Citrus Sinensis ID: 000684

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------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------1200------1210------1220------1230------1240------1250------1260------1270------1280------1290------1300------1310------1320------1330------1340------1350--

MSHLFDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRKMVSREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKLDEQPEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAEGSWRRKKQRKGNELSAILRFGAEELFKEDRNDEESKKRLLGMDIDEILERAEKVEEKEAEGEAGNELLSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDALAPRAARNTKSYAEANEPERSNKRKKKGSELQEPQERVHKRRKAEFSVPSVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELAAVGAKNVNAKVGRKASKKGREKSENILNMPISRLKRDKKGKPGSAKVNFQTTKDRFHKPQRVEQPLTKEEGEMSDNEEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQATSDNLPKEKVASVFPSFCWHIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQERQEEAGIGPSHINGSASGSIDNDLNFSTFNRHAERQKGHKNVSTYQMTEPIHKGIDPKKFEAWKRRRRAETDMYSQAQPMLQRPMNNGTRLPDPNSLGILGAAPTDNRRFVTERRYPMRQTGFPPRQGFPSGIN

ccccccccccccEEEEEEEEccccccccccccHHHHHcccccHHHHHHHHHHHHHHHHHHcccHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHccccccccccEEEEEEccccccccccccccccccHHHHHHHHHHHHHHHHHHccccHHHHHccccccccccccccccccccccccHHHHHHHHHHHHHHccccccccccccccHHHHHHHHHHHHHHHccccccEEEEEccccHHHHHHHHHHHcccccEEEEEccHHHHHHHHHHHccccccccccccEEEEEcHHHHHHHcccccccccccEEEEEccccccccccHHHHHHHccccccEEEEccccccccHHHHHHHHccccccccccHHHHHHHHcccccccHHHHHHHHHHHccHHHHccHHHHHcccccccEEEEEEcccHHHHHHHHHHHHHcHHHHHcccccccccHHHHHHHHHHHccccccccccccccccccccccHHHHHHHHHHccHHHHHHHHHHHHcccccEEEEEHHHHHHHHHHHHHHHHccccEEEccccccHHHHHHHHHHHccccccccEEEEcccccccccccccccEEEEEcccccccHHHHHHHHHHHccccccEEEEEEEcccHHHHHHHHHHHHHHcccHHHHHccccccccHHcccccHHHHHHHHHHHHHHHHHHccccHHHHHHHccccHHHHHHHcHHHHHHHHHHccccccccccccccccccccccHHHHHccccHHHHHHHHHHcHHHHHHHHHHHHcccHHHHHHHHHcccccccHHHHHHHHHHcccccccccccccccccccccccccccHHHHHHHHHHHHHccccHHHHHHHHHHccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccHHHHHHHHHHHHHHcccHHHHHHHHHcccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHcccccccccccHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccEEEcccccccHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc

ccccccccccccHEEEEEEEcccccccccHccHHHHHHHcccHHHHHHHHHHHHHcccHccccHHHHHHcHHHHHHHHHHcHccccHHEEEEEEccccccccccEEEEEEEccccHHHcccccHHHHHHHHHHHHHHHHHHHccccccccccEcccccccccHHHcccccHcccccccHHHHHHHHHHHHHHHccccEEEEccccccHHHHHHHHHHHHHHHccccccEEEEEcHHHHHHHHHHHHHHccccEEEEEEccHHHHHHHHHHHHEcccccccEEEEEEEEEEHHHHHHcHHHHccccEEEEEEEHHHHccccHHHHHHHHHHcccccEEEEcccccHcHHHHHHHHHHHccHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHcHHHHHHHHHHHHHcccccEEEEEEEEcHHHHHHHHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccccccccHHHHHccccccccHHHHHHHHHHHcHHHHHHHHHHHHHHcccEEEEEHHHHHHHHHHHHHHHHccccEEEEcccccHHHHHHHHHHHcccccccEEEEEEcccccccEEcccccEEEEEccccccHHHHHHHHHHHHcccccEEEEEEEEEcccHHHHHHHHHHHHccccEEEEEEccccccccccccccHHHHHHHHHHcHHHHHHcccccccccccccHHHHHHHHHHHcccccccccccccHHHHHHHHHEEEEccccccHHHHHHHcHHHHHHHHHcccccEEEEEEEcccccHHccccccccccccccccccccccccccccccccccccccccccEEEcccccccHHHHHHHHHHHHHcccccHHHHHHHHHccccccccHHHHHHHHHHHHHcccccccccccccccccEEEEccccccHHHHHHHHHHHHHHHHHccccccHccccccccccccccccccccccHHHHHHHHHHHHHcccccHHHHHccccccHHHHcccccHHHccccccHHHHHHHHHHHHHHHHHccccccccccccccccccccccHHHHHcccccccccccccccccccccccccccccccccccccccHHHccccccccccHcccccccccEEEEcccccccccHHHHHHccccHHHHHHHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc

mshlfdsepdwNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRKMVSREEielndvskemdLDIIKQNSQVERIIADriskdssgnvtQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKldeqpewlrggklrdyQLEGLNFLVNSWrndtnvilademglgkTVQSVSMLGFlqnaqqipgpflvvvplstlSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEfyndkkvgrpikfNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSefstknkllitgtplqNSVEELWALLHFldhdkfkskddFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERnfhdlnkgvrgnQVSLLNIVVELKKccnhpflfesadhgyggdtsindtSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSykgfqfqrldgstkAELRHQAmdhfnapgsedFCFLLSTragglginlatadtviifdsdwnpqndLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAegswrrkkqrkGNELSAILRFGAEElfkedrndeESKKRLLGMDIDEILERAEKVEEKEAEGEAGNELLSAFKVAnfcgaeddgsfwsrwikpEAVAQAEDALApraarntksyaeanepersnkrkkkgselqepQERVHKRRkaefsvpsvpfidgasaqvrdwsygnlskrdATRFYRAVMKFGNQSQISLIARdaggavatapQEVVVELFDILIDGCREavevgspdpkgpplldffgvsvkANDLINRVEELQLLAKRISRYEDPIKQFRVLsylkpsnwskgcgwnqfdDARLLLGIHyhgfgnwenirlderlgltkkiapvelqhhetflprapnLKERANALLEMELAAVGaknvnakvgrkaskkgreksenILNMpisrlkrdkkgkpgsakvnfqttkdrfhkpqrveqpltkeegemsdneEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQatsdnlpkekvasvfpsfcwhiplysRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQERqeeagigpshingsasgsidndlnfstfnrhaerqkghknvstyqmtepihkgidpkkFEAWKRRRRAETDmysqaqpmlqrpmnngtrlpdpnslgilgaaptdnrrfvterrypmrqtgfpprqgfpsgin

mshlfdsepdwNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVvedvrfrkmvsreeielndvskemdldiiKQNSQVERIIadriskdssgnvtQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGkaslrkldeqpewlrggklrdYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYefyndkkvgrpiKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDvekslppkierilrvemsPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLfesadhgyggDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAkkkmvldhlviqklnaegswrrkkqrkgnelsailrfgaeelfkedrndeeskkrllgmdiDEILERAEKVEEKEAEGEAGNELLSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDAlapraarntksyaeanepersnkrkkkgselqepqervhkrrkaefsvpsvpfidgasaqvrdwsygnlSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKANDLINRVEELQLLAKRisryedpikQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQhhetflprapnLKERANALLEMELAavgaknvnakvgrkaskkgreksenilnmpisrlkrdkkgkpgsakvnfqttkdrfhkpqrveqpltkeegemsdneEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQAtsdnlpkekvASVFPSFCWHIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQERQEEAGIGPSHINGSASGSIDNDLNFSTFNRHAErqkghknvstyqmtepihkgidpkkfeAWKRRRRAETdmysqaqpmlqrpmnnGTRLPDPNSLgilgaaptdnrrFVTErrypmrqtgfpprqgfpsgin

MSHLFDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRKMVSREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKLDEQPEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAEGSWRRKKQRKGNELSAILRFGAEELFKEDRNDEESKKRLLGMDIDeileraekveekeaegeagnellSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDALAPRAARNTKSYAEANEPERSNKRKKKGSELQEPQERVHKRRKAEFSVPSVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELaavgaknvnakvgRKASKKGREKSENILNMPISRLKRDKKGKPGSAKVNFQTTKDRFHKPQRVEQPLTKEEGEMSDNEEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQATSDNLPKEKVASVFPSFCWHIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQERQEEAGIGPSHINGSASGSIDNDLNFSTFNRHAERQKGHKNVSTYQMTEPIHKGIDPKKFEAWKRRRRAETDMYSQAQPMLQRPMNNGTRLPDPNSLGILGAAPTDNRRFVTERRYPMRQTGFPPRQGFPSGIN

**********WNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRKMVSREEIELNDVSKEMDLDIIKQNSQVERIIADRIS***SGNVTQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEYK********************************WLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAEG**************AILRFG*********************************************LLSAFKVANFCGAEDDGSFWSRWIKPEAV********************************************************VPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVG******PPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQHHETFLPRA**L***ANALLEMELAAV****************************************************************************VYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQAT**NLPKEKVASVFPSFCWHIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIY********************************************************************************************************************************************

****F**EPDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKV*******************VSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEY*******************************PEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSF**NELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHD**********SLLNIVVELKKCCNHPFLFESADHGY*********SKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVI**********************ILRFGAE*****************GMDIDEILER*********************KVANFCGAEDDGSFWSRWIKP*****************************************************************************LSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCRE***********PPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVEL****************ANA*****************************************************************************************************************************************************************KIRNYLQLIGRRIDQ***************TMRLWNYVSTFSNLSGEKLHQ**********************************************************************************************************************************************

MSHLFDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRKMVSREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKLDEQPEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAE***********NELSAILRFGAEELFKEDRNDEESKKRLLGMDIDEILERAEK*********AGNELLSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDALA*****************************************AEFSVPSVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELAAVGAKNVNA************KSENILNMPISRLK**********KVNFQTTKDRFHKPQRVEQPLTKEEGEMSDNEEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQATSDNLPKEKVASVFPSFCWHIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQERQEEAGIGPSHINGSASGSIDNDLNFSTFNRHA********VSTYQMTEPIHKGIDPKKFEAWKRRRRAETDMYSQAQPMLQRPMNNGTRLPDPNSLGILGAAPTDNRRFVTERRYPMRQTGFPPRQGFPSGIN

********PDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRKMVSREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEATWEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKLDEQPEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAE*****KKQRKGNELSAILRFGAEELFKEDR*****KKRLLGMDIDEILERAEKVEEK***GEAGNELLSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDALAPRAARNTKSYAE***********************************SVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELAA*************************************************************************************KWMEWC*DVMADEIRTLQRLQRLQATSDNLPKEKVASVFPSFCWHIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQER********************************************************************************Q******TRLPDPNSLGIL*A********************************

oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo

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MSHLFDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRKMVSREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEATWEKDEIxxxxxxxxxxxxxxxxxxxxxGKMVDLQRKKGKASLRKLDEQPEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAEGSWRRKKQRKGNELSAILRFGAEELFKEDRNDEESKKRLLGMDIDEILERAEKVEEKEAEGEAGNELLSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDALAPRAARNTKSYAEANEPERSNKRKKKGSELQEPQERVHKRRKAEFSVPSVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGNQSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELAAVGAKNVNAKVGRKASKKGREKSENILNMPISRLKRDKKGKPGSAKVNFQTTKDRFHKPQRVEQPLTKEEGEMSDNEEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQATSDNLPKEKVASVFPSFCWHIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQERQEEAGIGPSHINGSASGSIDNDLNFSTFNRHAERQKGHKNVSTYQMTEPIHKGIDPKKFEAWKRRRRAETDMYSQAQPMLQRPMNNGTRLPDPNSLGILGAAPTDNRRFVTERRYPMRQTGFPPRQGFPSGIN

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		1352	2.2.26 [Sep-21-2011]
O14647		1828	Chromodomain-helicase-DNA	yes	no	0.710	0.525	0.439	0.0
Q7KU24		1883	Chromodomain-helicase-DNA	yes	no	0.695	0.499	0.436	0.0
B6ZLK2		1719	Chromodomain-helicase-DNA	no	no	0.525	0.413	0.525	0.0
O14646		1710	Chromodomain-helicase-DNA	no	no	0.525	0.415	0.525	0.0
P40201		1711	Chromodomain-helicase-DNA	no	no	0.525	0.414	0.522	0.0
Q9US25		1373	Chromodomain helicase hrp	yes	no	0.691	0.680	0.417	0.0
P32657		1468	Chromo domain-containing	yes	no	0.686	0.632	0.390	0.0
O14139		1388	Chromodomain helicase hrp	no	no	0.760	0.740	0.388	0.0
Q12873		2000	Chromodomain-helicase-DNA	no	no	0.511	0.345	0.440	1e-159
Q9S775		1384	CHD3-type chromatin-remod	no	no	0.665	0.650	0.364	1e-159

>sp\|O14647\|CHD2_HUMAN Chromodomain-helicase-DNA-binding protein 2 OS=Homo sapiens GN=CHD2 PE=1 SV=2	Back alignment and function desciption

 Score =  774 bits (1998), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 467/1062 (43%), Positives = 641/1062 (60%), Gaps = 101/1062 (9%)

Query: 5    FDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQN--LSGFKKVLNYAKKVVEDVRFRKMV 62
            FD+E D  E+++LIKWKG S++H  W+S   LQ   + G KK+ N+ KK  E  ++   V
Sbjct: 296  FDTEKDEGEIQYLIKWKGWSYIHSTWESEESLQQQKVKGLKKLENFKKKEDEIKQWLGKV 355

Query: 63   SREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVT-------------QEYLV 109
            S E++E  +  +E+  ++ KQ   VER+IA + SK + G                 EYL 
Sbjct: 356  SPEDVEYFNCQQELASELNKQYQIVERVIAVKTSKSTLGQTDFPAHSRKPAPSNEPEYLC 415

Query: 110  KWKGLSYAEATWEKDEIIDFA-QDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKLDEQ 168
            KW GL Y+E +WE + +I    Q+ ID + +R  +     +  + +  K +     L +Q
Sbjct: 416  KWMGLPYSECSWEDEALIGKKFQNCIDSFHSRNNSKTIPTR--ECKALKQRPRFVALKKQ 473

Query: 169  PEWLRGG--KLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIP 226
            P +L G   +LRDYQLEGLN+L +SW  + +VILADEMGLGKT+Q++S L +L +  Q+ 
Sbjct: 474  PAYLGGENLELRDYQLEGLNWLAHSWCKNNSVILADEMGLGKTIQTISFLSYLFHQHQLY 533

Query: 227  GPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNT 286
            GPFL+VVPLSTL++W +EF  W P +NV+VY+G   SR   ++YE+ + +   + +KFN 
Sbjct: 534  GPFLIVVPLSTLTSWQREFEIWAPEINVVVYIGDLMSRNTIREYEWIHSQT--KRLKFNA 591

Query: 287  LLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQN 346
            L+TTYE++LKDK VL  I W +L VDEAHRLKN ++ LY TL +F + ++LLITGTPLQN
Sbjct: 592  LITTYEILLKDKTVLGSINWAFLGVDEAHRLKNDDSLLYKTLIDFKSNHRLLITGTPLQN 651

