Psyllid ID: psy16039

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-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580------

MRFEVVTSRSILPLALLTIQAPENPSSCPPHRCPPCSSTLSPYLSRHTDMLCRGTRIWRSLLTRSPLGLTRPQPVATHCCLGLTGRLSASVRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELYHTNINVNDFPPNKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITLKNCTSFDFRPNDDSYGTQCRYWSLLTYIMMIVMELNAATGRYSPIS

ccEEEEEcccccccHHHcccccccccccccccccccccccHHHHHHHHHHHccccccEEEEEEEccccccccEEEEEccccccccccccEEcccccHHHHHHcccccccccccccccEEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEEEccccccccccEEEccEEEEEccccEEEEEEEcccccHHHHHHHHHHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccccccccEEEccccccccccccccHHHHHHHHHcccccccHHHHHHHHccccHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccHHHHcccccccccccccccccccccccccccccccccccccccccccccHHHHHHcHHHHccccccccEEEEEcccccccccccEEEccccEEEEEccccccccHHHHHHHHHHHHHHHccccccEEEEEccHHHHHHHHcccccHHHHHHHHHHHHHHHHccccEEEEEEcccccccHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHcccccccccccc

ccEEEEEcccHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHccccEEEEEEEEEcccccccccEEccccccccccHHHHHHHHHHcHHHHcccccccccEEEccHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHcccEEEEccccEEEEEEccccccccccEEEccEEEcccccEEEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccccHHHHcccccccccccccccccccHHHHHHHHHcccHHccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHcccccEEEEEccccccccEEEEEEEEccccccccccccHHHHHHHHHHHHHHHHHHHcccccEEEEEccHHHHHHHHccccccHHHHHHHHHHHHHHHcccEEEEEEEcccccccccHHHHHHHHHHHcccccccccccccccccHHHHHHcHHHHHHHHHHHHHHHHHHHcccccccc

mrfevvtsrsilplalltiqapenpsscpphrcppcsstlspylsrhtdMLCRGTRIWRSlltrsplgltrpqpvathcclgltgrlsasvrqtartplsradvgrdslrsaADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWSqanglifstdpqksVCVLFsrarnpsfpklyySGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSfilpifdygcvvyssgkdhilkrlnpihnagiriatgalmtspicslyvesgigplslrrDKIIMRYVSkigscpsnpahkelyhtninvndfppnkpkplcvrikdmsdflplitdsefvpftrprppwsfqvpsidfslhldnkdnippivfQQHFHdlvtnkysdsvlcftdgsktvnstscAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNliflpstnftlISDSMSALLAISnckndhplvSLVYTTWleakdcgknlnfvwcpshcgitgnelvdiaarnpitnitlknctsfdfrpnddsygtqcRYWSLLTYIMMIVMELNaatgryspis

mrfevvtsrsilplALLTIQAPENPSSCPPHRCPPCSSTLSPYLSRHTDMLCRGTRIWRSLLTrsplgltrpqpvATHCCLGLTgrlsasvrqtartplsradvgrdslrsaadrkdvirfffreekremgdkkilfRKTLDEVLKWSqanglifstdpqKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELYHTninvndfppnKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITnitlknctsfdfrpnddsYGTQCRYWSLLTYIMMIVMELNaatgryspis

MRFEVVTSRSILPLALLTIQAPENpsscpphrcppcssTLSPYLSRHTDMLCRGTRIWRSLLTRSPLGLTRPQPVATHCCLGLTGRLSASVRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELYHTNINVNDFPPNKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITLKNCTSFDFRPNDDSYGTQCRYWSLLTYIMMIVMELNAATGRYSPIS

********RSILPLALLTI*********************SPYLSRHTDMLCRGTRIWRSLLTRSPLGLTRPQPVATHCCLGLTGRLSA***************************DVIRFFFREEKREMGDKKILFRKTLDEVLKWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELYHTNINVNDFPPNKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITLKNCTSFDFRPNDDSYGTQCRYWSLLTYIMMIVMELNAAT*******

******TSRSILPLALLTIQAPE*******HRCPPCSSTLSPYLSRHTDMLCRGTRIWRSLLTRSPLGLTRP*************RLSASVRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELYHTNINVNDFPPNKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAAR*******************DDSYGTQCRYWSLLTYIMMIVMELNAATGRYS***

********RSILPLALLTIQAP*************CSSTLSPYLSRHTDMLCRGTRIWRSLLTRSPLGLTRPQPVATHCCLGLTGRLSASVRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELYHTNINVNDFPPNKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITLKNCTSFDFRPNDDSYGTQCRYWSLLTYIMMIVMELNAATGRYSPIS

