN=P PE=3 SV=2 Back     alignment and function description
>sp|P0C691|DPOL_DHBV3 Protein P OS=Duck hepatitis B virus (strain Germany/DHBV-3) GN=P PE=1 SV=1 Back     alignment and function description
>sp|P13846|DPOL_HHBV Protein P OS=Heron hepatitis B virus GN=P PE=3 SV=1 Back     alignment and function description
>sp|Q89703|POL_CSVMV Putative enzymatic polyprotein OS=Cassava vein mosaic virus GN=ORF 3 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 ?
Query460
357630297500 putative transposon Ty3-I Gag-Pol polypr 0.582 0.536 0.359 2e-51
326678616 585 PREDICTED: enzymatic polyprotein-like [D 0.726 0.570 0.349 2e-44
301618694 4048 PREDICTED: hypothetical protein LOC10012 0.730 0.083 0.338 2e-43
326671087 714 PREDICTED: enzymatic polyprotein-like [D 0.726 0.467 0.344 6e-43
17066696 785 reverse transcriptase/ribonuclease H/put 0.734 0.430 0.291 1e-38
170819710 1291 reverse transcriptase [Daphnia pulex] 0.728 0.259 0.264 3e-36
384498610370 hypothetical protein RO3G_13812 [Rhizopu 0.756 0.940 0.307 3e-35
170819724 757 reverse transcriptase [Daphnia pulex] 0.730 0.443 0.277 3e-35
345495977 1198 PREDICTED: hypothetical protein LOC10012 0.702 0.269 0.308 2e-34
327286446 1049 PREDICTED: hypothetical protein LOC10056 0.704 0.308 0.286 1e-33
>gi|357630297|gb|EHJ78517.1| putative transposon Ty3-I Gag-Pol polyprotein [Danaus plexippus] Back     alignment and taxonomy information
 Score =  209 bits (533), Expect = 2e-51,   Method: Compositional matrix adjust.
 Identities = 124/345 (35%), Positives = 180/345 (52%), Gaps = 77/345 (22%)

Query: 144 MTCLPFGLASAPQVFAKLTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVAT 203
           +TCLPFGL   P+ FA +TNWIA  LRN G+R +VYLDD L  NQ    L++    A+  
Sbjct: 61  ITCLPFGLIPVPRTFASVTNWIAELLRNHGIRCVVYLDDFLRANQSKSALQNDIAGALKM 120

Query: 204 LQSLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSKSLP------------LEKQS----- 246
           +++L W +N ++SVL P Q  ++LGI W+   ++KSL             L KQS     
Sbjct: 121 MRTLGWMINFQKSVLAPTQCLEFLGITWDTKRNTKSLSGQKCLTLRKALYLLKQSKWSLR 180

Query: 247 ------------------------TIQRYLLTLT----------------QIQWWSVALH 266
                                   T+Q Y   L                 +++WW   + 
Sbjct: 181 QYQSIMGRLKFASFVTRRGRLHCRTLQYYSRQLPKTHPHRRVSIPQPVQPELEWWLEEIG 240

Query: 267 RSSPIFPQAPQV--FVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALE 324
            S PI  Q PQ+   ++T+ASN+GWGA ++  S+   W+                + A++
Sbjct: 241 GSMPI--QIPQLTNLLTTNASNTGWGAQLNEISISRTWT----------------KPAIQ 282

Query: 325 RKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPG 384
                LQ+  +L+Q+DN+TVVSYI+KEGGT+S KLL +   L  +  + N+ L+A+YIPG
Sbjct: 283 LDQDGLQNSQILLQTDNRTVVSYINKEGGTQSLKLLEQTRRLLSVLDKVNMHLIAQYIPG 342

Query: 385 KFNTWADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDLFATANS 429
           ++N   D+LSRQK  P+WHL+ E T  IF  WG PEID FA+  +
Sbjct: 343 RYNVEVDALSRQKACPEWHLITEATTKIFQMWGCPEIDFFASKTA 387

Source: Danaus plexippus

Species: Danaus plexippus

Genus: Danaus

Family: Nymphalidae

Order: Lepidoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota
>gi|326678616|ref|XP_689703.4| PREDICTED: enzymatic polyprotein-like [Danio rerio] Back     alignment and taxonomy information
>gi|301618694|ref|XP_002938748.1| PREDICTED: hypothetical protein LOC100127807 [Xenopus (Silurana) tropicalis] Back     alignment and taxonomy information
>gi|326671087|ref|XP_002660956.2| PREDICTED: enzymatic polyprotein-like [Danio rerio] Back     alignment and taxonomy information
>gi|17066696|gb|AAL35360.1|AF442732_3 reverse transcriptase/ribonuclease H/putative methyltransferase [Tetraodon nigroviridis] Back     alignment and taxonomy information
>gi|170819710|gb|ACB38665.1| reverse transcriptase [Daphnia pulex] Back     alignment and taxonomy information
>gi|384498610|gb|EIE89101.1| hypothetical protein RO3G_13812 [Rhizopus delemar RA 99-880] Back     alignment and taxonomy information
>gi|170819724|gb|ACB38666.1| reverse transcriptase [Daphnia pulex] Back     alignment and taxonomy information
>gi|345495977|ref|XP_001604972.2| PREDICTED: hypothetical protein LOC100121360 [Nasonia vitripennis] Back     alignment and taxonomy information
>gi|327286446|ref|XP_003227941.1| PREDICTED: hypothetical protein LOC100566709 [Anolis carolinensis] 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 ?
Query460
DICTYBASE|DDB_G0267304 833 DDB_G0267304_RTE "DIRS1 ORF3 f 0.319 0.176 0.308 1.2e-24
DICTYBASE|DDB_G0291223300 DDB_G0291223_RTE "DIRS1 ORF2/O 0.347 0.533 0.3 8.4e-19
DICTYBASE|DDB_G0267338161 DDB_G0267338_RTE "DIRS1 ORF3" 0.313 0.894 0.322 1.8e-18
DICTYBASE|DDB_G0267210 968 DDB_G0267210_RTE "DIRS1 ORF2 f 0.352 0.167 0.283 9e-15
DICTYBASE|DDB_G0267240 818 DDB_G0267240_RTE "DIRS1 ORF2 f 0.276 0.155 0.330 6.9e-14
DICTYBASE|DDB_G0267326 818 DDB_G0267326_RTE "DIRS1 ORF2 f 0.276 0.155 0.330 5.3e-13
DICTYBASE|DDB_G0294180558 DDB_G0294180_RTE "DIRS1 ORF1/O 0.286 0.236 0.303 1.6e-12
DICTYBASE|DDB_G0267342 925 DDB_G0267342_RTE "DIRS1 ORF2 f 0.276 0.137 0.322 2.9e-12
DICTYBASE|DDB_G0294346541 DDB_G0294346_RTE "DIRS1 ORF1/O 0.215 0.182 0.313 3.3e-10
DICTYBASE|DDB_G0267314316 DDB_G0267314_RTE "DIRS1 ORF2/O 0.25 0.363 0.295 1.1e-07
DICTYBASE|DDB_G0267304 DDB_G0267304_RTE "DIRS1 ORF3 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
 Score = 212 (79.7 bits), Expect = 1.2e-24, Sum P(2) = 1.2e-24
 Identities = 46/149 (30%), Positives = 85/149 (57%)