Query: 347  SVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKS 406
            S++ELW+LLHF+  +KF+  +DF +++       EN   +LH  L P +LRR+ KDVEKS
Sbjct: 652  SLKELWSLLHFIMPEKFEFWEDFEEDH---GKGRENGYQSLHKVLEPFLLRRVKKDVEKS 708

Query: 407  LPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLF 466
            LP K+E+ILRVEMS LQKQYYKWIL RN+  L KG RG+    LNIV+ELKKCCNH +L 
Sbjct: 709  LPAKVEQILRVEMSALQKQYYKWILTRNYKALAKGTRGSTSGFLNIVMELKKCCNHCYLI 768

Query: 467  ESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILA 526
            +  +     +   N    L  +I SSGKL++LDKLL RL E  +RVLIFSQMVRMLDILA
Sbjct: 769  KPPEE----NERENGQEILLSLIRSSGKLILLDKLLTRLRERGNRVLIFSQMVRMLDILA 824

Query: 527  EYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVII 586
            EY++ K + FQRLDGS K E+R QA+DHFNA GSEDFCFLLSTRAGGLGINLA+ADTV+I
Sbjct: 825  EYLTIKHYPFQRLDGSIKGEIRKQALDHFNADGSEDFCFLLSTRAGGLGINLASADTVVI 884

Query: 587  FDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLN 646
            FDSDWNPQNDLQA +RAHRIGQ++ VNIYR VT  +VEE+I+ERAKKKMVLDHLVIQ+++
Sbjct: 885  FDSDWNPQNDLQAQARAHRIGQKKQVNIYRLVTKGTVEEEIIERAKKKMVLDHLVIQRMD 944

Query: 647  AEG------SWRRKKQRKGN--ELSAILRFGAEELFKEDRNDEESKKRLLGMDIDEILER 698
              G      +  R      N  EL+AIL+FGAE+LFKE   +E   +    MDIDEIL  
Sbjct: 945  TTGRTILENNSGRSNSNPFNKEELTAILKFGAEDLFKELEGEESEPQE---MDIDEILRL 1001

Query: 699  AEKVEEKEAEGEAGNELLSAFKVANFCGAEDDGSF-------WSRWIKPEAVAQAEDA-- 749
            AE   E E    A +ELLS FKVANF   ED+          W   I  E   + E+   
Sbjct: 1002 AE-TRENEVSTSATDELLSQFKVANFATMEDEEELEERPHKDWDEIIPEEQRKKVEEEER 1060

Query: 750  --------LAPRAARNTKSYAEANEPERSNKRKKKG-------SELQEPQERVHKRRKAE 794
                    + PR   +TK  A+ N+ +   + K++        SE ++  +    +R+  
Sbjct: 1061 QKELEEIYMLPRIRSSTKK-AQTNDSDSDTESKRQAQRSSASESETEDSDDDKKPKRRGR 1119

Query: 795  FSVPSVPFIDG-ASAQVRDWSYGNLSKRDATRFYRAVMKFG-NQSQISLIARDAGGAVAT 852
                    ++G   A++R             RF +A  KFG    ++  IARDA   +  
Sbjct: 1120 PRSVRKDLVEGFTDAEIR-------------RFIKAYKKFGLPLERLECIARDA--ELVD 1164

Query: 853  APQEVVVELFDILIDGC-------REAVEVGSPDPKGP-----PLLDFFGVSVKANDLIN 900
                 +  L +++ + C        E ++  + + KGP     P +   GV V    +I 
Sbjct: 1165 KSVADLKRLGELIHNSCVSAMQEYEEQLKENASEGKGPGKRRGPTIKISGVQVNVKSIIQ 1224

Query: 901  RVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHGFGNWE 960
              EE ++L K I    +  K++ +   +K +++     W   DD+RLLLGI+ HG+GNWE
Sbjct: 1225 HEEEFEMLHKSIPVDPEEKKKYCLTCRVKAAHFD--VEWGVEDDSRLLLGIYEHGYGNWE 1282

Query: 961  NIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEM 1002
             I+ D  L LT KI PVE        P+   L+ RA+ LL++
Sbjct: 1283 LIKTDPELKLTDKILPVETDKK----PQGKQLQTRADYLLKL 1320

Sequence-selective DNA-binding protein.
Homo sapiens (taxid: 9606)
EC: 3EC: .EC: 6EC: .EC: 4EC: .EC: 1EC: 2

>sp\|Q7KU24\|CHD1_DROME Chromodomain-helicase-DNA-binding protein 1 OS=Drosophila melanogaster GN=Chd1 PE=1 SV=1	Back alignment and function description

>sp\|B6ZLK2\|CHD1_CHICK Chromodomain-helicase-DNA-binding protein 1 OS=Gallus gallus GN=CHD1 PE=1 SV=1	Back alignment and function description

>sp\|O14646\|CHD1_HUMAN Chromodomain-helicase-DNA-binding protein 1 OS=Homo sapiens GN=CHD1 PE=1 SV=2	Back alignment and function description

>sp\|P40201\|CHD1_MOUSE Chromodomain-helicase-DNA-binding protein 1 OS=Mus musculus GN=Chd1 PE=1 SV=3	Back alignment and function description

>sp\|Q9US25\|HRP1_SCHPO Chromodomain helicase hrp1 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=hrp1 PE=1 SV=1	Back alignment and function description

>sp\|P32657\|CHD1_YEAST Chromo domain-containing protein 1 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) GN=CHD1 PE=1 SV=1	Back alignment and function description

>sp\|O14139\|HRP3_SCHPO Chromodomain helicase hrp3 OS=Schizosaccharomyces pombe (strain 972 / ATCC 24843) GN=hrp3 PE=1 SV=1	Back alignment and function description

>sp\|Q12873\|CHD3_HUMAN Chromodomain-helicase-DNA-binding protein 3 OS=Homo sapiens GN=CHD3 PE=1 SV=3	Back alignment and function description

>sp\|Q9S775\|PKL_ARATH CHD3-type chromatin-remodeling factor PICKLE OS=Arabidopsis thaliana GN=PKL PE=1 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		1352
225436589		1764	PREDICTED: chromodomain-helicase-DNA-bin	0.970	0.743	0.792	0.0
356554106		1764	PREDICTED: chromodomain-helicase-DNA-bin	0.963	0.738	0.790	0.0
356501409		1767	PREDICTED: chromodomain-helicase-DNA-bin	0.963	0.736	0.790	0.0
224104242		1748	chromatin remodeling complex subunit [Po	0.945	0.731	0.791	0.0
296083825		1539	unnamed protein product [Vitis vinifera]	0.952	0.836	0.786	0.0
449480963		1761	PREDICTED: LOW QUALITY PROTEIN: chromodo	0.959	0.736	0.792	0.0
449445043		1777	PREDICTED: chromodomain-helicase-DNA-bin	0.957	0.728	0.772	0.0
357494019		1739	Chromodomain-helicase-DNA-binding protei	0.954	0.742	0.777	0.0
297835980		1721	hypothetical protein ARALYDRAFT_480306 [	0.940	0.738	0.760	0.0
255580599		1718	chromodomain helicase DNA binding protei	0.941	0.740	0.772	0.0

>gi\|225436589\|ref\|XP_002275100.1\| PREDICTED: chromodomain-helicase-DNA-binding protein 2-like [Vitis vinifera]	Back alignment and taxonomy information

 Score = 2180 bits (5649), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 1079/1361 (79%), Positives = 1174/1361 (86%), Gaps = 49/1361 (3%)

Query: 1    MSHLFDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRK 60
            +SHLFD EP+WNEMEFLIKWKGQSHLHCQWKSF++LQNLSGFKKVLNY KKV+E+V++R 
Sbjct: 442  LSHLFDFEPNWNEMEFLIKWKGQSHLHCQWKSFSDLQNLSGFKKVLNYTKKVMEEVKYRN 501

Query: 61   MVSREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEAT 120
            M SREEIE+NDVSKEMDLD+IKQNSQVERIIA RI K+ SG+V  EYLVKW+GLSYAEAT
Sbjct: 502  MFSREEIEVNDVSKEMDLDLIKQNSQVERIIAYRIGKEGSGDVMPEYLVKWQGLSYAEAT 561

Query: 121  WEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKLDEQPEWLRGGKLRDY 180
            WEKD  I FAQDAIDEYKAREAA A QGKMVD+QRKK KASLRKLDEQP WL+GG+LRDY
Sbjct: 562  WEKDVDIAFAQDAIDEYKAREAAAAIQGKMVDMQRKKSKASLRKLDEQPGWLKGGQLRDY 621

Query: 181  QLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSN 240
            QLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQI GPFLVVVPLSTLSN
Sbjct: 622  QLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIYGPFLVVVPLSTLSN 681

Query: 241  WAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAV 300
            WAKEF+KWLP +NVIVYVGTRASREVCQQYEFY +KK GR I FN LLTTYEVVLKDKAV
Sbjct: 682  WAKEFKKWLPDLNVIVYVGTRASREVCQQYEFYTNKKTGRTILFNALLTTYEVVLKDKAV 741

Query: 301  LSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDH 360
            LSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFS KNKLLITGTPLQNSVEELWALLHFLD 
Sbjct: 742  LSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSAKNKLLITGTPLQNSVEELWALLHFLDP 801

Query: 361  DKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMS 420
            DKFK+KDDF+QNYKNLSSFNE ELANLHMELRPHILRR+IKDVEKSLPPKIERILRVEMS
Sbjct: 802  DKFKNKDDFVQNYKNLSSFNEMELANLHMELRPHILRRVIKDVEKSLPPKIERILRVEMS 861

Query: 421  PLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSIN 480
            PLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGG+ S N
Sbjct: 862  PLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGNRSTN 921

Query: 481  DTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLD 540
            D  KLER+ILSSGKLV+LDKLL +LHET HRVLIFSQMVRMLDILAEYMS +GFQFQRLD
Sbjct: 922  DCGKLERLILSSGKLVLLDKLLEKLHETNHRVLIFSQMVRMLDILAEYMSLRGFQFQRLD 981

Query: 541  GSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAM 600
            GSTKAELR QAMDHFNAPGS+DFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAM
Sbjct: 982  GSTKAELRQQAMDHFNAPGSDDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAM 1041

Query: 601  SRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAEGSWRRKKQRKG- 659
            SRAHRIGQ+EVVNIYRFVTSKSVEE+IL+RAK+KMVLDHLVIQKLNAEG   +K+ +KG 
Sbjct: 1042 SRAHRIGQREVVNIYRFVTSKSVEENILKRAKQKMVLDHLVIQKLNAEGRLEKKESKKGS 1101

Query: 660  ----NELSAILRFGAEELFKEDRNDEESKKRLLGMDIDEILERAEKVEEKEAEGEAGNEL 715
                NELSAILRFGAEELFKED+N+EESKKRLL MDIDEILERAEKVEEKE  GE GNEL
Sbjct: 1102 YFDKNELSAILRFGAEELFKEDKNEEESKKRLLSMDIDEILERAEKVEEKET-GEEGNEL 1160

Query: 716  LSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDALAPRAARNTKSYAEANEPERSNKRKK 775
            LSAFKVANF  AEDDGSFWSRWIKPEAVA+AEDALAPRAARNTKSYAEAN+PER +KRKK
Sbjct: 1161 LSAFKVANFGSAEDDGSFWSRWIKPEAVAEAEDALAPRAARNTKSYAEANQPERISKRKK 1220

Query: 776  KGSELQEPQERVHKRRKAEFSVPSVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGN 835
            K +   EPQER  KRRKA++ V  VP I+GA+AQVR WSYGNL KRDA+RF RAV+KFGN
Sbjct: 1221 KAA---EPQERAQKRRKADYLVHLVPRIEGAAAQVRGWSYGNLPKRDASRFSRAVLKFGN 1277

Query: 836  QSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKA 895
             SQI  I  + GG +  AP E  +ELFD LIDGCREAV+ G+ DPKG P+LDFFGV VKA
Sbjct: 1278 PSQIGSIVMEVGGTIEAAPTEAQIELFDALIDGCREAVKEGNLDPKG-PMLDFFGVPVKA 1336

Query: 896  NDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHG 955
            N+++NRV+ELQLLAKRISRYEDPI QFRVL YLKPSNWSKGCGWNQ DDARLLLGIHYHG
Sbjct: 1337 NEVLNRVQELQLLAKRISRYEDPIAQFRVLMYLKPSNWSKGCGWNQIDDARLLLGIHYHG 1396

Query: 956  FGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELAAVGAKNVNAK 1015
            FGNWE IRLDERLGLTKKIAPVELQHHETFLPRAPNLK+RA+ALLEMEL AVG KN N K
Sbjct: 1397 FGNWEKIRLDERLGLTKKIAPVELQHHETFLPRAPNLKDRASALLEMELVAVGGKNTNTK 1456

Query: 1016 VGRKASKKGREKSENILNMPISRLKRDKKGKPGSAKVNFQTTKDRFHKPQRVEQPLTKEE 1075
              RK SKK +E+ EN++N+ ISR K D+KGKPG    N Q  KDR HKP RVE PL KEE
Sbjct: 1457 ASRKTSKKEKER-ENLMNISISRSK-DRKGKPGFPVTNVQMRKDRSHKPHRVE-PLVKEE 1513

Query: 1076 GEMSDNEEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQATSDNLPKEKVASVFPSFCW 1135
            GEMS NEEVYEQF+EVKWMEWCEDVM  EI+TL RL +LQ TS NLPK+           
Sbjct: 1514 GEMSGNEEVYEQFREVKWMEWCEDVMKTEIKTLNRLHKLQTTSANLPKD----------- 1562

Query: 1136 HIPLYSRIKHLTSLLFFHFIQVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWN 1195
                                 VLSKIR YLQL+GRRIDQIVLEH++E YKQDRM MRLWN
Sbjct: 1563 --------------------LVLSKIRKYLQLLGRRIDQIVLEHDKEQYKQDRMIMRLWN 1602

Query: 1196 YVSTFSNLSGEKLHQIYSKLKQERQEEAGIGPSHINGSASGSIDNDLN---FSTFNRHAE 1252
            Y+STFSNLSGEKL QI+SKLKQE+ E+ G+G SH+NGSA G  D D +   F +F+RH E
Sbjct: 1603 YISTFSNLSGEKLRQIHSKLKQEQDEDGGVGSSHVNGSAWGPGDKDSDPGQFPSFHRHGE 1662

Query: 1253 R-QKGHKNVSTYQMTEPIHKGIDPKKFEAWKRRRRAET-DMYSQAQPMLQRPMNNGTRLP 1310
            R  +G+KN+S YQ  EP+ K  D  KFEAWKRRRRA+  + +S  QP+ QRPM+NG+RLP
Sbjct: 1663 RPPRGYKNMSAYQTAEPVSKSHDAGKFEAWKRRRRADNINTHSLTQPLPQRPMSNGSRLP 1722

Query: 1311 DPNSLGILGAAPTDNRRFVTERRYPMRQTGFPPRQGFPSGI 1351
            DPNSLGILG+ PTDNRRF  E+   MRQ+G+PPRQGF S I
Sbjct: 1723 DPNSLGILGSGPTDNRRFGNEKPSRMRQSGYPPRQGFSSVI 1763

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Class:

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi\|356554106\|ref\|XP_003545390.1\| PREDICTED: chromodomain-helicase-DNA-binding protein 2-like [Glycine max]	Back alignment and taxonomy information

>gi\|356501409\|ref\|XP_003519517.1\| PREDICTED: chromodomain-helicase-DNA-binding protein 2-like [Glycine max]	Back alignment and taxonomy information

