Citrus Sinensis ID: 003789

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-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-----

MEYIEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTPSKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKNVAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGLRVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVKSLKKEARAWFNKKNESDSSHEDVYAKASAWYHVAYHPSYWGRYKEEGMNRTHFLSFPWCIHDKLIEIKRGKQRS

cHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHcccccccccccccccEEEEEEEEcccEEEEcccEEccccccccccccccccEEEEEEEcccccccccccccccccccccHHHHHHHHHHHHHHHccEEEccEEEEEEEEcccccccccEEEEcccccccHHHHHHHcccccccccHHHHHHHHHcccccccccEEEccccEEEccccEEccccccEEEccccccccHHHHHHHHHHcccccccccEEEEEEcccccEEEEcccccccEEEcccccccccccccEEEEEcccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHcccEEcccccEEEEEEccccccccccEEEEEEccccccccccccccccccccEEEEEEEEEcccccccccEEEEEEEEcccccccccEEEEccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccHHHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHccccccccccccccccccccccccHHHHHHHHHHHcccc

cHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcccccccccccccccEEEEEEEEcccEEEEcccccccccEEEEEcccccccEEEEEEEccccccccccccccccccccccccHHHHHHHHHHHHcccEEcccEEEEEEEccHHHHcccEEEEcccccccHHHHHHHHcccHHcccHHHHHHHHHHHcccccccEEcccccEEEEccEEEcccccEEEEccccccccHHHHHHHHHHcccccccccEEEEEEcccEEEEEEccccccEEEEEcccHHcccccccEEEEEEcccccccccHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHHccEEcccccEEEEEEcccccccccEEEEEEcccccccccccccccccccEEEEEEEEEEEEccccccccEEEEEEcccHHHHHccEEEEEccccccccccccccccccccEEEEEEccccccccccccccccccccccccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHcccccccccccccccccccccccHcccccccccccHHHHHHHHHHHHHccccccHcccccHHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHcccccHEEEEEHHHHcccccccccccHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccHHHHHHHccccccccccccHHHHHHHHHHHHHHccccc

MEYIEHALETLFHLRECCYEPVRWLEEQYRKYVLSrrfltspavalddglIYVNKVLvtpskvyfsgpeislsnrvvrsypdeidnflrlsfvdedlDKLYSTVLSplisstneerHTTIYERVLSTLRngivigdkKFETLAFSnsqvkdnsmwmfasrpeltaADIRESMGDFRDIKNVAKYAARLgqsfgssrealhvdssdieiipdveveddgitycfSDGIGKISAELAEIVAKncgftiytpsafqiryggykgvvavdptsstkLSLRKSMLKyksestsldilanskyqpcflNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRammgcldetgtlesgqVFVQCSASRRREfldnscnnrsgelgvvEGKVvvaknpclhpgdmrvlravdvpslhhmvdcvvfpakgkrphtnecsgsdldgdvyfvcwdhelipplqfppmdytpapekvlarDMTIEDVEEYFADYIVNDSLGVICNAHVvhadlepdkarsNQCLELAKLSTIAVdfsktgvaatipsglrveiypdfmekqdkTCYESQRVIGKLYRAvkdiapptatiKSFTKEVAMqsydtdmevdgfEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVKSLKKEARAWFnkknesdsshedVYAKASAWYHvayhpsywgrykeegmnrthflsfpwcihdKLIEikrgkqrs

MEYIEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSpavalddglIYVNKVLVTPSkvyfsgpeislsnrvvrSYPDEIDNFLRLSFVDEDLDKLYSTVLsplisstneerhTTIYERVLSTLRNGIVIGDKKFETLAFSnsqvkdnsmwMFASRPELTAADIRESMGDFRDIKNVAKYAARLGqsfgssrealhvdssDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREfldnscnnrsgelgvvegKVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLStiavdfsktgvaatipsglrvEIYPDFMEKQDKTCYESQRVIGKLyravkdiapptatiksftkEVAMQSYDTDMEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVKSLKKEARAWfnkknesdsshedVYAKASAWYHVAYHPSYWGRYKEEGMNRTHFLSFPWCIHDKLIEikrgkqrs

MEYIEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTPSKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKNVAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSgelgvvegkvvvAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGLRVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVKSLKKEARAWFNKKNESDSSHEDVYAKASAWYHVAYHPSYWGRYKEEGMNRTHFLSFPWCIHDKLIEIKRGKQRS

**YIEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTPSKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKNVAKYAARLGQSFG***EALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKGVVAVDP********************SLDILANSKYQPCFLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKR**TNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGLRVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVKSLKKEARAWFN**********DVYAKASAWYHVAYHPSYWGRYKEEGMNRTHFLSFPWCIHDKLIEI*******

MEYIEHALETLFHLRECCYEPVRWLEEQYRKYV************L*DGLIYVNKVLVTPSKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNS*VKDNSMWMFASRPELTAADIRESMGDFRDIKNVAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPP****************IEDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDF****************IYP*FMEKQ****YESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIM****************FAVKSLKKEARAWFNK*********DVYAKASAWYHVAYHPSYW**********THFLSFPWCIHDKLIE*KRG****

MEYIEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTPSKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKNVAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGLRVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVKSLKKEARAWFN***********VYAKASAWYHVAYHPSYWGRYKEEGMNRTHFLSFPWCIHDKLIEIKRGKQRS

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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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		795	2.2.26 [Sep-21-2011]
Q9LQV2		1107	RNA-dependent RNA polymer	yes	no	0.966	0.693	0.653	0.0
Q0DXS3		740	Probable RNA-dependent RN	yes	no	0.899	0.966	0.624	0.0
O82504		1133	RNA-dependent RNA polymer	no	no	0.961	0.674	0.446	0.0
Q7XM31		1136	Probable RNA-dependent RN	yes	no	0.966	0.676	0.432	0.0
Q9SG02		1196	RNA-dependent RNA polymer	no	no	0.913	0.607	0.422	1e-157
Q8LHH9		1218	Probable RNA-dependent RN	no	no	0.913	0.596	0.403	1e-154
O14227		1215	RNA-dependent RNA polymer	yes	no	0.893	0.584	0.309	1e-93
O82188		977	Probable RNA-dependent RN	no	no	0.623	0.507	0.242	6e-19
O82190		992	Probable RNA-dependent RN	no	no	0.680	0.545	0.227	2e-17
O82189		927	Probable RNA-dependent RN	no	no	0.594	0.510	0.231	5e-16

>sp\|Q9LQV2\|RDR1_ARATH RNA-dependent RNA polymerase 1 OS=Arabidopsis thaliana GN=RDR1 PE=2 SV=1	Back alignment and function desciption

 Score = 1042 bits (2694), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 514/787 (65%), Positives = 613/787 (77%), Gaps = 19/787 (2%)

Query: 4    IEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTPSKV 63
            I+H LE LFHL ECCYEP  WL ++Y+K++   +   SP ++LDDGL+Y+ +V VTP++V
Sbjct: 318  IDHCLEKLFHLGECCYEPAHWLRDEYKKWISKGKLPLSPTISLDDGLVYMYRVQVTPARV 377

Query: 64   YFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYER 123
            YFSGPE+++SNRV+R Y   I+NFLR+SFVDEDL+K+ S  LSP  S+   +R T +Y+R
Sbjct: 378  YFSGPEVNVSNRVLRHYSKYINNFLRVSFVDEDLEKVRSMDLSPRSST---QRRTKLYDR 434

Query: 124  VLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKNVAK 183
            + S LR+GIVIGDKKFE LAFS+SQ+++NS WMFA    +TAA IR  MGDF  I+NVAK
Sbjct: 435  IYSVLRDGIVIGDKKFEFLAFSSSQLRENSAWMFAPIDRITAAHIRAWMGDFDHIRNVAK 494

Query: 184  YAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCG 243
            YAARLGQSF SSRE L+V S +IE+IPDVE+   G  Y FSDGIGKISAE A  VA+ CG
Sbjct: 495  YAARLGQSFSSSRETLNVRSDEIEVIPDVEIISLGTRYVFSDGIGKISAEFARKVARKCG 554

Query: 244  FTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLN 303
             T ++PSAFQIRYGGYKGVVAVDP SS KLSLRKSM K++SE+T LD+LA SKYQPC++N
Sbjct: 555  LTEFSPSAFQIRYGGYKGVVAVDPNSSKKLSLRKSMSKFESENTKLDVLAWSKYQPCYMN 614

Query: 304  RQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMC 363
            RQLITLLSTLG+ D VFEKKQRE V +LDAILT PL+AHEAL LM+ GENTN+LK L++C
Sbjct: 615  RQLITLLSTLGVTDSVFEKKQREVVDRLDAILTHPLEAHEALGLMAPGENTNILKALILC 674

Query: 364  GYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSA 423
            GYKPD EPFL MMLQ FRAS LLELRT+TRIFI  GR+MMGCLDET TLE GQV VQ S 
Sbjct: 675  GYKPDAEPFLSMMLQNFRASKLLELRTKTRIFISGGRSMMGCLDETRTLEYGQVVVQYSD 734