*RFEVVTSRSILPLALLTIQAPENPSSCPPHRCPPCSSTLSPYLSRHTDMLCRGTRIWRSLLTRSPLGLTRPQPVATHCCLGLTGRLSASVRQTARTPLSRADVGRDSLRSAADRKDVIRFFFREEKREMGDKKILFRKTLDEVLKWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELYHTNINVNDFPPNKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNITLKNCTSFDFRPNDDSYGTQCRYWSLLTYIMMIVMELNAATGRY****

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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SSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

SSSSSSSSSSSSSSSSSSSSSSSSSoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooHHHHHHHHHHHHHHHHHHHiiiiiii

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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
Query		586	2.2.26 [Sep-21-2011]
Q9NBX4		908	Probable RNA-directed DNA	yes	N/A	0.225	0.145	0.251	1e-06
Q03269		337	Retrovirus-related Pol po	no	N/A	0.244	0.424	0.205	0.0003

>sp\|Q9NBX4\|RTXE_DROME Probable RNA-directed DNA polymerase from transposon X-element OS=Drosophila melanogaster GN=X-element\ORF2 PE=3 SV=1	Back alignment and function desciption

 Score = 55.1 bits (131), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 34/135 (25%), Positives = 64/135 (47%), Gaps = 3/135 (2%)

Query: 146 KWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWS 205
           +W++   +  ++    +VC    R R P  P +Y   V +   N+ K+LG++ D +L +S
Sbjct: 703 EWARRWNIGINSSKSNNVCFTLKR-RTP--PPVYIEEVPVPQPNAAKYLGVLLDRRLTFS 759

Query: 206 LHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDHILK 265
            H+  ++TR    +     + +    +  +  L  YK  + P + YGC ++    D  +K
Sbjct: 760 KHVTDIRTRLRAKVAKHYWLLSSRSKLSLSNKLTIYKQILAPNWKYGCQIWGLACDSHIK 819

Query: 266 RLNPIHNAGIRIATG 280
           R+  I N   R+ TG
Sbjct: 820 RIQAIQNKVARLITG 834

Drosophila melanogaster (taxid: 7227)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 4EC: 9

>sp\|Q03269\|PO11_NASVI Retrovirus-related Pol polyprotein from type-1 retrotransposable element R1 (Fragment) OS=Nasonia vitripennis PE=4 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
Query		586
125901787		1222	pol-like protein [Biomphalaria glabrata]	0.670	0.321	0.345	8e-57
427791807		1212	Putative tick transposon, partial [Rhipi	0.665	0.321	0.339	2e-51
427791321		1210	Putative tick transposon, partial [Rhipi	0.667	0.323	0.311	4e-47
427798889		1199	Putative tick transposon, partial [Rhipi	0.682	0.333	0.313	2e-45
427791063		1035	Putative tick transposon, partial [Rhipi	0.689	0.390	0.322	3e-45
427798887		1199	Putative tick transposon, partial [Rhipi	0.645	0.315	0.327	7e-44
427798885		1199	Putative tick transposon, partial [Rhipi	0.650	0.317	0.33	1e-43
427792011		1121	Putative tick transposon, partial [Rhipi	0.682	0.356	0.302	1e-41
427778603		1397	Putative tick transposon [Rhipicephalus	0.672	0.282	0.291	1e-40
427791981		1060	Putative tick transposon, partial [Rhipi	0.566	0.313	0.330	2e-38

>gi\|125901787\|gb\|ABN58714.1\| pol-like protein [Biomphalaria glabrata]	Back alignment and taxonomy information

 Score =  228 bits (581), Expect = 8e-57,   Method: Compositional matrix adjust.
 Identities = 138/400 (34%), Positives = 213/400 (53%), Gaps = 7/400 (1%)

Query: 141  LDEVLKWSQANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDS 200
            L+++  W+  NG  FS     S+     R  +P  P+L+    ++    +TKFLGL  DS
Sbjct: 686  LNKIQGWANYNGFKFSDSKTVSMHFCNLRGLHPD-PELFIHKKKIPVVKTTKFLGLTLDS 744

Query: 201  KLNWSLHINYVKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGK 260
            K N+  HI  +K +  K+LN L+++ + ++G  R  LL+ Y+S I    DYG ++Y + +
Sbjct: 745  KFNFLPHIKELKKKCQKSLNILRVLSHTDWGADRDTLLLLYRSLIRSKLDYGSIIYGAAR 804

