Citrus Sinensis ID: 001771

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-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010-----

MSDPAVVSQQGVVSLPLSVEQLISKIYTEQNKLPPDDGARRSLASLGEDAALDVLRTIASDKIKYSFSGYINYLVKKRNNNGSPLKRVCFSPSSPQQNRSPVTVTTVRLLNLPQGTDYVVKQSPVADQQPRGSPMSSISHAMRHRASIPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMARFESEVWEKLGRKNISQEDRRMSLKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKFDEELGGHRSSNNWNDSYSKYNEIAREGILVGLRCYHFFVFKDGGKEEKKKDPSTSPVKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTDGTGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFKESERWMSTSKNLSANKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCFDDGVPEACMTKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYARRQGDRSMLCSASVLREICG

ccccccccccccccccHHHHHHHHHHHHHHccccccHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHcHHHHHHHHHHHcccHHHHccccccccccEEEEEEEEcccccEEEccccccccccEEccccccccEEEEEEEccccccccccccHHHHHHHHHHHHccEEEccEEEEEEEEEccccccccccccccccEEEEEEEcccccccccccccccHHcHHHHHHHcccccccccHHHHHHHHccccccccccEEEcccccEEEEEccccccccccccccccccccccccccccHHHHHHHHHHHHccccccccccccccHHHHHHHHccHHHHHccccccccccEEEEEEccccccEEEEEEEcccccccEEEEcccccEEEccccccccccccEEEEEEcccccccccccHHHHHHHHcccccHHHHHHHHHHHHHHHHHHHHcHHHHHHHHHHcccccccHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHccccEEcccccEEEEEccccccccccEEEEEEccccEEEEEEEEEEccccccccEEEEEEEEcccccccccccccEEEEccccccccccccccccccccEEEEEEcccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHcccHHHHHccccHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHcccccccccccccccHHHHcHHHHHHHHHHHHccccccccHHHHHHHHc

ccccccccccccEcccHHHHHHHHHHHHHcccccccHHHHHHcccccHHHHHHHHHHcccccHHHcccHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccHHHHHEEEEEccHHHHHHHHcccHHHHHHHcHHHcccHHHHHHHHHHccccccccccccccccccEEEEEEEEcccEEEEcccccccccEEEEEccccccEEEEEEEcccccccccccHHHHHHHHHHHHHcccEEcccEEEEEEEccccccccccccccHHHHHccEEEEccccccccccccccHHHHHHHHcccccccccccHHHHHHHHHHHccccEEEEEEcccEEEEEcccccccccccccEccccccEEEccccccccHHHHHHHHHHcccccccccccHHEcccccccccccHHHccccccccccccEEEEEEEEcccccEEEEEEcccccccEEEEEcccEHEcccccccccccccEEEEEEccccccccHHcHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHccHHHHHHHHHHccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHccEEcccccEEEEEEcccccccccEEEEEEcccEEEEEEEEEEEccccccccEEEEEEEccccHHHHHcccccEEEEccccccccccHcccccccccEEEEEEccHccccccccccccccccccHcccccccccHHHHHHHHHHHHHHccccHHHHHHHHHcHHHHHHHHHHHHHcHcccccccccHHHHHHHHHHHHHccccccccccccccccccccccccHcccccccccccHHHHHHHHHHHHHHcccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHcHHccHHHHHHcHHHHHHHHHHHHHHHccHHHcccccccccHHHHHHHHHHHHHHHHHcccccEEEcHHHHHHHcc

msdpavvsqqgvvsLPLSVEQLISKIYTeqnklppddgarRSLASLGEDAALDVLRTIASDKIKYSFSGYINYLVKKrnnngsplkrvcfspsspqqnrspvtVTTVRLlnlpqgtdyvvkqspvadqqprgspmssishamrhrasipqyvaLGELEFRKAFLILSYIGensleevitadeIRGMRDLQMARFESEVWEKLGRknisqedrrmslkwdsgkthmyhchistkgnctfkgpylnqTRTHLQRELGDDNILLVKfdeelgghrssnnwndsYSKYNEIAREGILVGLRCYhffvfkdggkeekkkdpstspvkcyFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFsrinieriedepcrdkdgnvvykdgealihtdgtgfisedlalkcptyvykekctnddstersiDRKELEANFSDvarteshygeppllMQVRLFYNGtavkgtlllnkklppqtiqirpsmikvkadrdlsdgqtfnslevvktsnqprktYLSRNLIALLsyggvpeiFFLDILRNALDDARGVFSNKRNALKVSfnyggmdydftSARMILSgisldepyLQHRLSILMKEEKKslqagklpvtesyylmgtvdptgilksnEVCIILKDGQVSWEKVLVYrnpglhfgdiHVLKATYVKELEdfvgtskyaiffpcngprsladeiaggdfdgdmyfvsrnpelLKHFKESERwmstsknlsankrLIDFSLEELESELFKLFLntrfcpsnakslAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDaldapkksgikvevpedlkvekfpcymrrdesvsfesTSVLGTIYNTVKSYEAVDRSVTEIwklpcfddgvpeacmtKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYArrqgdrsmlCSASVLREICG

msdpavvsqqgvvslplSVEQLISKIyteqnklppddGARRSLASLGEDAALDVLRTIASDKIKYSFSGYINYLVKKRNNNGSPLKRVCfspsspqqnrspVTVTTVRLLNLPQGTDYVVkqspvadqqprgsPMSSISHAMRHRASIPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMARFESEVWeklgrknisqedrrmslKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKFDeelgghrssnnwndsySKYNEIAREGILVGLRCYHFFVFkdggkeekkkdpstspvkCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRinieriedepcrdkdgnVVYKDGEalihtdgtgfisedlaLKCPTyvykekctnddstersidrkeleanfSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLllnkklppqtiqirpsmIKVKADRdlsdgqtfnslevvktsnqprktYLSRNLIALLSYGGVPEIFFLDILRNALDDARGvfsnkrnalkvsfNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEekkslqagklpvTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRnpglhfgdiHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFKeserwmstsknlsanKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKksgikvevpedlkvekfpcymrrdesvsfestsvlGTIYNTVKSYEAVDRSVTEIWKlpcfddgvpeACMTKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFyarrqgdrsmlcsasvlreicg

MSDPAVVSQQGVVSLPLSVEQLISKIYTEQNKLPPDDGARRSLASLGEDAALDVLRTIASDKIKYSFSGYINYLVKKRNNNGSPLKRVCFSPSSPQQNRSPVTVTTVRLLNLPQGTDYVVKQSPVADQQPRGSPMSSISHAMRHRASIPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMARFESEVWEKLGRKNISQEDRRMSLKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKFDEELGGHRSSNNWNDSYSKYNEIAREGILVGLRCYHFFVFkdggkeekkkdPSTSPVKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTDGTGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFKESERWMSTSKNLSANKRLIDfsleeleselfklflNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCFDDGVPEACMTKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYARRQGDRSMLCSASVLREICG

************VSLPLSVEQLISKIY*********************DAALDVLRTIASDKIKYSFSGYINYLVKKR************************TVTTVRLLNLPQGTDYVV**************************SIPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMARFESEVWEKLG************LKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKF*****************SKYNEIAREGILVGLRCYHFFVFKD**************VKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTDGTGFISEDLALKCPTYVYKEKC****************************YGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIK**************************KTYLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEE*KSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFK****W********ANKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQAVMDRFLTLGD********MKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCFDDGVPEACMTKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYARRQGDRSMLCSASVL*****

**********GVVSLPLSVEQLISK**********************EDAALDVLRTIASDKIKYSFSGYINYLVKK**********************************************************************IPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMARFESEVWEKLGRKNI**********WDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKFDEELGGHRS*NNWNDSYSKYNEIAREGILVGLRCYHFFVF******************CYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTDGTGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFKESERWMSTSKNLSANKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCFDDGVPEACMTKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAE*****RT*EEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYARR**********SVLREICG

**********GVVSLPLSVEQLISKIYTEQNKLPPDDGARRSLASLGEDAALDVLRTIASDKIKYSFSGYINYLVKKRNNNGSPLKRVCF************TVTTVRLLNLPQGTDYVVKQSPV***************AMRHRASIPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMARFESEVWEKLGRKNISQEDRRMSLKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKFDEELGGHRSSNNWNDSYSKYNEIAREGILVGLRCYHFFVFKDGG***********PVKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTDGTGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFKESERWMSTSKNLSANKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCFDDGVPEACMTKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYARRQGDRSMLCSASVLREICG

****AVVSQQGVVSLPLSVEQLISKIYTEQNKLPPDDGARRSLASLGEDAALDVLRTIASDKIKYSFSGYINYLVKKRNNNGSPLKR**FS***********************************DQQPRGSPMSSISHAMRHRASIPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMARFESEVWEKLGRKNISQEDRRMSLKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKFDEELGGHRSSNNWNDSYSKYNEIAREGILVGLRCYHFFVFKDGGK********TSPVKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTDGTGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSD*ARTESHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFKESERWMSTSKNLSANKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCFDDGVPEACMTKWKGYYDQYRWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYARRQGDRSMLCSASVLREICG

ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii

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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		1015	2.2.26 [Sep-21-2011]
O82190		992	Probable RNA-dependent RN	yes	no	0.956	0.978	0.522	0.0
O82188		977	Probable RNA-dependent RN	no	no	0.934	0.971	0.510	0.0
O82189		927	Probable RNA-dependent RN	no	no	0.888	0.973	0.497	0.0
Q5QMN5		1153	Probable RNA-dependent RN	yes	no	0.865	0.761	0.446	0.0
Q5QMN4		1183	Probable RNA-dependent RN	yes	no	0.826	0.709	0.452	0.0
Q8LHH9		1218	Probable RNA-dependent RN	no	no	0.434	0.362	0.260	5e-26
Q7XM31		1136	Probable RNA-dependent RN	no	no	0.559	0.5	0.243	2e-24
Q0DXS3		740	Probable RNA-dependent RN	no	no	0.569	0.781	0.227	4e-23
Q9LQV2		1107	RNA-dependent RNA polymer	no	no	0.560	0.514	0.241	1e-22
O82504		1133	RNA-dependent RNA polymer	no	no	0.592	0.530	0.238	6e-22

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

 Score =  947 bits (2449), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 534/1022 (52%), Positives = 692/1022 (67%), Gaps = 51/1022 (4%)

Query: 7    VSQQGVVSLPLSVEQLISKIYTEQN-KLPPDDGARRSLASLGEDAALDVLRTIASDKIKY 65
            VS +  ++L  SVE ++ KIY + N +LP     RR L+S+ E+ AL+ LR + +     
Sbjct: 9    VSPRSEIALLGSVETMLEKIYEKHNHRLPISVETRRKLSSISEELALETLRKVFNKPYLK 68

Query: 66   SFSGYINYLVKKRNN-NGSPLKRVCFSPSSPQQNRSPVTVTTVRLLNLPQGTDYVVKQSP 124
            +  G I Y VK     +GSP  R+    S  Q  R+P                   K+S 
Sbjct: 69   TLDGLIMYFVKGTVTVDGSP--RLSPGESPVQSPRTPA------------------KKSC 108

Query: 125  VADQQPRGSPMSSISHAMRHRAS-----IPQYVALGELEFRKAFLILSYIGENSL-EEVI 178
             A Q       +     M+   +     IP  +ALGELEF+KAFL+LSYIG  SL EEVI
Sbjct: 109  RASQDVSLDLETPSPKFMKREENGGSKYIPPLLALGELEFKKAFLLLSYIGGESLVEEVI 168

Query: 179  TADEIRGMRDLQMARFESEVWEKLGRKNISQEDRRMSLKWDSGKTHMYHCHISTKGNCTF 238
            + D+IR  +DL M  +E+ VW +LG++  S ++RR  L+ DSG TH Y CH++T G+  F
Sbjct: 169  SGDQIRKWKDLPMVSYEAAVWNRLGQRYCSPKERRRPLEGDSGMTHYYQCHVATDGSYKF 228

Query: 239  KGPYLNQTRTHLQRELGDDNILLVKFDEELGGHRSSNNWNDSYSKYNEIAREGILVGLRC 298
            KG  L  T THL + LGDDN+L VKFD+ LG        ND YS Y  IA+ GI+VGLR 
Sbjct: 229  KGHLLENTGTHLHKVLGDDNVLTVKFDKVLG---VETYCNDLYSTYKGIAKNGIMVGLRR 285

Query: 299  YHFFVFKDGGKEEKKKDPSTSPVKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVR 358
            Y FFVFKDGGKEEKKKD ST  VKCYF+R +S+A IDM   YI +GK++HEAR  FMHV 
Sbjct: 286  YRFFVFKDGGKEEKKKDVSTKGVKCYFIRTDSTASIDMQNPYIFAGKSMHEARMHFMHVN 345

Query: 359  TVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDG-NVVYKDGEALIHTDG 417
            T+SS+ NYMSR SLILSKT  LEVD + I  E+I+D  C D+D  +V+ K+G+  IH+DG
Sbjct: 346  TLSSLPNYMSRFSLILSKTKTLEVDMTGITFEQIDDIHCHDQDDKDVLDKNGKPCIHSDG 405

Query: 418  TGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQVR 477
            TG+ISEDLA  CP  ++K K      + RS + +    NF           EPPLL+Q R
Sbjct: 406  TGYISEDLARMCPVNIFKGK------SMRSNNIQSKNLNFEGQGPCGQ---EPPLLIQFR 456

Query: 478  LFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKTY 537
            +FYNG AVKGT L NKKLPP+T+Q+RPSMIKV  DR LS+  TFNSLEVV TSN PRK  
Sbjct: 457  IFYNGYAVKGTFLTNKKLPPRTVQVRPSMIKVYEDRTLSNLSTFNSLEVVTTSNPPRKAR 516

Query: 538  LSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMI 597
            LSRNL+ALLSYGGVP  FFL+ILRN L++++ +F ++R A K + NYG   Y   +A MI
Sbjct: 517  LSRNLVALLSYGGVPNDFFLNILRNTLEESKTIFYSERAAFKAAINYGDDQY---TADMI 573

Query: 598  LSGISLDEPYLQHRLSILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKD 657
            L GI LDEPYL+ RLS L+K E+ +L+AG+ P+ ESYY+MGTVDPTG LK NE+C+IL  
Sbjct: 574  LVGIPLDEPYLKDRLSYLLKTERNALKAGRFPIDESYYIMGTVDPTGELKENEICVILHS 633

Query: 658  GQVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGG 717
            GQ+S + VLVYRNPGLHFGDIHVLKATYVK LED+VG +K+A+FFP  GPRSL DEIAGG
Sbjct: 634  GQISGD-VLVYRNPGLHFGDIHVLKATYVKALEDYVGNAKFAVFFPQKGPRSLGDEIAGG 692

Query: 718  DFDGDMYFVSRNPELLKHFKESERWMSTSK--NLSANKRLIDFSLEELESELFKLFLNTR 775
            DFDGDMYF+SRNP+LL+HFK SE W+S+SK   +   ++  + S EELE ELFK+FL  R
Sbjct: 693  DFDGDMYFISRNPKLLEHFKPSEPWVSSSKPSKIYCGRKPSELSEEELEEELFKMFLKAR 752

Query: 776  FCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIKV 835
            FC  +   +AADCW  +MD FLTLGDESA+EK   K+N+L+LI+IYYDALDAPKK G KV
Sbjct: 753  FCKRDVIGMAADCWLGIMDPFLTLGDESAKEKYERKKNILKLIDIYYDALDAPKK-GAKV 811

Query: 836  EVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCF-DDGV 894
            ++P DL+++ FP YM RD    F STS+LG I++TV S+ A +   +EI KL  F D+ V
Sbjct: 812  DLPPDLEIKNFPHYMERDPKRDFRSTSILGLIFDTVDSHNAEEPPPSEISKLWYFEDEPV 871

Query: 895  PEACMTKWKGYYDQYRWEMKEA-IDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLE 953
            P++ M K+  +Y+ YR EM +A ++   V+R +    VI++YKQ  YGAA FE S ++LE
Sbjct: 872  PKSHMDKFTSWYENYRSEMSQAMMETDKVKRNQLTNEVIQRYKQDFYGAAGFEDSNKSLE 931

Query: 954  EIYNEALAIYNITYDLAASRRQVSYCSFAWRVAGSALRKFYARRQGDRSMLCSASVLREI 1013
            E+Y +ALA+YN+ YD A  +  V+ C+FAW VAG  L KFY ++  D+S++ S SVL+++
Sbjct: 932  ELYPQALALYNVVYDYAI-QEGVAKCTFAWNVAGPVLCKFYLKKTKDKSVVASTSVLKKL 990

Query: 1014 CG 1015
             G
Sbjct: 991  LG 992

Probably involved in the RNA silencing pathway and required for the generation of small interfering RNAs (siRNAs).
Arabidopsis thaliana (taxid: 3702)
EC: 2EC: .EC: 7EC: .EC: 7EC: .EC: 4EC: 8

>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\|O82189\|RDR4_ARATH Probable RNA-dependent RNA polymerase 4 OS=Arabidopsis thaliana GN=RDR4 PE=3 SV=2	Back alignment and function description

>sp\|Q5QMN5\|RDR3_ORYSJ Probable RNA-dependent RNA polymerase 3 OS=Oryza sativa subsp. japonica GN=RDR3 PE=2 SV=2	Back alignment and function description