Query: 424  SRRREFLDNSCNNRSGELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPA 483
                         R G   ++ G VVVAKNPCLHPGD+RVL+AV+VP+L+HMVDCVVFP 
Sbjct: 735  PM-----------RPGRRFIITGPVVVAKNPCLHPGDVRVLQAVNVPALNHMVDCVVFPQ 783

Query: 484  KGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEEYF 543
            KG RPH NECSGSDLDGD+YFVCWD EL+PP    PMDYTP P ++L  D+TIE+VEEYF
Sbjct: 784  KGLRPHPNECSGSDLDGDIYFVCWDQELVPPRTSEPMDYTPEPTQILDHDVTIEEVEEYF 843

Query: 544  ADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGLRV 603
            A+YIVNDSLG+I NAH   AD EP KA S+ C+ELAK  + AVDF KTGVAA IP  L V
Sbjct: 844  ANYIVNDSLGIIANAHTAFADKEPLKAFSDPCIELAKKFSTAVDFPKTGVAAVIPQHLYV 903

Query: 604  EIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDGFE 663
            + YPDFMEK DK  YES+ VIGKL+R VK+ APP  +IKSFT +VA +SYD DMEVDGFE
Sbjct: 904  KEYPDFMEKPDKPTYESKNVIGKLFREVKERAPPLISIKSFTLDVASKSYDKDMEVDGFE 963

Query: 664  DYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVKSL 723
            +Y+ +AF  K  YD +LGNLMDYYGIKTEAEILSG IM M+KSF K+RD E+I  AV++L
Sbjct: 964  EYVDEAFYQKANYDFKLGNLMDYYGIKTEAEILSGGIMRMSKSFTKRRDAESIGRAVRAL 1023

Query: 724  KKEARAWFNKKNESDSSHEDVYAKASAWYHVAYHPSYWGRYKEEGMNRTHFLSFPWCIHD 783
            +KE  + FN   E ++      AKASAWYHV YH SYWG Y  EG+NR HFLSF WC++D
Sbjct: 1024 RKETLSLFNASEEEENES----AKASAWYHVTYHSSYWGLYN-EGLNRDHFLSFAWCVYD 1078

Query: 784  KLIEIKR 790
            KL+ IK+
Sbjct: 1079 KLVRIKK 1085

RNA-dependent direct polymerase involved in antiviral silencing. Required for the production of some small RNAs (mainly 21 and some 22 nucleotides) derived from the crucifer-infecting tobamovirus (TMV-cg). Required for turnip mosaic virus (TuMV) silencing and accumulation of viral siRNAs. Involved in cucumber mosaic virus (CMV) silencing. Required for the biogenesis of viral secondary siRNAs, process that follows the production of primary siRNAs derived from viral RNA replication. Specifically targets the positive-strand of the 3 RNA genomes of CMV and preferentially amplifies the 5'-terminal siRNAs of each viral genomic RNA. Not involved in the production of siRNAs derived from a single-stranded 336-nucleotide satellite RNA of CMV.
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 4EC: 8

>sp\|Q0DXS3\|RDR1_ORYSJ Probable RNA-dependent RNA polymerase 1 OS=Oryza sativa subsp. japonica GN=RDR1 PE=2 SV=2	Back alignment and function description

>sp\|O82504\|RDR2_ARATH RNA-dependent RNA polymerase 2 OS=Arabidopsis thaliana GN=RDR2 PE=3 SV=1	Back alignment and function description

>sp\|Q7XM31\|RDR2_ORYSJ Probable RNA-dependent RNA polymerase 2 OS=Oryza sativa subsp. japonica GN=RDR2 PE=2 SV=1	Back alignment and function description

>sp\|Q9SG02\|RDR6_ARATH RNA-dependent RNA polymerase 6 OS=Arabidopsis thaliana GN=RDR6 PE=1 SV=1	Back alignment and function description

>sp\|Q8LHH9\|SHL2_ORYSJ Probable RNA-dependent RNA polymerase SHL2 OS=Oryza sativa subsp. japonica GN=SHL2 PE=2 SV=1	Back alignment and function description

>sp\|O14227\|RDR1_SCHPO RNA-dependent RNA polymerase 1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=rdr1 PE=1 SV=1	Back alignment and function description

>sp\|O82188\|RDR5_ARATH Probable RNA-dependent RNA polymerase 5 OS=Arabidopsis thaliana GN=RDR5 PE=2 SV=2	Back alignment and function description

>sp\|O82190\|RDR3_ARATH Probable RNA-dependent RNA polymerase 3 OS=Arabidopsis thaliana GN=RDR3 PE=3 SV=2	Back alignment and function description

>sp\|O82189\|RDR4_ARATH Probable RNA-dependent RNA polymerase 4 OS=Arabidopsis thaliana GN=RDR4 PE=3 SV=2	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		795
225424397		1121	PREDICTED: RNA-dependent RNA polymerase	0.991	0.702	0.696	0.0
224111420		1102	rna-dependent RNA polymerase [Populus tr	0.988	0.713	0.676	0.0
224099569		1139	rna-dependent RNA polymerase [Populus tr	0.982	0.685	0.680	0.0
224099571		1133	rna-dependent RNA polymerase [Populus tr	0.988	0.693	0.697	0.0
225424395		1109	PREDICTED: RNA-dependent RNA polymerase	0.991	0.710	0.686	0.0
157152684		1117	RNA-dependent RNA polymerase [Nicotiana	0.986	0.701	0.672	0.0
449457379		1130	PREDICTED: RNA-dependent RNA polymerase	0.987	0.694	0.670	0.0
350537951		1114	RNA-directed RNA polymerase [Solanum lyc	0.984	0.702	0.673	0.0
4138282		1116	RNA-directed RNA polymerase [Nicotiana t	0.986	0.702	0.669	0.0
146762448		1110	RNA-dependent RNA polymerase [Gossypium	0.968	0.693	0.670	0.0

>gi\|225424397\|ref\|XP_002284914.1\| PREDICTED: RNA-dependent RNA polymerase 1 [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1144 bits (2959), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 555/797 (69%), Positives = 647/797 (81%), Gaps = 9/797 (1%)

Query: 1    MEYIEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTP 60
            + +IEHALE L+HL+ECCYEPVRWL EQYR YV  +    SPA++LD GL+YV +V +TP
Sbjct: 307  ISFIEHALEKLYHLKECCYEPVRWLSEQYRTYV-KKPVAGSPAISLDTGLVYVRRVQITP 365

Query: 61   SKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTI 120
             KVYF GPE+++SNRV+R+YP++IDNFLR+SF+DE+L+K++STV+SP +S   E R T +
Sbjct: 366  CKVYFCGPEVNVSNRVLRNYPEDIDNFLRVSFLDENLEKIHSTVISPRMS--KEGRRTGV 423

Query: 121  YERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKN 180
            Y R+LS L+NGIVIGDKKF+ LAFS+SQ++DNS WMFASRP LTAA+IR  MGDF  I+N
Sbjct: 424  YRRILSILQNGIVIGDKKFDFLAFSSSQLRDNSAWMFASRPGLTAAEIRSWMGDFSQIRN 483

Query: 181  VAKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAK 240
            VAKYAARLGQSF SS+E L V   +IE IPD+E+     TY FSDGIGKIS +LA  VA 
Sbjct: 484  VAKYAARLGQSFSSSKETLKVAKDEIENIPDIEIHKGRTTYVFSDGIGKISPQLAHRVAI 543

Query: 241  NCGFTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPC 300
             CG    TPSAFQIRYGGYKGVVAVDPTSS KLSLRKSM KY+S++T+LD+LA SKYQP 
Sbjct: 544  KCGCKSSTPSAFQIRYGGYKGVVAVDPTSSRKLSLRKSMFKYESDNTNLDVLAWSKYQPS 603

Query: 301  FLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKEL 360
            FLNRQLITLLSTLG++DHVFEKKQR  V QLD IL DP+ A EALELMS GENTNVLKE+
Sbjct: 604  FLNRQLITLLSTLGVKDHVFEKKQRAAVDQLDTILKDPVAAQEALELMSPGENTNVLKEM 663

Query: 361  LMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQ 420
            LMCGYKPD EPFL MMLQTFRA+ LLELRT+TRIF+ NGR+MMGCLDET TLE G+VFVQ
Sbjct: 664  LMCGYKPDAEPFLSMMLQTFRAAKLLELRTKTRIFVPNGRSMMGCLDETRTLEYGEVFVQ 723

Query: 421  CSASRRREFLDNSCNNRSG----ELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHHMV 476
             S +  R+   +S   R      +  ++EGK+VVAKNPCLHPGD+RVL AV+VP+LHHMV
Sbjct: 724  ISGTGGRQSFGDSLMFRGSGSHHDNFILEGKIVVAKNPCLHPGDVRVLWAVNVPTLHHMV 783