Query: 261  DHILKRLNPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSN 320
               LK L PI NA +R+  GA  TSPI SL+VE+G  P+ +R  K+ M+Y+ K+ S P+N
Sbjct: 805  KSYLKILEPIQNAALRLCLGAFRTSPIPSLHVEAGELPMDIRMKKLAMQYIVKLKSNPTN 864

Query: 321  PAHKELYH-TNINVNDFPPNKPKPLCVRIKDMSDFLPLITDSEFVPFTRPRPPWSFQVPS 379
            PA   +++ T + + +  PN  +PL +R+++    L    D      T   PPW    P 
Sbjct: 865  PAFDSIFNPTEVELYNRRPNVIQPLGLRMREPIQNLTQPIDQISKIETPQNPPWLMNKPK 924

Query: 380  IDFSLHLDNKDNIPPIVFQQHFHDLVTNKYSDSVLCFTDGSKTVNSTSCAYSIGNQVHAF 439
            ++ SL    K+N  P + Q HF +L    Y D    +TDGSK     +CA S  N+  + 
Sbjct: 925  LNLSLLNFKKENTDPSILQVHFREL-QESYGDCGTIYTDGSKMEGKVACACSFRNKTISR 983

Query: 440  KLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNCKNDHPLV--SLVY 497
            +L    S+ ++EL AILL +  +     + F + SDS SAL A+   K D PLV  SL  
Sbjct: 984  RLPDGCSIFTAELHAILLALMAVKASERSKFIICSDSKSALQALGRMKTDIPLVHKSLKL 1043

Query: 498  TTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITN 537
               + A    +++ F+W PSH GI GNE  D  A+  + +
Sbjct: 1044 LDLITADR--RDVTFIWVPSHVGIEGNEAADREAKRALNH 1081

Source: Biomphalaria glabrata

Species: Biomphalaria glabrata

Genus: Biomphalaria

Family: Planorbidae

Order:

Class: Gastropoda

Phylum: Mollusca

Superkingdom: Eukaryota

>gi\|427791807\|gb\|JAA61355.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427791321\|gb\|JAA61112.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427798889\|gb\|JAA64896.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427791063\|gb\|JAA60983.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427798887\|gb\|JAA64895.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427798885\|gb\|JAA64894.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427792011\|gb\|JAA61457.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427778603\|gb\|JAA54753.1\| Putative tick transposon [Rhipicephalus pulchellus]	Back alignment and taxonomy information

>gi\|427791981\|gb\|JAA61442.1\| Putative tick transposon, partial [Rhipicephalus pulchellus]	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
Query		586
ASPGD\|ASPL0000055652		1054	AN0368 [Emericella nidulans (t	0.300	0.166	0.260	1.9e-07
ASPGD\|ASPL0000033911		686	AN2796 [Emericella nidulans (t	0.269	0.230	0.278	4e-06
ASPGD\|ASPL0000040226		1538	AN2661 [Emericella nidulans (t	0.242	0.092	0.281	8.6e-06
ASPGD\|ASPL0000077547		1581	AN8648 [Emericella nidulans (t	0.269	0.099	0.278	8.7e-06
ASPGD\|ASPL0000037597		666	AN2711 [Emericella nidulans (t	0.201	0.177	0.269	3.1e-05

ASPGD\|ASPL0000055652 AN0368 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

 Score = 132 (51.5 bits), Expect = 1.9e-07, Sum P(2) = 1.9e-07
 Identities = 48/184 (26%), Positives = 80/184 (43%)

Query:   152 GLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVE-LKFANSTKFLGLVWDSKLNWSLHINY 210
             GL FS +  K+    FSR +    P +   G+  +  +  T++LG++ D+KL +  HIN 
Sbjct:   616 GLPFSIE--KTEIQHFSRKQQQHLPTVTLPGIGGITPSLYTRWLGVLLDTKLTFKAHINL 673

Query:   211 VKTRAAKALNALKMVCNKNYGVRRALLLVFYKSFILPIFDYGCVVYSSGKDH---ILKRL 267
             V +   +    LK + N   G   A +      ++LP   YG  V+ +GK     +   L
Sbjct:   674 VFSHGKRLAQHLKRLSNTQRGCPVAFMRAAVIQYVLPTALYGAEVFYTGKQQKGVVNSLL 733

Query:   268 NPIHNAGIRIATGALMTSPICSLYVESGIGPLSLRRDKIIMRYVSKIGSCPSNPAHKELY 327
             +    A + I   A  T+P  +L  E+ +       + I+ R     G  P+ P   E+Y
Sbjct:   734 SLFRTAALAIIP-AYKTTPTAALLREADLPDPEALLNSILRRAAVSKGHGPAGP-RTEVY 791