>sp\|Q5QMN4\|RDR4_ORYSJ Probable RNA-dependent RNA polymerase 4 OS=Oryza sativa subsp. japonica GN=RDR4 PE=2 SV=2	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\|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\|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\|Q9LQV2\|RDR1_ARATH RNA-dependent RNA polymerase 1 OS=Arabidopsis thaliana GN=RDR1 PE=2 SV=1	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

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		1015
297738765		929	unnamed protein product [Vitis vinifera]	0.908	0.992	0.556	0.0
225445110		943	PREDICTED: probable RNA-dependent RNA po	0.914	0.984	0.558	0.0
449436040		1056	PREDICTED: probable RNA-dependent RNA po	0.956	0.919	0.521	0.0
42569164		992	RNA-dependent RNA polymerase-like protei	0.956	0.978	0.522	0.0
297832162		981	RNA-dependent RNA polymerase family prot	0.952	0.985	0.508	0.0
42569168		977	RNA-dependent RNA polymerase-like protei	0.934	0.971	0.510	0.0
3687227		966	hypothetical protein [Arabidopsis thalia	0.932	0.979	0.507	0.0
356497593		953	PREDICTED: probable RNA-dependent RNA po	0.839	0.894	0.536	0.0
42569166		927	RNA-dependent RNA polymerase family prot	0.888	0.973	0.497	0.0
3687226		905	hypothetical protein [Arabidopsis thalia	0.851	0.954	0.487	0.0

>gi\|297738765\|emb\|CBI28010.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

 Score = 1035 bits (2675), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 559/1004 (55%), Positives = 706/1004 (70%), Gaps = 82/1004 (8%)

Query: 13   VSLPLSVEQLISKIYTEQNKLPPDDGARRSLASLGEDAALDVLRTIASDKIKYSFSGYIN 72
            VSLP SVEQ++ +I TEQ + PP+   RR+LASLGE++ L++LR I+  KI+ + S  IN
Sbjct: 3    VSLPHSVEQMLQRICTEQQQPPPEAHTRRNLASLGEESTLELLRKISHLKIR-NLSALIN 61

Query: 73   YLVKKRNNNGSPLKRVCFSPSSPQQNRSPVTVTTVRLLNLPQGTDYVVKQSPVADQQPRG 132
            Y+V K                + Q + +  + T   L++ P                   
Sbjct: 62   YMVGK----------------AAQGDAASHSPTPKHLISSP------------------- 86

Query: 133  SPMSSISHAMRHRASIPQYVALGELEFRKAFLILSYIGENSLEEVITADEIRGMRDLQMA 192
               SS     R +AS PQ VALGELEFRKAFLILSYIG+   E++++A+EI  +++L M 
Sbjct: 87   ---SSTPKKARRQASSPQLVALGELEFRKAFLILSYIGDKRPEDLLSAEEILKLKNLPMG 143

Query: 193  RFESEVWEKLGRKNISQEDRRMSLKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQR 252
             FE+EVW  LGRK I +EDR+ S  WDS KTH+YHCH+S  G+  FKGPYLN+TRTHLQR
Sbjct: 144  VFETEVWNNLGRKFIKEEDRQRSFDWDSDKTHIYHCHVSPDGSYRFKGPYLNKTRTHLQR 203

Query: 253  ELGDDNILLVKFDEELGGHRSSNNWNDSYSKYNEIAREGILVGLRCYHFFVFKDGGKEEK 312
             LGD+NILLVKF E++    S N   DS + YN+IAREGI VGLR Y FFVFKDGGKEEK
Sbjct: 204  VLGDENILLVKFAEDVTDRSSLNCSTDSNASYNKIAREGIFVGLRQYRFFVFKDGGKEEK 263

Query: 313  KKDPSTSPVKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSL 372
            KK+P TS VKCYFV MESSA         LSGKTVHEAR +FMH   VSSVA YM+R SL
Sbjct: 264  KKNP-TSSVKCYFVFMESSA---------LSGKTVHEARCIFMHAHMVSSVAKYMARFSL 313

Query: 373  ILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVY-KDGEALIHTDGTGFISEDLALKCPT 431
            ILSKT+KL+VD S +NI+RI+DEP RD+DG+VVY +D + LI TDGTGFISEDLAL+CP 
Sbjct: 314  ILSKTVKLDVDLSTVNIQRIDDEPGRDEDGHVVYDEDWKPLILTDGTGFISEDLALRCPN 373

Query: 432  YVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLLL 491
             + + K  N+ +++                         PLL+Q RLF NG AVKGTLLL
Sbjct: 374  NLCRGKYMNNGNSD-------------------------PLLIQCRLFNNGCAVKGTLLL 408

Query: 492  NKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGV 551
            N+KLPP+TIQIRPSMIKV+ D  LSD QT NS+E+  TSNQPR++YLS+ LIALLSYGGV
Sbjct: 409  NRKLPPRTIQIRPSMIKVETDPKLSDTQTVNSVEINGTSNQPRRSYLSKYLIALLSYGGV 468

Query: 552  PEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHR 611
            P  +F+++L++AL+DA  V S+KR AL+VS  +G MD D    RMILSGI +DEP+L H 
Sbjct: 469  PNEYFMNLLKDALEDAPSVQSSKRAALRVSLRFGEMD-DSIVTRMILSGIPIDEPFLHHC 527

Query: 612  LSILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNP 671
            LS ++ EE+K L+ GKLPV + +YLMGT DPTG LKS+EVCIIL  GQV   +VLVY++P
Sbjct: 528  LSFMVNEERKGLRVGKLPVNDCFYLMGTADPTGTLKSDEVCIILDHGQVQG-RVLVYKHP 586

Query: 672  GLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPE 731
            GLHFGDIHVL ATYV+ LE+FVG +KYAIFFP  GPRSLADE+A  DFDGDMY+VSRN +
Sbjct: 587  GLHFGDIHVLNATYVEALEEFVGNAKYAIFFPIKGPRSLADEMANSDFDGDMYWVSRNQQ 646

Query: 732  LLKHFKESERWM-STSKNLSANKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQ 790
            LL++F+ SE WM   S     +KR  DFS +ELE ELF+LFL TRF  S+A  +AAD W 
Sbjct: 647  LLQYFRASEPWMRKRSTRHVPSKRPTDFSPDELEHELFQLFLTTRFQTSSAIGMAADNWL 706

Query: 791  AVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYM 850
              MDR LTL D+ ++EK  +K  ML L +IYYDALDAP KSG+KV V ++LK EKFP +M
Sbjct: 707  VFMDRLLTLRDDCSDEKECLKRKMLELTDIYYDALDAP-KSGMKVNVSKELKAEKFPHFM 765

Query: 851  RRDESVSFESTSVLGTIYNTVKSYEAVDRSVTEIWKLPCFD-DGVPEACMTKWKGYYDQY 909
             R+   S+ STS+LG IY+ V+S++  ++S  EIW+LP F+ D VP+AC+  WK  YDQY
Sbjct: 766  GRES--SYHSTSILGQIYDAVESFQPENQSTKEIWRLPLFNIDAVPQACLRSWKDRYDQY 823

Query: 910  RWEMKEAIDKCTVEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDL 969
            R EM  A+      ++E A  VI KYKQILYGAAEFE+S R LE+I++EALAIY++TY+ 
Sbjct: 824  RSEMAAALQHGGETKDEYAAEVINKYKQILYGAAEFEESPRNLEDIFDEALAIYHVTYEF 883

Query: 970  AASRRQVSYCSFAWRVAGSALRKFYARRQGDRSMLCSASVLREI 1013
              +  +VSYC+F WRVAG AL K Y  + G++SM+C  SVLR++
Sbjct: 884  VINGARVSYCNFPWRVAGRALCKLYTVKLGEKSMVCVPSVLRQV 927

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|225445110\|ref\|XP_002280491.1\| PREDICTED: probable RNA-dependent RNA polymerase 5-like [Vitis vinifera]	Back alignment and taxonomy information