Query: 477  DCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTI 536
            DCVVFP KGKRPH NECSGSDLDGD+YFVCWD +LIPP Q  PMDYTPAP KVL  D+ I
Sbjct: 784  DCVVFPQKGKRPHPNECSGSDLDGDIYFVCWDRDLIPPQQINPMDYTPAPTKVLDHDVMI 843

Query: 537  EDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAAT 596
            E+VEEYF +YIVNDSLG+I NAH V AD E DKA  + C ELAKL +IAVDF KTGV A 
Sbjct: 844  EEVEEYFTNYIVNDSLGIIANAHTVFADKEYDKAYCDPCTELAKLFSIAVDFPKTGVPAE 903

Query: 597  IPSGLRVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTD 656
            IP  LRV+ YPDFMEK DK  YESQ VIGKL+R VKDIAP    I+SFT++VA QSYD D
Sbjct: 904  IPRNLRVKEYPDFMEKADKPTYESQSVIGKLFREVKDIAPHNCNIRSFTRDVARQSYDPD 963

Query: 657  MEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAI 716
            MEV GFEDY++DAF YK+EYD +LGNLMDYYGIKTE+EILSG IM M+KSFD+++D EAI
Sbjct: 964  MEVVGFEDYVSDAFYYKSEYDYKLGNLMDYYGIKTESEILSGSIMRMSKSFDRRKDAEAI 1023

Query: 717  IFAVKSLKKEARAWFNK-KNESDSSHEDVYAKASAWYHVAYHPSYWGRYKEEGMNRTHFL 775
              AVKSL+KEAR WFNK  +E+DS  +DVYAKASAWYHV YHP YWG Y  EGM+R HFL
Sbjct: 1024 GLAVKSLRKEARTWFNKMGSETDSEADDVYAKASAWYHVTYHPDYWGCYN-EGMDRDHFL 1082

Query: 776  SFPWCIHDKLIEIKRGK 792
            SFPWC++DKLI  KR K
Sbjct: 1083 SFPWCVYDKLIHTKRKK 1099

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|224111420\|ref\|XP_002315849.1\| rna-dependent RNA polymerase [Populus trichocarpa] gi\|222864889\|gb\|EEF02020.1\| rna-dependent RNA polymerase [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224099569\|ref\|XP_002311535.1\| rna-dependent RNA polymerase [Populus trichocarpa] gi\|222851355\|gb\|EEE88902.1\| rna-dependent RNA polymerase [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|224099571\|ref\|XP_002311536.1\| rna-dependent RNA polymerase [Populus trichocarpa] gi\|222851356\|gb\|EEE88903.1\| rna-dependent RNA polymerase [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|225424395\|ref\|XP_002281315.1\| PREDICTED: RNA-dependent RNA polymerase 1-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|157152684\|gb\|ABV24845.1\| RNA-dependent RNA polymerase [Nicotiana glutinosa] gi\|209420668\|gb\|ACI46982.1\| RNA-dependent RNA polymerase [Nicotiana glutinosa]	Back alignment and taxonomy information

>gi\|449457379\|ref\|XP_004146426.1\| PREDICTED: RNA-dependent RNA polymerase 1-like [Cucumis sativus] gi\|449491619\|ref\|XP_004158954.1\| PREDICTED: RNA-dependent RNA polymerase 1-like [Cucumis sativus] gi\|316989899\|gb\|ADU77015.1\| RNA-dependent RNA polymerase 1a [Cucumis sativus]	Back alignment and taxonomy information

>gi\|350537951\|ref\|NP_001234319.1\| RNA-directed RNA polymerase [Solanum lycopersicum] gi\|4038592\|emb\|CAA71421.1\| RNA-directed RNA polymerase [Solanum lycopersicum]	Back alignment and taxonomy information

>gi\|4138282\|emb\|CAA09697.1\| RNA-directed RNA polymerase [Nicotiana tabacum]	Back alignment and taxonomy information

>gi\|146762448\|gb\|ABQ45352.1\| RNA-dependent RNA polymerase [Gossypium hirsutum]	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		795
TAIR\|locus:2006822		1107	RDR1 "AT1G14790" [Arabidopsis	0.963	0.691	0.650	1.2e-271
TAIR\|locus:2136068		1133	RDR2 "RNA-dependent RNA polyme	0.959	0.673	0.44	4.5e-169
TAIR\|locus:2114633		1196	RDR6 "AT3G49500" [Arabidopsis	0.971	0.645	0.406	1.7e-146
UNIPROTKB\|Q8LHH9		1218	SHL2 "Probable RNA-dependent R	0.920	0.600	0.401	1.1e-140
UNIPROTKB\|G4NJ50		1407	MGG_02748 "RNA-dependent RNA p	0.793	0.448	0.361	7.7e-102
WB\|WBGene00004510		1765	rrf-3 [Caenorhabditis elegans	0.815	0.367	0.325	8.8e-84
POMBASE\|SPAC6F12.09		1215	rdp1 "RNA-directed RNA polymer	0.797	0.521	0.311	1.7e-81
WB\|WBGene00004508		1601	rrf-1 [Caenorhabditis elegans	0.583	0.289	0.313	1.9e-68
WB\|WBGene00004509		1579	rrf-2 [Caenorhabditis elegans	0.547	0.275	0.318	2.9e-66
ASPGD\|ASPL0000040001		1203	rrpC [Emericella nidulans (tax	0.672	0.444	0.305	4.6e-63

TAIR\|locus:2006822 RDR1 "AT1G14790" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2612 (924.5 bits), Expect = 1.2e-271, P = 1.2e-271
 Identities = 513/789 (65%), Positives = 610/789 (77%)

Query:     4 IEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTPSKV 63
             I+H LE LFHL ECCYEP  WL ++Y+K++   +   SP ++LDDGL+Y+ +V VTP++V
Sbjct:   318 IDHCLEKLFHLGECCYEPAHWLRDEYKKWISKGKLPLSPTISLDDGLVYMYRVQVTPARV 377

Query:    64 YFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYER 123
             YFSGPE+++SNRV+R Y   I+NFLR+SFVDEDL+K+ S  LSP  SST  +R T +Y+R
Sbjct:   378 YFSGPEVNVSNRVLRHYSKYINNFLRVSFVDEDLEKVRSMDLSPR-SST--QRRTKLYDR 434

Query:   124 VLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKNVAK 183
             + S LR+GIVIGDKKFE LAFS+SQ+++NS WMFA    +TAA IR  MGDF  I+NVAK
Sbjct:   435 IYSVLRDGIVIGDKKFEFLAFSSSQLRENSAWMFAPIDRITAAHIRAWMGDFDHIRNVAK 494

Query:   184 YAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKNCG 243
             YAARLGQSF SSRE L+V S +IE+IPDVE+   G  Y FSDGIGKISAE A  VA+ CG
Sbjct:   495 YAARLGQSFSSSRETLNVRSDEIEVIPDVEIISLGTRYVFSDGIGKISAEFARKVARKCG 554

Query:   244 FTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLN 303
              T ++PSAFQIRYGGYKGVVAVDP SS KLSLRKSM K++SE+T LD+LA SKYQPC++N
Sbjct:   555 LTEFSPSAFQIRYGGYKGVVAVDPNSSKKLSLRKSMSKFESENTKLDVLAWSKYQPCYMN 614

Query:   304 RQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNVLKELLMC 363
             RQLITLLSTLG+ D VFEKKQRE V +LDAILT PL+AHEAL LM+ GENTN+LK L++C
Sbjct:   615 RQLITLLSTLGVTDSVFEKKQREVVDRLDAILTHPLEAHEALGLMAPGENTNILKALILC 674

Query:   364 GYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSA 423
             GYKPD EPFL MMLQ FRAS LLELRT+TRIFI  GR+MMGCLDET TLE GQV VQ S 
Sbjct:   675 GYKPDAEPFLSMMLQNFRASKLLELRTKTRIFISGGRSMMGCLDETRTLEYGQVVVQYSD 734

Query:   424 SRR--REFLDNSCNNRSXXXXXXXXXXXXAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVF 481
               R  R F+                    AKNPCLHPGD+RVL+AV+VP+L+HMVDCVVF
Sbjct:   735 PMRPGRRFI-------------ITGPVVVAKNPCLHPGDVRVLQAVNVPALNHMVDCVVF 781

Query:   482 PAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEE 541
             P KG RPH NECSGSDLDGD+YFVCWD EL+PP    PMDYTP P ++L  D+TIE+VEE
Sbjct:   782 PQKGLRPHPNECSGSDLDGDIYFVCWDQELVPPRTSEPMDYTPEPTQILDHDVTIEEVEE 841

Query:   542 YFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGL 601
             YFA+YIVNDSLG+I NAH   AD EP KA S+ C+ELAK  + AVDF KTGVAA IP  L
Sbjct:   842 YFANYIVNDSLGIIANAHTAFADKEPLKAFSDPCIELAKKFSTAVDFPKTGVAAVIPQHL 901

Query:   602 RVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTDMEVDG 661
              V+ YPDFMEK DK  YES+ VIGKL+R VK+ APP  +IKSFT +VA +SYD DMEVDG
Sbjct:   902 YVKEYPDFMEKPDKPTYESKNVIGKLFREVKERAPPLISIKSFTLDVASKSYDKDMEVDG 961