Query:   101 VPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAK 160
             +P  +++G ++VK+D+ +AY +V + P ++     V++ + Y    +PFGL++AP++F  
Sbjct:     7 LPSMVKQGYYMVKLDIKKAYLYVLVDPQYRDLFRFVWKGSHYRWKTMPFGLSTAPRIFTM 66

Query:   161 LTNWIANYLRNLGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWP 220
             L   +   LR++ + VI YLDDLL+         S  +  +  L  L + +NLE+SVL  
Sbjct:    67 LLRPVLRMLRDINVSVIAYLDDLLIVGSTKEECLSNLKKTMDLLVKLGFKLNLEKSVLEL 126

Query:   221 VQTCQYLGIMWNPTLDSKSL-PLEKQSTI 248
              Q+  +LG+    ++  K L P EK+ ++
Sbjct:   127 TQSITFLGLQIG-SISMKLLVPKEKKKSV 154
GO:0015074 "DNA integration" evidence=IEA
GO:0006310 "DNA recombination" evidence=IEA
GO:0006278 "RNA-dependent DNA replication" evidence=IEA
GO:0004523 "ribonuclease H activity" evidence=IEA
GO:0003964 "RNA-directed DNA polymerase activity" evidence=IEA
GO:0003723 "RNA binding" evidence=IEA
GO:0003677 "DNA binding" evidence=IEA
GO:0003676 "nucleic acid binding" evidence=IEA
DICTYBASE|DDB_G0291223 DDB_G0291223_RTE "DIRS1 ORF2/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267338 DDB_G0267338_RTE "DIRS1 ORF3" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267210 DDB_G0267210_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267240 DDB_G0267240_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267326 DDB_G0267326_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0294180 DDB_G0294180_RTE "DIRS1 ORF1/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267342 DDB_G0267342_RTE "DIRS1 ORF2 fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0294346 DDB_G0294346_RTE "DIRS1 ORF1/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] Back     alignment and assigned GO terms
DICTYBASE|DDB_G0267314 DDB_G0267314_RTE "DIRS1 ORF2/ORF3 fusion fragment" [Dictyostelium discoideum (taxid:44689)] 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

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

EC Number Prediction by EFICAz Software ?

Prediction LevelEC numberConfidence of Prediction
4th Layer2.7.7.49LOW CONFIDENCE prediction!
3rd Layer3.1.26LOW CONFIDENCE prediction!
3rd Layer3.1.26.4LOW CONFIDENCE prediction!

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 ?
Query460
cd09275120 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase 6e-38
cd03714119 cd03714, RT_DIRS1, RT_DIRS1: Reverse transcriptase 6e-23
cd01647177 cd01647, RT_LTR, RT_LTR: Reverse transcriptases (R 1e-12
pfam00078194 pfam00078, RVT_1, Reverse transcriptase (RNA-depen 2e-11
cd06222123 cd06222, RNase_H, RNase H is an endonuclease that 3e-08
cd03715210 cd03715, RT_ZFREV_like, RT_ZFREV_like: A subfamily 4e-08
cd09274121 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNas 1e-07
cd01644213 cd01644, RT_pepA17, RT_pepA17: Reverse transcripta 0.002
>gnl|CDD|187699 cd09275, RNase_HI_RT_DIRS1, DIRS1 family of RNase HI in long-term repeat retroelements Back     alignment and domain information 
 Score =  133 bits (338), Expect = 6e-38
 Identities = 51/117 (43%), Positives = 69/117 (58%)

Query: 280 VSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLPVLQDKVVLIQS 339
           + TDAS SGWGA++      G+WS  +   HIN  E+ AV  AL+     L ++ VL++S
Sbjct: 2   LFTDASLSGWGAVLSGSWAQGLWSAEERNKHINFLELLAVLLALQHWGARLSNRKVLVRS 61

Query: 340 DNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADSLSRQ 396
           DN T V+YI+++GGT+S +LL     L       NI L AR+IPG  N  AD LSR 
Sbjct: 62  DNTTAVAYINRQGGTRSPELLALARQLVLWCEERNIWLRARHIPGVLNVAADRLSRL 118