>gi\|224104242\|ref\|XP_002313369.1\| chromatin remodeling complex subunit [Populus trichocarpa] gi\|222849777\|gb\|EEE87324.1\| chromatin remodeling complex subunit [Populus trichocarpa]	Back alignment and taxonomy information

>gi\|296083825\|emb\|CBI24213.3\| unnamed protein product [Vitis vinifera]	Back alignment and taxonomy information

>gi\|449480963\|ref\|XP_004156041.1\| PREDICTED: LOW QUALITY PROTEIN: chromodomain-helicase-DNA-binding protein 2-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|449445043\|ref\|XP_004140283.1\| PREDICTED: chromodomain-helicase-DNA-binding protein 2-like [Cucumis sativus]	Back alignment and taxonomy information

>gi\|357494019\|ref\|XP_003617298.1\| Chromodomain-helicase-DNA-binding protein [Medicago truncatula] gi\|355518633\|gb\|AET00257.1\| Chromodomain-helicase-DNA-binding protein [Medicago truncatula]	Back alignment and taxonomy information

>gi\|297835980\|ref\|XP_002885872.1\| hypothetical protein ARALYDRAFT_480306 [Arabidopsis lyrata subsp. lyrata] gi\|297331712\|gb\|EFH62131.1\| hypothetical protein ARALYDRAFT_480306 [Arabidopsis lyrata subsp. lyrata]	Back alignment and taxonomy information

>gi\|255580599\|ref\|XP_002531123.1\| chromodomain helicase DNA binding protein, putative [Ricinus communis] gi\|223529287\|gb\|EEF31257.1\| chromodomain helicase DNA binding protein, putative [Ricinus communis]	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		1352
TAIR\|locus:2041644		1724	CHR5 "chromatin remodeling 5"	0.826	0.647	0.794	0.0
UNIPROTKB\|O14647		1828	CHD2 "Chromodomain-helicase-DN	0.611	0.452	0.460	8.4e-213
DICTYBASE\|DDB_G0284171		1917	DDB_G0284171 "CHR group protei	0.552	0.389	0.488	2.9e-208
UNIPROTKB\|E1C1A9		1727	CHD2 "Uncharacterized protein"	0.526	0.412	0.501	3.7e-206
UNIPROTKB\|D4AD08		1834	Chd2 "Chromodomain helicase DN	0.609	0.449	0.459	1.4e-205
FB\|FBgn0250786		1883	Chd1 "Chromodomain-helicase-DN	0.524	0.376	0.503	1e-204
UNIPROTKB\|B6ZLK2		1719	CHD1 "Chromodomain-helicase-DN	0.629	0.495	0.455	2.6e-195
UNIPROTKB\|J9P6Y8		1782	CHD1 "Uncharacterized protein"	0.629	0.477	0.457	6.9e-195
UNIPROTKB\|J9NX79		1689	CHD2 "Uncharacterized protein"	0.673	0.539	0.437	9.4e-195
UNIPROTKB\|E2QUI5		1711	CHD1 "Uncharacterized protein"	0.629	0.497	0.457	1.4e-194

TAIR\|locus:2041644 CHR5 "chromatin remodeling 5" [Arabidopsis thaliana (taxid:3702)]	Back alignment and assigned GO terms

 Score = 4617 (1630.3 bits), Expect = 0., Sum P(2) = 0.
 Identities = 899/1131 (79%), Positives = 975/1131 (86%)

Query:     1 MSHLFDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQNLSGFKKVLNYAKKVVEDVRFRK 60
             +S LFD+EPDWNEMEFLIKWKGQSHLHCQWK+ ++LQNLSGFKKVLNY KKV E++R+R 
Sbjct:   449 VSQLFDTEPDWNEMEFLIKWKGQSHLHCQWKTLSDLQNLSGFKKVLNYTKKVTEEIRYRT 508

Query:    61 MVSREEIELNDVSKEMDLDIIKQNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEAT 120
              +SREEIE+NDVSKEMDLDIIKQNSQVERIIADRISKD  G+V  EYLVKW+GLSYAEAT
Sbjct:   509 ALSREEIEVNDVSKEMDLDIIKQNSQVERIIADRISKDGLGDVVPEYLVKWQGLSYAEAT 568

Query:   121 WEKDEIIDFAQDAIDEYKAREAAMAEQGKMVDLQRKKGKASLRKLDEQPEWLRGGKLRDY 180
             WEKD  I FAQ AIDEYKARE ++A QGKMV+ QR KGKASLRKLDEQPEWL GG LRDY
Sbjct:   569 WEKDVDIAFAQVAIDEYKAREVSIAVQGKMVEQQRTKGKASLRKLDEQPEWLIGGTLRDY 628

Query:   181 QLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSN 240
             QLEGLNFLVNSW NDTNVILADEMGLGKTVQSVSMLGFLQN QQIPGPFLVVVPLSTL+N
Sbjct:   629 QLEGLNFLVNSWLNDTNVILADEMGLGKTVQSVSMLGFLQNTQQIPGPFLVVVPLSTLAN 688

Query:   241 WAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAV 300
             WAKEFRKWLP MN+IVYVGTRASREVCQQYEFYN+KKVGRPIKFN LLTTYEVVLKDKAV
Sbjct:   689 WAKEFRKWLPGMNIIVYVGTRASREVCQQYEFYNEKKVGRPIKFNALLTTYEVVLKDKAV 748

Query:   301 LSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDH 360
             LSKIKW YLMVDEAHRLKNSEAQLYT L EFSTKNKLLITGTPLQNSVEELWALLHFLD 
Sbjct:   749 LSKIKWIYLMVDEAHRLKNSEAQLYTALLEFSTKNKLLITGTPLQNSVEELWALLHFLDP 808

Query:   361 DKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIKDVEKSLPPKIERILRVEMS 420
              KFK+KD+F++NYKNLSSFNE+ELANLH+ELRPHILRR+IKDVEKSLPPKIERILRVEMS
Sbjct:   809 GKFKNKDEFVENYKNLSSFNESELANLHLELRPHILRRVIKDVEKSLPPKIERILRVEMS 868

Query:   421 PLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTSIN 480
             PLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGD  IN
Sbjct:   869 PLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGD--IN 926

Query:   481 DTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLD 540
             D SKL++IILSSGKLVILDKLLVRL ETKHRVLIFSQMVRMLDILAEY+S +GFQFQRLD
Sbjct:   927 DNSKLDKIILSSGKLVILDKLLVRLRETKHRVLIFSQMVRMLDILAEYLSLRGFQFQRLD 986

Query:   541 GSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAM 600
             GSTKAELR QAMDHFNAP S+DFCFLLSTRAGGLGINLATADTV+IFDSDWNPQNDLQAM
Sbjct:   987 GSTKAELRQQAMDHFNAPASDDFCFLLSTRAGGLGINLATADTVVIFDSDWNPQNDLQAM 1046

Query:   601 SRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVIQKLNAEGSWRRKKQRKG- 659
             SRAHRIGQQEVVNIYRFVTSKSVEE+ILERAK+KMVLDHLVIQKLNAEG   +++ +KG 
Sbjct:  1047 SRAHRIGQQEVVNIYRFVTSKSVEEEILERAKRKMVLDHLVIQKLNAEGRLEKRETKKGS 1106

Query:   660 ----NELSAILRFGAEELFKEDRNDEESKKRLLGMDIDXXXXXXXXXXXXXXXXXXXXXX 715
                 NELSAILRFGAEELFKED+NDEESKKRLL MDID                      
Sbjct:  1107 NFDKNELSAILRFGAEELFKEDKNDEESKKRLLSMDIDEILERAEQVEEKHTDETEHELL 1166

Query:   716 XSAFKVANFCGAEDDGSFWSRWIKPEAVAQAEDALAPRAARNTKSYAEANEPERSNKRKK 775
               AFKVANFC AEDDGSFWSRWIKP++V  AE+ALAPRAARNTKSY + + P+R++KRKK
Sbjct:  1167 -GAFKVANFCNAEDDGSFWSRWIKPDSVVTAEEALAPRAARNTKSYVDPSHPDRTSKRKK 1225

Query:   776 KGSELQEPQERVHKRRKAEFSVPSVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGN 835
             KGSE  E  ER  KRRK E+ VPS P ++G SAQVR WSYGNL KRDA RFYR VMKFGN
Sbjct:  1226 KGSEPPEHTERSQKRRKTEYFVPSTPLLEGTSAQVRGWSYGNLPKRDAQRFYRTVMKFGN 1285

Query:   836 QSQISLIARDAGGAVATAPQEVVVELFDILIDGCREAVEVGSPDPKGPPLLDFFGVSVKA 895
              +Q++ IA + GG V  AP+E  VELFD LIDGC+E+VE G+ +PKGP +LDFFGV VKA
Sbjct:  1286 HNQMACIAEEVGGVVEAAPEEAQVELFDALIDGCKESVETGNFEPKGP-VLDFFGVPVKA 1344

Query:   896 NDLINRVEELQLLAKRISRYEDPIKQFRVLSYLKPSNWSKGCGWNQFDDARLLLGIHYHG 955
             N+L+ RV+ LQLL+KRISRY DPI QFRVLSYLKPSNWSKGCGWNQ DDARLLLGI YHG
Sbjct:  1345 NELLKRVQGLQLLSKRISRYNDPISQFRVLSYLKPSNWSKGCGWNQIDDARLLLGILYHG 1404

Query:   956 FGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELXXXXXXXXXXX 1015
             FGNWE IRLDE LGLTKKIAPVELQHHETFLPRAPNLKERA ALLEMEL           
Sbjct:  1405 FGNWEKIRLDESLGLTKKIAPVELQHHETFLPRAPNLKERATALLEMELAAAGGKNTNAK 1464

Query:  1016 XXRKASKKGREKSENILNMPISRLKRDKKGKPGSAKVNFQTTKDRFHKPQRVEQPLTKEE 1075
               RK SKK ++   N++N       RD++GK G A V+  +TKD   K Q+ E PL KEE
Sbjct:  1465 ASRKNSKKVKD---NLINQ-FKAPARDRRGKSGPANVSLLSTKDGPRKTQKAE-PLVKEE 1519

Query:  1076 GEMSDNEEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQATSDNLPKEKV 1126
             GEMSD+ EVYEQFKE KWMEWCEDV+ADEI+TL RLQRLQ TS +LPKEKV
Sbjct:  1520 GEMSDDGEVYEQFKEQKWMEWCEDVLADEIKTLGRLQRLQTTSADLPKEKV 1570

GO:0003676 "nucleic acid binding" evidence=IEA

GO:0003677 "DNA binding" evidence=IEA;ISS

GO:0003682 "chromatin binding" evidence=ISS

GO:0004386 "helicase activity" evidence=IEA;ISS

GO:0005524 "ATP binding" evidence=IEA;ISS

GO:0005634 "nucleus" evidence=ISM;IEA

GO:0006333 "chromatin assembly or disassembly" evidence=ISS

GO:0009506 "plasmodesma" evidence=IDA

UNIPROTKB\|O14647 CHD2 "Chromodomain-helicase-DNA-binding protein 2" [Homo sapiens (taxid:9606)]	Back alignment and assigned GO terms

DICTYBASE\|DDB_G0284171 DDB_G0284171 "CHR group protein" [Dictyostelium discoideum (taxid:44689)]	Back alignment and assigned GO terms

UNIPROTKB\|E1C1A9 CHD2 "Uncharacterized protein" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|D4AD08 Chd2 "Chromodomain helicase DNA binding protein 2 (Predicted)" [Rattus norvegicus (taxid:10116)]	Back alignment and assigned GO terms

FB\|FBgn0250786 Chd1 "Chromodomain-helicase-DNA-binding protein 1" [Drosophila melanogaster (taxid:7227)]	Back alignment and assigned GO terms

UNIPROTKB\|B6ZLK2 CHD1 "Chromodomain-helicase-DNA-binding protein 1" [Gallus gallus (taxid:9031)]	Back alignment and assigned GO terms

UNIPROTKB\|J9P6Y8 CHD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|J9NX79 CHD2 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

UNIPROTKB\|E2QUI5 CHD1 "Uncharacterized protein" [Canis lupus familiaris (taxid:9615)]	Back alignment and assigned GO terms

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

Prediction Level	EC number	Confidence of Prediction
3rd Layer	3.6.4.12	0.824
3rd Layer	3.6.4	0.766

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input:
	GSVIVG00022239001	SubName- Full=Chromosome chr6 scaffold_25, whole genome shotgun sequence; (1719 aa)
		(Vitis vinifera)
Predicted Functional Partners:
		Sorry, there are no predicted associations at the current settings.

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		1352
PLN03142		1033	PLN03142, PLN03142, Probable chromatin-remodeling	1e-169
COG0553		866	COG0553, HepA, Superfamily II DNA/RNA helicases, S	1e-100
pfam00176		301	pfam00176, SNF2_N, SNF2 family N-terminal domain	1e-96
cd00079		131	cd00079, HELICc, Helicase superfamily c-terminal d	2e-28
smart00487		201	smart00487, DEXDc, DEAD-like helicases superfamily	7e-26
smart00490		82	smart00490, HELICc, helicase superfamily c-termina	3e-22
pfam00271		78	pfam00271, Helicase_C, Helicase conserved C-termin	3e-21
cd00046		144	cd00046, DEXDc, DEAD-like helicases superfamily	2e-19
pfam13907		101	pfam13907, DUF4208, Domain of unknown function (DU	2e-18
COG1061		442	COG1061, SSL2, DNA or RNA helicases of superfamily	1e-12
pfam00385		52	pfam00385, Chromo, Chromo (CHRromatin Organisation	3e-12
cd00024		55	cd00024, CHROMO, Chromatin organization modifier (	1e-11
smart00298		55	smart00298, CHROMO, Chromatin organization modifie	5e-11
pfam11496		279	pfam11496, HDA2-3, Class II histone deacetylase co	7e-10
COG0513		513	COG0513, SrmB, Superfamily II DNA and RNA helicase	4e-05
PRK04914		956	PRK04914, PRK04914, ATP-dependent helicase HepA; V	6e-04
COG1203		733	COG1203, COG1203, CRISPR-associated helicase Cas3	0.004

>gnl\|CDD\|215601 PLN03142, PLN03142, Probable chromatin-remodeling complex ATPase chain; Provisional	Back alignment and domain information

 Score =  533 bits (1374), Expect = e-169
 Identities = 255/542 (47%), Positives = 354/542 (65%), Gaps = 34/542 (6%)

Query: 164 KLDEQPEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQ 223
           +L  QP  ++G K+RDYQL GLN+L+  + N  N ILADEMGLGKT+Q++S+LG+L   +
Sbjct: 158 RLLVQPSCIKG-KMRDYQLAGLNWLIRLYENGINGILADEMGLGKTLQTISLLGYLHEYR 216

Query: 224 QIPGPFLVVVPLSTLSNWAKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIK 283
            I GP +VV P STL NW  E R++ P +  + + G    R    Q E           K
Sbjct: 217 GITGPHMVVAPKSTLGNWMNEIRRFCPVLRAVKFHGNPEERA--HQREELLV-----AGK 269

Query: 284 FNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSEAQLYTTLSEFSTKNKLLITGTP 343
           F+  +T++E+ +K+K  L +  W Y+++DEAHR+KN  + L  T+  FST  +LLITGTP
Sbjct: 270 FDVCVTSFEMAIKEKTALKRFSWRYIIIDEAHRIKNENSLLSKTMRLFSTNYRLLITGTP 329