Query:   662 FEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAIIFAVK 721
             FE+Y+ +AF  K  YD +LGNLMDYYGIKTEAEILSG IM M+KSF K+RD E+I  AV+
Sbjct:   962 FEEYVDEAFYQKANYDFKLGNLMDYYGIKTEAEILSGGIMRMSKSFTKRRDAESIGRAVR 1021

Query:   722 SLKKEARAWFNKKNESDSSHEDVYAKASAWYHVAYHPSYWGRYKEEGMNRTHFLSFPWCI 781
             +L+KE  + FN   E ++      AKASAWYHV YH SYWG Y E G+NR HFLSF WC+
Sbjct:  1022 ALRKETLSLFNASEEEENES----AKASAWYHVTYHSSYWGLYNE-GLNRDHFLSFAWCV 1076

Query:   782 HDKLIEIKR 790
             +DKL+ IK+
Sbjct:  1077 YDKLVRIKK 1085

GO:0003676 "nucleic acid binding" evidence=ISS

GO:0003968 "RNA-directed RNA polymerase activity" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM

GO:0016441 "posttranscriptional gene silencing" evidence=ISS

GO:0009615 "response to virus" evidence=IMP

GO:0009751 "response to salicylic acid stimulus" evidence=IEP

GO:0060148 "positive regulation of posttranscriptional gene silencing" evidence=IMP

GO:0000165 "MAPK cascade" evidence=RCA

GO:0006355 "regulation of transcription, DNA-dependent" evidence=RCA

GO:0006612 "protein targeting to membrane" evidence=RCA

GO:0009617 "response to bacterium" evidence=RCA

GO:0009862 "systemic acquired resistance, salicylic acid mediated signaling pathway" evidence=RCA

GO:0009867 "jasmonic acid mediated signaling pathway" evidence=RCA

GO:0010310 "regulation of hydrogen peroxide metabolic process" evidence=RCA

GO:0010363 "regulation of plant-type hypersensitive response" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0035304 "regulation of protein dephosphorylation" evidence=RCA

GO:0010025 "wax biosynthetic process" evidence=IGI

TAIR\|locus:2136068 RDR2 "RNA-dependent RNA polymerase 2" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2114633 RDR6 "AT3G49500" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

UNIPROTKB\|Q8LHH9 SHL2 "Probable RNA-dependent RNA polymerase SHL2" [Oryza sativa Japonica Group (taxid:39947)]	Back alignment and assigned GO terms

UNIPROTKB\|G4NJ50 MGG_02748 "RNA-dependent RNA polymerase 1" [Magnaporthe oryzae 70-15 (taxid:242507)]	Back alignment and assigned GO terms

WB\|WBGene00004510 rrf-3 [Caenorhabditis elegans (taxid:6239)]	Back alignment and assigned GO terms

POMBASE\|SPAC6F12.09 rdp1 "RNA-directed RNA polymerase Rdp1" [Schizosaccharomyces pombe (taxid:4896)]	Back alignment and assigned GO terms

WB\|WBGene00004508 rrf-1 [Caenorhabditis elegans (taxid:6239)]	Back alignment and assigned GO terms

WB\|WBGene00004509 rrf-2 [Caenorhabditis elegans (taxid:6239)]	Back alignment and assigned GO terms

ASPGD\|ASPL0000040001 rrpC [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

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q9LQV2	RDR1_ARATH	2, ., 7, ., 7, ., 4, 8	0.6531	0.9660	0.6937	yes	no
Q0DXS3	RDR1_ORYSJ	2, ., 7, ., 7, ., 4, 8	0.6244	0.8993	0.9662	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	RDR901	rna-dependent RNA polymerase (1077 aa)
		(Populus trichocarpa)
Predicted Functional Partners:
	DCL904	dicer-like protein (1492 aa)	•	0.683
	DCL905	dicer-like protein (1588 aa)	•	0.683
	DCL901	dicer-like protein (1408 aa)	•	0.683
	DCL903	dicer-like protein (1468 aa)	•	0.683
	DCL902	dicer-like protein (1817 aa)	•	0.683

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Alignment Graph	Length	Definition	E-value
Query		795
pfam05183		508	pfam05183, RdRP, RNA dependent RNA polymerase	1e-166

>gnl\|CDD\|218483 pfam05183, RdRP, RNA dependent RNA polymerase	Back alignment and domain information

 Score =  490 bits (1264), Expect = e-166
 Identities = 235/580 (40%), Positives = 321/580 (55%), Gaps = 85/580 (14%)

Query: 61  SKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTI 120
           ++V    PE+  SNRV+R Y    D FLR+ F DEDL    S                 +
Sbjct: 1   TRVILELPELERSNRVLRKYG-AADRFLRVKFPDEDLSGAISN-------------DEDV 46

Query: 121 YERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDIKN 180
            +RV   L+NGI+IGD+    LAFSNSQ++++S W FA    LTA DIR  +GDF +I+ 
Sbjct: 47  GDRVKRVLKNGIIIGDR---YLAFSNSQLREHSAWFFAE-DRLTAEDIRNWLGDFENIEQ 102

Query: 181 V-AKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVA 239
           V AKYAAR+GQ F ++R    +    IE IPD+   +    Y F+DG+GKIS +LA  +A
Sbjct: 103 VPAKYAARIGQCFSTTRPTTGIRIRKIERIPDIPERNG---YIFTDGVGKISRDLARKIA 159

Query: 240 KNCGFTIYTPSAFQIRYGGYKGVVAVDPT-SSTKLSLRKSMLKYK----SESTSLDILAN 294
              G     PSA+QIR+GGYKGV+ VDP     ++ +R SMLK+     +   SL+I+ +
Sbjct: 160 DELGTLEEDPSAYQIRFGGYKGVLVVDPDLPGNEIHIRPSMLKFDLLGDAAVNSLEIIRS 219

Query: 295 SKYQPCFLNRQLITLLSTLGIRDHVFEKKQREGVAQLDAILTDPLKAHEALELMSSGENT 354
           SK  P +LNRQLIT+LSTLG+ D VF +  RE + +L   LTD  +A + L      +  
Sbjct: 220 SKPTPAYLNRQLITVLSTLGVPDEVFIELLREALKELAEALTDWDQALDLL-----RKQA 274

Query: 355 NVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLES 414
           +     L   + P  +PFL  +L+      L +L+ + RI +    A+ G +DETG L+ 
Sbjct: 275 DENDFTLTLRFMPSEDPFLRKLLRALVKHTLKKLKEKLRIPVPKSAALFGVVDETGVLKE 334

Query: 415 GQVFVQCSASRRREFLDNSCNNRSGELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHH 474
           G+VFVQ S             N  G+   +EG V+VA+NPCLHPGD+RV+RAVDVP L H
Sbjct: 335 GEVFVQVSDG-----------NDGGQYEYLEGDVLVARNPCLHPGDIRVVRAVDVPELRH 383

Query: 475 MVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDM 534
           + D VVFP+KG RP  +E SG DLDGD+YFVCWD +L                       
Sbjct: 384 LKDVVVFPSKGDRPLASELSGGDLDGDIYFVCWDPDL----------------------- 420

Query: 535 TIEDVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVA 594
                            LG I N+H+  AD  P+     +CL LAKL + AVD+ KTG+ 
Sbjct: 421 -----------------LGRISNSHLAIAD--PEGVGDPECLRLAKLHSQAVDYPKTGLP 461

Query: 595 ATIPSGLRVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDI 634
             +   LR + +PDFMEK +   Y+S R++GKLYR+V   
Sbjct: 462 VEMKRLLRPKEWPDFMEKDEGKSYKSTRILGKLYRSVLAN 501

This family of proteins are eukaryotic RNA dependent RNA polymerases. These proteins are involved in post transcriptional gene silencing where they are thought to amplify dsRNA templates. Length = 508

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		795
KOG0988		1145	consensus RNA-directed RNA polymerase QDE-1 requir	100.0
PF05183		579	RdRP: RNA dependent RNA polymerase; InterPro: IPR0	100.0

>KOG0988 consensus RNA-directed RNA polymerase QDE-1 required for posttranscriptional gene silencing and RNA interference [RNA processing and modification]	Back alignment and domain information

Probab=100.00  E-value=8.8e-172  Score=1490.70  Aligned_cols=761  Identities=43%  Similarity=0.655  Sum_probs=666.8