Ribonuclease H (RNase H) enzymes are divided into two major families, Type 1 and Type 2, based on amino acid sequence similarities and biochemical properties. RNase H is an endonuclease that cleaves the RNA strand of an RNA/DNA hybrid in a sequence non-specific manner in the presence of divalent cations. RNase H is widely present in various organisms, including bacteria, archaea and eukaryotes. RNase HI has also been observed as adjunct domains to the reverse transcriptase gene in retroviruses, in 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. Phylogenetic patterns of RNase HI of LTR retroelements is classified into five major families, Ty3/Gypsy, Ty1/Copia, Bel/Pao, DIRS1 and the vertebrate retroviruses. The structural features of DIRS1-group elements are different from typical LTR elements. RNase H inhibitors have been explored as an anti-HIV drug target because RNase H inactivation inhibits reverse transcription. Length = 120
>gnl|CDD|239684 cd03714, RT_DIRS1, RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons Back     alignment and domain information
>gnl|CDD|238825 cd01647, RT_LTR, RT_LTR: Reverse transcriptases (RTs) from retrotransposons and retroviruses which have long terminal repeats (LTRs) in their DNA copies but not in their RNA template Back     alignment and domain information
>gnl|CDD|215698 pfam00078, RVT_1, Reverse transcriptase (RNA-dependent DNA polymerase) 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|239685 cd03715, RT_ZFREV_like, RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT Back     alignment and domain information
>gnl|CDD|187698 cd09274, RNase_HI_RT_Ty3, Ty3/Gypsy family of RNase HI in long-term repeat retroelements Back     alignment and domain information
>gnl|CDD|238822 cd01644, RT_pepA17, RT_pepA17: Reverse transcriptase (RTs) in retrotransposons Back     alignment and domain information

Conserved Domains Detected by HHsearch ?

Original result of HHsearch against CDD database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query 460
cd03715210 RT_ZFREV_like RT_ZFREV_like: A subfamily of revers 100.0
cd01645213 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from r 100.0
cd01647177 RT_LTR RT_LTR: Reverse transcriptases (RTs) from r 99.97
cd01644213 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) i 99.96
cd03714119 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) oc 99.96
PF00078214 RVT_1: Reverse transcriptase (RNA-dependent DNA po 99.75
cd0030498 RT_like RT_like: Reverse transcriptase (RT, RNA-de 99.58
cd01648119 TERT TERT: Telomerase reverse transcriptase (TERT) 99.21
cd03487214 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcr 99.18
cd06222130 RnaseH RNase H (RNase HI) is an endonuclease that 99.12
cd01650220 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repea 99.11
PRK13907128 rnhA ribonuclease H; Provisional 98.99
cd01651226 RT_G2_intron RT_G2_intron: Reverse transcriptases 98.89
PF00075132 RNase_H: RNase H; InterPro: IPR002156 The RNase H 98.88
PRK07708219 hypothetical protein; Validated 98.84
COG0328154 RnhA Ribonuclease HI [DNA replication, recombinati 98.82
PRK00203150 rnhA ribonuclease H; Reviewed 98.69
cd01646158 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcrip 98.66
PRK06548161 ribonuclease H; Provisional 98.59
PRK07238 372 bifunctional RNase H/acid phosphatase; Provisional 98.57
PF1345687 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH 98.42
PRK08719147 ribonuclease H; Reviewed 98.31
.; 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 98.19
KOG3752|consensus371 97.74
cd01709346 RT_like_1 RT_like_1: A subfamily of reverse transc 97.04
PF05380159 Peptidase_A17: Pao retrotransposon peptidase ; Int 96.67
PF07727246 RVT_2: Reverse transcriptase (RNA-dependent DNA po 95.77
KOG1005|consensus888 94.72
KOG4768|consensus796 94.23
cd01699278 RNA_dep_RNAP RNA_dep_RNAP: RNA-dependent RNA polym 83.86
>cd03715 RT_ZFREV_like RT_ZFREV_like: A subfamily of reverse transcriptases (RTs) found in sequences similar to the intact endogenous retrovirus ZFERV from zebrafish and to Moloney murine leukemia virus RT Back     alignment and domain information 
Probab=100.00  E-value=1.6e-39  Score=303.39  Aligned_cols=192  Identities=18%  Similarity=0.301  Sum_probs=169.6

Q ss_pred             CCCCCCCchHHHHHHHHhhh-h-------hcCCcccccceEeecCCC-Ceeeeeecc----ccCCCCccCCCccchhhhc
Q psy4044          39 DHPPNQDSFFEVARHTAILL-L-------LCSGRRVHDLTLLLSSRD-GFQDLGDRA----FLSLKKFHLINHFRVPDFL  105 (460)
Q Consensus        39 ~~~p~~~~~~~~~~~~~~~~-~-------~~~~~~~sp~~~V~Kk~g-~~R~~~D~r----~~~~~~~plp~i~~ll~~l  105 (460)
                      ..+|++.+.-+....++..+ +       ++++.+.||+++|+||+| ++|+|+|||    .+..+.+++|++++++..+
T Consensus         3 ~~~~~~~~~~~~~~~~~~v~~ll~~G~I~~~~s~~~sp~~~V~Kk~g~~~R~~vD~r~lN~~~~~~~~~~p~~~~~l~~l   82 (210)
T cd03715           3 NQKQYPLPREAREGITPHIQELLEAGILVPCQSPWNTPILPVKKPGGNDYRMVQDLRLVNQAVLPIHPAVPNPYTLLSLL   82 (210)
T ss_pred             CcCCCCCCHHHHHHHHHHHHHHHHCCCeECCCCCCCCceEEEEeCCCCcceEEEEhhhhhhcccccCcCCCcHHHHHHHh
Confidence            34666666544444444333 2       446788999999999999 999999999    4556789999999999999


Q ss_pred             c-CCceEEEEeccccccccccCCCCcceeEEEEcCeeEEEcccCccCCCchHHHHHHHHHHHHHHHh--cCCEEEEEecC
Q psy4044         106 Q-RGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRN--LGMRVIVYLDD  182 (460)
Q Consensus       106 ~-~~~~~s~lDl~~ay~qi~l~~~~~~~taF~~~~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~--~g~~v~~YvDD  182 (460)
                      . ++++|+++|+++|||||+|+|+++++|||++++|+|+|++||||+++||++||+.|+.++..+..  .+..+.+|+||
T Consensus        83 ~~~~~~~s~lDl~~af~~i~l~~~~~~~taf~~~~~~y~~~~lp~Gl~~sp~~f~~~~~~~l~~~~~~~~~~~~~~Y~DD  162 (210)
T cd03715          83 PPKHQWYTVLDLANAFFSLPLAPDSQPLFAFEWEGQQYTFTRLPQGFKNSPTLFHEALARDLAPFPLEHEGTILLQYVDD  162 (210)
T ss_pred             ccCCeEEEEeeccCeEEEEEcccccEEeEEEEECCeeEEEEEEeccccCcHHHHHHHHHHHHHHHHhhCCCeEEEEECCc
Confidence            6 89999999999999999999999999999999999999999999999999999999999977643  35678999999


