Citrus Sinensis ID: 002563

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Local Sequence Feature Prediction

Residue Number Marker
--------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-------
Protein Sequence
MEISERLLVGSDSSRRAKATDVSRKSFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQINVTKELRNEAREDDKAGFPDNATEGGGESSHGHGDNQSGKTSRKRKRDRKKHGSGMRENSPLDGQNRGRHLASGIHGMSKHSPANIANVSPLLEGHSSKSIDMPSHVGSGDNDCQHFSNKGMPLSSPTIVIDGTSPLGVHSSKTIEMLSHDDGCQCDQMPHRSPVNVSSGILEGESSKPIEIPALSGIGDGGYEHFGVGMSHHSAATVIDGASSLQGLSSKSIEMPSYTQFDDNVHQHFEDKGVPRCSPAKVIAKSSLEDHSSKSIDIPSQTGFGSDYQHHEPTRSSSHIGTTYYGTQAGIPNDMGSYGMSSLNNGLSHGANLDERYTGYVRNTDSLGYRPSMSTDRELTMWPLARIYGQDFPAPTPGYGQMGSVPSNLYGNLGSSAEASYRMSTSAMDRYAPRLHQLNNTRMNTFRSEPFMPSRFGFYDSRAPQPGFFADMDFGPGFHPPFPQQGSGGWLDD
Secondary Structure (PSIPRED)
ccccccccccccccccccccHHHHHHHcccccccccccccccccccccccccHHHHHHHHccccccccccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHccccHHHHHHHcccccccccccccccccHHHccccHHHHHHHHHHHHHHHcccccHHHHHHcccHHHHHHHHHHHHHHHHHHcccccccccccccccccHHHHHHHHHHHHccEEccccEEEEEcccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccEEEEEcccccccHHHHHHHHHHHHcccccEEEEEccccccccccccccccEEEcccccccccccccccccccccHHccccccccccEEEccccHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccccccccccccccccccccccccHHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccEEEccccccccccccccccHHHcccccccccEEcccccHcccccccHHHHHHHHHHHccccccccccEccccccccccEEEcccccccccccccccHHHHHHHHHHHHHHcccccHHHHHHcccccccccccccccEcEEEEcccHHHHHHHHHHHHHHHHcccccHHHHHHHccHHHHHHHHHHHHHcHEEEcHHHccccccccccccccHHHHHHHHHHHHHEEccccEEEEEccccccHHHHHHHHHHHHcccccEEccccccccccccccccccEEEcHHHcccccEEEEEccccccHHHHHHHHHHHHHHHccccEEEEEcccccccccccccccEEEEEcccccccccEEcccccccccHHHHHHccccccEEEEcccHHHHHHHHHHHHcccccccccccEEEEEEEccccccccccccccccccccccccccccHHHHHHHccccccccccccccccccccccccccccccccEEEEccccccccccccEccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHHccccccccccccHHHHccccccccccccccccccccccccccccccccccccEccccccccccccEEEEccccccEEccccccccccccccccccccccccccccccccccccccccccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccEEEEccccccccccHHHHccccccccccccccccccccccccccccccccccccccHHHHHHcccHHccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Coil and Loop (DISEMBL)
meiserllvgsdssrrakatdvsrksfkgnvKSLSVQVdrsssvdskktslGERLYAAFVTegteqtkfgkqdnsdretsrtvtvKPLRKKLIselpsldedSKRRLSSLMKDAASSVRMEEILKrhkipsthayaskSAVDKAITLGKVEGSVEAIRTALKKldvdgssiedakavcepeVLSQIFKWKNKLKVYLApflhgmrytsfgrhftkvDKLQAIVDKLHWYVNDGDMIvdfccgandfsclmkkkldetgknclyknydilpakndfnfekrdwmtvepkelapgsrlimglnppfgvkAGLANKFINKALefnpkllilivppeterldrkeSAYELVWeddqflsgksfylpgsvdendkqmdqwnmtapplylwsrHDYAAHHKALAEkhghisrpqsrtqmerncyethavdhpkeegqgdasmlidlplqINVTKELRNeareddkagfpdnategggesshghgdnqsgktsrkrkrdrkkhgsgmrenspldgqnrgrhlasgihgmskhspanianvsplleghssksidmpshvgsgdndcqhfsnkgmplssptividgtsplgvhssktiemlshddgcqcdqmphrspvnvssgilegesskpieipalsgigdggyehfgvgmshhsaatvidgasslqglssksiempsytqfddnvhqhfedkgvprcspakVIAKSsledhssksidipsqtgfgsdyqhheptrssshigttyygtqagipndmgsygmsslnnglshganlderytgyvrntdslgyrpsmstdreltmwplariygqdfpaptpgygqmgsvpsnlygnlgssaEASYRMSTSamdryaprlhqlnntrmntfrsepfmpsrfgfydsrapqpgffadmdfgpgfhppfpqqgsggwldd
Flexible Loop (DISEMBL)
meiserllvgsdssrrakatdvsrksfkgnvkslsvqvdrsssvdskktslgeRLYAAfvtegteqtkfgkqdnsdretsrtvtvkplrkkliselpsldedskrrLSSLMkdaassvrmeEILKrhkipsthayasksavdKAITLGKVEGSVEAIRTALkkldvdgssieDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYElvweddqflsGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKhghisrpqsrtQMERNCYETHAVDHPKEEGQGDASMLIDLPLQINVTKELRNEareddkagfpdnategggesshghgdnqsgktsrkrkrdrkkhgsgmrenspldgqnrGRHLASGIHGMSKHSPANIANVSPLLEGHSSKSIDMPSHVGSGDNDCQHFSNKGMPLSSPTIVIDGTSPLGVHSSKTIEMLSHDDGCQCDQMPHRSPVNVSSGILEGESSKPIEIPALSGIGDGGYEHFGVGMSHHSAATVIDGASSLQGLSSKSIEMPSYTQFDDNVHQHFEDKGVPRCSPAKVIAKssledhssksiDIPSQTGFGSDYQHHEPTRSSSHIGTTYYGTQAGIPNDMGSYGMSSLNNGLSHGANLDERYTGYVRntdslgyrpsmstdRELTMWPLARIYGQDFPAPTPGYGQMGSVPSNLYGNLGSSAEASYRMSTSAMDRYAPRLHQLNNTRMNTFRSEPFMPSRFGFYDSRAPQPGFFADMDFGPGFHppfpqqgsggwldd