Q ss_pred             HHHHHHHHhhhccccccchhHHHHHHHHHHHhhcccCCCCccccCCCcEEEEEEEEecCceeecCccccccCccccccCC
Q 003789            3 YIEHALETLFHLRECCYEPVRWLEEQYRKYVLSRRFLTSPAVALDDGLIYVNKVLVTPSKVYFSGPEISLSNRVVRSYPD   82 (795)
Q Consensus         3 ~~~~~l~~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~v~vTPt~i~~~~P~~~~sNRvlR~f~~   82 (795)
                      .+++.||+|.++..+||||+.+.+..+.....+.+  .....++.+|+..|++|.|||||+|+.+||++++|||+|+|..
T Consensus       346 v~~a~LekL~~~~~~cfd~~~~~k~i~~~~~~ng~--~~~~~~~~~g~~~vrk~v~TPtrv~~~~PE~~~gNRVlR~f~~  423 (1145)
T KOG0988|consen  346 VLEAKLEKLLKLSTKCFDPYCQYKKIAKLNPSNGK--LVTTKEIMEGLRRVRKVVFTPTRVYLLAPEVEMGNRVLRKFDK  423 (1145)
T ss_pred             HHHHHHHHHhhhhhhhhhHHHHHHHHHHHhcccCc--cccchhhhhcceeEEEEEEcCceeEecCchhhhcchhheeccc
Confidence            47888999999999999999999998876655555  2345678899999999999999999999999999999999999


Q ss_pred             CCCcEEEEEEeeCCCccccccccCCCccCCcchhhhHHHHHHHHHHhcCeEEcceeEEEeeecCCCCcCCeEEEEecCCC
Q 003789           83 EIDNFLRLSFVDEDLDKLYSTVLSPLISSTNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPE  162 (795)
Q Consensus        83 ~~d~FlRV~F~DE~~~~l~~~~~~p~~~~~~~~~~~~~~~rv~~~L~~Gi~I~gr~y~fL~~S~SqlR~~s~wf~~~~~~  162 (795)
                      +.++||||+|+|||++ +..++++.     +  .++.+|.||...|++||.|++|.|+||||||||||+||.||++....
T Consensus       424 ~~t~~lRvtF~De~~~-~~ir~~S~-----~--~~t~l~~rv~~~L~~Gi~v~~r~y~FL~~s~sQlRdngy~m~~~s~~  495 (1145)
T KOG0988|consen  424 DSTRFLRVTFRDEDNK-LKIRTLST-----G--SRTKLDMRVNSYLTDGISVANRRYEFLAFSNSQLRDNGYFMARFSDK  495 (1145)
T ss_pred             cCceEEEEEEEccccc-cccccCCc-----c--hhhHHHHHHHHHHhcccEEccceeEEEEecccccccCceEEeecCCC
Confidence            9999999999999996 44433322     1  16889999999999999999999999999999999999888877666


Q ss_pred             CCHHHHHHHhCCCCCccCHHHHHHHHcccccCCcceeee-cCCCeEEcCCccccCCCcccccccccccccHHHHHHHHHH
Q 003789          163 LTAADIRESMGDFRDIKNVAKYAARLGQSFGSSREALHV-DSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKN  241 (795)
Q Consensus       163 ~~~~~Ir~~lG~f~~i~~~aK~aARlgq~FS~T~~tv~i-~~~~i~~i~Di~~~~~g~~~~fTDG~G~IS~~la~~I~~~  241 (795)
                      .++++||.|||+|+++.|++|||||||||||+|+.|..+ +...+..+|||+.+++|++||||||||+||.++|++|+++
T Consensus       496 ~~i~~iR~wmG~F~~i~nv~K~aARmGqCFs~Sr~T~~~~~~~~~~~~~DI~~g~~g~~y~FSDGvG~iS~~~a~~vsq~  575 (1145)
T KOG0988|consen  496 TKIEDIREWMGDFRDIDNVPKLAARMGQCFSQSRGTGYVLERLDRMCPPDIEGGKRGNNYCFSDGVGMISLQFAREVSQK  575 (1145)
T ss_pred             ccHHHHHHHhcchhhccCHHHHHhhcCcceeccccccccccccccccCCcccccccCCceeecCCcccccHHHHHHHHHH
Confidence            899999999999999999999999999999999999877 6677889999998778889999999999999999999999


Q ss_pred             cCCCCCCCceEEEeecCceEEEEeCCCCCceEEeccccccCCCCCCcEEEEeccCCccccccHHHHHHHhcCCCChHHHH
Q 003789          242 CGFTIYTPSAFQIRYGGYKGVVAVDPTSSTKLSLRKSMLKYKSESTSLDILANSKYQPCFLNRQLITLLSTLGIRDHVFE  321 (795)
Q Consensus       242 l~l~~~~PSafQiR~~G~KGvl~vdp~~~~~i~lR~Sm~KF~~~~~~leI~~~S~~~~~~LNrq~I~iL~~lGV~~~vF~  321 (795)
                      +++...+|||||||++|+||||+|||.....+.+|.||.||.|.+..++|+.|+++.|++||||+|.+|+.+||++++|+
T Consensus       576 ~~~~~~vPsaFQiR~~G~KGVvav~Ps~~~~~~~~~~~~~s~S~n~~~~v~~~~~f~~~~lnr~lI~Lls~~gv~n~~F~  655 (1145)
T KOG0988|consen  576 RKFGKAVPSAFQIRYGGYKGVVAVDPSMDKVLKLRDSMNKSQSFNSLLEVTPSSKFQPAFLNRQLITLLSYLGVLNKPFI  655 (1145)
T ss_pred             HcccccCChheeeeccCCcceEEeCccHhhhhhhhhhhhhhhhhcceeeeeeccCCccccccHHHHHHHHhcCccchHHH
Confidence            99988899999999999999999999998899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHH--HHHhcCHHHHHHHHHhcCCCCcHHHHHHHHHCCCCCCCcHHHHHHHHHHHHHHHHHhhcceeEEecCc
Q 003789          322 KKQREGVAQL--DAILTDPLKAHEALELMSSGENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNG  399 (795)
Q Consensus       322 ~lq~~~l~~l--~~~~~d~~~a~~~l~~~~~~~~~~~l~~ll~~Gf~~~~epfl~~~l~~~~~~~l~~lk~k~rI~Vp~s  399 (795)
                      ++|+..++.-  ...+..+..+..+|......+..+.++.++..++.++.|||++++|..++++.++.+|+|.||||+.|
T Consensus       656 ~il~~vle~~r~~~n~~e~~~~~~~l~~~~~m~~en~a~~~l~~~~~~D~EPflr~mL~~~~k~~~~~~kek~ripv~~G  735 (1145)
T KOG0988|consen  656 NILDQVLEKQRRITNRIEELLDRAALNYGEQMDDENIAAMILKGFPRIDSEPFLRSMLSSLLKFTLQLLKEKIRIPVDLG  735 (1145)
T ss_pred             HHHHHHHHHHHhhhhhhhHHHHHHHhhhhhhccchHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHhcccccCcCC
Confidence            9999999843  33344454555666554434555655555555566878999999999999999999999999999999


Q ss_pred             eeeeeecCCCCCCCCCCEEEEeccccccccccCcCCCCCCCceeeeeeEEEeeCCCCCCCCeeEEEeecCCCCCCCCCeE
Q 003789          400 RAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVEGKVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCV  479 (795)
Q Consensus       400 ~~l~GV~DetG~L~~gEVfvq~s~~~~~~~~~~~~~~~~~~~~~i~G~VlV~RnP~lhPgDIr~v~AV~~P~L~hl~dvI  479 (795)
                      |+||||+||||.||+||||||++.+..        +...++..+++|+|+|||||||||||||+++||++|+|+||+|||
T Consensus       736 r~lmGvvDETG~L~ygQVfVq~t~~~~--------~~~~~~~~vitG~VlvtKNPcLhpGDVRVl~AV~vp~L~h~~dvV  807 (1145)
T KOG0988|consen  736 RSLMGVVDETGILKYGQVFVQYTKTIR--------NSDSGRKEVITGKVLVTKNPCLHPGDVRVLKAVYVPALEHMVDVV  807 (1145)
T ss_pred             ceeEeeeccccccccCeEEEEEccccc--------ccccCCceEEEeeEEEecCCCCCCCceEEEEeeccHHHHhhcCEE
Confidence            999999999999999999999998632        012344589999999999999999999999999999999999999