Q ss_pred             eEEecCCHHHHHHHHHHHHHHHHHcCCcccccccccccccccccccEEE
Q psy4044         183 LLLGNQDSVLLRSQARAAVATLQSLRWSVNLERSVLWPVQTCQYLGIMW  231 (460)
Q Consensus       183 ili~s~~~~~~~~~l~~v~~~l~~~gl~l~~~K~~~~~~~~v~~LG~~i  231 (460)
                      |+|++++.++|.++++.|+.+|+++|+.+|++||+++ ..+++|||++|
T Consensus       163 ili~s~~~~e~~~~l~~v~~~l~~~gl~l~~~K~~~~-~~~v~fLG~~~  210 (210)
T cd03715         163 LLLAADSEEDCLKGTDALLTHLGELGYKVSPKKAQIC-RAEVKFLGVVW  210 (210)
T ss_pred             EEEecCCHHHHHHHHHHHHHHHHHCCCCcCHHHeeCC-CCceEEeeEEC
Confidence            9999999999999999999999999999999999866 67999999985

An RT gene is usually indicative of a mobile element such as a retrotransposon or retrovirus. RTs occur in a variety of mobile elements, including retrotransposons, retroviruses, group II introns, bacterial msDNAs, hepadnaviruses, and caulimoviruses. These elements can be divided into two major groups. One group contains retroviruses and DNA viruses whose propagation involves an RNA intermediate. They are grouped together with transposable elements containing long terminal repeats (LTRs). The other group, also called poly(A)-type retrotransposons, contain fungal mitochondrial introns and transposable elements that lack LTRs. Phylogenetic analysis suggests that ZFERV belongs to a distinct group of retroviruses.
>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs) Back     alignment and domain information
>cd01647 RT_LTR RT_LTR: Reverse transcriptases (RTs) from retrotransposons and retroviruses which have long terminal repeats (LTRs) in their DNA copies but not in their RNA template Back     alignment and domain information
>cd01644 RT_pepA17 RT_pepA17: Reverse transcriptase (RTs) in retrotransposons Back     alignment and domain information
>cd03714 RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) occurring in the DIRS1 group of retransposons Back     alignment and domain information
>PF00078 RVT_1: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR000477 The use of an RNA template to produce DNA, for integration into the host genome and exploitation of a host cell, is a strategy employed in the replication of retroid elements, such as the retroviruses and bacterial retrons Back     alignment and domain information
>cd00304 RT_like RT_like: Reverse transcriptase (RT, RNA-dependent DNA polymerase)_like family Back     alignment and domain information
>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT) Back     alignment and domain information
>cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons 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
>cd01650 RT_nLTR_like RT_nLTR: Non-LTR (long terminal repeat) retrotransposon and non-LTR retrovirus reverse transcriptase (RT) Back     alignment and domain information
>PRK13907 rnhA ribonuclease H; Provisional Back     alignment and domain information
>cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin 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
>PRK07708 hypothetical protein; Validated Back     alignment and domain information
>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair] Back     alignment and domain information
>PRK00203 rnhA ribonuclease H; Reviewed Back     alignment and domain information
>cd01646 RT_Bac_retron_I RT_Bac_retron_I: Reverse transcriptases (RTs) in bacterial retrotransposons or retrons Back     alignment and domain information
>PRK06548 ribonuclease H; Provisional 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
>PRK08719 ribonuclease H; Reviewed 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
>KOG3752|consensus Back     alignment and domain information
>cd01709 RT_like_1 RT_like_1: A subfamily of reverse transcriptases (RTs) 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
>PF07727 RVT_2: Reverse transcriptase (RNA-dependent DNA polymerase); InterPro: IPR013103 A reverse transcriptase gene is usually indicative of a mobile element such as a retrotransposon or retrovirus Back     alignment and domain information
>KOG1005|consensus Back     alignment and domain information
>KOG4768|consensus Back     alignment and domain information
>cd01699 RNA_dep_RNAP RNA_dep_RNAP: RNA-dependent RNA polymerase (RdRp) is an essential protein encoded in the genomes of all RNA containing viruses with no DNA stage Back     alignment and domain information

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 ?Alignment Graph ?Length ? Definition ? E-value ?
Query460
1vt4_I 1221 APAF-1 related killer DARK; drosophila apoptosome, 1e-10
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 4e-09
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 3e-04
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221 Back     alignment and structure
 Score = 62.9 bits (152), Expect = 1e-10
 Identities = 72/448 (16%), Positives = 126/448 (28%), Gaps = 167/448 (37%)

Query: 79  FQDLGD--RAFLSLKKF-HLINHFRVPDFLQRGDFLVKIDLSQ----------------- 118
            +D+ D  ++ LS ++  H+I      D +     L    LS+                 
Sbjct: 35  CKDVQDMPKSILSKEEIDHIIM---SKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINY 91

Query: 119 -----AYFHVPIRPSHQRFLSVVYRDTLYCMTCLPFGLASAPQVFAKLTNW-------IA 166
                       +PS    + +  RD LY          +  QVFAK           + 
Sbjct: 92  KFLMSPIKTEQRQPSMMTRMYIEQRDRLY----------NDNQVFAKYNVSRLQPYLKLR 141