>gi\|449436040\|ref\|XP_004135802.1\| PREDICTED: probable RNA-dependent RNA polymerase 5-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|42569164\|ref\|NP_179581.2\| RNA-dependent RNA polymerase-like protein [Arabidopsis thaliana] gi\|322967566\|sp\|O82190.2\|RDR3_ARATH RecName: Full=Probable RNA-dependent RNA polymerase 3; Short=AtRDRP3; AltName: Full=RNA-directed RNA polymerase 3 gi\|330251848\|gb\|AEC06942.1\| RNA-dependent RNA polymerase-like protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|297832162\|ref\|XP_002883963.1\| RNA-dependent RNA polymerase family protein [Arabidopsis lyrata subsp. lyrata] gi\|297329803\|gb\|EFH60222.1\| RNA-dependent RNA polymerase family protein [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|42569168\|ref\|NP_179583.3\| RNA-dependent RNA polymerase-like protein [Arabidopsis thaliana] gi\|322967572\|sp\|O82188.2\|RDR5_ARATH RecName: Full=Probable RNA-dependent RNA polymerase 5; Short=AtRDRP5; AltName: Full=RNA-directed RNA polymerase 5 gi\|330251850\|gb\|AEC06944.1\| RNA-dependent RNA polymerase-like protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|3687227\|gb\|AAC62125.1\| hypothetical protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|356497593\|ref\|XP_003517644.1\| PREDICTED: probable RNA-dependent RNA polymerase 5-like [Glycine max]	Back alignment and taxonomy information

>gi\|42569166\|ref\|NP_179582.2\| RNA-dependent RNA polymerase family protein [Arabidopsis thaliana] gi\|322967571\|sp\|O82189.2\|RDR4_ARATH RecName: Full=Probable RNA-dependent RNA polymerase 4; Short=AtRDRP4; AltName: Full=RNA-directed RNA polymerase 4 gi\|330251849\|gb\|AEC06943.1\| RNA-dependent RNA polymerase family protein [Arabidopsis thaliana]	Back alignment and taxonomy information

>gi\|3687226\|gb\|AAC62124.1\| hypothetical protein [Arabidopsis thaliana]	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		1015
TAIR\|locus:2052040		992	AT2G19910 [Arabidopsis thalian	0.837	0.856	0.542	1.1e-240
TAIR\|locus:2052020		977	AT2G19930 [Arabidopsis thalian	0.534	0.555	0.572	4.3e-239
TAIR\|locus:2052030		927	AT2G19920 [Arabidopsis thalian	0.478	0.524	0.548	1.1e-211
TAIR\|locus:2006822		1107	RDR1 "AT1G14790" [Arabidopsis	0.258	0.236	0.279	5.2e-18
TAIR\|locus:2136068		1133	RDR2 "RNA-dependent RNA polyme	0.066	0.060	0.442	2.5e-16
DICTYBASE\|DDB_G0291249		2403	rrpB "RNA-directed RNA polymer	0.404	0.171	0.255	1.4e-15
DICTYBASE\|DDB_G0289659		2417	rrpA "RNA-directed RNA polymer	0.404	0.170	0.253	1.9e-15
POMBASE\|SPAC6F12.09		1215	rdp1 "RNA-directed RNA polymer	0.190	0.158	0.247	1.9e-11
UNIPROTKB\|G4NJ50		1407	MGG_02748 "RNA-dependent RNA p	0.084	0.061	0.357	7.2e-11
ASPGD\|ASPL0000040001		1203	rrpC [Emericella nidulans (tax	0.242	0.204	0.279	8.2e-11

TAIR\|locus:2052040 AT2G19910 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 2320 (821.7 bits), Expect = 1.1e-240, P = 1.1e-240
 Identities = 474/874 (54%), Positives = 609/874 (69%)

Query:   148 IPQYVALGELEFRKAFLILSYIGENSL-EEVITADEIRGMRDLQMARFESEVWEKLGRKN 206
             IP  +ALGELEF+KAFL+LSYIG  SL EEVI+ D+IR  +DL M  +E+ VW +LG++ 
Sbjct:   137 IPPLLALGELEFKKAFLLLSYIGGESLVEEVISGDQIRKWKDLPMVSYEAAVWNRLGQRY 196

Query:   207 ISQEDRRMSLKWDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELGDDNILLVKFDE 266
              S ++RR  L+ DSG TH Y CH++T G+  FKG  L  T THL + LGDDN+L VKFD+
Sbjct:   197 CSPKERRRPLEGDSGMTHYYQCHVATDGSYKFKGHLLENTGTHLHKVLGDDNVLTVKFDK 256

Query:   267 ELGGHRSSNNWNDSYSKYNEIAREGILVGLRCYHFFVFXXXXXXXXXXXPSTSPVKCYFV 326
              LG        ND YS Y  IA+ GI+VGLR Y FFVF            ST  VKCYF+
Sbjct:   257 VLG---VETYCNDLYSTYKGIAKNGIMVGLRRYRFFVFKDGGKEEKKKDVSTKGVKCYFI 313

Query:   327 RMESSAFIDMGYQYILSGKTVHEARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSR 386
             R +S+A IDM   YI +GK++HEAR  FMHV T+SS+ NYMSR SLILSKT  LEVD + 
Sbjct:   314 RTDSTASIDMQNPYIFAGKSMHEARMHFMHVNTLSSLPNYMSRFSLILSKTKTLEVDMTG 373

Query:   387 INIERIEDEPCRDKDG-NVVYKDGEALIHTDGTGFISEDLALKCPTYVYKEKCTNDDSTE 445
             I  E+I+D  C D+D  +V+ K+G+  IH+DGTG+ISEDLA  CP  ++K K    ++  
Sbjct:   374 ITFEQIDDIHCHDQDDKDVLDKNGKPCIHSDGTGYISEDLARMCPVNIFKGKSMRSNN-- 431

Query:   446 RSIDRKELEANFSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPS 505
               I  K L  NF           EPPLL+Q R+FYNG AVKGT L NKKLPP+T+Q+RPS
Sbjct:   432 --IQSKNL--NFEGQGPCGQ---EPPLLIQFRIFYNGYAVKGTFLTNKKLPPRTVQVRPS 484

Query:   506 MIKVKADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRNALD 565
             MIKV  DR LS+  TFNSLEVV TSN PRK  LSRNL+ALLSYGGVP  FFL+ILRN L+
Sbjct:   485 MIKVYEDRTLSNLSTFNSLEVVTTSNPPRKARLSRNLVALLSYGGVPNDFFLNILRNTLE 544

Query:   566 DARGVFSNKRNALKVSFNYGGMDYDFTSARMILSGISLDEPYLQHRLSILMKEEKKSLQA 625
             +++ +F ++R A K + NYG   Y   +A MIL GI LDEPYL+ RLS L+K E+ +L+A
Sbjct:   545 ESKTIFYSERAAFKAAINYGDDQY---TADMILVGIPLDEPYLKDRLSYLLKTERNALKA 601

Query:   626 GKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWEKVLVYRNPGLHFGDIHVLKATY 685
             G+ P+ ESYY+MGTVDPTG LK NE+C+IL  GQ+S + VLVYRNPGLHFGDIHVLKATY
Sbjct:   602 GRFPIDESYYIMGTVDPTGELKENEICVILHSGQISGD-VLVYRNPGLHFGDIHVLKATY 660

Query:   686 VKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLKHFKESERWMST 745
             VK LED+VG +K+A+FFP  GPRSL DEIAGGDFDGDMYF+SRNP+LL+HFK SE W+S+
Sbjct:   661 VKALEDYVGNAKFAVFFPQKGPRSLGDEIAGGDFDGDMYFISRNPKLLEHFKPSEPWVSS 720

Query:   746 SK--NLSANKRLIDXXXXXXXXXXXXXXXNTRFCPSNAKSLAADCWQAVMDRFLTLGDES 803
             SK   +   ++  +                 RFC  +   +AADCW  +MD FLTLGDES
Sbjct:   721 SKPSKIYCGRKPSELSEEELEEELFKMFLKARFCKRDVIGMAADCWLGIMDPFLTLGDES 780

Query:   804 AEEKAAMKENMLRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSV 863
             A+EK   K+N+L+LI+IYYDALDAPKK G KV++P DL+++ FP YM RD    F STS+
Sbjct:   781 AKEKYERKKNILKLIDIYYDALDAPKK-GAKVDLPPDLEIKNFPHYMERDPKRDFRSTSI 839

Query:   864 LGTIYNTVKSYEAVDRSVTEIWKLPCFDDG-VPEACMTKWKGYYDQYRWEMKEAI-DKCT 921
             LG I++TV S+ A +   +EI KL  F+D  VP++ M K+  +Y+ YR EM +A+ +   
Sbjct:   840 LGLIFDTVDSHNAEEPPPSEISKLWYFEDEPVPKSHMDKFTSWYENYRSEMSQAMMETDK 899

Query:   922 VEREEAAELVIEKYKQILYGAAEFEQSTRTLEEIYNEALAIYNITYDLAASRRQVSYCSF 981
             V+R +    VI++YKQ  YGAA FE S ++LEE+Y +ALA+YN+ YD A  +  V+ C+F
Sbjct:   900 VKRNQLTNEVIQRYKQDFYGAAGFEDSNKSLEELYPQALALYNVVYDYAI-QEGVAKCTF 958