Q ss_pred             EecCCCCCCCCCcccCCCCCCCeEEEEecCCCCCCCCCCCCCCCCCcccccCCCCCHHHHHHHHHHhhccChhhhHHHHH
Q 003789          480 VFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMTIEDVEEYFADYIVNDSLGVICNAH  559 (795)
Q Consensus       480 VFp~~G~rplps~lsGgDlDGD~y~ViWD~~Lv~~~~~~P~~y~~~~~~~l~~~~~~~di~~ff~~y~~~d~LG~isn~h  559 (795)
                      ||||||+||||+||||||||||+|||||||+|+|+++.+||+|++++++.+.+.++.++|.+||++||++|+||+|+|||
T Consensus       808 vFPQkGpRphpdE~aGsDLDGDeYfViWDqkLL~~~~~epmd~~~~~sk~~~~~~~~~~m~effv~yL~~DslG~isnAh  887 (1145)
T KOG0988|consen  808 VFPQKGPRPHPDEMAGSDLDGDEYFVIWDQKLLPPRNEEPMDSSSEKSKILDGRVPLDEMSEFFVEYLKEDSLGLISNAH  887 (1145)
T ss_pred             EcCCCCCCCCccccccCCCCCceEEEEeChhhccCcCCCccccCccccccccCCCCHHHHHHHHHHHHHHHHHHHHhhcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhccCCCCCCCHHHHHHHHHHhhcccccCCCCccccCCCCCCCCCCCccCCCCCCcccccchhhHHHHhhhhcCCCCc
Q 003789          560 VVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGLRVEIYPDFMEKQDKTCYESQRVIGKLYRAVKDIAPPTA  639 (795)
Q Consensus       560 l~~aD~~~~g~~~~~cl~LA~l~s~aVD~~KtG~~~~~p~~l~~~~~Pdfm~k~~~~~Y~S~~ilG~Lyr~v~~~~~~~~  639 (795)
                      +++||+  .|+++..|+.||++||+||||||||..+.+|..++++.+||||++.++|+|.|++++|||||+++.+.....
T Consensus       888 l~~aD~--~G~~~~~Cl~LA~k~~~AVDF~KsG~d~~~~~~ek~e~~PDfm~~~d~p~Y~S~~l~GkLfR~~~aid~~~~  965 (1145)
T KOG0988|consen  888 LANADV--YGLFSDVCLELAKKHSQAVDFPKSGADESMPEKEKPERYPDFMEKTDKPTYYSERLCGKLFREAKAIDAPLK  965 (1145)
T ss_pred             ccchhh--cchhhHHHHHHHHhhcccccccccCCcccccchhchhhcchhhhCCCCceeecchhhhHHHHHHHhhcchhh
Confidence            999999  599999999999999999999999999999999999999999999999999999999999998876654332


Q ss_pred             ccccchhhhhhcccCCCcccCCHHHHHHHHHHHHHHHHHHHHHHHHhcCCCCcceeeee--hhhcccchhhhHhhHHHHH
Q 003789          640 TIKSFTKEVAMQSYDTDMEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSG--CIMEMAKSFDKKRDLEAII  717 (795)
Q Consensus       640 ~~~~~~~~~~~~~~d~~l~~~g~~~~~~~A~~~~~~Y~~~l~~lm~~y~i~tE~Ev~sG--~i~~~~~~~~~~~~~~~i~  717 (795)
                      ......... ...||++++++||++|+++|.++++.|+.+|++||++|||.+|+||+||  .+..|+...+++...+.+.
T Consensus       966 ~~e~~~~~~-~i~yD~~l~v~gFe~yme~a~~~~~~y~~qL~slm~~ygi~~E~eI~sG~~~~ddms~~~t~~~~e~~~~ 1044 (1145)
T KOG0988|consen  966 GSEERSEQV-EVEYDEDLEVDGFEHYMERAKKQVASYNGQLRSLMDFYGISTEGEIFSGILDQDDMSFYNTERMIELKLE 1044 (1145)
T ss_pred             cCccccCcc-cccCCcccCcCCcHHHHHHHHHHHhhhhhHHHHHHHHhCccchhhhhccCccccchhhhcccccchhhhH
Confidence            222222222 3689999999999999999999999999999999999999999999999  4445666666555555666


Q ss_pred             HHHHHHHHHHHHHHhh------cCC--CCCc-hhhHhHHHHHHhH-hhccccccccccccCCCcCcccccccchHHHHHH
Q 003789          718 FAVKSLKKEARAWFNK------KNE--SDSS-HEDVYAKASAWYH-VAYHPSYWGRYKEEGMNRTHFLSFPWCIHDKLIE  787 (795)
Q Consensus       718 ~~~~~l~~~~r~~f~~------~~~--~~~~-~~~~~~~a~A~Y~-vty~~~~~~~~~~~~~~~~~~lSFpWi~~d~l~~  787 (795)
                      ..+..||+.+.+.|..      .-+  .+.. .+.+.+||+|||+ ++|+....       .+..+.+|||||++|+|++
T Consensus      1045 ~l~~~~r~~~~qef~~y~~~~e~l~~fe~~~~eE~~~kKa~aWY~v~~ye~~~~-------~~~~~~~SF~wia~Dvl~~ 1117 (1145)
T KOG0988|consen 1045 RLVLKLREKFFQEFGAYKLEIEKLSCFEDSPEEEFIMKKASAWYRVYRYEMAQA-------MRETRKLSFAWIAYDVLAR 1117 (1145)
T ss_pred             HHHHHHHHHHHHHhhhhcchhhhccccccCchhHHHHHHHHHHHHHHHhhhhcc-------cccCcccchHHHHHHHHHH
Confidence            7777777665444421      001  1223 3348899999999 77775422       2345778999999999999


Q ss_pred             HHhh
Q 003789          788 IKRG  791 (795)
Q Consensus       788 ik~~  791 (795)
                      ||++
T Consensus      1118 iK~~ 1121 (1145)
T KOG0988|consen 1118 IKQT 1121 (1145)
T ss_pred             HHHH
Confidence            9998

>PF05183 RdRP: RNA dependent RNA polymerase; InterPro: IPR007855 This entry represents various eukaryotic RNA-dependent RNA polymerases (RDRP; 2	Back alignment and domain information

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Alignment Graph	Length	Definition	E-value
Query		795
2j7n_A		1022	Structure Of The Rnai Polymerase From Neurospora Cr		9e-16

>pdb|2J7N|A Chain A, Structure Of The Rnai Polymerase From Neurospora Crassa Length = 1022

Back alignment and structure

Iteration: 1

Score = 82.4 bits (202), Expect = 9e-16, Method: Compositional matrix adjust. Identities = 90/358 (25%), Positives = 144/358 (40%), Gaps = 54/358 (15%) Query: 218 GITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYGGYKG--VVAVDPTS-----S 270 G +DG+G++S +A+ + G PSA Q R+G KG V+ VD T Sbjct: 322 GTGEVMNDGVGRMSRSVAKRIRDVLGLGD-VPSAVQGRFGSAKGMWVIDVDDTGDEDWIE 380 Query: 271 TKLSLRKSMLKY-KSESTSLDILA-NSKYQPCFLNRQLITLLS---------TLGIRDHV 319 T S RK + +L++ + S+ + LN QL+ +L I D + Sbjct: 381 TYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRL 440 Query: 320 FEKKQREGVAQLDAILTDPLKAHEALELMSSGENTNV------------------LKELL 361 QR+ Q A L P++ + + S T V L L+ Sbjct: 441 INDLQRQFSEQKHA-LNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLM 499 Query: 362 MCGYKPDVEPFLLMMLQTFRASNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQC 421 G+ P + +L + + L+++ I + + D G LE +V V Sbjct: 500 NSGFDPKKQKYLQDIAWDLQKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGF 559 Query: 422 SASRRRE----FLDNSCNNRSXXXXXXXXXXXXAKNPCLHPGDMRVLRAVDVPSLHHMVD 477 S+ R E L + C+ A++P P D++ +RAV P LH + D Sbjct: 560 SSKFRDEEESFTLLSDCD------------VLVARSPAHFPSDIQRVRAVFKPELHSLKD 607 Query: 478 CVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPEKVLARDMT 535 ++F KG P + SG D DGD+ +VCWD E++ M P + L +D T Sbjct: 608 VIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKKDKT 665

PyMOL of 2j7n

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Alignment Graph	Length	Definition	E-value
Query		795
2j7n_A		1022	RNA-dependent RNA polymerase; RNAI response, RNA-d	1e-172
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-17
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-15

>2j7n_A RNA-dependent RNA polymerase; RNAI response, RNA-directed RNA polymerase, hydrolase; 2.30A {Neurospora crassa} PDB: 2j7o_A Length = 1022	Back alignment and structure

 Score =  522 bits (1344), Expect = e-172
 Identities = 145/865 (16%), Positives = 275/865 (31%), Gaps = 122/865 (14%)

Query: 40  TSPAVALDDGLIYVNKVLVTPS--KVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDL 97
              AV L   L Y      T     V           R+ R +    D F  +       
Sbjct: 108 KGSAVVLSAVLDYNPDNSPTAPLYLVKLKPLMFEQGCRLTRRFGP--DRFFEILIPSPTS 165

Query: 98  DKLYSTVLSPLISSTNEERHTTIYE----------RVLSTLRNGIVIGDKKFETLAFSNS 147
                  +     +  EE    +            R       G     ++F+  A    
Sbjct: 166 TSPSVPPVVSKQPAAVEEVIQWLTMGQHSLVGRQWRAFFAKDAGYRKPLREFQLRAEDPK 225

Query: 148 QVKDNSMWMFA------------------------SRPELTAADIRESMGDFRD--IKNV 181
            +    +  FA                         R E   + + + +    +   +  
Sbjct: 226 PIIKERVHFFAETGITFRPDVFKTRSVVPAEEPVEQRTEFKVSQMLDWLLQLDNNTWQPH 285