Low Complexity Region (SEG)
MEISERLLVGSDSSRRAKATDVSRKSFKGNVkslsvqvdrsssvdskktsLGERLYAAFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQINVTKELRNEAREDDKAGFPDNATegggesshghgDNQSGKTSrkrkrdrkkHGSGMRENSPLDGQNRGRHLASGIHGMSKHSPANIANVSPLLEGHSSKSIDMPSHVGSGDNDCQHFSNKGMPLSSPTIVIDGTSPLGVHSSKTIEMLSHDDGCQCDQMPHRSPVNVSSGILEGESSKPIEIPALSGIGDGGYEHFGVGMSHHSAATVIDGASSLQGLSSKSIEMPSYTQFDDNVHQHFEDKGVPRCSPAKVIAKSSLEDHSSKSIDIPSQTGFGSDYQHHEPTRSSSHIGTTYYGTQAGIPNDMGSYGMSSLNNGLSHGANLDERYTGYVRNTDSLGYRPSMSTDRELTMWPLARIYGQDFPAPTPGYGQMGSVPSNLYGNLGSSAEASYRMSTSAMDRYAPRLHQLNNTRMNTFRSEPFMPSRFGFYDSRAPQPGFFADMDfgpgfhppfpqqgsggWLDD
Disordered region (IsUnstruct)
*******************************************************YAAFV*******************************************************************************AVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSV******MDQWNMTAPPLYLWSRHDYAAHHKAL****************************************IDLPLQI***************************************************************************************************************************************************************************************ALSGIGDGGYEHFGVGMSHHSAATVI************************************************************************************YYG*************************NLDERYTGYVRNTDSLGY*******RELTMWPLARIYGQDFPA*************************************************************FGFY********FFAD**********************
Disordered Region (DISOPRED)
*********************************************************************************************************RLSSLMKDAASSVRMEEILKRHK***********AVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAE*************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************************YAPRLH*********************************************************
Disordered Region (DISEMBL)
MEISERLLVGS************RKSFKGNV*****************TSLGERLYAAFVTEGT********************VKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQINVTKELRNEAREDDKAGFPDN**************************************SPLDGQNRGRHLASGIHGMSKHSPANIANVSPLLEGHSSKSIDMPSHVGSGDNDCQHFSNKGMPLSSPTIVIDGTSPLGVHSSKTIEMLSHDDGCQCDQMPHRSPVNVSSGILEGESSKPIEIPALSGIGDGGYEHFGVGMSHHSAATVIDGASSLQGLSSKSIEMPSYTQFDDNVHQHFEDKGVPRCSPAKVIAKSSLEDHSSKSIDIPSQTGFGSDYQHHEPTRSSSHIGTTYYGTQAGIPNDMGSYGMSSLNNGLSHGANLDERYTGYVRNTDSLGYRPSMSTDRELTMWPLARIYGQDFPAPTPGYGQMGSVPSNLYGNLGSSAEASYRMSTSAMDRYAPRLHQLNNTRMNTFRSEPFMPSRFGFYDSRAPQPGFFADMDFGPGFHPPFPQ*********
Disordered Region (DISPRO)
************************************************TSLGERLYAAFVTEG*****************RTVTVKPLR**LISELPSLDEDSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAV*********DASMLIDLPLQINVTKELRNE*************************************************************************************************************************IDGTSPLGVHSSKTIEMLSHDDGCQCDQMPHRSPVNVSSGILEGESSKPIEIPALSGIGDGGYEHFGVGMSHHSAATVIDGASSLQGLSSKSIEMPSYTQFDDNVHQHFEDKGVPRCSPAKVIAKSSL***************F***YQHHEPTRSSSHIGTTYYGTQAGIPNDMGSYGMSSLNNGLSHGANLDERYTGYVRNTDSLGYRPSMSTDRELTMWPLARIYGQDFPAPTPGYGQMGSVPSNLYGNLGSSAEASYRMSTSAMDRYAPRLHQLNNTRMNTFRSEPFMPSRFGFYDSRAPQPGFFADMDFGPGFHPPF***********
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
SSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSSiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEISERLLVGSDSSRRAKATDVSRKSFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQINVTKELRNEAREDDKAGFPDNATEGGGESSHGHGDNQSGKTSRKRKRDRKKHGSGMRENSPLDGQNRGRHLASGIHGMSKHSPANIANVSPLLEGHSSKSIDMPSHVGSGDNDCQHFSNKGMPLSSPTIVIDGTSPLGVHSSKTIEMLSHDDGCQCDQMPHRSPVNVSSGILEGESSKPIEIPALSGIGDGGYEHFGVGMSHHSAATVIDGASSLQGLSSKSIEMPSYTQFDDNVHQHFEDKGVPRCSPAKVIAKSSLEDHSSKSIDIPSQTGFGSDYQHHEPTRSSSHIGTTYYGTQAGIPNDMGSYGMSSLNNGLSHGANLDERYTGYVRNTDSLGYRPSMSTDRELTMWPLARIYGQDFPAPTPGYGQMGSVPSNLYGNLGSSAEASYRMSTSAMDRYAPRLHQLNNTRMNTFRSEPFMPSRFGFYDSRAPQPGFFADMDFGPGFHPPFPQQGSGGWLDD
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