Query: 344 LQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELAN-LHMELRPHILRRIIKD 402
           LQN++ ELWALL+FL  + F S + F + ++     ++ E+   LH  LRP +LRR+  D
Sbjct: 330 LQNNLHELWALLNFLLPEIFSSAETFDEWFQISGENDQQEVVQQLHKVLRPFLLRRLKSD 389

Query: 403 VEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNH 462
           VEK LPPK E IL+V MS +QKQYYK +L+++   +N G  G +  LLNI ++L+KCCNH
Sbjct: 390 VEKGLPPKKETILKVGMSQMQKQYYKALLQKDLDVVNAG--GERKRLLNIAMQLRKCCNH 447

Query: 463 PFLFESADHGYGGDTSINDTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRML 522
           P+LF+ A+ G    T        E ++ +SGK+V+LDKLL +L E   RVLIFSQM R+L
Sbjct: 448 PYLFQGAEPGPPYTTG-------EHLVENSGKMVLLDKLLPKLKERDSRVLIFSQMTRLL 500

Query: 523 DILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGSEDFCFLLSTRAGGLGINLATAD 582
           DIL +Y+ Y+G+Q+ R+DG+T  E R  ++D FN PGSE F FLLSTRAGGLGINLATAD
Sbjct: 501 DILEDYLMYRGYQYCRIDGNTGGEDRDASIDAFNKPGSEKFVFLLSTRAGGLGINLATAD 560

Query: 583 TVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHLVI 642
            VI++DSDWNPQ DLQA  RAHRIGQ++ V ++RF T  ++EE ++ERA KK+ LD LVI
Sbjct: 561 IVILYDSDWNPQVDLQAQDRAHRIGQKKEVQVFRFCTEYTIEEKVIERAYKKLALDALVI 620

Query: 643 QKLNAEGSWRRKKQRKGNELSAILRFGAEELFKEDRN---DEESKKRLLGMDIDEILERA 699
           Q    +G    +K    +EL  ++R+GAE +F    +   DE         DID I+ + 
Sbjct: 621 Q----QGRLAEQKTVNKDELLQMVRYGAEMVFSSKDSTITDE---------DIDRIIAKG 667

Query: 700 EK 701
           E+
Sbjct: 668 EE 669

Length = 1033

>gnl\|CDD\|223627 COG0553, HepA, Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|215770 pfam00176, SNF2_N, SNF2 family N-terminal domain	Back alignment and domain information

>gnl|CDD|238034 cd00079, HELICc, Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process

Back alignment and domain information

>gnl\|CDD\|214692 smart00487, DEXDc, DEAD-like helicases superfamily	Back alignment and domain information

>gnl\|CDD\|197757 smart00490, HELICc, helicase superfamily c-terminal domain	Back alignment and domain information

>gnl\|CDD\|201125 pfam00271, Helicase_C, Helicase conserved C-terminal domain	Back alignment and domain information

>gnl\|CDD\|238005 cd00046, DEXDc, DEAD-like helicases superfamily	Back alignment and domain information

>gnl\|CDD\|206078 pfam13907, DUF4208, Domain of unknown function (DUF4208)	Back alignment and domain information

>gnl\|CDD\|223989 COG1061, SSL2, DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>gnl\|CDD\|215889 pfam00385, Chromo, Chromo (CHRromatin Organisation MOdifier) domain	Back alignment and domain information

>gnl\|CDD\|237991 cd00024, CHROMO, Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus	Back alignment and domain information

>gnl\|CDD\|214605 smart00298, CHROMO, Chromatin organization modifier domain	Back alignment and domain information

>gnl\|CDD\|221124 pfam11496, HDA2-3, Class II histone deacetylase complex subunits 2 and 3	Back alignment and domain information

>gnl\|CDD\|223587 COG0513, SrmB, Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>gnl\|CDD\|235319 PRK04914, PRK04914, ATP-dependent helicase HepA; Validated	Back alignment and domain information

>gnl\|CDD\|224124 COG1203, COG1203, CRISPR-associated helicase Cas3 [Defense mechanisms]	Back alignment and domain information