Query: 167 NYLRNL--GMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQSLR----------W----S 210
             L  L     V++     +LG+  + +       A+    S +          W    +
Sbjct: 142 QALLELRPAKNVLID---GVLGSGKTWV-------ALDVCLSYKVQCKMDFKIFWLNLKN 191

Query: 211 VNLERSVLWPVQT-CQYLGIMWNPTLD-SKSLPLEKQSTIQRYLLTLTQIQWWSVALHRS 268
            N   +VL  +Q     +   W    D S ++ L   S IQ  L  L  ++      + +
Sbjct: 192 CNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS-IQAELRRL--LKSKP---YEN 245

Query: 269 SPIFPQAPQVFVSTDASNSGWGAIVDNHSLGGVWSDHQEMWHINLKEMFAVRSALERKLP 328
             +                    ++ N     V +             F +     + L 
Sbjct: 246 CLL--------------------VLLN-----VQN----AKAW---NAFNLSC---KILL 270

Query: 329 VLQDKVVL--IQSDNQTVVSYIHKEGG-TKSFKLLREVEALF---------DL---AVRH 373
             + K V   + +   T +S  H     T       EV++L          DL    +  
Sbjct: 271 TTRFKQVTDFLSAATTTHISLDHHSMTLTPD-----EVKSLLLKYLDCRPQDLPREVLTT 325

Query: 374 N---ITLMARYIPGKFNTW-------ADSLSRQKELPDWHLLPEVTQHIFAQWGVPEIDL 423
           N   ++++A  I     TW        D L+   E     L P   + +F +  V     
Sbjct: 326 NPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSV----- 380

Query: 424 FATANSAAFLVQGGPLKFPDGIN-PIST 450
                            FP   + P   
Sbjct: 381 -----------------FPPSAHIPTIL 391
>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 Length = 455 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

Structure Templates Detected by HHsearch ?

Original result of HHsearch against PDB70 database

ID ?Alignment Graph ?Length ? Definition ? Probability ?
Query460
1rw3_A455 POL polyprotein; RNA and DNA dependent DNA polymer 100.0
2zd1_A557 Reverse transcriptase/ribonuclease H; P51/P66, het 100.0
2zd1_B428 P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleosid 100.0
1mu2_A555 HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym 100.0
3fsi_A255 RT, reverse transcriptase domain; transferase/DNA 100.0
3hst_B141 Protein RV2228C/MT2287; ribonuclease H1, RV2228C N 99.09
3u3g_D140 Ribonuclease H, RNAse H1; hydrolase, cleave the RN 99.05
2ehg_A149 Ribonuclease HI; RNAse HI, hyperthermophilic archa 99.03
2e4l_A158 Ribonuclease HI, RNAse HI; hydrolase, endoribonucl 98.89
3h08_A146 RNH (ribonuclease H); RNAse H, 3D-structure, endon 98.87
1jl1_A155 Ribonuclease HI; RNAse HI, protein stability, ther 98.84
3p1g_A165 Xenotropic murine leukemia virus-related virus (X 98.82
3qio_A150 GAG-POL polyprotein; RNAse H, inhibitor, nuclease, 98.79
2qkb_A154 Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy 98.78
1ril_A166 Ribonuclease H; hydrolase(endoribonuclease); 2.80A 98.74
2lsn_A165 Reverse transcriptase; RNAse H, viral protein; NMR 98.6
2kq2_A147 Ribonuclease H-related protein; PSI, NESG, protein 98.5
1zbf_A142 Ribonuclease H-related protein; RNAse H, RNA/DNA h 98.28
4htu_A134 Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine, 98.02
3kyl_A596 Telomerase reverse transcriptase; reverse transcri 96.86
>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
Probab=100.00  E-value=7.3e-60  Score=488.79  Aligned_cols=307  Identities=15%  Similarity=0.218  Sum_probs=264.0

Q ss_pred             hcCCcccccceEeecC-CCCeeeeeecc----ccCCCCccCCCccchhhhcc-CCceEEEEeccccccccccCCCCccee
Q psy4044          60 LCSGRRVHDLTLLLSS-RDGFQDLGDRA----FLSLKKFHLINHFRVPDFLQ-RGDFLVKIDLSQAYFHVPIRPSHQRFL  133 (460)
Q Consensus        60 ~~~~~~~sp~~~V~Kk-~g~~R~~~D~r----~~~~~~~plp~i~~ll~~l~-~~~~~s~lDl~~ay~qi~l~~~~~~~t  133 (460)
                      ++.+.+.+|+++|+|| +|++|+|+|||    .+.++.+|+|++++++++++ ++++|+++|+++|||||+|+++|+++|
T Consensus        70 ~~~sp~~spv~~V~Kk~~g~~R~~~D~r~LN~~~~~~~~~lp~~~~ll~~l~~~~~~~s~lDl~~~y~qi~l~~~d~~~t  149 (455)
T 1rw3_A           70 PCQSPWNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLF  149 (455)
T ss_dssp             EECCSCBBCEECCCCSSSSCCCCEECTHHHHHTBCCCCCCCCCHHHHHTTCCTTCCEEEEEEBTTGGGGSBBCSTTSGGG
T ss_pred             ecCCcccCceEEEeccCCCcEEEchhHHHHHhhccCCCCCCCCHHHHhhhhccCCceEEecchhhhheeEecccccccee
Confidence            4567789999999999 79999999999    67789999999999999997 999999999999999999999999999