No hits with e-value below 0.001 by BLAST

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	907
255576262	1249	protein binding protein, putative [Ricin	0.608	0.441	0.553	1e-162
359494102	1260	PREDICTED: uncharacterized protein LOC10	0.470	0.338	0.618	1e-154
147814981	2238	hypothetical protein VITISV_020586 [Viti	0.675	0.273	0.489	1e-154
297737514	1201	unnamed protein product [Vitis vinifera]	0.410	0.309	0.646	1e-141
356569700	1225	PREDICTED: uncharacterized protein LOC10	0.533	0.395	0.521	1e-140
145359280	1297	enhanced downy mildew 2 [Arabidopsis tha	0.427	0.299	0.619	1e-138
297796419	1294	hypothetical protein ARALYDRAFT_495622 [	0.427	0.299	0.609	1e-135
357459829	1289	hypothetical protein MTR_3g055370 [Medic	0.524	0.369	0.495	1e-134
9758171	1332	unnamed protein product [Arabidopsis tha	0.427	0.291	0.569	1e-133
225446989	1216	PREDICTED: uncharacterized protein LOC10	0.456	0.340	0.554	1e-130

>gi|255576262|ref|XP_002529024.1| protein binding protein, putative [Ricinus communis] gi|223531504|gb|EEF33335.1| protein binding protein, putative [Ricinus communis]

 Score =  578 bits (1490), Expect = e-162,   Method: Compositional matrix adjust.
 Identities = 315/569 (55%), Positives = 388/569 (68%), Gaps = 17/569 (2%)

Query: 4    SERLLVGSDSSRRAKATDVSRKSFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVTEG 63
            SE+L  GS   RR K  D SRKS K  +KS S+++DRS++ +  KTSLG++L+   + + 
Sbjct: 489  SEKLSPGSTFLRRVKERDASRKSLKEKMKSTSIELDRSATANLNKTSLGDKLFD--IMKR 546

Query: 64   TEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEI 123
            +EQ   GK+D    E  + VTVK    KL  ELPSLD D++RRL +LMK+++S + ME++
Sbjct: 547  SEQVHNGKKDVHTNEIDKPVTVKA-STKLSDELPSLDADTERRLLALMKESSSLISMEDV 605

Query: 124  LKRHK--IPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPE 181
             K H+  IPSTHAY+ ++  +KAIT GKVEG+VEA+RTALKKL+ DG S EDAKAVC P 
Sbjct: 606  RKTHQVHIPSTHAYSLRTVCEKAITAGKVEGAVEAVRTALKKLE-DGCSTEDAKAVCGPA 664