Query:   982 AWRVAGSALRKFYARRQGDRSMLCSASVLREICG 1015
             AW VAG  L KFY ++  D+S++ S SVL+++ G
Sbjct:   959 AWNVAGPVLCKFYLKKTKDKSVVASTSVLKKLLG 992

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

GO:0005575 "cellular_component" evidence=ND

GO:0016441 "posttranscriptional gene silencing" evidence=ISS

TAIR\|locus:2052020 AT2G19930 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

TAIR\|locus:2052030 AT2G19920 [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

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

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

DICTYBASE\|DDB_G0291249 rrpB "RNA-directed RNA polymerase" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0289659 rrpA "RNA-directed RNA polymerase" [Dictyostelium discoideum (taxid:44689)]	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

UNIPROTKB\|G4NJ50 MGG_02748 "RNA-dependent RNA polymerase 1" [Magnaporthe oryzae 70-15 (taxid:242507)]	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)
O82190	RDR3_ARATH	2, ., 7, ., 7, ., 4, 8	0.5225	0.9566	0.9788	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

Fail to connect to STRING server

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		1015
pfam05183		508	pfam05183, RdRP, RNA dependent RNA polymerase	2e-81

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

 Score =  273 bits (700), Expect = 2e-81
 Identities = 168/643 (26%), Positives = 255/643 (39%), Gaps = 156/643 (24%)

Query: 238 FKGPYLNQTRTHLQRELGDDNILLVKF-DEELGGHRSSNNWNDSYSKYNEIAREGILVGL 296
            + P L ++   L++    D  L VKF DE+L G  S++   D   +   + + GI++G 
Sbjct: 5   LELPELERSNRVLRKYGAADRFLRVKFPDEDLSGAISNDE--DVGDRVKRVLKNGIIIGD 62

Query: 297 RCYHFFVFKDGGKEEKKKDPSTSPVKCYFVRMESSAFIDMGYQYILSGKTVHEARYMFMH 356
           R   +  F +    E            +F   +     D+                 F +
Sbjct: 63  R---YLAFSNSQLRE---------HSAWFFAEDRLTAEDIRNWLG-----------DFEN 99

Query: 357 VRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTD 416
           +  V   A Y +R+    S T           IERI D P R+             I TD
Sbjct: 100 IEQV--PAKYAARIGQCFSTTRPT-TGIRIRKIERIPDIPERNG-----------YIFTD 145

Query: 417 GTGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQV 476
           G G IS DLA K                   +   E                E P   Q+
Sbjct: 146 GVGKISRDLARKIA---------------DELGTLE----------------EDPSAYQI 174

Query: 477 RLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKVKADRDLSDGQTFNSLEVVKTSNQPRKT 536
           R  + G   KG L+++  LP   I IRPSM+K             NSLE+++ S++P   
Sbjct: 175 R--FGG--YKGVLVVDPDLPGNEIHIRPSMLKFDLL----GDAAVNSLEIIR-SSKPTPA 225

Query: 537 YLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRNALKVSFNYGGMDYDFTSARM 596
           YL+R LI +LS  GVP+  F+++LR AL +     ++   AL +       +       +
Sbjct: 226 YLNRQLITVLSTLGVPDEVFIELLREALKELAEALTDWDQALDLLRKQADEN----DFTL 281

Query: 597 ILSGISLDEPYLQHRLS-ILMKEEKKSLQAGKLPVTESYYLMGTVDPTGILKSNEVCIIL 655
            L  +  ++P+L+  L  ++    KK  +  ++PV +S  L G VD TG+LK  EV + +
Sbjct: 282 TLRFMPSEDPFLRKLLRALVKHTLKKLKEKLRIPVPKSAALFGVVDETGVLKEGEVFVQV 341

Query: 656 KDGQVSWE------KVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRS 709
            DG    +       VLV RNP LH GDI V++A  V EL          + FP  G R 
Sbjct: 342 SDGNDGGQYEYLEGDVLVARNPCLHPGDIRVVRAVDVPELRHLKD----VVVFPSKGDRP 397

Query: 710 LADEIAGGDFDGDMYFVSRNPELLKHFKESERWMSTSKNLSANKRLIDFSLEELESELFK 769
           LA E++GGD DGD+YFV  +P+LL     S   ++ +                       
Sbjct: 398 LASELSGGDLDGDIYFVCWDPDLLGRI--SNSHLAIADPEGVGDP--------------- 440

Query: 770 LFLNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPK 829
                         LA    QAV                                 D P 
Sbjct: 441 ----------ECLRLAKLHSQAV---------------------------------DYP- 456

Query: 830 KSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVK 872
           K+G+ VE+   L+ +++P +M +DE  S++ST +LG +Y +V 
Sbjct: 457 KTGLPVEMKRLLRPKEWPDFMEKDEGKSYKSTRILGKLYRSVL 499

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		1015
KOG0988		1145	consensus RNA-directed RNA polymerase QDE-1 requir	100.0
PF05183		579	RdRP: RNA dependent RNA polymerase; InterPro: IPR0	100.0
KOG0988		1145	consensus RNA-directed RNA polymerase QDE-1 requir	96.42
smart00663		295	RPOLA_N RNA polymerase I subunit A N-terminus.	83.78
PF00623		166	RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; Int	83.39

>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=1.7e-150  Score=1345.24  Aligned_cols=877  Identities=28%  Similarity=0.391  Sum_probs=715.5

Q ss_pred             ccccccccccchh-HHHHHHHHHHHhCC-C-CCChhh-hhhhhc---cChHHHHHHHHHhhcccc--ccchhHHHHHHhh
Q 001771            6 VVSQQGVVSLPLS-VEQLISKIYTEQNK-L-PPDDGA-RRSLAS---LGEDAALDVLRTIASDKI--KYSFSGYINYLVK   76 (1015)
Q Consensus         6 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~-~-~~~~~~-~~~~~~---~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~   76 (1015)
                      .+++...++|+++ +++.+++||-+.++ . +.++++ |+.|++   ..|.++..++++++....  .++|++|+.+.++
T Consensus        58 ~~~~f~~i~l~~~~~~~~~a~v~f~~~~~~~~~e~~~~~~~l~~~a~~~~~l~~i~~~~~F~~~~~~t~~~~~~~~~~v~  137 (1145)
T KOG0988|consen   58 HGSDFTSIALDCSGIETPLAKVYFKHNQGLNPWEVETSRRILSSLAVIRESLNQIVLEKVFDKPDGITKTFDCLESYKVN  137 (1145)
T ss_pred             ccccccccccccccchhhHHHHhhccCCCCCccchhhhhhhccccccchHHHhhHHHhhccCcccceeeeecceEEEeec
Confidence            4677888999999 99999999999997 3 899999 999999   889999999999999985  9999999999999


Q ss_pred             hccC-CCCCccccccCCCCCCCCCCC---CcceeeeeccCCCCCcccccCCcccccCCCCC----CcchhhhhcCCCCC-
Q 001771           77 KRNN-NGSPLKRVCFSPSSPQQNRSP---VTVTTVRLLNLPQGTDYVVKQSPVADQQPRGS----PMSSISHAMRHRAS-  147 (1015)
Q Consensus        77 ~~~~-~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~-  147 (1015)
                      +.++ +|+|.++.   +.+|++.+-.   +..++|+.+           |+.+++|...||    |+..+...+|.|++ 
T Consensus       138 ~~v~V~~~~~~~~---~~~p~~~~~~~~v~f~~~~~~~-----------i~~~~~D~~~~s~~~~~~~~~~~~~G~~k~~  203 (1145)
T KOG0988|consen  138 DQVTVRGSPVRRI---VESPVVEYCKLCVPFEHSCRVL-----------IETVSLDLDKPSIIRYPKSRRYLDNGGSKYF  203 (1145)
T ss_pred             ceEEEeccceeee---eecccccccccccchhhcchhh-----------eeeEEeccCcchhccCcchhhhhhcCcccee
Confidence            9998 99999887   7888887644   677777777           999999999999    99999999999988 


Q ss_pred             ----chHHHHhc--CchhhHHHH-HhhhcccCcch-------hhhhHHHHhh--ccccccccc------ch--HHHHHhc
Q 001771          148 ----IPQYVALG--ELEFRKAFL-ILSYIGENSLE-------EVITADEIRG--MRDLQMARF------ES--EVWEKLG  203 (1015)
Q Consensus       148 ----~~~~~~l~--~l~~~k~~~-~l~~~~~~~~~-------~~~~~~~ir~--~~~~~m~~~------e~--~~w~~~~  203 (1015)
                          +|...|||  ++||+|.++ .+.|+....+-       ++.+..||+.  |+++||-.+      +.  .+|+.+|
T Consensus       204 ~~~~~p~~~~~~~~~~Ef~k~~~~~~~~i~~~~~~~~~~v~~eta~~~eI~~~i~~~lP~~r~~~~~~~~~~~s~~ir~~  283 (1145)
T KOG0988|consen  204 RFAFSPLLLALGDSELEFKKDFLADLLYIRTTDLRSRTGVGIETASCDEIRVPIWKDLPYNRYNGSTAEEFRLSVWIRLG  283 (1145)
T ss_pred             ecccccHHHhhccceeeeecccccccceeeecceeccccccceeeccceecchhhccCCcccccccchhhhhhhhheecc
Confidence                99999999  999999999 99999987773       4778999999  999999877      34  7898888