Query:   328 HTNI 331
                I
Sbjct:   792 DAEI 795

GO:0005575 "cellular_component" evidence=ND

GO:0006278 "RNA-dependent DNA replication" evidence=IEA

GO:0003964 "RNA-directed DNA polymerase activity" evidence=IEA

GO:0003723 "RNA binding" evidence=IEA

GO:0004523 "ribonuclease H activity" evidence=IEA

ASPGD\|ASPL0000033911 AN2796 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000040226 AN2661 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000077547 AN8648 [Emericella nidulans (taxid:162425)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000037597 AN2711 [Emericella nidulans (taxid:162425)]	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 Level	EC number	Confidence of Prediction
3rd Layer	3.1.26	0.691
3rd Layer	3.1.26.4	LOW 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
Query		586
cd09276		128	cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI dom	1e-26
pfam00075		126	pfam00075, RNase_H, RNase H	1e-09
cd06222		123	cd06222, RNase_H, RNase H is an endonuclease that	1e-09
cd09273		135	cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase	3e-04

>gnl\|CDD\|187700 cd09276, Rnase_HI_RT_non_LTR, non-LTR RNase HI domain of reverse transcriptases	Back alignment and domain information

 Score =  105 bits (263), Expect = 1e-26
 Identities = 39/123 (31%), Positives = 59/123 (47%), Gaps = 5/123 (4%)

Query: 415 CFTDGSKTVNSTSCAYSI---GNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPS--TN 469
            +TDGSK    T   ++I   G    ++KL    SV  +EL+AIL  ++  +        
Sbjct: 2   IYTDGSKLEGRTGAGFAIVRKGTISRSYKLGPYCSVFDAELLAILEALQLALREGRRARK 61

Query: 470 FTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDI 529
            T+ SDS +AL A+ + ++  PLV  +     E  + G  +   W P H GI GNE  D 
Sbjct: 62  ITIFSDSQAALKALRSPRSSSPLVLRIRKAIRELANHGVKVRLHWVPGHSGIEGNERADR 121

Query: 530 AAR 532
            A+
Sbjct: 122 LAK 124

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

>gnl\|CDD\|215695 pfam00075, RNase_H, RNase H	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\|187697 cd09273, RNase_HI_RT_Bel, Bel/Pao family of RNase HI in long-term repeat retroelements	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		586
COG0328		154	RnhA Ribonuclease HI [DNA replication, recombinati	99.85
PRK06548		161	ribonuclease H; Provisional	99.84
PRK08719		147	ribonuclease H; Reviewed	99.83
PF00075		132	RNase_H: RNase H; InterPro: IPR002156 The RNase H	99.83
PRK00203		150	rnhA ribonuclease H; Reviewed	99.81
cd06222		130	RnaseH RNase H (RNase HI) is an endonuclease that	99.7
PRK13907		128	rnhA ribonuclease H; Provisional	99.64
KOG3752\|consensus		371		99.63
PRK07708		219	hypothetical protein; Validated	99.47
PRK07238		372	bifunctional RNase H/acid phosphatase; Provisional	99.33
cd01650		220	RT_nLTR_like RT_nLTR: Non-LTR (long terminal repea	99.28
PF13456		87	RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EH	99.21
cd01648		119	TERT TERT: Telomerase reverse transcriptase (TERT)	99.06
PF00078		214	RVT_1: Reverse transcriptase (RNA-dependent DNA po	99.04
cd01651		226	RT_G2_intron RT_G2_intron: Reverse transcriptases	98.92
cd01646		158	RT_Bac_retron_I RT_Bac_retron_I: Reverse transcrip	98.76
cd03487		214	RT_Bac_retron_II RT_Bac_retron_II: Reverse transcr	98.74
cd00304		98	RT_like RT_like: Reverse transcriptase (RT, RNA-de	98.4
cd01709		346	RT_like_1 RT_like_1: A subfamily of reverse transc	98.28
cd01645		213	RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from r	96.81
cd03714		119	RT_DIRS1 RT_DIRS1: Reverse transcriptases (RTs) oc	96.76
cd03715		210	RT_ZFREV_like RT_ZFREV_like: A subfamily of revers	95.43
KOG4768\|consensus		796		94.93
PF09004		42	DUF1891: Domain of unknown function (DUF1891); Int	91.73
cd01647		177	RT_LTR RT_LTR: Reverse transcriptases (RTs) from r	90.8
KOG1005\|consensus		888		90.78
PF05380		159	Peptidase_A17: Pao retrotransposon peptidase ; Int	81.49