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Alignment Graph	Length	Definition	Probability
Query		1352
KOG0384		1373	consensus Chromodomain-helicase DNA-binding protei	100.0
KOG0385		971	consensus Chromatin remodeling complex WSTF-ISWI,	100.0
PLN03142		1033	Probable chromatin-remodeling complex ATPase chain	100.0
KOG0386		1157	consensus Chromatin remodeling complex SWI/SNF, co	100.0
KOG0389		941	consensus SNF2 family DNA-dependent ATPase [Chroma	100.0
KOG0391		1958	consensus SNF2 family DNA-dependent ATPase [Genera	100.0
KOG0388		1185	consensus SNF2 family DNA-dependent ATPase [Replic	100.0
KOG0387		923	consensus Transcription-coupled repair protein CSB	100.0
KOG0392		1549	consensus SNF2 family DNA-dependent ATPase domain-	100.0
KOG0383		696	consensus Predicted helicase [General function pre	100.0
KOG0390		776	consensus DNA repair protein, SNF2 family [Replica	100.0
KOG1015		1567	consensus Transcription regulator XNP/ATRX, DEAD-b	100.0
COG0553		866	HepA Superfamily II DNA/RNA helicases, SNF2 family	100.0
KOG1002		791	consensus Nucleotide excision repair protein RAD16	100.0
KOG4439		901	consensus RNA polymerase II transcription terminat	100.0
KOG1016		1387	consensus Predicted DNA helicase, DEAD-box superfa	100.0
KOG1000		689	consensus Chromatin remodeling protein HARP/SMARCA	100.0
PRK04914		956	ATP-dependent helicase HepA; Validated	100.0
KOG1001		674	consensus Helicase-like transcription factor HLTF/	100.0
PF00176		299	SNF2_N: SNF2 family N-terminal domain; InterPro: I	100.0
TIGR00603		732	rad25 DNA repair helicase rad25. All proteins in t	100.0
PRK13766		773	Hef nuclease; Provisional	100.0
KOG0298		1394	consensus DEAD box-containing helicase-like transc	99.97
COG1111		542	MPH1 ERCC4-like helicases [DNA replication, recomb	99.97
COG1061		442	SSL2 DNA or RNA helicases of superfamily II [Trans	99.96
PHA02558		501	uvsW UvsW helicase; Provisional	99.96
PTZ00110		545	helicase; Provisional	99.93
KOG0331		519	consensus ATP-dependent RNA helicase [RNA processi	99.93
PRK11776		460	ATP-dependent RNA helicase DbpA; Provisional	99.92
PRK01297		475	ATP-dependent RNA helicase RhlB; Provisional	99.92
TIGR00614		470	recQ_fam ATP-dependent DNA helicase, RecQ family.	99.92
PRK10590		456	ATP-dependent RNA helicase RhlE; Provisional	99.92
PRK04837		423	ATP-dependent RNA helicase RhlB; Provisional	99.92
PLN00206		518	DEAD-box ATP-dependent RNA helicase; Provisional	99.92
PRK11634		629	ATP-dependent RNA helicase DeaD; Provisional	99.91
KOG0330		476	consensus ATP-dependent RNA helicase [RNA processi	99.91
PRK11192		434	ATP-dependent RNA helicase SrmB; Provisional	99.91
KOG0354		746	consensus DEAD-box like helicase [General function	99.91
PRK04537		572	ATP-dependent RNA helicase RhlB; Provisional	99.9
PRK11057		607	ATP-dependent DNA helicase RecQ; Provisional	99.9
TIGR01389		591	recQ ATP-dependent DNA helicase RecQ. The ATP-depe	99.9
PTZ00424		401	helicase 45; Provisional	99.9
PLN03137		1195	ATP-dependent DNA helicase; Q4-like; Provisional	99.88
COG0513		513	SrmB Superfamily II DNA and RNA helicases [DNA rep	99.88
KOG1123		776	consensus RNA polymerase II transcription initiati	99.87
TIGR00643		630	recG ATP-dependent DNA helicase RecG.	99.87
TIGR00580		926	mfd transcription-repair coupling factor (mfd). Al	99.86
TIGR03817		742	DECH_helic helicase/secretion neighborhood putativ	99.86
PRK10689		1147	transcription-repair coupling factor; Provisional	99.86
PRK13767		876	ATP-dependent helicase; Provisional	99.86
PRK10917		681	ATP-dependent DNA helicase RecG; Provisional	99.85
KOG0333		673	consensus U5 snRNP-like RNA helicase subunit [RNA	99.84
PRK11448		1123	hsdR type I restriction enzyme EcoKI subunit R; Pr	99.84
KOG0350		620	consensus DEAD-box ATP-dependent RNA helicase [RNA	99.84
PF13907		100	DUF4208: Domain of unknown function (DUF4208)	99.84
KOG0345		567	consensus ATP-dependent RNA helicase [RNA processi	99.83
PRK02362		737	ski2-like helicase; Provisional	99.81
KOG0328		400	consensus Predicted ATP-dependent RNA helicase FAL	99.81
TIGR01587		358	cas3_core CRISPR-associated helicase Cas3. This mo	99.8
TIGR02621		844	cas3_GSU0051 CRISPR-associated helicase Cas3, Anae	99.79
KOG0341		610	consensus DEAD-box protein abstrakt [RNA processin	99.79
KOG0342		543	consensus ATP-dependent RNA helicase pitchoune [RN	99.78
PRK01172		674	ski2-like helicase; Provisional	99.78
PRK00254		720	ski2-like helicase; Provisional	99.77
TIGR03714		762	secA2 accessory Sec system translocase SecA2. Memb	99.76
PRK09200		790	preprotein translocase subunit SecA; Reviewed	99.76
KOG0348		708	consensus ATP-dependent RNA helicase [RNA processi	99.75
KOG0343		758	consensus RNA Helicase [RNA processing and modific	99.74
PHA02653		675	RNA helicase NPH-II; Provisional	99.74
KOG0335		482	consensus ATP-dependent RNA helicase [RNA processi	99.74
KOG0336		629	consensus ATP-dependent RNA helicase [RNA processi	99.74
COG0514		590	RecQ Superfamily II DNA helicase [DNA replication,	99.73
PRK12898		656	secA preprotein translocase subunit SecA; Reviewed	99.73
KOG0339		731	consensus ATP-dependent RNA helicase [RNA processi	99.72
KOG0340		442	consensus ATP-dependent RNA helicase [RNA processi	99.72
TIGR00963		745	secA preprotein translocase, SecA subunit. The pro	99.71
KOG0338		691	consensus ATP-dependent RNA helicase [RNA processi	99.71
TIGR00348		667	hsdR type I site-specific deoxyribonuclease, HsdR	99.71
KOG4284		980	consensus DEAD box protein [Transcription]	99.7
PRK09401		1176	reverse gyrase; Reviewed	99.7
PRK09751		1490	putative ATP-dependent helicase Lhr; Provisional	99.69
COG1200		677	RecG RecG-like helicase [DNA replication, recombin	99.67
TIGR03158		357	cas3_cyano CRISPR-associated helicase, Cyano-type.	99.67
COG1201		814	Lhr Lhr-like helicases [General function predictio	99.66
KOG0326		459	consensus ATP-dependent RNA helicase [RNA processi	99.65
KOG0347		731	consensus RNA helicase [RNA processing and modific	99.64
KOG0332		477	consensus ATP-dependent RNA helicase [RNA processi	99.63
TIGR01054		1171	rgy reverse gyrase. Generally, these gyrases are e	99.63
cd00079		131	HELICc Helicase superfamily c-terminal domain; ass	99.62
KOG0334		997	consensus RNA helicase [RNA processing and modific	99.62
PF09111		118	SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain	99.61
PRK05580		679	primosome assembly protein PriA; Validated	99.61
COG1205		851	Distinct helicase family with a unique C-terminal	99.6
KOG0344		593	consensus ATP-dependent RNA helicase [RNA processi	99.59
COG4096		875	HsdR Type I site-specific restriction-modification	99.59
COG1204		766	Superfamily II helicase [General function predicti	99.59
TIGR01970		819	DEAH_box_HrpB ATP-dependent helicase HrpB. This mo	99.59
PF04851		184	ResIII: Type III restriction enzyme, res subunit;	99.59
PRK14701		1638	reverse gyrase; Provisional	99.57
KOG0346		569	consensus RNA helicase [RNA processing and modific	99.57
PRK09694		878	helicase Cas3; Provisional	99.56
PRK13104		896	secA preprotein translocase subunit SecA; Reviewed	99.56
PRK11664		812	ATP-dependent RNA helicase HrpB; Provisional	99.56
PRK12906		796	secA preprotein translocase subunit SecA; Reviewed	99.55
PRK12904		830	preprotein translocase subunit SecA; Reviewed	99.55
TIGR00595		505	priA primosomal protein N'. All proteins in this f	99.54
COG1197		1139	Mfd Transcription-repair coupling factor (superfam	99.5
COG4098		441	comFA Superfamily II DNA/RNA helicase required for	99.49
COG1202		830	Superfamily II helicase, archaea-specific [General	99.47
KOG0327		397	consensus Translation initiation factor 4F, helica	99.47
PRK13107		908	preprotein translocase subunit SecA; Reviewed	99.47
smart00487		201	DEXDc DEAD-like helicases superfamily.	99.46
KOG0351		941	consensus ATP-dependent DNA helicase [Replication,	99.45
TIGR00631		655	uvrb excinuclease ABC, B subunit. This family is b	99.44
PF00271		78	Helicase_C: Helicase conserved C-terminal domain;	99.44
COG4889		1518	Predicted helicase [General function prediction on	99.43
cd00046		144	DEXDc DEAD-like helicases superfamily. A diverse f	99.41
PF11496		297	HDA2-3: Class II histone deacetylase complex subun	99.39
PRK05298		652	excinuclease ABC subunit B; Provisional	99.39
PRK12900		1025	secA preprotein translocase subunit SecA; Reviewed	99.38
KOG0337		529	consensus ATP-dependent RNA helicase [RNA processi	99.35
PRK12899		970	secA preprotein translocase subunit SecA; Reviewed	99.35
TIGR01967		1283	DEAH_box_HrpA ATP-dependent helicase HrpA. This mo	99.34
PRK11131		1294	ATP-dependent RNA helicase HrpA; Provisional	99.33
smart00490		82	HELICc helicase superfamily c-terminal domain.	99.31
PRK12326		764	preprotein translocase subunit SecA; Reviewed	99.31
COG1203		733	CRISPR-associated helicase Cas3 [Defense mechanism	99.3
PF00270		169	DEAD: DEAD/DEAH box helicase; InterPro: IPR011545	99.22
KOG0952		1230	consensus DNA/RNA helicase MER3/SLH1, DEAD-box sup	99.22
KOG0353		695	consensus ATP-dependent DNA helicase [General func	99.21
cd00268		203	DEADc DEAD-box helicases. A diverse family of prot	99.21
KOG0352		641	consensus ATP-dependent DNA helicase [Replication,	99.19
KOG0951		1674	consensus RNA helicase BRR2, DEAD-box superfamily	99.14
TIGR01407		850	dinG_rel DnaQ family exonuclease/DinG family helic	99.05
PRK13103		913	secA preprotein translocase subunit SecA; Reviewed	99.05
PRK12903		925	secA preprotein translocase subunit SecA; Reviewed	99.02
COG0556		663	UvrB Helicase subunit of the DNA excision repair c	98.94
KOG0947		1248	consensus Cytoplasmic exosomal RNA helicase SKI2,	98.89
TIGR00596		814	rad1 DNA repair protein (rad1). This family is bas	98.82
KOG0329		387	consensus ATP-dependent RNA helicase [RNA processi	98.79
PF06461		145	DUF1086: Domain of Unknown Function (DUF1086); Int	98.78
COG1110		1187	Reverse gyrase [DNA replication, recombination, an	98.76
PF13872		303	AAA_34: P-loop containing NTP hydrolase pore-1	98.75
PF00385		55	Chromo: Chromo (CHRromatin Organisation MOdifier)	98.75
CHL00122		870	secA preprotein translocase subunit SecA; Validate	98.7
COG4581		1041	Superfamily II RNA helicase [DNA replication, reco	98.62
COG1198		730	PriA Primosomal protein N' (replication factor Y)	98.51
TIGR00604		705	rad3 DNA repair helicase (rad3). All proteins in t	98.5
PRK12902		939	secA preprotein translocase subunit SecA; Reviewed	98.5
COG0610		962	Type I site-specific restriction-modification syst	98.49
PRK07246		820	bifunctional ATP-dependent DNA helicase/DNA polyme	98.47
PRK12901		1112	secA preprotein translocase subunit SecA; Reviewed	98.43
PRK08074		928	bifunctional ATP-dependent DNA helicase/DNA polyme	98.42
KOG0948		1041	consensus Nuclear exosomal RNA helicase MTR4, DEAD	98.39
KOG0949		1330	consensus Predicted helicase, DEAD-box superfamily	98.38
TIGR03117		636	cas_csf4 CRISPR-associated DEAD/DEAH-box helicase	98.31
COG1199		654	DinG Rad3-related DNA helicases [Transcription / D	98.21
KOG1513		1300	consensus Nuclear helicase MOP-3/SNO (DEAD-box sup	98.21
KOG0349		725	consensus Putative DEAD-box RNA helicase DDX1 [RNA	98.21
PRK15483		986	type III restriction-modification system StyLTI en	98.2
KOG0924		1042	consensus mRNA splicing factor ATP-dependent RNA h	98.19
cd00024		55	CHROMO Chromatin organization modifier (chromo) do	98.19
KOG0920		924	consensus ATP-dependent RNA helicase A [RNA proces	98.17
KOG0950		1008	consensus DNA polymerase theta/eta, DEAD-box super	98.11
PF02399		824	Herpes_ori_bp: Origin of replication binding prote	98.09
PF07652		148	Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR	98.08
cd00024		55	CHROMO Chromatin organization modifier (chromo) do	98.08
KOG0922		674	consensus DEAH-box RNA helicase [RNA processing an	98.05
COG1643		845	HrpA HrpA-like helicases [DNA replication, recombi	98.01
PF00385		55	Chromo: Chromo (CHRromatin Organisation MOdifier)	97.98
smart00298		55	CHROMO Chromatin organization modifier domain.	97.93
smart00489		289	DEXDc3 DEAD-like helicases superfamily.	97.84
smart00488		289	DEXDc2 DEAD-like helicases superfamily.	97.84
PRK11747		697	dinG ATP-dependent DNA helicase DinG; Provisional	97.82
smart00298		55	CHROMO Chromatin organization modifier domain.	97.78
COG0653		822	SecA Preprotein translocase subunit SecA (ATPase,	97.74
KOG0926		1172	consensus DEAH-box RNA helicase [RNA processing an	97.7
PF13871		278	Helicase_C_4: Helicase_C-like	97.68
PF13086		236	AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV	97.62
KOG0953		700	consensus Mitochondrial RNA helicase SUV3, DEAD-bo	97.61
TIGR02562		1110	cas3_yersinia CRISPR-associated helicase Cas3. The	97.56
KOG0923		902	consensus mRNA splicing factor ATP-dependent RNA h	97.54
KOG2748		369	consensus Uncharacterized conserved protein, conta	97.53
KOG0925		699	consensus mRNA splicing factor ATP-dependent RNA h	97.49
PRK14873		665	primosome assembly protein PriA; Provisional	97.43
PF07517		266	SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011	97.13
PF08074		173	CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR01295	97.08
COG3587		985	Restriction endonuclease [Defense mechanisms]	96.77
PRK10536		262	hypothetical protein; Provisional	96.67
PF02562		205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.47
KOG4150		1034	consensus Predicted ATP-dependent RNA helicase [RN	96.36
PF13401		131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	96.25
PF13604		196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	96.17
KOG1802		935	consensus RNA helicase nonsense mRNA reducing fact	96.09
PF12340		229	DUF3638: Protein of unknown function (DUF3638); In	96.09
PF09848		352	DUF2075: Uncharacterized conserved protein (DUF207	95.87
TIGR00376		637	DNA helicase, putative. The gene product may repre	95.8
cd00009		151	AAA The AAA+ (ATPases Associated with a wide varie	95.69
KOG1803		649	consensus DNA helicase [Replication, recombination	95.32
COG0553		866	HepA Superfamily II DNA/RNA helicases, SNF2 family	95.27
PF13307		167	Helicase_C_2: Helicase C-terminal domain; PDB: 4A1	95.24
KOG2748		369	consensus Uncharacterized conserved protein, conta	95.23
KOG1911		270	consensus Heterochromatin-associated protein HP1 a	95.21
KOG1132		945	consensus Helicase of the DEAD superfamily [Replic	95.2
TIGR01448		720	recD_rel helicase, putative, RecD/TraA family. Thi	95.18
KOG1911		270	consensus Heterochromatin-associated protein HP1 a	95.1
TIGR01447		586	recD exodeoxyribonuclease V, alpha subunit. This f	95.0
PRK10875		615	recD exonuclease V subunit alpha; Provisional	94.83
smart00717		49	SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-bindi	94.39
PF00249		48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	94.15
PRK04296		190	thymidine kinase; Provisional	94.1
TIGR02881		261	spore_V_K stage V sporulation protein K. Members o	94.03
cd00167		45	SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding do	93.81
KOG0951		1674	consensus RNA helicase BRR2, DEAD-box superfamily	93.59
COG1875		436	NYN ribonuclease and ATPase of PhoH family domains	93.04
PRK14956		484	DNA polymerase III subunits gamma and tau; Provisi	92.82
smart00382		148	AAA ATPases associated with a variety of cellular	92.74
PRK07003		830	DNA polymerase III subunits gamma and tau; Validat	92.68
PRK09112		351	DNA polymerase III subunit delta'; Validated	92.66
TIGR02880		284	cbbX_cfxQ probable Rubsico expression protein CbbX	92.51
KOG1133		821	consensus Helicase of the DEAD superfamily [Replic	92.43
PRK12323		700	DNA polymerase III subunits gamma and tau; Provisi	92.32
KOG1805		1100	consensus DNA replication helicase [Replication, r	92.01
PRK14949		944	DNA polymerase III subunits gamma and tau; Provisi	91.94
CHL00181		287	cbbX CbbX; Provisional	91.88
PLN03025		319	replication factor C subunit; Provisional	91.79
PRK12723		388	flagellar biosynthesis regulator FlhF; Provisional	91.63
KOG0457		438	consensus Histone acetyltransferase complex SAGA/A	91.35
PRK12402		337	replication factor C small subunit 2; Reviewed	91.3
PRK06526		254	transposase; Provisional	90.67
PRK07764		824	DNA polymerase III subunits gamma and tau; Validat	90.3
TIGR03420		226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	90.0
PRK07994		647	DNA polymerase III subunits gamma and tau; Validat	89.52
PF13177		162	DNA_pol3_delta2: DNA polymerase III, delta subunit	89.18
PRK08181		269	transposase; Validated	88.78
PRK14960		702	DNA polymerase III subunits gamma and tau; Provisi	88.78
PF05621		302	TniB: Bacterial TniB protein; InterPro: IPR008868	88.53
TIGR03015		269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	88.17
TIGR02768		744	TraA_Ti Ti-type conjugative transfer relaxase TraA	87.98
PRK14952		584	DNA polymerase III subunits gamma and tau; Provisi	87.91
PRK08058		329	DNA polymerase III subunit delta'; Validated	87.8
PRK14958		509	DNA polymerase III subunits gamma and tau; Provisi	87.76
PHA02544		316	44 clamp loader, small subunit; Provisional	87.73
KOG0384		1373	consensus Chromodomain-helicase DNA-binding protei	87.35
TIGR02928		365	orc1/cdc6 family replication initiation protein. M	87.18
PRK05707		328	DNA polymerase III subunit delta'; Validated	86.81
PRK08451		535	DNA polymerase III subunits gamma and tau; Validat	86.67
PF06862		442	DUF1253: Protein of unknown function (DUF1253); In	86.65
PRK14961		363	DNA polymerase III subunits gamma and tau; Provisi	86.62
PRK14957		546	DNA polymerase III subunits gamma and tau; Provisi	86.52
PRK14962		472	DNA polymerase III subunits gamma and tau; Provisi	86.41
smart00491		142	HELICc2 helicase superfamily c-terminal domain.	86.41
PRK07471		365	DNA polymerase III subunit delta'; Validated	86.25
COG3421		812	Uncharacterized protein conserved in bacteria [Fun	86.14
PRK08084		235	DNA replication initiation factor; Provisional	86.12
PF13921		60	Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB:	86.09
smart00492		141	HELICc3 helicase superfamily c-terminal domain.	86.02
PHA03333		752	putative ATPase subunit of terminase; Provisional	85.81
PRK05703		424	flhF flagellar biosynthesis regulator FlhF; Valida	85.69
PHA02533		534	17 large terminase protein; Provisional	85.68
PRK07940		394	DNA polymerase III subunit delta'; Validated	85.67
PF06733		174	DEAD_2: DEAD_2; InterPro: IPR010614 This represent	85.25
PRK14955		397	DNA polymerase III subunits gamma and tau; Provisi	85.25
PRK06645		507	DNA polymerase III subunits gamma and tau; Validat	84.91
PF13245		76	AAA_19: Part of AAA domain	84.77
PRK14964		491	DNA polymerase III subunits gamma and tau; Provisi	84.74
PRK08116		268	hypothetical protein; Validated	84.39
KOG2340		698	consensus Uncharacterized conserved protein [Funct	84.21
KOG1131		755	consensus RNA polymerase II transcription initiati	84.17
TIGR00678		188	holB DNA polymerase III, delta' subunit. At positi	84.07
PRK14974		336	cell division protein FtsY; Provisional	84.06
cd01120		165	RecA-like_NTPases RecA-like NTPases. This family i	83.96
PRK11889		436	flhF flagellar biosynthesis regulator FlhF; Provis	83.71
PRK08691		709	DNA polymerase III subunits gamma and tau; Validat	83.62
PF05876		557	Terminase_GpA: Phage terminase large subunit (GpA)	83.4
PRK09111		598	DNA polymerase III subunits gamma and tau; Validat	83.24
PF13173		128	AAA_14: AAA domain	83.18
PRK08769		319	DNA polymerase III subunit delta'; Validated	82.75
TIGR00595		505	priA primosomal protein N'. All proteins in this f	82.73
PF00004		132	AAA: ATPase family associated with various cellula	82.66
PRK13889		988	conjugal transfer relaxase TraA; Provisional	82.64
PRK14969		527	DNA polymerase III subunits gamma and tau; Provisi	82.6
PRK14963		504	DNA polymerase III subunits gamma and tau; Provisi	82.6
PRK06921		266	hypothetical protein; Provisional	82.45
PRK00440		319	rfc replication factor C small subunit; Reviewed	82.33
cd01121		372	Sms Sms (bacterial radA) DNA repair protein. This	82.18
PF00249		48	Myb_DNA-binding: Myb-like DNA-binding domain; Inte	81.87
PRK05580		679	primosome assembly protein PriA; Validated	80.4
PF00448		196	SRP54: SRP54-type protein, GTPase domain; InterPro	80.27
PRK05563		559	DNA polymerase III subunits gamma and tau; Validat	80.27
PTZ00112		1164	origin recognition complex 1 protein; Provisional	80.24
PRK06647		563	DNA polymerase III subunits gamma and tau; Validat	80.19
PRK08903		227	DnaA regulatory inactivator Hda; Validated	80.06
PRK04195		482	replication factor C large subunit; Provisional	80.05

>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]	Back alignment and domain information

Probab=100.00  E-value=4.2e-219  Score=1980.21  Aligned_cols=1106  Identities=47%  Similarity=0.748  Sum_probs=906.2

Q ss_pred             CCCCCCCCcceEEEEecCCccccccccchhhhh--cccchHHHHHHHhhhhHhhhhhccCChhHHhhhhhhhhhhhHHhh
Q 000684            5 FDSEPDWNEMEFLIKWKGQSHLHCQWKSFAELQ--NLSGFKKVLNYAKKVVEDVRFRKMVSREEIELNDVSKEMDLDIIK   82 (1352)
Q Consensus         5 ~d~~~~~~~~eyLVKWkg~SylH~tW~s~~~L~--~~~g~kk~~n~~kk~~~~~~~~~~~~~ed~e~~~~~~e~~~~~~~   82 (1352)
                      |+..+.++++||||||+|+||+||||+|+++|.  .++|++||+||+|+..+..++..             +|++.++++
T Consensus       217 ~~~~~~~e~~qFlIKWkg~SyLHctWet~~~L~~~~~rG~kKv~nf~kK~~e~~~~~r-------------~E~~~~~~~  283 (1373)
T KOG0384|consen  217 FEEKKTEEEEQFLIKWKGWSYLHCTWETESELLEMNVRGLKKVDNFKKKVIEEDRWRR-------------QEREEDLNK  283 (1373)
T ss_pred             ccccCcchhhhhheeeccccceeccccchHHHHhhhHHHHHHHHHHHHHHHHHHHHHH-------------hhhhhhhhh
Confidence            444444788999999999999999999999986  89999999999999876555433             678889999


Q ss_pred             hcCcccceeeeeccCCCCCCcceeEEEecCCCCcccccccccccch-hHHHHHHHHHHHHHHHhhhcchhhhhhhhcccc
Q 000684           83 QNSQVERIIADRISKDSSGNVTQEYLVKWKGLSYAEATWEKDEIID-FAQDAIDEYKAREAAMAEQGKMVDLQRKKGKAS  161 (1352)
Q Consensus        83 ~~~~veRIi~~r~~~~~~~~~~~~YLVKW~gL~Y~~~TWE~~~~i~-~~~~~i~~y~~r~~~~~~~~~~~~~~r~~~~~~  161 (1352)
                      +|.+|||||++...++      ++|||||+||||++||||++.+|. .++.+|+.|..|+.+...+...+...  ..++.
T Consensus       284 dy~~VdRIia~~~~~d------~eYLvKW~~LpY~e~TWE~~~~I~~~~~~~~~~~~~Re~sk~~p~~~~~~~--~~rp~  355 (1373)
T KOG0384|consen  284 DYVIVDRIIAEQTSKD------PEYLVKWRGLPYEECTWEDAEDIAKKAQEEIEEFQSRENSKTLPNKGCKYR--PQRPR  355 (1373)
T ss_pred             hhhhhhhhhhcccCCC------ceeEEEecCCCcccccccchhhhhhhHHHHHHHHhhhhccccCCCCccccC--ccchh
Confidence            9999999999886433      799999999999999999999996 68999999999998776665544321  23457