Q ss_pred             ccccchhh----------------------h------------------------------c------------------
Q 001771          204 RKNISQED----------------------R------------------------------R------------------  213 (1015)
Q Consensus       204 ~~~~~~~~----------------------~------------------------------~------------------  213 (1015)
                      .+|...+.                      +                              .                  
T Consensus       284 ~~~~~~~~~~~~l~~~~~~git~~~e~l~~r~slv~dq~~~~~~~~~~f~~l~~~~~~~d~~v~~a~LekL~~~~~~cfd  363 (1145)
T KOG0988|consen  284 SKYDVSSAQLVPLNDERDFGITHLYECLVSRGSLVKDQVLLEEAHLLEFLGLLRHKVLGDDNVLEAKLEKLLKLSTKCFD  363 (1145)
T ss_pred             cccccccceeeeccccccccceeehhhhhcccchhhhhHHhhhhHHHHHHHHHhhhhccchhHHHHHHHHHhhhhhhhhh
Confidence            75541000                      0                              0                  


Q ss_pred             -------c------ccc------cCCCceEEEEEEEecCCeEEecCCeeccCCceEecccC-CCcEEEEEEecCCCC-CC
Q 001771          214 -------M------SLK------WDSGKTHMYHCHISTKGNCTFKGPYLNQTRTHLQRELG-DDNILLVKFDEELGG-HR  272 (1015)
Q Consensus       214 -------~------~~~------~~~g~~~v~~~~vtp~~~~~~~gP~le~snr~lrr~~g-~d~FLrV~F~de~~~-~~  272 (1015)
                             .      +-.      ...|.++++++.||||+ ++|.+||++++|||+|||.. .++||||+|.||+.+ +.
T Consensus       364 ~~~~~k~i~~~~~~ng~~~~~~~~~~g~~~vrk~v~TPtr-v~~~~PE~~~gNRVlR~f~~~~t~~lRvtF~De~~~~~i  442 (1145)
T KOG0988|consen  364 PYCQYKKIAKLNPSNGKLVTTKEIMEGLRRVRKVVFTPTR-VYLLAPEVEMGNRVLRKFDKDSTRFLRVTFRDEDNKLKI  442 (1145)
T ss_pred             HHHHHHHHHHHhcccCccccchhhhhcceeEEEEEEcCce-eEecCchhhhcchhheeccccCceEEEEEEEcccccccc
Confidence                   0      011      35678999999999995 77999999999999999764 699999999888774 32


Q ss_pred             CCCCc---cchHHHHHHHHHcCeEEcCeEEEEEEEecCCccccCCCCCCCCcEEEEEecCChhhhccccccccchhcHHH
Q 001771          273 SSNNW---NDSYSKYNEIAREGILVGLRCYHFFVFKDGGKEEKKKDPSTSPVKCYFVRMESSAFIDMGYQYILSGKTVHE  349 (1015)
Q Consensus       273 ~~~~~---~~~~~r~~~~L~~Gi~I~gR~y~FLa~s~S~~re~~k~~S~s~~~~~F~r~~s~w~~~~~~P~~~~~~ti~~  349 (1015)
                      +....   ..++.++..+|.+||.||+|+|+|||||+||+|+|         +.||++..             ...+|.+
T Consensus       443 r~~S~~~~t~l~~rv~~~L~~Gi~v~~r~y~FL~~s~sQlRdn---------gy~m~~~s-------------~~~~i~~  500 (1145)
T KOG0988|consen  443 RTLSTGSRTKLDMRVNSYLTDGISVANRRYEFLAFSNSQLRDN---------GYFMARFS-------------DKTKIED  500 (1145)
T ss_pred             ccCCcchhhHHHHHHHHHHhcccEEccceeEEEEecccccccC---------ceEEeecC-------------CCccHHH
Confidence            22222   34788999999999999999999999999999998         75555421             2257899


Q ss_pred             HHhhccCCCCCCchhHHHHhhhccccCcccceeeccceeEEEecCccCCCCCCCccccCCCccccccccccccHHHHHhh
Q 001771          350 ARYMFMHVRTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNVVYKDGEALIHTDGTGFISEDLALKC  429 (1015)
Q Consensus       350 ~r~~f~~i~~~~~vaK~aARlgq~FSsT~~~~V~~~~~~i~~I~DI~~~d~~g~dv~~~g~~y~FTDGvG~IS~~lA~~I  429 (1015)
                      +|.||++|+.+.+++|||||||||||+|....+-+....+..+|||+..        ++|..||||||||+||.++|++|
T Consensus       501 iR~wmG~F~~i~nv~K~aARmGqCFs~Sr~T~~~~~~~~~~~~~DI~~g--------~~g~~y~FSDGvG~iS~~~a~~v  572 (1145)
T KOG0988|consen  501 IREWMGDFRDIDNVPKLAARMGQCFSQSRGTGYVLERLDRMCPPDIEGG--------KRGNNYCFSDGVGMISLQFAREV  572 (1145)
T ss_pred             HHHHhcchhhccCHHHHHhhcCcceeccccccccccccccccCCccccc--------ccCCceeecCCcccccHHHHHHH
Confidence            9999999999999999999999999999853333567788899999742        46777999999999999999999


Q ss_pred             chhhcccccCCCCccccchhhhhhhhccccccccCCCCCCCCceEEEEecCCCCcceeEEEecCCCCCCeeeeCCCceee
Q 001771          430 PTYVYKEKCTNDDSTERSIDRKELEANFSDVARTESHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQTIQIRPSMIKV  509 (1015)
Q Consensus       430 ~~~i~k~~~l~~~~~~~k~~~~~~~~~f~~~~~~~~~~~~~PSAfQiR~~y~G~GaKGvL~vdp~l~~~~I~lRpSm~KF  509 (1015)
                      .+.+      .                         ....+|||||||+  ||  +||||+|||.++. .+.+|.||.||
T Consensus       573 sq~~------~-------------------------~~~~vPsaFQiR~--~G--~KGVvav~Ps~~~-~~~~~~~~~~s  616 (1145)
T KOG0988|consen  573 SQKR------K-------------------------FGKAVPSAFQIRY--GG--YKGVVAVDPSMDK-VLKLRDSMNKS  616 (1145)
T ss_pred             HHHH------c-------------------------ccccCChheeeec--cC--CcceEEeCccHhh-hhhhhhhhhhh
Confidence            8742      1                         1146999999995  77  7999999999764 88999999999


Q ss_pred             ecCCCCCCCCCcceEEEEeecCCCccccccHHHHHHHhCCCCCHHHHHHHHHHHHHHHHhHhcCHHH-HHHHHhhcCC-C
Q 001771          510 KADRDLSDGQTFNSLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRNALDDARGVFSNKRN-ALKVSFNYGG-M  587 (1015)
Q Consensus       510 ~~~~~~~~~~~~~~LEIv~~S~~~~~~~LNRqlI~lL~~lGVp~evF~~Lq~~~l~~l~~~~~~~~~-Al~~l~~~~~-~  587 (1015)
                      .+.        +..+||+.|+ ++.+++||||+|.+|+.+||++++|+++|+..+++-+....-.+. +.++..+++. +
T Consensus       617 ~S~--------n~~~~v~~~~-~f~~~~lnr~lI~Lls~~gv~n~~F~~il~~vle~~r~~~n~~e~~~~~~~l~~~~~m  687 (1145)
T KOG0988|consen  617 QSF--------NSLLEVTPSS-KFQPAFLNRQLITLLSYLGVLNKPFINILDQVLEKQRRITNRIEELLDRAALNYGEQM  687 (1145)
T ss_pred             hhh--------cceeeeeecc-CCccccccHHHHHHHHhcCccchHHHHHHHHHHHHHHhhhhhhhHHHHHHHhhhhhhc
Confidence            764        3456776666 689999999999999999999999999999999965433322222 2333445554 4