Query: 182 AKYAARLGQSFGSSREALHVDSSDIEIIPDVEVEDDGITYCFSDGIGKISAELAEIVAKN 241
            K  +R+      +   + ++   I       +   G     +DG+G++S  +A+ +   
Sbjct: 286 LKLFSRIQLGLSKTYAIMTLEPHQIRHHKTDLLSPSGTGEVMNDGVGRMSRSVAKRIRDV 345

Query: 242 CGFTIYTPSAFQIRYGGYKGVVAVDPTSSTK---LSLRKSMLKYKS-----ESTSLDIL- 292
            G     PSA Q R+G  KG+  +D   +     +    S  K++         +L++  
Sbjct: 346 LGLG-DVPSAVQGRFGSAKGMWVIDVDDTGDEDWIETYPSQRKWECDFVDKHQRTLEVRS 404

Query: 293 ANSKYQPCFLNRQLITLLSTLG---------IRDHVFEKKQREGVAQLDAILTDPLKAHE 343
             S+ +   LN QL+ +L             I D +    QR+   Q  A+         
Sbjct: 405 VASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRLINDLQRQFSEQKHALNRPVEFRQW 464

Query: 344 ALELMSSG-----------------ENTNVLKELLMCGYKPDVEPFLLMMLQTFRASNLL 386
             E  SS                       L  L+  G+ P  + +L  +    +     
Sbjct: 465 VYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYLQDIAWDLQKRKCD 524

Query: 387 ELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVEG 446
            L+++  I +     +    D  G LE  +V V  S+  R E              + + 
Sbjct: 525 TLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKFRDE--------EESFTLLSDC 576

Query: 447 KVVVAKNPCLHPGDMRVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVC 506
            V+VA++P   P D++ +RAV  P LH + D ++F  KG  P   + SG D DGD+ +VC
Sbjct: 577 DVLVARSPAHFPSDIQRVRAVFKPELHSLKDVIIFSTKGDVPLAKKLSGGDYDGDMAWVC 636

Query: 507 WDHELIPPLQFPPMDYTPAPEKVLARDMTI--------------------EDVEEYFADY 546
           WD E++       M   P   + L +D T                     + +++ F   
Sbjct: 637 WDPEIVDGFVNAEMPLEPDLSRYLKKDKTTFKQLMASHGTGSAAKEQTTYDMIQKSFHFA 696

Query: 547 IVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATIPSGLRV--- 603
           +  + LG+  N       +  +   +   + L+ L    VD SK G+     S  ++   
Sbjct: 697 LQPNFLGMCTNYKERLCYIN-NSVSNKPAIILSSLVGNLVDQSKQGIVFNEASWAQLRRE 755

Query: 604 -----EIYPDFMEKQDKTC--YESQRVIGKLYRAVKDIAPPTATIKSFTKEVAMQSYDTD 656
                   PD M K D      E   +I  L  ++   A     +++F   +       D
Sbjct: 756 LLGGALSLPDPMYKSDSWLGRGEPTHIIDYLKFSIARPAIDKE-LEAFHNAMKAAKDTED 814

Query: 657 MEVDGFEDYITDAFKYKTEYDNRLGNLMDYYGIKTEAEILSGCIMEMAKSFDKKRDLEAI 716
                  D  +    +K   D    + + +  +K     +      + K+ + +   +  
Sbjct: 815 GAHFWDPDLASYYTFFKEISDKSRSSALLFTTLKNRIGEVEKEYGRLVKNKEMRDSKDPY 874

Query: 717 IFAVKSLKKEARAWFNK-KNESDSSHEDVYAKASAWYHVAYH-PSYWGRYK---EEGMNR 771
              V  + ++  A   +  ++S ++++    +      +A    + W   +      +  
Sbjct: 875 PVRVNQVYEKWCAITPEAMDKSGANYDSKVIRLLELSFLADREMNTWALLRASTAFKLYY 934

Query: 772 THFLSFPWCIHDK-LIEIKRGKQRS 795
                F W +  + L  IK      
Sbjct: 935 HKSPKFVWQMAGRQLAYIKAQMTSR 959

PyMOL of 2j7n

>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

>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

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Alignment Graph	Length	Definition	Probability
Query		795
2j7n_A		1022	RNA-dependent RNA polymerase; RNAI response, RNA-d	100.0

>2j7n_A RNA-dependent RNA polymerase; RNAI response, RNA-directed RNA polymerase, hydrolase; 2.30A {Neurospora crassa} PDB: 2j7o_A	Back alignment and structure

Probab=100.00  E-value=5.7e-127  Score=1146.81  Aligned_cols=545  Identities=20%  Similarity=0.292  Sum_probs=439.5

Q ss_pred             CceeecCccccccCccccccCCCCCcEEEEEEeeCCCccccc-----------------------------------ccc
Q 003789           61 SKVYFSGPEISLSNRVVRSYPDEIDNFLRLSFVDEDLDKLYS-----------------------------------TVL  105 (795)
Q Consensus        61 t~i~~~~P~~~~sNRvlR~f~~~~d~FlRV~F~DE~~~~l~~-----------------------------------~~~  105 (795)
                      .++.|.+|+++.|||+.|+|++  ||||||+|.+++....+.                                   .+.
T Consensus       131 ~~l~L~p~~l~~s~R~~RrfGs--DrFL~V~fp~~~~~~~~~~~~~~~~~~~~~~v~~~l~~~~~~~~gr~~r~f~~~d~  208 (1022)
T 2j7n_A          131 YLVKLKPLMFEQGCRLTRRFGP--DRFFEILIPSPTSTSPSVPPVVSKQPAAVEEVIQWLTMGQHSLVGRQWRAFFAKDA  208 (1022)
T ss_dssp             EEEEECCCEEEECBHHHHHHCG--GGEEEEEEECTTCCCSSSCTTSSSSSSCHHHHHHHHHSSCEEETTEEEEEEEEEEC
T ss_pred             eEEEecCCccCCCceEEEeeCC--ceeEEEEecCCccccccccchhccchHHHHHHHHHHhcCcEEEecceeEEEeeccc
Confidence            4788999999999999999996  899999999886442110                                   000


Q ss_pred             CCCccC-----CcchhhhHHHHHHHHHHhcCeEEcceeEEEeeecCCCCcCCeEEEEecCCCCCHHHHHHHhCCCCCc--
Q 003789          106 SPLISS-----TNEERHTTIYERVLSTLRNGIVIGDKKFETLAFSNSQVKDNSMWMFASRPELTAADIRESMGDFRDI--  178 (795)
Q Consensus       106 ~p~~~~-----~~~~~~~~~~~rv~~~L~~Gi~I~gr~y~fL~~S~SqlR~~s~wf~~~~~~~~~~~Ir~~lG~f~~i--  178 (795)
                      +++...     .+.+....++.|+..++.+|+.|++++|+||++  ||+|++++|    .+++|+++||+|||+|+.+  
T Consensus       209 ~~r~~~~~~~l~~~~~~~~~~~Rv~~f~~~G~~i~~~~f~fl~~--s~lre~s~~----~~~ls~~~ir~wmg~f~~n~~  282 (1022)
T 2j7n_A          209 GYRKPLREFQLRAEDPKPIIKERVHFFAETGITFRPDVFKTRSV--VPAEEPVEQ----RTEFKVSQMLDWLLQLDNNTW  282 (1022)
T ss_dssp             C--------------CCCCCEEEEEEEEEEETTCBCCCC---------------C----CBCCCHHHHHHHHHCGGGCTT
T ss_pred             cccccccccccccccccccccceEEEEeccCccccCcccccccc--ccccccccc----cCCCCHHHHHHhccChhhccc
Confidence            000000     000011223345556778888999999999998  699999998    4779999999999999986  


Q ss_pred             cCHHHHHHHHcccccCCcceeeecCCCeEEc-CCccccCCCcccccccccccccHHHHHHHHHHcCCCCCCCceEEEeec
Q 003789          179 KNVAKYAARLGQSFGSSREALHVDSSDIEII-PDVEVEDDGITYCFSDGIGKISAELAEIVAKNCGFTIYTPSAFQIRYG  257 (795)
Q Consensus       179 ~~~aK~aARlgq~FS~T~~tv~i~~~~i~~i-~Di~~~~~g~~~~fTDG~G~IS~~la~~I~~~l~l~~~~PSafQiR~~  257 (795)
                      ++++|||||||||||+|.+++.|.+++|..+ |||+. .+|++|+||||||+||++||++|++++++ ..+|||||||||
T Consensus       283 q~~aK~aARigq~FS~T~~tv~v~~~~I~~~~dDI~~-~~g~g~vFTDGvG~IS~~lA~~I~~~l~l-~~~PSAfQiR~g  360 (1022)
T 2j7n_A          283 QPHLKLFSRIQLGLSKTYAIMTLEPHQIRHHKTDLLS-PSGTGEVMNDGVGRMSRSVAKRIRDVLGL-GDVPSAVQGRFG  360 (1022)
T ss_dssp             SBHHHHHHTTHHHHSBCEEEEECCGGGEEECSSCCBC-TTSSCCBSSTTEEEECHHHHHHHHHHHTC-SSCCSEEEEEET
T ss_pred             chHHHHHHHhhhhhcCccCcEEechHHEEEcCCcccc-CCCCCCeecCCchHhhHHHHHHHHHHcCC-CCCCcEEEEEec
Confidence            4599999999999999999999999999985 78863 34678999999999999999999999999 679999999999