>COG0328 RnhA Ribonuclease HI [DNA replication, recombination, and repair]	Back alignment and domain information

Probab=99.85  E-value=1.8e-20  Score=170.73  Aligned_cols=126  Identities=20%  Similarity=0.166  Sum_probs=102.3

Q ss_pred             ceEEEEcCCCCC--CCceeEEecC--Cee--EEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHhc
Q psy16039        412 SVLCFTDGSKTV--NSTSCAYSIG--NQV--HAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISN  485 (586)
Q Consensus       412 ~~~iytDGS~~~--~~~G~av~~~--~~~--~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~~  485 (586)
                      .+.||||||+..  |..|+|++..  +..  .+.... .+|+++||++|++.||+.+.+.+...|.|+|||++++++|..
T Consensus         3 ~v~if~DGa~~gNpG~gG~g~vl~~~~~~~~~s~~~~-~tTNNraEl~A~i~AL~~l~~~~~~~v~l~tDS~yv~~~i~~   81 (154)
T COG0328           3 KVEIFTDGACLGNPGPGGWGAVLRYGDGEKELSGGEG-RTTNNRAELRALIEALEALKELGACEVTLYTDSKYVVEGITR   81 (154)
T ss_pred             ceEEEecCccCCCCCCceEEEEEEcCCceEEEeeeee-cccChHHHHHHHHHHHHHHHhcCCceEEEEecHHHHHHHHHH
Confidence            578999999884  4477776553  222  233334 789999999999999999999889999999999999999972


Q ss_pred             C---CCCC--------c-cHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCC
Q psy16039        486 C---KNDH--------P-LVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNI  538 (586)
Q Consensus       486 ~---~~~~--------~-~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~  538 (586)
                      .   +...        | .-.++|+++.++..+...|.+.|||||+|.++||.||+||++|++..
T Consensus        82 w~~~w~~~~w~~~~~~pvkn~dl~~~~~~~~~~~~~v~~~WVkgH~g~~~NeraD~LA~~~~~~~  146 (154)
T COG0328          82 WIVKWKKNGWKTADKKPVKNKDLWEELDELLKRHELVFWEWVKGHAGHPENERADQLAREAARAA  146 (154)
T ss_pred             HHhhccccCccccccCccccHHHHHHHHHHHhhCCeEEEEEeeCCCCChHHHHHHHHHHHHHHhh
Confidence            2   1111        2 24678899999988888999999999999999999999999999765

>PRK06548 ribonuclease H; Provisional	Back alignment and domain information

>PRK08719 ribonuclease H; Reviewed	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

>PRK00203 rnhA ribonuclease H; Reviewed	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

>PRK13907 rnhA ribonuclease H; Provisional	Back alignment and domain information

>KOG3752\|consensus	Back alignment and domain information

>PRK07708 hypothetical protein; Validated	Back alignment and domain information

>PRK07238 bifunctional RNase H/acid phosphatase; Provisional	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

>PF13456 RVT_3: Reverse transcriptase-like; PDB: 3ALY_A 2EHG_A 3HST_B	Back alignment and domain information

>cd01648 TERT TERT: Telomerase reverse transcriptase (TERT)	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

>cd01651 RT_G2_intron RT_G2_intron: Reverse transcriptases (RTs) with group II intron origin	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

>cd03487 RT_Bac_retron_II RT_Bac_retron_II: Reverse transcriptases (RTs) in bacterial retrotransposons or 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

>cd01709 RT_like_1 RT_like_1: A subfamily of reverse transcriptases (RTs)	Back alignment and domain information

>cd01645 RT_Rtv RT_Rtv: Reverse transcriptases (RTs) from retroviruses (Rtvs)	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

>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

>KOG4768\|consensus	Back alignment and domain information

>PF09004 DUF1891: Domain of unknown function (DUF1891); InterPro: IPR015095 This domain is found at the extreme N terminus of eukaryotic alkylated DNA repair protein homologs	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

>KOG1005\|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

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
Query		586
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
3p1g_A		165	Xenotropic murine leukemia virus-related virus (X	2e-07
2kq2_A		147	Ribonuclease H-related protein; PSI, NESG, protein	1e-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 = 54.1 bits (129), Expect = 1e-07
 Identities = 87/596 (14%), Positives = 179/596 (30%), Gaps = 202/596 (33%)

Query: 43  YLSRHTDMLCRGTRIWRSLLTRSPLGLTRPQPVATHCCLGLTGRLSASVRQTARTPLSRA 102
           Y+ +  D L    +++      +   ++R QP           +L  ++ +     L  A
Sbjct: 112 YIEQR-DRLYNDNQVF------AKYNVSRLQPYL---------KLRQALLE-----LRPA 150