Q ss_pred             ChhHHHHHHHHcCCC-CC-cHHHHHHHHHHHHHHHHhhh-ccCeecCCcceeEeecCCCCCCCCCeEEEEecc-------
Q 001771          588 DYDFTSARMILSGIS-LD-EPYLQHRLSILMKEEKKSLQ-AGKLPVTESYYLMGTVDPTGILKSNEVCIILKD-------  657 (1015)
Q Consensus       588 d~~~~~~~ml~aGfp-~~-epfl~~~L~~~~~~~l~~Lk-k~rIpV~~s~~L~GV~DetG~L~eGEVfv~~s~-------  657 (1015)
                      + +++.++|++.|+| .+ ||||+++|+..++..++.+| +.||||+.|++||||+||||+||+||||||++.       
T Consensus       688 ~-~en~a~~~l~~~~~~D~EPflr~mL~~~~k~~~~~~kek~ripv~~Gr~lmGvvDETG~L~ygQVfVq~t~~~~~~~~  766 (1145)
T KOG0988|consen  688 D-DENIAAMILKGFPRIDSEPFLRSMLSSLLKFTLQLLKEKIRIPVDLGRSLMGVVDETGILKYGQVFVQYTKTIRNSDS  766 (1145)
T ss_pred             c-chHHHHHHHhcCCCCCcCHHHHHHHHHHHHHHHHHHHhcccccCcCCceeEeeeccccccccCeEEEEEccccccccc
Confidence            5 6778899999996 55 99999999999999888888 599999999999999999999999999999985       


Q ss_pred             c---eeeceeEEEEeCCCCCCCCeeEEEEeecCcccccccCcceEEEeCCCCCCCccccccCCCCCCCeEEEEeCccccc
Q 001771          658 G---QVSWEKVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYFVSRNPELLK  734 (1015)
Q Consensus       658 ~---~l~G~~VlV~RnP~lHPGDVr~v~AV~~P~L~~~~~~lkdVIVFp~kG~Rplps~lSGGDLDGD~y~ViWD~~Lv~  734 (1015)
                      +   +|+| +|||||||||||||||+++||++|+|+|+    .|||||||||+||||+||||||||||+|||||||+|||
T Consensus       767 ~~~~vitG-~VlvtKNPcLhpGDVRVl~AV~vp~L~h~----~dvVvFPQkGpRphpdE~aGsDLDGDeYfViWDqkLL~  841 (1145)
T KOG0988|consen  767 GRKEVITG-KVLVTKNPCLHPGDVRVLKAVYVPALEHM----VDVVVFPQKGPRPHPDEMAGSDLDGDEYFVIWDQKLLP  841 (1145)
T ss_pred             CCceEEEe-eEEEecCCCCCCCceEEEEeeccHHHHhh----cCEEEcCCCCCCCCccccccCCCCCceEEEEeChhhcc
Confidence            2   5999 99999999999999999999999999954    56999999999999999999999999999999999999


Q ss_pred             cccccccccccCCCCcccccCccCChHHHHHHHHHHHHhcccCCCCchhhhhhHHHHHHHHhccCCCchhHHHHhccHHH
Q 001771          735 HFKESERWMSTSKNLSANKRLIDFSLEELESELFKLFLNTRFCPSNAKSLAADCWQAVMDRFLTLGDESAEEKAAMKENM  814 (1015)
Q Consensus       735 ~f~~~~p~~~~~~P~~~~~~p~~~~~~~~~~~~f~~Fl~~~y~~~d~LG~isn~Hl~~aD~~~~~g~~~~~~~g~~~~~C  814 (1015)
                      ++++ +||..      .+.++..+...+..+++.++|+  +|+.+|+||+|+|+|+++||++           |+++..|
T Consensus       842 ~~~~-epmd~------~~~~sk~~~~~~~~~~m~effv--~yL~~DslG~isnAhl~~aD~~-----------G~~~~~C  901 (1145)
T KOG0988|consen  842 PRNE-EPMDS------SSEKSKILDGRVPLDEMSEFFV--EYLKEDSLGLISNAHLANADVY-----------GLFSDVC  901 (1145)
T ss_pred             CcCC-Ccccc------CccccccccCCCCHHHHHHHHH--HHHHHHHHHHHhhccccchhhc-----------chhhHHH
Confidence            9877 67754      3333333332222224444555  3556799999999999999984           5788999


Q ss_pred             HHHHHHHhhcccCCCCCCCcccCCCCCCCCCCCCCcCCCCCCcccccCchhhhhhhccccccccc-cc--ccccc---Cc
Q 001771          815 LRLINIYYDALDAPKKSGIKVEVPEDLKVEKFPCYMRRDESVSFESTSVLGTIYNTVKSYEAVDR-SV--TEIWK---LP  888 (1015)
Q Consensus       815 l~LA~L~S~AVD~pK~TG~~v~lp~~L~~~~~PdFM~k~~~~~Y~S~kiLGkLYr~v~~~~~~~~-~~--~~~~~---~~  888 (1015)
                      +.||++||+|||||| ||..+.+|..++|++|||||++.++++|.|++++|||||+++.+..... .+  ++...   .+
T Consensus       902 l~LA~k~~~AVDF~K-sG~d~~~~~~ek~e~~PDfm~~~d~p~Y~S~~l~GkLfR~~~aid~~~~~~e~~~~~~~i~yD~  980 (1145)
T KOG0988|consen  902 LELAKKHSQAVDFPK-SGADESMPEKEKPERYPDFMEKTDKPTYYSERLCGKLFREAKAIDAPLKGSEERSEQVEVEYDE  980 (1145)
T ss_pred             HHHHHhhcccccccc-cCCcccccchhchhhcchhhhCCCCceeecchhhhHHHHHHHhhcchhhcCccccCcccccCCc
Confidence            999999999999999 9999999999999999999999999999999999999998876543222 11  11111   12


Q ss_pred             cCCCCCChHHHHHHHHHHHHHHHHHHHHHHhhhhhH------------HH-----------HHHHHHHHHHHHHHhh---
Q 001771          889 CFDDGVPEACMTKWKGYYDQYRWEMKEAIDKCTVER------------EE-----------AAELVIEKYKQILYGA---  942 (1015)
Q Consensus       889 ~f~~~v~~~~~~~a~~~~~~Y~~~l~~lm~~~k~~~------------~~-----------~~~~l~~~yr~~~~~~---  942 (1015)
                      +...+.++.+++.|..+...|+.+|++||++++.+.            ++           +++.+...||+.|++.   
T Consensus       981 ~l~v~gFe~yme~a~~~~~~y~~qL~slm~~ygi~~E~eI~sG~~~~ddms~~~t~~~~e~~~~~l~~~~r~~~~qef~~ 1060 (1145)
T KOG0988|consen  981 DLEVDGFEHYMERAKKQVASYNGQLRSLMDFYGISTEGEIFSGILDQDDMSFYNTERMIELKLERLVLKLREKFFQEFGA 1060 (1145)
T ss_pred             ccCcCCcHHHHHHHHHHHhhhhhHHHHHHHHhCccchhhhhccCccccchhhhcccccchhhhHHHHHHHHHHHHHHhhh
Confidence            222556899999999999999999999999854322            22           2334555555443331   


Q ss_pred             --------hhhhhccCCHHHHHHHhHHhhh-hccccccccCCCCccccchhhhHHHHHHHHHH---hhCCC
Q 001771          943 --------AEFEQSTRTLEEIYNEALAIYN-ITYDLAASRRQVSYCSFAWRVAGSALRKFYAR---RQGDR 1001 (1015)
Q Consensus       943 --------~~f~~~~~~~~~~~~~A~AwY~-VtY~~a~~~~~~~~lSFpWiv~~~~L~~ik~~---~~~~~ 1001 (1015)
                              .+|++. ...+.+.+||+|||+ ++|+.+...+..+++||||+++ ++||+||..   +.+++
T Consensus      1061 y~~~~e~l~~fe~~-~~eE~~~kKa~aWY~v~~ye~~~~~~~~~~~SF~wia~-Dvl~~iK~~~~~~~g~a 1129 (1145)
T KOG0988|consen 1061 YKLEIEKLSCFEDS-PEEEFIMKKASAWYRVYRYEMAQAMRETRKLSFAWIAY-DVLARIKQTFLGAIGGA 1129 (1145)
T ss_pred             hcchhhhccccccC-chhHHHHHHHHHHHHHHHhhhhcccccCcccchHHHHH-HHHHHHHHHHHHhhccc
Confidence                    123221 223448899999999 9999998877888999999977 699999998   55554

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

>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

>smart00663 RPOLA_N RNA polymerase I subunit A N-terminus	Back alignment and domain information

>PF00623 RNA_pol_Rpb1_2: RNA polymerase Rpb1, domain 2; InterPro: IPR000722 RNA polymerases catalyse the DNA dependent polymerisation of RNA from DNA, using the four ribonucleoside triphosphates as substrates	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		1015
2j7n_A		1022	Structure Of The Rnai Polymerase From Neurospora Cr		7e-08