Q ss_pred             CceEEEEeCCCCC---ceEEeccccccCCCC-----CCcEEEEecc-CCccccccHHHHHHHhcCCCChHHHHHHHHHH-
Q 003789          258 GYKGVVAVDPTSS---TKLSLRKSMLKYKSE-----STSLDILANS-KYQPCFLNRQLITLLSTLGIRDHVFEKKQREG-  327 (795)
Q Consensus       258 G~KGvl~vdp~~~---~~i~lR~Sm~KF~~~-----~~~leI~~~S-~~~~~~LNrq~I~iL~~lGV~~~vF~~lq~~~-  327 (795)
                      ||||||+|||++.   .+|+|||||.||+++     +++||||++| ++.|++||||+|+||+++||+.++|++++.+. 
T Consensus       361 GaKGvl~vdp~~~~~~~~I~lRpSm~KF~~~~~d~~~~~LEIv~~s~~~~~~~LNRQlI~lL~~lGV~~~~f~~~i~~~~  440 (1022)
T 2j7n_A          361 SAKGMWVIDVDDTGDEDWIETYPSQRKWECDFVDKHQRTLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRL  440 (1022)
T ss_dssp             TEEEEEEECTTCCSCCCCEEECTTTBCSCCCCCSGGGSEEEEEEECCCCCCCCBCTTTHHHHHHTBSSHHHHHHHHHHHH
T ss_pred             cceEEEEECcccCCCcceEEeCCcceeecCCCCCcccCeEEEEeecCCCCCceecHHHHHHHHhCCcCHHHHHHHHHHHH
Confidence            9999999999863   359999999999963     5789999998 58999999999999999999999998875443 


Q ss_pred             HHH-------HHHHhcCHHHHHHHHHhcC------------------CCCcHHHHHHHHHCCCCCCCcHHHHHHHHHHHH
Q 003789          328 VAQ-------LDAILTDPLKAHEALELMS------------------SGENTNVLKELLMCGYKPDVEPFLLMMLQTFRA  382 (795)
Q Consensus       328 l~~-------l~~~~~d~~~a~~~l~~~~------------------~~~~~~~l~~ll~~Gf~~~~epfl~~~l~~~~~  382 (795)
                      .+.       ...+++++..++.++....                  +...++++..|+.+||+|.++||++++++.++.
T Consensus       441 ~~~L~~~l~~~~~al~~~~~~r~~l~~~~~~~~~r~~~g~~~~~~glp~s~~~~l~~Ll~aGf~p~~epfL~~~l~~~~~  520 (1022)
T 2j7n_A          441 INDLQRQFSEQKHALNRPVEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYLQDIAWDLQK  520 (1022)
T ss_dssp             HHHHHHHHHHHHHHTTSHHHHHHHHHHHSCCHHHHHHHTSCCEETTEESSHHHHHHHHHHTTCCTTTBHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHhhccccccccccccchhhccCccchHHHHHHHHHcCCCccccHHHHHHHHHHHH
Confidence            222       3445677766666554221                  112346789999999999999999999999999


Q ss_pred             HHHHHhhcceeEEecCceeeeeecCCCCCCCCCCEEEEeccccccccccCcCCCCCCCceeee-eeEEEeeCCCCCCCCe
Q 003789          383 SNLLELRTRTRIFIQNGRAMMGCLDETGTLESGQVFVQCSASRRREFLDNSCNNRSGELGVVE-GKVVVAKNPCLHPGDM  461 (795)
Q Consensus       383 ~~l~~lk~k~rI~Vp~s~~l~GV~DetG~L~~gEVfvq~s~~~~~~~~~~~~~~~~~~~~~i~-G~VlV~RnP~lhPgDI  461 (795)
                      ..|+.||+|+||+||+|++||||+||||+|+||||||+++....    +     ..+...++. |+|+|+||||+|||||
T Consensus       521 ~~l~~LK~k~rI~V~~s~~L~GV~DetG~L~eGEVfv~~s~~~~----~-----~~~~~~~l~gg~VlVtRnP~lhPGDI  591 (1022)
T 2j7n_A          521 RKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKFR----D-----EEESFTLLSDCDVLVARSPAHFPSDI  591 (1022)
T ss_dssp             HHHHHHHHHCCBCCSSEEEEEEEECTTSCCCTTEEEEEEEEEEE----E-----TTEEEEEECSEEEEEECSSCCSGGGE
T ss_pred             HHHHHHHHhhccccccceEEEEEecCCCccCCCeEEEEeccccc----c-----CCCCceeecCceEEEEeCCCcCcCce
Confidence            99999999999999999999999999999999999999986421    0     112234555 6999999999999999


Q ss_pred             eEEEeecCCCCCCCCCeEEecCCCCCCCCCcccCCCCCCCeEEEEecCCCCCCCCCCCCCCCCCcc-------ccc----
Q 003789          462 RVLRAVDVPSLHHMVDCVVFPAKGKRPHTNECSGSDLDGDVYFVCWDHELIPPLQFPPMDYTPAPE-------KVL----  530 (795)
Q Consensus       462 r~v~AV~~P~L~hl~dvIVFp~~G~rplps~lsGgDlDGD~y~ViWD~~Lv~~~~~~P~~y~~~~~-------~~l----  530 (795)
                      |+|+||++|+||||+||||||++|+||+||||||||||||+|||||||+|||++.+.|++..+...       ..+    
T Consensus       592 rvv~AV~~PeL~hL~DvIVFp~kG~Rplps~lSGGDLDGD~Y~ViWD~~Lv~~f~na~~p~~p~~~~y~~k~~~~~~~~~  671 (1022)
T 2j7n_A          592 QRVRAVFKPELHSLKDVIIFSTKGDVPLAKKLSGGDYDGDMAWVCWDPEIVDGFVNAEMPLEPDLSRYLKKDKTTFKQLM  671 (1022)
T ss_dssp             EEEEECCCGGGTTCCSEEEECSCSSSCHHHHTTTCCSSSCEEEEECCHHHHHTBCCCCCCCCCCCTTTSEECCCBHHHHH
T ss_pred             eEEEeccChhhhccCCeEEccCCCCCCChhHhcCCCCCCCeEEEEechhhcccccCCCCCCCCchhhhccccccchhhhh
Confidence            999999999999999999999999999999999999999999999999999998776655332211       000    


Q ss_pred             C--------CCCCHH-HHHHHHHHhhccChhhhHHHHHHHHhccCCCCCCCHHHHHHHHHHhhcccccCCCCcccc--CC
Q 003789          531 A--------RDMTIE-DVEEYFADYIVNDSLGVICNAHVVHADLEPDKARSNQCLELAKLSTIAVDFSKTGVAATI--PS  599 (795)
Q Consensus       531 ~--------~~~~~~-di~~ff~~y~~~d~LG~isn~hl~~aD~~~~g~~~~~cl~LA~l~s~aVD~~KtG~~~~~--p~  599 (795)
                      .        ++++.+ .+++||+.||++|.||+|||+|+..+|++ .|+.+++|++||+|||+||||||||+++++  |+
T Consensus       672 ~~~~~g~~~~~~~~~d~i~~ff~~~m~~d~LG~is~~h~~~~~~~-~g~~~~~cl~LA~L~S~AVD~~KtG~pv~~~~~~  750 (1022)
T 2j7n_A          672 ASHGTGSAAKEQTTYDMIQKSFHFALQPNFLGMCTNYKERLCYIN-NSVSNKPAIILSSLVGNLVDQSKQGIVFNEASWA  750 (1022)
T ss_dssp             TTTCSSHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHH-TCSSSHHHHHHHHHHHHHTTHHHHTEECCHHHHH
T ss_pred             hccccccccCchhHHHHHHHHHHHhcCcchHHHHHHHHHHHHhhc-CCCCCHHHHHHHHHHHHhhCccccCcccChhhhh
Confidence            0        112333 45678999999999999999999888775 699999999999999999999999999998  77


Q ss_pred             CCCCCCCCCccCCCCCCcccccchhhH
Q 003789          600 GLRVEIYPDFMEKQDKTCYESQRVIGK  626 (795)
Q Consensus       600 ~l~~~~~Pdfm~k~~~~~Y~S~~ilG~  626 (795)
                      +++++.+||||+ +++|+|+|++++|+
T Consensus       751 ~lr~~~~p~~m~-~~~p~Y~s~~~~g~  776 (1022)
T 2j7n_A          751 QLRRELLGGALS-LPDPMYKSDSWLGR  776 (1022)
T ss_dssp             HHHHHHSCCSSC-CCCCGGGSSSCCSS
T ss_pred             hhhHhhCCCCCC-CCCCccccCcccCC
Confidence            889999999999 67899999877665

PyMOL of 2j7n

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

No hit with probability above 80.00