Query: 103 D---------VGRDSLRSAADRKDVIRFFFREEKREMGDK----KILFRKTLDEVLKWSQ 149
                      G+  +  A    DV   +  + + +M  K     +    + + VL+   
Sbjct: 151 KNVLIDGVLGSGKTWV--AL---DVCLSY--KVQCKMDFKIFWLNLKNCNSPETVLE--M 201

Query: 150 ANGLIFSTDPQKSVCVLFSRARNPSFPKLYYSGVELKFANSTKFLGLVWDSKLNWSLHIN 209
              L++  DP        SR+                            D   N  L I+
Sbjct: 202 LQKLLYQIDPN-----WTSRS----------------------------DHSSNIKLRIH 228

Query: 210 YVKTRAAKALNALKMVCNKNYGVRRALLL---VFYKSFILPIFDYGC-VVYSSGKDHILK 265
            ++      L  L  + +K Y     LL+   V         F+  C ++ ++    +  
Sbjct: 229 SIQAE----LRRL--LKSKPY--ENCLLVLLNVQNAK-AWNAFNLSCKILLTTRFKQVTD 279

Query: 266 RLNPIHNAGIRIATGALMTSP-----ICSLYVE----------SGIGPLSLR------RD 304
            L+      I +   ++  +P     +   Y++              P  L       RD
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRD 339

Query: 305 KIIM----RYV------SKIGSCPSN--PA-HKELYHTNINVNDFPPNKPKP---LCVRI 348
            +      ++V      + I S  +   PA +++++   ++V  FPP+   P   L +  
Sbjct: 340 GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFD-RLSV--FPPSAHIPTILLSLIW 396

Query: 349 KDMSDFLPLITDSEFVPFT---RPRPPWSFQVPSIDFSLHLDNKDNIPPIVFQQHFHDLV 405
            D+     ++  ++   ++   +     +  +PSI   L +  ++       +   H  +
Sbjct: 397 FDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLEN-------EYALHRSI 449

Query: 406 TNKYS-DSVLCFTDGSKTVNST-SCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLI 463
            + Y+        D           ++ IG+  H   +         E M +      ++
Sbjct: 450 VDHYNIPKTFDSDDLIPPYLDQYFYSH-IGH--HLKNIEH------PERMTLF----RMV 496

Query: 464 FLPSTNFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITG 523
           FL   +F                             +LE K    +    W  S  G   
Sbjct: 497 FL---DF----------------------------RFLEQKIRHDSTA--WNAS--GSIL 521

Query: 524 NELVDIAA-RNPITNITLKNCTSF--------DFRPNDDSYGTQCRYWSLLTYIMM 570
           N L  +   +  I      N   +        DF P  +      +Y  LL   +M
Sbjct: 522 NTLQQLKFYKPYIC----DNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALM 573

PyMOL of 1vt4

>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

>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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		586
2qkb_A		154	Ribonuclease H1, HS-RNAse HC, RNAse H1; RNA/DNA hy	99.87
3qio_A		150	GAG-POL polyprotein; RNAse H, inhibitor, nuclease,	99.86
3h08_A		146	RNH (ribonuclease H); RNAse H, 3D-structure, endon	99.85
3p1g_A		165	Xenotropic murine leukemia virus-related virus (X	99.84
2kq2_A		147	Ribonuclease H-related protein; PSI, NESG, protein	99.84
1jl1_A		155	Ribonuclease HI; RNAse HI, protein stability, ther	99.83
2e4l_A		158	Ribonuclease HI, RNAse HI; hydrolase, endoribonucl	99.83
1ril_A		166	Ribonuclease H; hydrolase(endoribonuclease); 2.80A	99.8
2lsn_A		165	Reverse transcriptase; RNAse H, viral protein; NMR	99.79
3u3g_D		140	Ribonuclease H, RNAse H1; hydrolase, cleave the RN	99.74
3hst_B		141	Protein RV2228C/MT2287; ribonuclease H1, RV2228C N	99.74
1mu2_A		555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	99.71
2ehg_A		149	Ribonuclease HI; RNAse HI, hyperthermophilic archa	99.69
2zd1_A		557	Reverse transcriptase/ribonuclease H; P51/P66, het	99.69
1zbf_A		142	Ribonuclease H-related protein; RNAse H, RNA/DNA h	99.18
4htu_A		134	Ribonuclease H, RNAse H; 5-chloro-2'-deoxyuridine,	98.9
3kyl_A		596	Telomerase reverse transcriptase; reverse transcri	97.74
3fsi_A		255	RT, reverse transcriptase domain; transferase/DNA	96.34
1rw3_A		455	POL polyprotein; RNA and DNA dependent DNA polymer	93.11
2zd1_A		557	Reverse transcriptase/ribonuclease H; P51/P66, het	88.81
1mu2_A		555	HIV-2 RT; HIV-2 reverse transcriptase, AIDS, polym	87.46
2zd1_B		428	P51 RT; P51/P66, hetero dimer, NNRTI, nonnucleosid	86.09