Q ss_pred             ccccccCCCccCCCCCcHHHHHHHHHHHHHhcCCCcEEEEcCCCCcHHHHHHHHHHHHHHhcCCCCcEEEEEChhhHHHH
Q 000684          162 LRKLDEQPEWLRGGKLRDYQLEGLNFLVNSWRNDTNVILADEMGLGKTVQSVSMLGFLQNAQQIPGPFLVVVPLSTLSNW  241 (1352)
Q Consensus       162 ~~~~~~~P~~~~~~~Lr~yQlegvnwL~~~~~~~~~~ILADEmGLGKTlqaIa~l~~L~~~~~~~gp~LIVvP~s~L~nW  241 (1352)
                      |.++..||.|+.|.+||+||++|||||+++|+++.|||||||||||||+|+|+||.+|++...+.||||||||+||+.+|
T Consensus       356 ~~Kle~qp~~~~g~~LRdyQLeGlNWl~~~W~~~~n~ILADEmgLgktvqti~fl~~l~~~~~~~gpflvvvplst~~~W  435 (1373)
T KOG0384|consen  356 FRKLEKQPEYKGGNELRDYQLEGLNWLLYSWYKRNNCILADEMGLGKTVQTITFLSYLFHSLQIHGPFLVVVPLSTITAW  435 (1373)
T ss_pred             HHHhhcCccccccchhhhhhcccchhHHHHHHhcccceehhhcCCCcchHHHHHHHHHHHhhhccCCeEEEeehhhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCeEEEEEcCchhHHHHHHHhhhccccCCCCccccEEEecHHHHHhhHhhhhccCcceEecchhcccCCcc
Q 000684          242 AKEFRKWLPTMNVIVYVGTRASREVCQQYEFYNDKKVGRPIKFNTLLTTYEVVLKDKAVLSKIKWNYLMVDEAHRLKNSE  321 (1352)
Q Consensus       242 ~~Ef~kw~p~l~vvvy~G~~~~r~~i~~~e~~~~~~~~~~~kf~VlItTye~l~~d~~~L~~i~w~~lIVDEAHrlKN~~  321 (1352)
                      ++||..|+ ++|+++|+|+..+|.+|++|+|+.... ....+|+++||||+++++|..+|+.|+|.+++|||||||||.+
T Consensus       436 ~~ef~~w~-~mn~i~y~g~~~sr~~i~~ye~~~~~~-~~~lkf~~lltTye~~LkDk~~L~~i~w~~~~vDeahrLkN~~  513 (1373)
T KOG0384|consen  436 EREFETWT-DMNVIVYHGNLESRQLIRQYEFYHSSN-TKKLKFNALLTTYEIVLKDKAELSKIPWRYLLVDEAHRLKNDE  513 (1373)
T ss_pred             HHHHHHHh-hhceeeeecchhHHHHHHHHHheecCC-ccccccceeehhhHHHhccHhhhccCCcceeeecHHhhcCchH
Confidence            99999999 999999999999999999999998753 3567999999999999999999999999999999999999999


Q ss_pred             hHHHHHHHcccccCeEEEeccCCCCCHHHHHHHHhhcCCCCCCChhHHHHHhcccccccHHHHHHHHHhhcchhhhhhhH
Q 000684          322 AQLYTTLSEFSTKNKLLITGTPLQNSVEELWALLHFLDHDKFKSKDDFIQNYKNLSSFNENELANLHMELRPHILRRIIK  401 (1352)
Q Consensus       322 Skl~~aL~~l~~~~rlLLTGTPlqNnl~EL~sLL~fL~p~~f~~~~~F~~~f~~~~~~~~~~i~~L~~~L~p~~LRR~k~  401 (1352)
                      |.+|..|..|..++||||||||+|||+.|||+|||||+|+.|.++++|...|   ...++.++..||..|+||||||+|+
T Consensus       514 ~~l~~~l~~f~~~~rllitgTPlQNsikEL~sLl~Fl~P~kf~~~~~f~~~~---~~~~e~~~~~L~~~L~P~~lRr~kk  590 (1373)
T KOG0384|consen  514 SKLYESLNQFKMNHRLLITGTPLQNSLKELWSLLHFLMPGKFDSWDEFLEEF---DEETEEQVRKLQQILKPFLLRRLKK  590 (1373)
T ss_pred             HHHHHHHHHhcccceeeecCCCccccHHHHHHHhcccCCCCCCcHHHHHHhh---cchhHHHHHHHHHHhhHHHHHHHHh
Confidence            9999999999999999999999999999999999999999999999999998   3456889999999999999999999


Q ss_pred             hhhccCCCcEEEEEEecCCHHHHHHHHHHHHHhHHhhhccccCchhhHHHHHHHHHHhcCCccccccccCCCCCCCC-CC
Q 000684          402 DVEKSLPPKIERILRVEMSPLQKQYYKWILERNFHDLNKGVRGNQVSLLNIVVELKKCCNHPFLFESADHGYGGDTS-IN  480 (1352)
Q Consensus       402 dv~~~LPpk~e~iv~v~Ls~~Qk~~Yk~il~~~~~~l~~~~~~~~~~llnil~~Lrk~cnHP~L~~~~e~~~~~~~~-~~  480 (1352)
                      ||+++||+|.|+|++|+||++|++||++||++|+.+|.+|.+++..+++|+||+|+||||||||+.+++..+.+... ..
T Consensus       591 dvekslp~k~E~IlrVels~lQk~yYk~ILtkN~~~LtKG~~g~~~~lLNimmELkKccNHpyLi~gaee~~~~~~~~~~  670 (1373)
T KOG0384|consen  591 DVEKSLPPKEETILRVELSDLQKQYYKAILTKNFSALTKGAKGSTPSLLNIMMELKKCCNHPYLIKGAEEKILGDFRDKM  670 (1373)
T ss_pred             hhccCCCCCcceEEEeehhHHHHHHHHHHHHhhHHHHhccCCCCCchHHHHHHHHHHhcCCccccCcHHHHHHHhhhhcc
Confidence            99999999999999999999999999999999999999999999999999999999999999999999887654321 12


Q ss_pred             chhhHHHHhhhcchhHHHHHHHHHhhhcCCeEEEEecchhHHHHHHHHHHhcCCcEEEEeCCCCHHHHHHHHHHhcCCCC
Q 000684          481 DTSKLERIILSSGKLVILDKLLVRLHETKHRVLIFSQMVRMLDILAEYMSYKGFQFQRLDGSTKAELRHQAMDHFNAPGS  560 (1352)
Q Consensus       481 ~~~~l~~li~~SgKl~~L~kLL~~l~~~g~KVLIFSq~~~~ldiL~d~L~~~g~~~~rldGs~~~~eR~~~Id~Fn~~~s  560 (1352)
                      ....+..+|.+||||++||+||.+|++.||||||||||++|||||++||..++|+|+||||+++.+.|+++||+||+|+|
T Consensus       671 ~d~~L~~lI~sSGKlVLLDKLL~rLk~~GHrVLIFSQMVRmLDIL~eYL~~r~ypfQRLDGsvrgelRq~AIDhFnap~S  750 (1373)
T KOG0384|consen  671 RDEALQALIQSSGKLVLLDKLLPRLKEGGHRVLIFSQMVRMLDILAEYLSLRGYPFQRLDGSVRGELRQQAIDHFNAPDS  750 (1373)
T ss_pred             hHHHHHHHHHhcCcEEeHHHHHHHHhcCCceEEEhHHHHHHHHHHHHHHHHcCCcceeccCCcchHHHHHHHHhccCCCC
Confidence            35688999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCcEEEeecCCCccCCCCCccCEEEEcCCCCChhhHHHHhhhhcccCCCceEEEEEEecCCCHHHHHHHHHHHHHhhHHH
Q 000684          561 EDFCFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAMSRAHRIGQQEVVNIYRFVTSKSVEEDILERAKKKMVLDHL  640 (1352)
Q Consensus       561 ~~~vfLLSTrAgg~GINL~~AdtVIi~DsdWNP~~dlQAigRahRiGQkk~V~VyrLvt~~TiEE~Il~ra~~K~~L~~~  640 (1352)
                      ++|||||||||||+||||++||||||||||||||+|+|||+|||||||++.|.||||||++||||.|++||.+||.|+++
T Consensus       751 ddFvFLLSTRAGGLGINLatADTVIIFDSDWNPQNDLQAqARaHRIGQkk~VnVYRLVTk~TvEeEilERAk~KmvLD~a  830 (1373)
T KOG0384|consen  751 DDFVFLLSTRAGGLGINLATADTVIIFDSDWNPQNDLQAQARAHRIGQKKHVNVYRLVTKNTVEEEILERAKLKMVLDHA  830 (1373)
T ss_pred             CceEEEEecccCcccccccccceEEEeCCCCCcchHHHHHHHHHhhcccceEEEEEEecCCchHHHHHHHHHHHhhhHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHccccccchhhhhhhcchhhHHHHHhcchHhhhcccCccHHHhhhccCCCHHHHHHhhhhhhhhhhhcccccccccccc
Q 000684          641 VIQKLNAEGSWRRKKQRKGNELSAILRFGAEELFKEDRNDEESKKRLLGMDIDEILERAEKVEEKEAEGEAGNELLSAFK  720 (1352)
Q Consensus       641 vi~~~~~~g~~~~~~~~~~~el~~il~~ga~~l~~~~~~~~~~~~~~~~~did~il~~~~~~~~~~~~~~~~~~~~~~f~  720 (1352)
                      |||.|++.+.......-+.+||++||+|||++||++.++++   .++++||||+||.|+++++++..+-..+.+++++|+
T Consensus       831 VIQ~m~t~~~~s~~~~f~K~ELsaILKfGA~~lfke~ene~---s~~~e~DIDeIL~rae~~~t~~~~~~~a~e~ls~fk  907 (1373)
T KOG0384|consen  831 VIQRMDTKGKTSKSNPFSKEELSAILKFGAYELFKEEENEE---SKFCEMDIDEILERAETRITEESDFMKASELLSQFK  907 (1373)
T ss_pred             HHHhhccccccCCCCCCCHHHHHHHHHhchHHhhhcccccc---ccccccCHHHHHhhcccccccccccchhHHHHhhcc
Confidence            99999985544444455679999999999999999877654   378899999999999998877665567789999999


Q ss_pred             ccccccCCCC------cccccccCChhHHHhhhhh---------c-Cccccc-ccccccccCCchhhhhhhccCCCCCch
Q 000684          721 VANFCGAEDD------GSFWSRWIKPEAVAQAEDA---------L-APRAAR-NTKSYAEANEPERSNKRKKKGSELQEP  783 (1352)
Q Consensus       721 ~~~~~~~~~~------~~~w~~~~~~~~~~~~~~~---------~-~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~  783 (1352)
                      ||+|+.++.+      .-.|++|||+++++..+++         . .+|.+. +...+.....      +  ..+...+.
T Consensus       908 vad~~~dd~~~~~~~~didwd~iipe~~r~~~~eeer~ke~ee~~~~~rer~~k~~~~~~~~~------~--~~~~~~e~  979 (1373)
T KOG0384|consen  908 VADIKADDPADLEAERDIDWDRIIPEEERERIEEEERLKELEELYSEPRERERKKNRLNDSHG------R--AESRSVEK  979 (1373)
T ss_pred             ccccccCChhhhhhhccCChhhhCCHHHHhcchhhhhHHHHHhhccchhhhhhhccccCcccc------c--cccccccc
Confidence            9999986421      1369999999887654332         1 111110 0000000000      0  00000000


Q ss_pred             H-HHHHHhhhhccCCCCCCCcchhhhhhcccccCCCCHHHHHHHHHHHHhcCCc-hhHHHHHHHhCCCCCCCcHHHHHHH
Q 000684          784 Q-ERVHKRRKAEFSVPSVPFIDGASAQVRDWSYGNLSKRDATRFYRAVMKFGNQ-SQISLIARDAGGAVATAPQEVVVEL  861 (1352)
Q Consensus       784 ~-~~~~~~~~~~~~~~~~~~~~~e~~~l~~~g~~~~~~~~~~~f~~~~~k~G~~-~~~~~I~~e~~gk~~~~~~e~~~~~  861 (1352)
                      . ....+++...             .....+..++++++|+|+||||+++||.+ .+++.|+++++  ++..+++.+.++
T Consensus       980 ~~~~~~~~r~r~-------------~~~~g~~~~~~~e~eir~~~ra~~kfg~~~~r~d~~~~~a~--l~~~s~~~~~~l 1044 (1373)
T KOG0384|consen  980 SLGKKGKGRWRE-------------ILKRGEEKGGFTEKEIRRFYRAYLKFGLPLERLDEIIKDAE--LVDKSPAELKKL 1044 (1373)
T ss_pred             cccccccccccc-------------ccccchhhcCCCHHHHHHHHHHHHHhccHHHHHHHHHhhce--eeccCHHHHHHH
Confidence            0 0000000000             11122225669999999999999999998 47999999987  777777878899


Q ss_pred             HHHHHHHHHHHHhcCCCC---------------CCCCCcccccCcccchhHHHhhHHHHHHHHHHhhcCCCCCCceEecc
Q 000684          862 FDILIDGCREAVEVGSPD---------------PKGPPLLDFFGVSVKANDLINRVEELQLLAKRISRYEDPIKQFRVLS  926 (1352)
Q Consensus       862 ~~~~~~~c~e~v~~~~~~---------------~k~~~~~~~~~v~~~~e~vl~R~~~l~lL~~ki~~~~~p~~~~~i~~  926 (1352)
                      +..+++.|..++.+.+..               ++.+..+.|+||.+||+.|+.|+++|..|++.|+.+.++..+|.+++
T Consensus      1045 ~~~~~~~c~~a~~~~~~~~kk~~~~~~~~~~~p~~~a~~~~f~gv~~na~~vl~rv~~L~~L~~~i~~~~e~~~~~~~~~ 1124 (1373)
T KOG0384|consen 1045 GELLHNACKSAVSEFGSNYKKTGGAREGKNKKPERKAVDFKFKGVKVNANKVLLRVEELYYLHKEIPGDPEDPNQFIIDY 1124 (1373)
T ss_pred             HHHHHhhhhhhcchhhhccccccccccccccCccchhhheeecceehhHHHHHHHHHHHHHHHHhccCCcccccccccCC
Confidence            999999999998543211               12234688999999999999999999999999998767778999998


Q ss_pred             ccCCCC-CCCCCCCCHHHHHHHHHHHhhccCcchHHhHhhhhcccccccCCcccccccCCCCChhhHHHHHHHHHHHHHh
Q 000684          927 YLKPSN-WSKGCGWNQFDDARLLLGIHYHGFGNWENIRLDERLGLTKKIAPVELQHHETFLPRAPNLKERANALLEMELA 1005 (1352)
Q Consensus       927 ~~k~~~-w~~~~~W~~eeD~~LL~gI~kyGyG~We~Ir~D~~L~l~~ki~~~~~~~~~~~~p~a~hL~rR~d~LL~~e~~ 1005 (1352)
                      .++++. |+  |.|+.++|.+||+|||+||||+|++||+||.|+|++|||+.+.      +|+|+||++|++|||+....
T Consensus      1125 ~~~~~~~~~--~~W~~e~Ds~LLiGI~khGygswe~Ir~Dp~L~l~dKi~~~e~------~P~a~~L~~R~~yLls~~~~ 1196 (1373)
T KOG0384|consen 1125 LPKSVHSWD--CDWGSEDDSMLLIGIFKHGYGSWEAIRLDPDLGLTDKIFLVET------VPQAKHLQRRADYLLSLLRK 1196 (1373)
T ss_pred             CCccccCcc--cCCCchhhhhHhhhhhhcccccHHHhccCccccchhhhccccc------CCchHHHHHHHHHHHHHHhh
Confidence            777754 76  9999999999999999999999999999999999999999874      99999999999999986554