Q ss_pred             EEEE------cCeeEEEcccCccCCCchHHHHHHHHHHHHHHHh--cCCEEEEEecCeEEecCCHHHHHHHHHHHHHHHH
Q psy4044         134 SVVY------RDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRN--LGMRVIVYLDDLLLGNQDSVLLRSQARAAVATLQ  205 (460)
Q Consensus       134 aF~~------~~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~--~g~~v~~YvDDili~s~~~~~~~~~l~~v~~~l~  205 (460)
                      ||.|      +.|+|+|+|||||++|||++||++|+.++..+..  .+..+.+|+|||+|++++.++|..++++|+++|+
T Consensus       150 aF~~~~p~~~~~g~y~~~~mpfGl~naP~~fq~~m~~~l~~~~~~~~~~~v~~YvDDili~s~~~~e~~~~l~~v~~~l~  229 (455)
T 1rw3_A          150 AFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSELDCQQGTRALLQTLG  229 (455)
T ss_dssp             CEEECTTSSSCCEEEEESBCCSSCTTHHHHHHHHHHHHHHHHHHTCTTCEEEEETTEEEEEESSHHHHHHHHHHHHHHHH
T ss_pred             EEeecCCCCCCCceEEEEecCCCCCCcHHHHHHHHHHHHHHhhhhCCCceEEEEcCCEEEecCCHHHHHHHHHHHHHHHH
Confidence            9998      4899999999999999999999999999988753  3578999999999999999999999999999999


Q ss_pred             HcCCcccccccccccccccccccEEEcCCCCcc---------cCCcc-chHHHHHHHHh---------------------
Q psy4044         206 SLRWSVNLERSVLWPVQTCQYLGIMWNPTLDSK---------SLPLE-KQSTIQRYLLT---------------------  254 (460)
Q Consensus       206 ~~gl~l~~~K~~~~~~~~v~~LG~~i~~~g~~~---------~~p~~-k~~~l~~flg~---------------------  254 (460)
                      ++|+.+|++||+|. ..+++||||+|+.+|+++         .+|.+ .++++|+|+|.                     
T Consensus       230 ~~gl~l~~~K~~f~-~~~~~fLG~~i~~~gi~~~~~kv~~i~~~~~p~t~k~l~~flG~~~y~r~fi~~~~~~~~pL~~l  308 (455)
T 1rw3_A          230 NLGYRASAKKAQIC-QKQVKYLGYLLKEGQRWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPL  308 (455)
T ss_dssp             HHTCCBCGGGCCCS-BSSCEETTEEESSSEECCCTTCCCCCCCCCTTTHHHHHHHTTTTTCCCSSCCCCCGGGCCTTCC-
T ss_pred             HcCCccCccchhhh-ccceeEeeeeccCCeeEEChhHhhhhccCCCCCCHHHhhhhcccchHHHHHHhhhhhhcccHHHH
Confidence            99999999999876 679999999999999763         23433 56789999997                     


Q ss_pred             -hh--hhhhHHHHHh----------ccCCCC---CCCCeeEEEEccccccceeEEeee---------ecceecCCccccC
Q psy4044         255 -LT--QIQWWSVALH----------RSSPIF---PQAPQVFVSTDASNSGWGAIVDNH---------SLGGVWSDHQEMW  309 (460)
Q Consensus       255 -~~--~~~ww~~~~~----------~~~pil---~~~~~~~l~tDAS~~g~Gavl~q~---------~~s~~~~~~e~~y  309 (460)
                       ++  .+.| +++++          .+.|++   ++..++.++||||+.|+|||+.|.         |.|++++++|.+|
T Consensus       309 lkk~~~~~W-~~~~~~af~~lK~~l~~~pvL~~p~~~~~~~l~~DAS~~~~gavL~q~~~~~~~~i~y~Sk~l~~~e~~y  387 (455)
T 1rw3_A          309 TKTGTLFNW-GPDQQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKLDPVAAGW  387 (455)
T ss_dssp             -------CC-CCCCSSSCCHHHHHTCSSCCSCCSSSCCTTSCEEEEEECSSSBEECCBCTTTTCCCCCCCBCSCSSCSSS
T ss_pred             hcCCCCcCc-hHHHHHHHHHHHHHhhcCcccccCCCCCcEEEEEeccCCcceeEEEEecCCcEEEEEEEcccCCcccccc
Confidence             22  3444 44432          456665   346789999999999999999985         7899999999999


Q ss_pred             ChhHHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHhhcCCCcchhhhHHHHHHHHHH
Q psy4044         310 HINLKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLA  370 (460)
Q Consensus       310 s~~~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~~~~~~~~~~~~~~~r~i~~~~  370 (460)
                      ++.++|++|+++|+++|++|+.|++|+|+|||+ +..++++.. .+.....|+.||+..+.
T Consensus       388 s~~ekEllAi~~a~~~~~~yl~g~~~~v~tDh~-~~~~l~~~~-~~~~~~~Rl~rW~~~L~  446 (455)
T 1rw3_A          388 PPCLRMVAAIAVLTKDAGKLTMGQPLVIKAPHA-VEALVKQPP-DRWLSNARMTHYQALLL  446 (455)
T ss_dssp             CCSSHHHHHHHHHHHHHHGGGCSSCEEEECSSC-TTTTSSSTT-TTTCCCCCCSCCCCCCC
T ss_pred             chHHHHHHHHHHHHHHHHHHcCCCcEEEEecCh-HHHHhCCCc-cccccchHHHHHHHHhC
Confidence            999999999999999999999999999999998 557877532 11113467777775443
>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
>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
>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
>3fsi_A RT, reverse transcriptase domain; transferase/DNA MMLV RT, protein-DNA complex, drug-DNA complex; HET: OWL; 1.75A {Moloney murine leukemia virus} SCOP: e.8.1.2 PDB: 1d1u_A 1n4l_A* 1ztt_A 2fjv_A* 2fjw_A 2fjx_A* 2fvp_A 2fvq_A 2fvr_A 2fvs_A 2r2r_A* 2r2s_A* 2r2t_A* 2r2u_A* 1ztw_A* 1i6j_A 1qaj_A* 1d0e_A* 1nnd_A 1mml_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
>2e4l_A Ribonuclease HI, RNAse HI; hydrolase, endoribonuclease; 2.00A {Shewanella oneidensis} PDB: 2zqb_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
>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
>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
>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
>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
>1ril_A Ribonuclease H; hydrolase(endoribonuclease); 2.80A {Thermus thermophilus} SCOP: c.55.3.1 PDB: 2rpi_A Back     alignment and structure
>2lsn_A Reverse transcriptase; RNAse H, viral protein; NMR {Simian foamy virus} 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
>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
>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A 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 460
d1hara_216 e.8.1.2 (A:) HIV-1 reverse transcriptase {Human im 3e-09
d2zd1b1424 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Hum 7e-06
d1mu2a2427 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Hum 7e-05
>d1hara_ e.8.1.2 (A:) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Length = 216 Back     information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Reverse transcriptase
domain: HIV-1 reverse transcriptase
species: Human immunodeficiency virus type 1 [TaxId: 11676]