>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=99.87  E-value=7.3e-22  Score=182.82  Aligned_cols=129  Identities=19%  Similarity=0.250  Sum_probs=102.3

Q ss_pred             CCCceEEEEcCCCCCCC-----ceeEEecCCe---eEEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHH
Q psy16039        409 YSDSVLCFTDGSKTVNS-----TSCAYSIGNQ---VHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSAL  480 (586)
Q Consensus       409 ~~~~~~iytDGS~~~~~-----~G~av~~~~~---~~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al  480 (586)
                      ..+.+.||||||+..++     .|+|+++...   ..+..++..+|+++||+.|++.||+.+.+.+..+|.|+|||++++
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            34678999999987542     7889877432   244556556899999999999999999987789999999999999


Q ss_pred             HHHhcC--------CCCC---cc-HHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhccCC
Q psy16039        481 LAISNC--------KNDH---PL-VSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPITNI  538 (586)
Q Consensus       481 ~~i~~~--------~~~~---~~-~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~~~~  538 (586)
                      +.|.+.        +..+   +. -..+++.+..+.. +..|.|.|||||+|++|||.||+|||+|+..+
T Consensus        84 ~~i~~~~~~w~~~~w~~~~~~~~~n~~l~~~i~~l~~-~~~v~~~~V~~H~g~~~N~~AD~LA~~a~~~~  152 (154)
T 2qkb_A           84 NGITNWVQGWKKNGWKTSAGKEVINKEDFVALERLTQ-GMDIQWMHVPGHSGFIGNEEADRLAREGAKQS  152 (154)
T ss_dssp             HHHHTHHHHHHTTTSBCTTSSBCTTHHHHHHHHHHHT-TCEEEEEECCTTSSCHHHHHHHHHHHHHHTCC
T ss_pred             hhhhhhHHHHHhccccccCCCccccHHHHHHHHHHHc-CCceEEEEccCCCCCHhHHHHHHHHHHHHHhc
Confidence            999762        2211   22 3556677777644 56799999999999999999999999998654

PyMOL of 2qkb

>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

>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

>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

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

>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

>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

>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

>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

>3kyl_A Telomerase reverse transcriptase; reverse transcriptase; 2.70A {Tribolium castaneum} PDB: 3du5_A 3du6_A	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

>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

>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

>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_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

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		586
d1mu2a1		126	c.55.3.1 (A:430-555) HIV RNase H (Domain of revers	2e-06
d1rila_		147	c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermoph	7e-04

>d1mu2a1 c.55.3.1 (A:430-555) HIV RNase H (Domain of reverse transcriptase) {Human immunodeficiency virus type 2 [TaxId: 11709]} Length = 126	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 2 [TaxId: 11709]

 Score = 45.3 bits (106), Expect = 2e-06
 Identities = 24/124 (19%), Positives = 44/124 (35%), Gaps = 8/124 (6%)

Query: 411 DSVLCFTDGSKTVNST--SCAYSIGNQVHAFKLNKVNSVLSSELMAILLCVKNLIFLPST 468
            +   +TDGS    S      Y         K  +  +   +EL A  + + +       
Sbjct: 6   GAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLEQTTNQQAELEAFAMALTD----SGP 61

Query: 469 NFTLISDSMSALLAISNCKNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVD 528
              +I DS   +  +++   +    S +    +E     + +   W P+H GI GN+ VD
Sbjct: 62  KVNIIVDSQYVMGIVASQPTESE--SKIVNQIIEEMIKKEAIYVAWVPAHKGIGGNQEVD 119