Q ss_pred             hhccc-ccccccCccCCCCCCC----C-----CccCCCCCcccccccCCCCCCCCCCCCCCCCCCCCCCCccccCCcccC
Q 000684         1006 AVGAK-NVNAKVGRKASKKGRE----K-----SENILNMPISRLKRDKKGKPGSAKVNFQTTKDRFHKPQRVEQPLTKEE 1075 (1352)
Q Consensus      1006 ~~~~~-~~~~k~~~k~~~~~~~----~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~ 1075 (1352)
                      ..... ..+.++.++...+...    .     .+.....+.....+..+++...   ........+.++....  .....
T Consensus      1197 ~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~--~~~~~ 1271 (1373)
T KOG0384|consen 1197 HDKGNTPKKLKREKKRPKKQSAVKRQKAKAGDLSSTKGESLVPAESEDDLKDPG---RERSKSSSSLVKRLLT--LSDEG 1271 (1373)
T ss_pred             cccCCCchhhhccccccccccccccccCCCCCcccccccccccccccccccccc---cccCCCcccchhhhhc--ccCcC
Confidence            42211 1111111111111000    0     0000000000000000000000   0000000000000000  00001


Q ss_pred             CCCCCChhHHhhhhhhhhHHHHHHHhHHHHHHHHHHHhhhhcCCCCChhhhcccCCCccccccchhhhhhcchhhhhchH
Q 000684         1076 GEMSDNEEVYEQFKEVKWMEWCEDVMADEIRTLQRLQRLQATSDNLPKEKVASVFPSFCWHIPLYSRIKHLTSLLFFHFI 1155 (1352)
Q Consensus      1076 ~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~l~~l~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1155 (1352)
                      ...+ .++.++.    ++++.|++.|+|++++|++|..   ++++|+++|+                             
T Consensus      1272 ~~~~-~~e~~~~----e~~~~c~~~~~~vk~~lk~l~~---~~~~l~~~e~----------------------------- 1314 (1373)
T KOG0384|consen 1272 RPLS-NKEDLDP----EIFERCKERMRPVKKALKRLTL---PSKGLNKEEQ----------------------------- 1314 (1373)
T ss_pred             cccc-cccccCH----HHHHHHHhhhHHHHHHHHHhcc---ccccccHHHH-----------------------------
Confidence            1111 1222222    3789999999999988888877   5579999999                             


Q ss_pred             HHHHHHHHHHHHHhhHHHHHHHhhhhhhhhHHHHhhhHHhhhhccccCChHHHHHHHHHHhh
Q 000684         1156 QVLSKIRNYLQLIGRRIDQIVLEHEEELYKQDRMTMRLWNYVSTFSNLSGEKLHQIYSKLKQ 1217 (1352)
Q Consensus      1156 ~~~~~~~~~L~~iG~~i~~~~~~~~~~~~~~~~~~~~lW~~~s~f~~~~~~~l~~my~~~~~ 1217 (1352)
                        +.++|+||..||++|+.|+.++..+ . ...|+++| .||++|||.++.+|+.+|..+..
T Consensus      1315 --~~~~r~~l~~~g~~i~~~~~~~~~~-~-~~~w~~~l-~f~~~f~~~d~~~l~~ly~~~~k 1371 (1373)
T KOG0384|consen 1315 --LKHTRRCLTQIGRHIESCLKEYDED-E-KKDWRKNL-IFVSKFTESDESKLTKLYSMVAK 1371 (1373)
T ss_pred             --HHHHHHHHHHHHHHHHHHhccCCch-h-HHHHHhhh-hheecccccchHHHHHHHHHHHh
Confidence              9999999999999999999998522 2 77899999 99999999999999999998865

>KOG0385 consensus Chromatin remodeling complex WSTF-ISWI, small subunit [Transcription]	Back alignment and domain information

>PLN03142 Probable chromatin-remodeling complex ATPase chain; Provisional	Back alignment and domain information

>KOG0386 consensus Chromatin remodeling complex SWI/SNF, component SWI2 and related ATPases (DNA/RNA helicase superfamily) [Chromatin structure and dynamics; Transcription]	Back alignment and domain information

>KOG0389 consensus SNF2 family DNA-dependent ATPase [Chromatin structure and dynamics]	Back alignment and domain information

>KOG0391 consensus SNF2 family DNA-dependent ATPase [General function prediction only]	Back alignment and domain information

>KOG0388 consensus SNF2 family DNA-dependent ATPase [Replication, recombination and repair]	Back alignment and domain information

>KOG0387 consensus Transcription-coupled repair protein CSB/RAD26 (contains SNF2 family DNA-dependent ATPase domain) [Transcription; Replication, recombination and repair]	Back alignment and domain information

>KOG0392 consensus SNF2 family DNA-dependent ATPase domain-containing protein [Transcription]	Back alignment and domain information

>KOG0383 consensus Predicted helicase [General function prediction only]	Back alignment and domain information

>KOG0390 consensus DNA repair protein, SNF2 family [Replication, recombination and repair]	Back alignment and domain information

>KOG1015 consensus Transcription regulator XNP/ATRX, DEAD-box superfamily [Transcription]	Back alignment and domain information

>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>KOG1002 consensus Nucleotide excision repair protein RAD16 [Replication, recombination and repair]	Back alignment and domain information

>KOG4439 consensus RNA polymerase II transcription termination factor TTF2/lodestar, DEAD-box superfamily [Transcription; Replication, recombination and repair]	Back alignment and domain information

>KOG1016 consensus Predicted DNA helicase, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>KOG1000 consensus Chromatin remodeling protein HARP/SMARCAL1, DEAD-box superfamily [Chromatin structure and dynamics]	Back alignment and domain information

>PRK04914 ATP-dependent helicase HepA; Validated	Back alignment and domain information

>KOG1001 consensus Helicase-like transcription factor HLTF/DNA helicase RAD5, DEAD-box superfamily [Transcription; Replication, recombination and repair]	Back alignment and domain information

>PF00176 SNF2_N: SNF2 family N-terminal domain; InterPro: IPR000330 This domain is found in proteins involved in a variety of processes including transcription regulation (e	Back alignment and domain information

>TIGR00603 rad25 DNA repair helicase rad25	Back alignment and domain information

>PRK13766 Hef nuclease; Provisional	Back alignment and domain information

>KOG0298 consensus DEAD box-containing helicase-like transcription factor/DNA repair protein [Replication, recombination and repair]	Back alignment and domain information

>COG1111 MPH1 ERCC4-like helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>COG1061 SSL2 DNA or RNA helicases of superfamily II [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>PHA02558 uvsW UvsW helicase; Provisional	Back alignment and domain information

>PTZ00110 helicase; Provisional	Back alignment and domain information

>KOG0331 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK11776 ATP-dependent RNA helicase DbpA; Provisional	Back alignment and domain information

>PRK01297 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family	Back alignment and domain information

>PRK10590 ATP-dependent RNA helicase RhlE; Provisional	Back alignment and domain information

>PRK04837 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>PLN00206 DEAD-box ATP-dependent RNA helicase; Provisional	Back alignment and domain information

>PRK11634 ATP-dependent RNA helicase DeaD; Provisional	Back alignment and domain information

>KOG0330 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK11192 ATP-dependent RNA helicase SrmB; Provisional	Back alignment and domain information

>KOG0354 consensus DEAD-box like helicase [General function prediction only]	Back alignment and domain information

>PRK04537 ATP-dependent RNA helicase RhlB; Provisional	Back alignment and domain information

>PRK11057 ATP-dependent DNA helicase RecQ; Provisional	Back alignment and domain information

>TIGR01389 recQ ATP-dependent DNA helicase RecQ	Back alignment and domain information

>PTZ00424 helicase 45; Provisional	Back alignment and domain information

>PLN03137 ATP-dependent DNA helicase; Q4-like; Provisional	Back alignment and domain information

>COG0513 SrmB Superfamily II DNA and RNA helicases [DNA replication, recombination, and repair / Transcription / Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>KOG1123 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 3'-5' helicase subunit SSL2 [Transcription; Replication, recombination and repair]	Back alignment and domain information

>TIGR00643 recG ATP-dependent DNA helicase RecG	Back alignment and domain information

>TIGR00580 mfd transcription-repair coupling factor (mfd)	Back alignment and domain information

>TIGR03817 DECH_helic helicase/secretion neighborhood putative DEAH-box helicase	Back alignment and domain information

>PRK10689 transcription-repair coupling factor; Provisional	Back alignment and domain information

>PRK13767 ATP-dependent helicase; Provisional	Back alignment and domain information

>PRK10917 ATP-dependent DNA helicase RecG; Provisional	Back alignment and domain information

>KOG0333 consensus U5 snRNP-like RNA helicase subunit [RNA processing and modification]	Back alignment and domain information

>PRK11448 hsdR type I restriction enzyme EcoKI subunit R; Provisional	Back alignment and domain information

>KOG0350 consensus DEAD-box ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PF13907 DUF4208: Domain of unknown function (DUF4208)	Back alignment and domain information

>KOG0345 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK02362 ski2-like helicase; Provisional	Back alignment and domain information

>KOG0328 consensus Predicted ATP-dependent RNA helicase FAL1, involved in rRNA maturation, DEAD-box superfamily [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>TIGR01587 cas3_core CRISPR-associated helicase Cas3	Back alignment and domain information

>TIGR02621 cas3_GSU0051 CRISPR-associated helicase Cas3, Anaes-subtype	Back alignment and domain information

>KOG0341 consensus DEAD-box protein abstrakt [RNA processing and modification]	Back alignment and domain information

>KOG0342 consensus ATP-dependent RNA helicase pitchoune [RNA processing and modification]	Back alignment and domain information

>PRK01172 ski2-like helicase; Provisional	Back alignment and domain information

>PRK00254 ski2-like helicase; Provisional	Back alignment and domain information

>TIGR03714 secA2 accessory Sec system translocase SecA2	Back alignment and domain information

>PRK09200 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0348 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0343 consensus RNA Helicase [RNA processing and modification]	Back alignment and domain information

>PHA02653 RNA helicase NPH-II; Provisional	Back alignment and domain information

>KOG0335 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0336 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>PRK12898 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0339 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0340 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR00963 secA preprotein translocase, SecA subunit	Back alignment and domain information

>KOG0338 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR00348 hsdR type I site-specific deoxyribonuclease, HsdR family	Back alignment and domain information

>KOG4284 consensus DEAD box protein [Transcription]	Back alignment and domain information

>PRK09401 reverse gyrase; Reviewed	Back alignment and domain information

>PRK09751 putative ATP-dependent helicase Lhr; Provisional	Back alignment and domain information

>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]	Back alignment and domain information

>TIGR03158 cas3_cyano CRISPR-associated helicase, Cyano-type	Back alignment and domain information

>COG1201 Lhr Lhr-like helicases [General function prediction only]	Back alignment and domain information

>KOG0326 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0347 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG0332 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>TIGR01054 rgy reverse gyrase	Back alignment and domain information

>cd00079 HELICc Helicase superfamily c-terminal domain; associated with DEXDc-, DEAD-, and DEAH-box proteins, yeast initiation factor 4A, Ski2p, and Hepatitis C virus NS3 helicases; this domain is found in a wide variety of helicases and helicase related proteins; may not be an autonomously folding unit, but an integral part of the helicase; 4 helicase superfamilies at present according to the organization of their signature motifs; all helicases share the ability to unwind nucleic acid duplexes with a distinct directional polarity; they utilize the free energy from nucleoside triphosphate hydrolysis to fuel their translocation along DNA, unwinding the duplex in the process

Back alignment and domain information

>KOG0334 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>PF09111 SLIDE: SLIDE; InterPro: IPR015195 The SLIDE domain adopts a secondary structure comprising a main core of three alpha-helices	Back alignment and domain information

>PRK05580 primosome assembly protein PriA; Validated	Back alignment and domain information

>COG1205 Distinct helicase family with a unique C-terminal domain including a metal-binding cysteine cluster [General function prediction only]	Back alignment and domain information

>KOG0344 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>COG4096 HsdR Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]	Back alignment and domain information

>COG1204 Superfamily II helicase [General function prediction only]	Back alignment and domain information

>TIGR01970 DEAH_box_HrpB ATP-dependent helicase HrpB	Back alignment and domain information

>PF04851 ResIII: Type III restriction enzyme, res subunit; InterPro: IPR006935 This entry represents a domain found in the N terminus of several proteins, including helicases, the R subunit (HsdR) of type I restriction endonucleases (3	Back alignment and domain information

>PRK14701 reverse gyrase; Provisional	Back alignment and domain information

>KOG0346 consensus RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK09694 helicase Cas3; Provisional	Back alignment and domain information

>PRK13104 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK11664 ATP-dependent RNA helicase HrpB; Provisional	Back alignment and domain information

>PRK12906 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK12904 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>TIGR00595 priA primosomal protein N'	Back alignment and domain information

>COG1197 Mfd Transcription-repair coupling factor (superfamily II helicase) [DNA replication, recombination, and repair / Transcription]	Back alignment and domain information

>COG4098 comFA Superfamily II DNA/RNA helicase required for DNA uptake (late competence protein) [DNA replication, recombination, and repair]	Back alignment and domain information

>COG1202 Superfamily II helicase, archaea-specific [General function prediction only]	Back alignment and domain information

>KOG0327 consensus Translation initiation factor 4F, helicase subunit (eIF-4A) and related helicases [Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PRK13107 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>smart00487 DEXDc DEAD-like helicases superfamily	Back alignment and domain information

>KOG0351 consensus ATP-dependent DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>TIGR00631 uvrb excinuclease ABC, B subunit	Back alignment and domain information

>PF00271 Helicase_C: Helicase conserved C-terminal domain; InterPro: IPR001650 The domain, which defines this group of proteins is found in a wide variety of helicases and helicase related proteins	Back alignment and domain information

>COG4889 Predicted helicase [General function prediction only]	Back alignment and domain information

>cd00046 DEXDc DEAD-like helicases superfamily	Back alignment and domain information

>PF11496 HDA2-3: Class II histone deacetylase complex subunits 2 and 3; InterPro: IPR021006 This entry contains the class II histone deacetylase complex subunits HDA2 and HDA3 is found in fungi	Back alignment and domain information

>PRK05298 excinuclease ABC subunit B; Provisional	Back alignment and domain information

>PRK12900 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>KOG0337 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK12899 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>TIGR01967 DEAH_box_HrpA ATP-dependent helicase HrpA	Back alignment and domain information

>PRK11131 ATP-dependent RNA helicase HrpA; Provisional	Back alignment and domain information

>smart00490 HELICc helicase superfamily c-terminal domain	Back alignment and domain information

>PRK12326 preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>COG1203 CRISPR-associated helicase Cas3 [Defense mechanisms]	Back alignment and domain information

>PF00270 DEAD: DEAD/DEAH box helicase; InterPro: IPR011545 Members of this family include the DEAD and DEAH box helicases	Back alignment and domain information

>KOG0952 consensus DNA/RNA helicase MER3/SLH1, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>KOG0353 consensus ATP-dependent DNA helicase [General function prediction only]	Back alignment and domain information