 Score = 54.6 bits (131), Expect = 3e-09
 Identities = 21/110 (19%), Positives = 42/110 (38%), Gaps = 9/110 (8%)

Query: 91  KKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVVYRDT-------LYC 143
             + +      P  L++   +  +D+  AYF VP+    +++ +              Y 
Sbjct: 86  DFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFTIPSINNETPGIRYQ 145

Query: 144 MTCLPFGLASAPQVFAKLTNWIAN--YLRNLGMRVIVYLDDLLLGNQDSV 191
              LP G   +P +F      I       N  + +  Y+DDL +G+  ++
Sbjct: 146 YNVLPQGWKGSPAIFQSSMTKILAPFKAANPDIVIYQYMDDLYVGSDLAI 195
>d2zd1b1 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Length = 424 Back     information, alignment and structure
>d1mu2a2 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Human immunodeficiency virus type 2 [TaxId: 11709]} Length = 427 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 ?
Query460
d2zd1b1424 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1mu2a2427 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1ztwa1255 MMLV reverse transcriptase {Moloney murine leukemi 100.0
d1hara_216 HIV-1 reverse transcriptase {Human immunodeficienc 100.0
d1mu2a1126 HIV RNase H (Domain of reverse transcriptase) {Hum 98.74
d1s1ta1110 HIV RNase H (Domain of reverse transcriptase) {Hum 98.54
d1zbfa1132 BH0863-like Ribonuclease H {Bacillus halodurans [T 98.48
d1rila_147 RNase H (RNase HI) {Thermus thermophilus [TaxId: 2 98.47
d1jl1a_152 RNase H (RNase HI) {Escherichia coli [TaxId: 562]} 98.39
>d2zd1b1 e.8.1.2 (B:5-428) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} Back     information, alignment and structure
class: Multi-domain proteins (alpha and beta)
fold: DNA/RNA polymerases
superfamily: DNA/RNA polymerases
family: Reverse transcriptase
domain: HIV-1 reverse transcriptase
species: Human immunodeficiency virus type 1 [TaxId: 11676]

Probab=100.00  E-value=1.9e-48  Score=390.43  Aligned_cols=306  Identities=12%  Similarity=0.080  Sum_probs=223.5

Q ss_pred             cCCcccccceEeecCCC-CeeeeeeccccC---CCCccCCCccchhhhccCCceEEEEeccccccccccCCCCcceeEEE
Q psy4044          61 CSGRRVHDLTLLLSSRD-GFQDLGDRAFLS---LKKFHLINHFRVPDFLQRGDFLVKIDLSQAYFHVPIRPSHQRFLSVV  136 (460)
Q Consensus        61 ~~~~~~sp~~~V~Kk~g-~~R~~~D~r~~~---~~~~plp~i~~ll~~l~~~~~~s~lDl~~ay~qi~l~~~~~~~taF~  136 (460)
                      +++.+.||+|+|+|||| +||+|+|||.+|   .+.||+|.+.++++.|+++++|+++|+++|||||||+|+|+++|||+
T Consensus        48 s~Sp~~sPvf~V~KKdg~k~R~~iDyR~LN~~t~d~~~~~~~~~~~~~L~~~~~ft~lDl~~ay~qIpl~e~~r~~tAF~  127 (424)
T d2zd1b1          48 PENPYNTPVFAIKKKDSTKWRKLVDFRELNKRTQDFWEVQLGIPHPAGLKKKKSVTVLDVGDAYFSVPLDEDFRKYTAFT  127 (424)
T ss_dssp             TTCCCBBCEEEECCTTCSSCEEEECTHHHHHHBCCCCCTTSCCCCCTTGGGSSEEEEEECGGGGGGSBCCTTTGGGGCEE
T ss_pred             CCCCCcCCeEEEEeCCCCceEEEEccHHHHHhcCCCCCCCCcCcChHHhcCCceEeeccccccccccCCChhhccceecc
Confidence            45678999999999988 599999999433   58899999999999999999999999999999999999999999998


Q ss_pred             E-------cCeeEEEcccCccCCCchHHHHHHHHHHHHHHHhc--CCEEEEEecCeEEecCC-HHHHHHHHHHHHHHHHH
Q psy4044         137 Y-------RDTLYCMTCLPFGLASAPQVFAKLTNWIANYLRNL--GMRVIVYLDDLLLGNQD-SVLLRSQARAAVATLQS  206 (460)
Q Consensus       137 ~-------~~g~y~~~~lpfGl~~ap~~fq~~~~~il~~l~~~--g~~v~~YvDDili~s~~-~~~~~~~l~~v~~~l~~  206 (460)
                      +       ++|+|+|+|||||++|||++||++|+.++..+...  +.++.+|||||+|+|++ .++|.+++++|+++|++
T Consensus       128 ~p~~~f~T~~g~y~~~vlPfGl~nsPa~Fqr~m~~il~~~~~~~~~~~i~~Y~DDIlI~S~~~~eeH~~~l~~vl~~L~~  207 (424)
T d2zd1b1         128 IPSINNETPGIRYQYNVLPQGWKGSPAIFQSSMTKILEPFKKQNPDIVIYQYMDDLYVGSDLEIGQHRTKIEELRQHLLR  207 (424)
T ss_dssp             ECCGGGCSCCEEEEESBCCTTCTHHHHHHHHHHHHHHHHHHHHCTTCEEEEETTEEEEEECSCHHHHHHHHHHHHHHHHH
T ss_pred             ccCcccccCCceEEEEecCCcccCcHHHHHHHHHHHcccccccCcceeEEeccceEEEecCchhHHHHHHHHHHHHHHHH
Confidence            5       68999999999999999999999999999887643  34799999999999984 89999999999999999