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

Back alignment and structure

Iteration: 1

Score = 56.6 bits (135), Expect = 7e-08, Method: Compositional matrix adjust. Identities = 45/144 (31%), Positives = 70/144 (48%), Gaps = 14/144 (9%) Query: 607 YLQHRLSILMKEEKKSLQAG-KLPVTESYYLMGTVDPTGILKSNEVCI----ILKDGQVS 661 YLQ L K + +L++ + V S Y+ D G+L+ NEV + +D + S Sbjct: 510 YLQDIAWDLQKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKFRDEEES 569 Query: 662 WE-----KVLVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAG 716 + VLV R+P DI ++A + EL K I F G LA +++G Sbjct: 570 FTLLSDCDVLVARSPAHFPSDIQRVRAVFKPELHSL----KDVIIFSTKGDVPLAKKLSG 625 Query: 717 GDFDGDMYFVSRNPELLKHFKESE 740 GD+DGDM +V +PE++ F +E Sbjct: 626 GDYDGDMAWVCWDPEIVDGFVNAE 649

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		1015
2j7n_A		1022	RNA-dependent RNA polymerase; RNAI response, RNA-d	1e-72
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-14
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-11
1vt4_I		1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-11

>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 =  259 bits (662), Expect = 1e-72
 Identities = 140/949 (14%), Positives = 280/949 (29%), Gaps = 199/949 (20%)

Query: 195  ESEVWEKLGRKNISQEDRRMSLKWDSGKTHMYHCHISTKGNCTFK----GPYLNQTRTHL 250
             ++V+      N   +   + L        + +   ++     +          Q    L
Sbjct: 93   PNDVFVTAMTGNFESKGSAVVLS-----AVLDYNPDNSPTAPLYLVKLKPLMFEQG-CRL 146

Query: 251  QRELGDDNILLVKFDEELGGHRSSNNWNDS-----YSKYNEIAREGILVGLRCYHFFVFK 305
             R  G D    +          S                  +      +  R +  F  K
Sbjct: 147  TRRFGPDRFFEILIPSPTSTSPSVPPVVSKQPAAVEEVIQWLTMGQHSLVGRQWRAFFAK 206

Query: 306  DGGKEEKKKD-----PSTSPVK---CYFVRMESSAFIDMGYQYIL-----------SGKT 346
            D G  +  ++         P+     +F       F    ++              +   
Sbjct: 207  DAGYRKPLREFQLRAEDPKPIIKERVHFFAETGITFRPDVFKTRSVVPAEEPVEQRTEFK 266

Query: 347  VHEARYMFMHV--RTVSSVANYMSRLSLILSKTMKLEVDFSRINIERIEDEPCRDKDGNV 404
            V +     + +   T        SR+ L LSKT  + +      I   + +        +
Sbjct: 267  VSQMLDWLLQLDNNTWQPHLKLFSRIQLGLSKTYAI-MTLEPHQIRHHKTD--------L 317

Query: 405  VYKDGEALIHTDGTGFISEDLALKCPTYVYKEKCTNDDSTERSIDRKELEANFSDVARTE 464
            +   G   +  DG G +S  +A +                                 R  
Sbjct: 318  LSPSGTGEVMNDGVGRMSRSVAKRI--------------------------------RDV 345

Query: 465  SHYGEPPLLMQVRLFYNGTAVKGTLLLNKKLPPQT--IQIRPSMIKVKADRDLSDGQTFN 522
               G+ P  +Q R  +     KG  +++         I+  PS  K + D          
Sbjct: 346  LGLGDVPSAVQGR--FGS--AKGMWVIDVDDTGDEDWIETYPSQRKWECDFVDKH---QR 398

Query: 523  SLEVVKTSNQPRKTYLSRNLIALLSYGGVPEIFFLDILRN-ALDDARGVFSNKRNALKVS 581
            +LEV   +++ +   L+  L+ +L      ++     + +  ++D +  FS +++AL   
Sbjct: 399  TLEVRSVASELKSAGLNLQLLPVLEDRARDKVKMRQAIGDRLINDLQRQFSEQKHALNRP 458

Query: 582  FNYGGMDYDFTS-------------------------ARMILSGIS-LDEPYLQHRLSIL 615
              +    Y+  S                           ++ SG     + YLQ     L
Sbjct: 459  VEFRQWVYESYSSRATRVSHGRVPFLAGLPDSQEETLNFLMNSGFDPKKQKYLQDIAWDL 518

Query: 616  MKEEKKSLQA-GKLPVTESYYLMGTVDPTGILKSNEVCIILKDGQVSWE---------KV 665
             K +  +L++   + V  S Y+    D  G+L+ NEV +         E          V
Sbjct: 519  QKRKCDTLKSKLNIRVGRSAYIYMIADFWGVLEENEVHVGFSSKFRDEEESFTLLSDCDV 578

Query: 666  LVYRNPGLHFGDIHVLKATYVKELEDFVGTSKYAIFFPCNGPRSLADEIAGGDFDGDMYF 725
            LV R+P     DI  ++A +  EL          I F   G   LA +++GGD+DGDM +
Sbjct: 579  LVARSPAHFPSDIQRVRAVFKPELHSLKD----VIIFSTKGDVPLAKKLSGGDYDGDMAW 634

Query: 726  VSRNPELLKHFKESE--------RWMSTSKNLSANKRLIDFSLEELESELFKLFLNTRFC 777
            V  +PE++  F  +E        R++   K           +    + +     +   F 
Sbjct: 635  VCWDPEIVDGFVNAEMPLEPDLSRYLKKDKTTFKQLMASHGTGSAAKEQTTYDMIQKSFH 694

Query: 778  PSNAKS---LAADCWQAVMDRFLTLGDESAEEKAAMKENMLRLINIYYDALDAPKKSGIK 834
             +   +   +  +  + +     ++ +          +  + L ++  + +D   K GI 
Sbjct: 695  FALQPNFLGMCTNYKERLCYINNSVSN----------KPAIILSSLVGNLVDQS-KQGIV 743

Query: 835  VEVPEDLKV-EKFPCYMRRDESVSFESTSVLGT------------------IYNTVKSYE 875
                   ++  +            ++S S LG                   I   ++++ 
Sbjct: 744  FNEASWAQLRRELLGGALSLPDPMYKSDSWLGRGEPTHIIDYLKFSIARPAIDKELEAFH 803

Query: 876  AVDRSVTEIWKLPCFDDGVPEACMTKWKGYYDQY----------------------RWEM 913
               ++  +      F D    +  T +K   D+                       R   
Sbjct: 804  NAMKAAKDTEDGAHFWDPDLASYYTFFKEISDKSRSSALLFTTLKNRIGEVEKEYGRLVK 863

Query: 914  KEAIDKCTVEREEAAELVIEKYKQIL------YGAAEFEQSTRTLEEIYNEALAIYNITY 967
             + +             V EK+  I        GA    +  R LE  +     +     
Sbjct: 864  NKEMRDSKDPYPVRVNQVYEKWCAITPEAMDKSGANYDSKVIRLLELSFLADREMNTWAL 923

Query: 968  DLAASRRQVSY---CSFAWRVAGSALRKFYARRQGDRSMLCSASVLREI 1013
              A++  ++ Y     F W++AG  L    A+          A +   +
Sbjct: 924  LRASTAFKLYYHKSPKFVWQMAGRQLAYIKAQMTSRPGEGAPALMTAFM 972

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

>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

No hit with probability above 80.00

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

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

ID	Alignment Graph	Length	Definition	Probability
Query		1015
d1twfa_		1449	RBP1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	86.73
d1smyd_		1504	RNA-polymerase beta-prime {Thermus thermophilus [T	86.17

>d1twfa_ e.29.1.2 (A:) RBP1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}	Back information, alignment and structure

class: Multi-domain proteins (alpha and beta)
fold: beta and beta-prime subunits of DNA dependent RNA-polymerase
superfamily: beta and beta-prime subunits of DNA dependent RNA-polymerase
family: RNA-polymerase beta-prime
domain: RBP1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=86.73  E-value=0.63  Score=20.97  Aligned_cols=10  Identities=20%  Similarity=0.288  Sum_probs=4.9

Q ss_pred             CCCCCHHHHH
Q ss_conf             7888202035
Q 001771          777 CPSNAKSLAA  786 (1015)
Q Consensus       777 ~~~d~LG~is  786 (1015)
                      -+-+.+|.+|
T Consensus      1058 ~pGEaVGiiA 1067 (1449)
T d1twfa_        1058 HPGEMVGVLA 1067 (1449)
T ss_dssp             CTTCCHHHHH
T ss_pred             HCCCCCHHHH
T ss_conf             1367512121

PyMOL of d1twfa_

>d1smyd_ e.29.1.2 (D:) RNA-polymerase beta-prime {Thermus thermophilus [TaxId: 274]}	Back information, alignment and structure