>cd00268 DEADc DEAD-box helicases	Back alignment and domain information

>KOG0352 consensus ATP-dependent DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative	Back alignment and domain information

>PRK13103 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK12903 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>COG0556 UvrB Helicase subunit of the DNA excision repair complex [DNA replication, recombination, and repair]	Back alignment and domain information

>KOG0947 consensus Cytoplasmic exosomal RNA helicase SKI2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>TIGR00596 rad1 DNA repair protein (rad1)	Back alignment and domain information

>KOG0329 consensus ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PF06461 DUF1086: Domain of Unknown Function (DUF1086); InterPro: IPR009462 This entry represents several eukaryotic domains of unknown function, which are present in chromodomain helicase DNA binding proteins	Back alignment and domain information

>COG1110 Reverse gyrase [DNA replication, recombination, and repair]	Back alignment and domain information

>PF13872 AAA_34: P-loop containing NTP hydrolase pore-1	Back alignment and domain information

>PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation	Back alignment and domain information

>CHL00122 secA preprotein translocase subunit SecA; Validated	Back alignment and domain information

>COG4581 Superfamily II RNA helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]	Back alignment and domain information

>TIGR00604 rad3 DNA repair helicase (rad3)	Back alignment and domain information

>PRK12902 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>COG0610 Type I site-specific restriction-modification system, R (restriction) subunit and related helicases [Defense mechanisms]	Back alignment and domain information

>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>PRK12901 secA preprotein translocase subunit SecA; Reviewed	Back alignment and domain information

>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated	Back alignment and domain information

>KOG0948 consensus Nuclear exosomal RNA helicase MTR4, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>KOG0949 consensus Predicted helicase, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>TIGR03117 cas_csf4 CRISPR-associated DEAD/DEAH-box helicase Csf4	Back alignment and domain information

>COG1199 DinG Rad3-related DNA helicases [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>KOG1513 consensus Nuclear helicase MOP-3/SNO (DEAD-box superfamily) [Transcription; Signal transduction mechanisms]	Back alignment and domain information

>KOG0349 consensus Putative DEAD-box RNA helicase DDX1 [RNA processing and modification]	Back alignment and domain information

>PRK15483 type III restriction-modification system StyLTI enzyme res; Provisional	Back alignment and domain information

>KOG0924 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>cd00024 CHROMO Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus	Back alignment and domain information

>KOG0920 consensus ATP-dependent RNA helicase A [RNA processing and modification]	Back alignment and domain information

>KOG0950 consensus DNA polymerase theta/eta, DEAD-box superfamily [General function prediction only]	Back alignment and domain information

>PF02399 Herpes_ori_bp: Origin of replication binding protein; InterPro: IPR003450 This entry represents replication origin binding protein	Back alignment and domain information

>PF07652 Flavi_DEAD: Flavivirus DEAD domain ; InterPro: IPR011492 This is the Flavivirus DEAD domain	Back alignment and domain information

>cd00024 CHROMO Chromatin organization modifier (chromo) domain is a conserved region of around 50 amino acids found in a variety of chromosomal proteins, which appear to play a role in the functional organization of the eukaryotic nucleus	Back alignment and domain information

>KOG0922 consensus DEAH-box RNA helicase [RNA processing and modification]	Back alignment and domain information

>COG1643 HrpA HrpA-like helicases [DNA replication, recombination, and repair]	Back alignment and domain information

>PF00385 Chromo: Chromo (CHRromatin Organisation MOdifier) domain; InterPro: IPR023780 The CHROMO (CHRromatin Organization MOdifier) domain [, , , ] is a conserved region of around 60 amino acids, originally identified in Drosophila modifiers of variegation	Back alignment and domain information

>smart00298 CHROMO Chromatin organization modifier domain	Back alignment and domain information

>smart00489 DEXDc3 DEAD-like helicases superfamily	Back alignment and domain information

>smart00488 DEXDc2 DEAD-like helicases superfamily	Back alignment and domain information

>PRK11747 dinG ATP-dependent DNA helicase DinG; Provisional	Back alignment and domain information

>smart00298 CHROMO Chromatin organization modifier domain	Back alignment and domain information

>COG0653 SecA Preprotein translocase subunit SecA (ATPase, RNA helicase) [Intracellular trafficking and secretion]	Back alignment and domain information

>KOG0926 consensus DEAH-box RNA helicase [RNA processing and modification; Translation, ribosomal structure and biogenesis]	Back alignment and domain information

>PF13871 Helicase_C_4: Helicase_C-like	Back alignment and domain information

>PF13086 AAA_11: AAA domain; PDB: 2XZL_A 2XZO_A 2WJY_A 2WJV_A 2XZP_A 2GK6_A 2GK7_A 2GJK_A	Back alignment and domain information

>KOG0953 consensus Mitochondrial RNA helicase SUV3, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>TIGR02562 cas3_yersinia CRISPR-associated helicase Cas3	Back alignment and domain information

>KOG0923 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>KOG2748 consensus Uncharacterized conserved protein, contains chromo domain [Chromatin structure and dynamics]	Back alignment and domain information

>KOG0925 consensus mRNA splicing factor ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PRK14873 primosome assembly protein PriA; Provisional	Back alignment and domain information

>PF07517 SecA_DEAD: SecA DEAD-like domain; InterPro: IPR011115 SecA protein binds to the plasma membrane where it interacts with proOmpA to support translocation of proOmpA through the membrane	Back alignment and domain information

>PF08074 CHDCT2: CHDCT2 (NUC038) domain; InterPro: IPR012957 The CHDCT2 C-terminal domain is found in PHD/RING fingers and chromo domain-associated CHD-like helicases []	Back alignment and domain information

>COG3587 Restriction endonuclease [Defense mechanisms]	Back alignment and domain information

>PRK10536 hypothetical protein; Provisional	Back alignment and domain information

>PF02562 PhoH: PhoH-like protein; InterPro: IPR003714 PhoH is a cytoplasmic protein and predicted ATPase that is induced by phosphate starvation and belongings to the phosphate regulon (pho) in Escherichia coli []	Back alignment and domain information

>KOG4150 consensus Predicted ATP-dependent RNA helicase [RNA processing and modification]	Back alignment and domain information

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B	Back alignment and domain information

>PF13604 AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL_A 3E1S_A 3GP8_A	Back alignment and domain information

>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]	Back alignment and domain information

>PF12340 DUF3638: Protein of unknown function (DUF3638); InterPro: IPR022099 This domain family is found in eukaryotes, and is approximately 230 amino acids in length	Back alignment and domain information

>PF09848 DUF2075: Uncharacterized conserved protein (DUF2075); InterPro: IPR018647 This domain, found in putative ATP/GTP binding proteins, has no known function	Back alignment and domain information

>TIGR00376 DNA helicase, putative	Back alignment and domain information

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold	Back alignment and domain information

>KOG1803 consensus DNA helicase [Replication, recombination and repair]	Back alignment and domain information

>COG0553 HepA Superfamily II DNA/RNA helicases, SNF2 family [Transcription / DNA replication, recombination, and repair]	Back alignment and domain information

>PF13307 Helicase_C_2: Helicase C-terminal domain; PDB: 4A15_A 2VSF_A 3CRV_A 3CRW_1 2VL7_A	Back alignment and domain information

>KOG2748 consensus Uncharacterized conserved protein, contains chromo domain [Chromatin structure and dynamics]	Back alignment and domain information

>KOG1911 consensus Heterochromatin-associated protein HP1 and related CHROMO domain proteins [Chromatin structure and dynamics]	Back alignment and domain information

>KOG1132 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]	Back alignment and domain information

>TIGR01448 recD_rel helicase, putative, RecD/TraA family	Back alignment and domain information

>KOG1911 consensus Heterochromatin-associated protein HP1 and related CHROMO domain proteins [Chromatin structure and dynamics]	Back alignment and domain information

>TIGR01447 recD exodeoxyribonuclease V, alpha subunit	Back alignment and domain information

>PRK10875 recD exonuclease V subunit alpha; Provisional	Back alignment and domain information

>smart00717 SANT SANT SWI3, ADA2, N-CoR and TFIIIB'' DNA-binding domains	Back alignment and domain information

>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins	Back alignment and domain information

>PRK04296 thymidine kinase; Provisional	Back alignment and domain information

>TIGR02881 spore_V_K stage V sporulation protein K	Back alignment and domain information

>cd00167 SANT 'SWI3, ADA2, N-CoR and TFIIIB' DNA-binding domains	Back alignment and domain information

>KOG0951 consensus RNA helicase BRR2, DEAD-box superfamily [RNA processing and modification]	Back alignment and domain information

>COG1875 NYN ribonuclease and ATPase of PhoH family domains [General function prediction only]	Back alignment and domain information

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>smart00382 AAA ATPases associated with a variety of cellular activities	Back alignment and domain information

>PRK07003 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK09112 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX	Back alignment and domain information

>KOG1133 consensus Helicase of the DEAD superfamily [Replication, recombination and repair]	Back alignment and domain information

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>KOG1805 consensus DNA replication helicase [Replication, recombination and repair]	Back alignment and domain information

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>CHL00181 cbbX CbbX; Provisional	Back alignment and domain information

>PLN03025 replication factor C subunit; Provisional	Back alignment and domain information

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>KOG0457 consensus Histone acetyltransferase complex SAGA/ADA, subunit ADA2 [Chromatin structure and dynamics]	Back alignment and domain information

>PRK12402 replication factor C small subunit 2; Reviewed	Back alignment and domain information

>PRK06526 transposase; Provisional	Back alignment and domain information

>PRK07764 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda	Back alignment and domain information

>PRK07994 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PF13177 DNA_pol3_delta2: DNA polymerase III, delta subunit; PDB: 1NJF_B 3GLG_G 1XXH_I 1NJG_A 3GLF_B 3GLI_G 1IQP_E 2GNO_A 1SXJ_E 1A5T_A	Back alignment and domain information

>PRK08181 transposase; Validated	Back alignment and domain information

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins	Back alignment and domain information

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily	Back alignment and domain information

>TIGR02768 TraA_Ti Ti-type conjugative transfer relaxase TraA	Back alignment and domain information

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK08058 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PHA02544 44 clamp loader, small subunit; Provisional	Back alignment and domain information

>KOG0384 consensus Chromodomain-helicase DNA-binding protein [Transcription]	Back alignment and domain information

>TIGR02928 orc1/cdc6 family replication initiation protein	Back alignment and domain information

>PRK05707 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PRK08451 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PF06862 DUF1253: Protein of unknown function (DUF1253); InterPro: IPR010678 This family is defined by a C-terminal region of approximately 500 residues, Digestive organ expansion factor (DEF) is thought to Regulate the p53 pathway to control the expansion growth of digestive organs and is required for the expansion growth of intestine, liver and exocrine pancreas, but not endocrine pancreas [, ]	Back alignment and domain information

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>smart00491 HELICc2 helicase superfamily c-terminal domain	Back alignment and domain information

>PRK07471 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>COG3421 Uncharacterized protein conserved in bacteria [Function unknown]	Back alignment and domain information

>PRK08084 DNA replication initiation factor; Provisional	Back alignment and domain information

>PF13921 Myb_DNA-bind_6: Myb-like DNA-binding domain; PDB: 1A5J_A 1MBH_A 1GV5_A 1H89_C 1IDY_A 1MBK_A 1IDZ_A 1H88_C 1GVD_A 1MBG_A	Back alignment and domain information

>smart00492 HELICc3 helicase superfamily c-terminal domain	Back alignment and domain information

>PHA03333 putative ATPase subunit of terminase; Provisional	Back alignment and domain information

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated	Back alignment and domain information

>PHA02533 17 large terminase protein; Provisional	Back alignment and domain information

>PRK07940 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>PF06733 DEAD_2: DEAD_2; InterPro: IPR010614 This represents a conserved region within a number of RAD3-like DNA-binding helicases that are seemingly ubiquitous - members include proteins of eukaryotic, bacterial and archaeal origin	Back alignment and domain information

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK06645 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PF13245 AAA_19: Part of AAA domain	Back alignment and domain information

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK08116 hypothetical protein; Validated	Back alignment and domain information

>KOG2340 consensus Uncharacterized conserved protein [Function unknown]	Back alignment and domain information

>KOG1131 consensus RNA polymerase II transcription initiation/nucleotide excision repair factor TFIIH, 5'-3' helicase subunit RAD3 [Transcription; Replication, recombination and repair]	Back alignment and domain information

>TIGR00678 holB DNA polymerase III, delta' subunit	Back alignment and domain information

>PRK14974 cell division protein FtsY; Provisional	Back alignment and domain information

>cd01120 RecA-like_NTPases RecA-like NTPases	Back alignment and domain information

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional	Back alignment and domain information

>PRK08691 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PF05876 Terminase_GpA: Phage terminase large subunit (GpA); InterPro: IPR008866 This entry is represented by Bacteriophage lambda, GpA	Back alignment and domain information

>PRK09111 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PF13173 AAA_14: AAA domain	Back alignment and domain information

>PRK08769 DNA polymerase III subunit delta'; Validated	Back alignment and domain information

>TIGR00595 priA primosomal protein N'	Back alignment and domain information

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport	Back alignment and domain information

>PRK13889 conjugal transfer relaxase TraA; Provisional	Back alignment and domain information

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional	Back alignment and domain information

>PRK06921 hypothetical protein; Provisional	Back alignment and domain information

>PRK00440 rfc replication factor C small subunit; Reviewed	Back alignment and domain information

>cd01121 Sms Sms (bacterial radA) DNA repair protein	Back alignment and domain information

>PF00249 Myb_DNA-binding: Myb-like DNA-binding domain; InterPro: IPR014778 The retroviral oncogene v-myb, and its cellular counterpart c-myb, encode nuclear DNA-binding proteins	Back alignment and domain information

>PRK05580 primosome assembly protein PriA; Validated	Back alignment and domain information

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]	Back alignment and domain information

>PRK05563 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PTZ00112 origin recognition complex 1 protein; Provisional	Back alignment and domain information

>PRK06647 DNA polymerase III subunits gamma and tau; Validated	Back alignment and domain information

>PRK08903 DnaA regulatory inactivator Hda; Validated	Back alignment and domain information

>PRK04195 replication factor C large subunit; Provisional	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		1352
3mwy_W		800	Crystal Structure Of The Chromodomain-atpase Portio		1e-178
1z3i_X		644	Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMA		6e-60
1z6a_A		500	Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN		5e-49
1z63_A		500	Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COM		1e-46
2b2u_A		187	Tandem Chromodomains Of Human Chd1 Complexed With H		8e-18
2b2t_A		187	Tandem Chromodomains Of Human Chd1 Complexed With H		2e-17
2h1e_A		177	Tandem Chromodomains Of Budding Yeast Chd1 Length =		3e-16
1z5z_A		271	Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal		7e-16
4b4c_A		211	Crystal Structure Of The Dna-Binding Domain Of Huma		2e-12
2xb0_X		270	Dna-Binding Domain From Saccharomyces Cerevisiae Ch		2e-09
3ted_A		271	Crystal Structure Of The Chd1 Dna-Binding Domain In		9e-09
3dmq_A		968	Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT		1e-07
2b2u_C		115	Tandem Chromodomains Of Human Chd1 Complexed With H		2e-06
2b2t_C		115	Tandem Chromodomains Of Human Chd1 Complexed With H		4e-06
2dy7_A		81	Solution Structure Of The First Chromodomain Of Yea		9e-04

>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of The Yeast Chd1 Chromatin Remodeler Length = 800