Q ss_pred             cCCcccccccccccccccccccEEEcCCCCcc-----cCC-ccchHHHHHHHHh--------------------------
Q psy4044         207 LRWSVNLERSVLWPVQTCQYLGIMWNPTLDSK-----SLP-LEKQSTIQRYLLT--------------------------  254 (460)
Q Consensus       207 ~gl~l~~~K~~~~~~~~v~~LG~~i~~~g~~~-----~~p-~~k~~~l~~flg~--------------------------  254 (460)
                      +|+.+|.+|| +. ..+++||||+|+.+|+++     ..| +.++++||+|+|+                          
T Consensus       208 ~gl~l~~Kk~-f~-~~~v~~LG~~is~~gi~~~~~kl~~~~p~t~kelq~fLG~~n~~r~fIp~~s~~~L~~ll~~~~~~  285 (424)
T d2zd1b1         208 WGLTTPDKKH-QK-EPPFLWMGYELHPDKWTVQPIVLPEKDSWTVNDIQKLVGKLNWASQIYPGIKVRQLSKLLRGTKAL  285 (424)
T ss_dssp             HHC--------------CTTCCEEECGGGCCCCCCCCCCCSSEEHHHHHHHHHHHHHHTTTCTTCCCHHHHHTTCSCCCT
T ss_pred             hCCccchhhh-hh-hcccccceeeecCCcEeCCHHHhccccCCCHHHHHHHHHHHHHHHHhcccchHHHHHHHhhhhccC
Confidence            9999985554 54 779999999999999874     222 3368899999998                          


Q ss_pred             hhhhhhHHHHHh----------ccCCCC---CCCCeeEEEEccccccceeEEe-ee--------ecceecCCccccCChh
Q psy4044         255 LTQIQWWSVALH----------RSSPIF---PQAPQVFVSTDASNSGWGAIVD-NH--------SLGGVWSDHQEMWHIN  312 (460)
Q Consensus       255 ~~~~~ww~~~~~----------~~~pil---~~~~~~~l~tDAS~~g~Gavl~-q~--------~~s~~~~~~e~~ys~~  312 (460)
                      ...+.| +++++          .+.|++   +++.+++++||||..|.++... |.        ++++ .+.++.| ..-
T Consensus       286 ~~~~~W-t~e~~~af~~lK~~l~~~p~L~~~Dp~kp~~~~~das~~g~~~~~~~q~~~~~~~~~~~~~-~~~~~~n-~~~  362 (424)
T d2zd1b1         286 TEVIPL-TEEAELELAENREILKEPVHGVYYDPSKDLIAEIQKQGQGQWTYQIYQEPFKNLKTGKYAR-MRGAHTN-DVK  362 (424)
T ss_dssp             TCEECC-CHHHHHHHHHHHHHTTSCCTTCCCCTTSCCEEEEEEEETTEEEEEEESSTTCEEEEEEEEC-CSSCTTC-HHH
T ss_pred             CCCccC-CHHHHHHHHHHHHHhcccccccCCCCCCCEEEEEecCCCCceEEEEEcCCCcccceEEecc-ccccccC-HHH
Confidence            122445 55443          455665   6788999999999877655443 32        2221 2334444 233


Q ss_pred             HHHHHHHHHHHHhhCCcCCCcEEEEEeCchhhHHHHhhcCCCcchhhhHHHHHHHHHHHHcCCeEEEEEeCCCCCCCCCc
Q psy4044         313 LKEMFAVRSALERKLPVLQDKVVLIQSDNQTVVSYIHKEGGTKSFKLLREVEALFDLAVRHNITLMARYIPGKFNTWADS  392 (460)
Q Consensus       313 ~~EllAi~~al~~~~~~l~g~~v~i~tD~~~l~~~l~~~~~~~~~~~~~~~r~i~~~~~~~~~~~~i~~vpg~~N~~AD~  392 (460)
                      .+++++.-.+.+.+.++..+-++.                     ...+...|...|..   + +.+.|+|.-+++.++.
T Consensus       363 ~~~~~~~k~~~e~~~~~g~~p~~~---------------------~p~~~~~w~~~~~~---~-~~~~~~p~~~~~~~~~  417 (424)
T d2zd1b1         363 QLTEAVQKITTESIVIWGKTPKFK---------------------LPIQKETWETWWTE---Y-WQATWIPEWEFVNTPP  417 (424)
T ss_dssp             HHHHHHHHHHHHHHHHHSSCCEEE---------------------ESSCHHHHHHHHHH---H-CCCSSCCEEEECCSCC
T ss_pred             HHHHHHHHHHHHHHHHhCcCccEE---------------------CCccHHHHHHHHHh---h-cccccCCCceeccCcH
Confidence            344444444444433332222221                     11233444433432   2 5568999999999999


Q ss_pred             cccC
Q psy4044         393 LSRQ  396 (460)
Q Consensus       393 LSR~  396 (460)
                      |+|.
T Consensus       418 l~~~  421 (424)
T d2zd1b1         418 LVKL  421 (424)
T ss_dssp             TTTG
T ss_pred             HHHH
Confidence            9985
>d1mu2a2 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Human immunodeficiency virus type 2 [TaxId: 11709]} Back     information, alignment and structure
>d1ztwa1 e.8.1.2 (A:24-278) MMLV reverse transcriptase {Moloney murine leukemia virus, MoMLV [TaxId: 11801]} Back     information, alignment and structure
>d1hara_ e.8.1.2 (A:) HIV-1 reverse transcriptase {Human immunodeficiency virus type 1 [TaxId: 11676]} 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
>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
>d1zbfa1 c.55.3.1 (A:62-193) BH0863-like Ribonuclease H {Bacillus halodurans [TaxId: 86665]} Back     information, alignment and structure
>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Back     information, alignment and structure
>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]} Back     information, alignment and structure