Query: 529 IAAR 532
               
Sbjct: 120 HLVS 123

PyMOL of d1mu2a1

>d1rila_ c.55.3.1 (A:) RNase H (RNase HI) {Thermus thermophilus [TaxId: 274]} Length = 147	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
Query		586
d1mu2a1		126	HIV RNase H (Domain of reverse transcriptase) {Hum	99.88
d1jl1a_		152	RNase H (RNase HI) {Escherichia coli [TaxId: 562]}	99.83
d1rila_		147	RNase H (RNase HI) {Thermus thermophilus [TaxId: 2	99.82
d1s1ta1		110	HIV RNase H (Domain of reverse transcriptase) {Hum	99.67
d1zbfa1		132	BH0863-like Ribonuclease H {Bacillus halodurans [T	99.34
d1ztwa1		255	MMLV reverse transcriptase {Moloney murine leukemi	94.88
d1mu2a2		427	HIV-1 reverse transcriptase {Human immunodeficienc	80.59

>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

class: Alpha and beta proteins (a/b)
fold: Ribonuclease H-like motif
superfamily: Ribonuclease H-like
family: Ribonuclease H
domain: HIV RNase H (Domain of reverse transcriptase)
species: Human immunodeficiency virus type 2 [TaxId: 11709]

Probab=99.88  E-value=3.9e-23  Score=182.68  Aligned_cols=119  Identities=21%  Similarity=0.282  Sum_probs=88.5

Q ss_pred             CCceEEEEcCCCCCC--CceeEEecCC-eeEEeecCCCcchhHHHHHHHHHHHHHhhhCCCCeEEEEeCcHHHHHHHhcC
Q psy16039        410 SDSVLCFTDGSKTVN--STSCAYSIGN-QVHAFKLNKVNSVLSSELMAILLCVKNLIFLPSTNFTLISDSMSALLAISNC  486 (586)
Q Consensus       410 ~~~~~iytDGS~~~~--~~G~av~~~~-~~~~~~l~~~~tv~~AEl~AI~~AL~~a~~~~~~~i~I~sDS~~al~~i~~~  486 (586)
                      ++...+|||||+..+  ..|+|++... ......++ ..|+++||+.|++.||+..    .+++.|+|||+++++.+.+.
T Consensus         5 ~~~~t~YTDGS~~~n~~~~~~g~~~~~~~~~~~~~~-~~tnn~AEl~Ai~~al~~~----~~~i~I~tDS~~v~~~~~~~   79 (126)
T d1mu2a1           5 PGAETFYTDGSCNRQSKEGKAGYVTDRGKDKVKKLE-QTTNQQAELEAFAMALTDS----GPKVNIIVDSQYVMGIVASQ   79 (126)
T ss_dssp             TTCEEEEEEEEECTTTCCEEEEEEETTSCEEEEEES-SCCHHHHHHHHHHHHHHTS----CSEEEEEESCHHHHHHHHTC
T ss_pred             CCCcEEEEcCCCCCCCCcEEEEEEecCCCEEEEecC-CCcchHHHHHHHHHHhccC----CcceEEEechHHHHHHHhcC
Confidence            455789999997643  3566655543 33334444 4699999999999999864    67899999999999999887


Q ss_pred             CCCCccHHHHHHHHHHHHhCCCcEEEEEcCCCCCChhhHHHHHHHhhhc
Q psy16039        487 KNDHPLVSLVYTTWLEAKDCGKNLNFVWCPSHCGITGNELVDIAARNPI  535 (586)
Q Consensus       487 ~~~~~~~~~i~~~~~~l~~~~~~V~~~WVpgH~Gi~gNe~AD~lAk~a~  535 (586)
                      +..+. .......+..+ ....+|.|.|||||+|++|||.||+||++|+
T Consensus        80 ~~~~~-~~~~~~~~~~~-~~~~~v~~~wV~gH~g~~gNe~AD~LA~~ai  126 (126)
T d1mu2a1          80 PTESE-SKIVNQIIEEM-IKKEAIYVAWVPAHKGIGGNQEVDHLVSQGI  126 (126)
T ss_dssp             CSEES-CHHHHHHHHHH-HHCSEEEEEECCSSSCCTTHHHHHHHHHTTC
T ss_pred             Ccccc-chHHHHHHHHh-hhcceeEEEEEeCCCCCcchHHHHHHHHhhC
Confidence            65432 11221223333 4467999999999999999999999999985

PyMOL of d1mu2a1

>d1jl1a_ c.55.3.1 (A:) RNase H (RNase HI) {Escherichia coli [TaxId: 562]}	Back information, alignment and structure

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

>d1ztwa1 e.8.1.2 (A:24-278) MMLV reverse transcriptase {Moloney murine leukemia virus, MoMLV [TaxId: 11801]}	Back information, alignment and structure

>d1mu2a2 e.8.1.2 (A:3-429) HIV-1 reverse transcriptase {Human immunodeficiency virus type 2 [TaxId: 11709]}	Back information, alignment and structure