Query: 182  VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCC 241
             LSQ+FKWK+KL+VYLAPFL+GMRYTSFGRHFTKV+KL+ I + LHWYV DGD IVDFCC
Sbjct: 665  NLSQVFKWKSKLRVYLAPFLNGMRYTSFGRHFTKVEKLEEITNLLHWYVEDGDTIVDFCC 724

Query: 242  GANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 301
            GANDFSCLMKKKL++T K C YKNYD++  KNDFNFEKRDWMTV P+EL P   LIMGLN
Sbjct: 725  GANDFSCLMKKKLEQTRKTCSYKNYDVIQPKNDFNFEKRDWMTVRPEEL-PKEGLIMGLN 783

Query: 302  PPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYL 361
            PPFGVKA LANKFINKALEF PKLLILIVPPETERLD+K+S Y LVWEDD+F+SGKSFYL
Sbjct: 784  PPFGVKAALANKFINKALEFKPKLLILIVPPETERLDKKDSPYNLVWEDDRFVSGKSFYL 843

Query: 362  PGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETH 421
            PGS+DENDK+MDQWN+T PPLYLWSR D+   H A+A+K GH+S  +  +  + N  ET 
Sbjct: 844  PGSIDENDKRMDQWNLTTPPLYLWSRPDWHEKHLAIAQKQGHLSGQREGSSSKENYPETM 903

Query: 422  AVDHPKE--EGQGDASMLIDLPLQINVTKELRN-----EAREDDKAGFPDNATEGGGESS 474
              DHP E    + DAS L D    +   KEL+         E  K   P +      E S
Sbjct: 904  TYDHPLEVYSSKADASELTDDDRLVQ-NKELKEPNDNISVAEGSKECSPHDNGSRESEDS 962

Query: 475  HGHGDNQSG-KTSRKRKRDRKKHGSGMRENSPLDGQNRGRHLASGIH-GMSKHSPANIAN 532
            +G   +QS  KT RKRK    K G G  E  P   Q   +   S  + G+   SP  + N
Sbjct: 963  YGPERSQSKEKTLRKRKHGEDKLGRGTSEKLPKTRQTGAKPPRSNTYRGIRHCSPPKMVN 1022

Query: 533  VSPLLEGHSSKSIDMPSHVGSGDNDCQHF 561
                 EG +S+S +M  H   G     +F
Sbjct: 1023 SRSSQEGLTSRSFEMTPHAEVGKTSSPNF 1051

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359494102|ref|XP_002276879.2| PREDICTED: uncharacterized protein LOC100243584 [Vitis vinifera]

 Score =  553 bits (1426), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 271/438 (61%), Positives = 336/438 (76%), Gaps = 11/438 (2%)

Query: 4   SERLLVGSDSSRRAKATDVSRKSFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVTEG 63
           SE+   G D S+R K T  S+KS   NVKS+S +VD+SS  D  KTSLGE+LYA      
Sbjct: 498 SEKRSSGPDPSKRLKVTGFSKKSLDDNVKSISKKVDKSSMADENKTSLGEQLYALI---- 553

Query: 64  TEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEI 123
             +++  K+D  + E  + V  K    K  S LPSLD DS+ R+ +++K++ S + +E++
Sbjct: 554 KNRSEPRKEDTPNSELEQKVVTK----KTSSSLPSLDRDSENRILAIIKESKSLITLEDV 609

Query: 124 LKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVL 183
           +K+HK+PSTHAY+SK+ VD+ IT GKVEGS+EA+R ALKKL+  G SIEDAKAVCEPEVL
Sbjct: 610 MKKHKVPSTHAYSSKNTVDRTITQGKVEGSIEALRAALKKLE-GGGSIEDAKAVCEPEVL 668

Query: 184 SQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGA 243
           +QI KWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKL+ IV+KLH+YV +GD IVDFCCGA
Sbjct: 669 NQIVKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLKEIVEKLHYYVKNGDTIVDFCCGA 728

Query: 244 NDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP 303
           NDFSCLMK+KL+E GK C YKNYD++  KNDFNFEKRDWM+V+ KEL  GS+LIMGLNPP
Sbjct: 729 NDFSCLMKQKLEEMGKKCSYKNYDVIQPKNDFNFEKRDWMSVKQKELPTGSQLIMGLNPP 788

Query: 304 FGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPG 363
           FGVKA LAN FINKAL+F PKLLILIVPPETERLD+K   Y+L+WEDD  LSGKSFYLPG
Sbjct: 789 FGVKASLANMFINKALQFKPKLLILIVPPETERLDKKRPPYDLIWEDDNELSGKSFYLPG 848

Query: 364 SVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAV 423
           SVD NDKQ++QWN+  P LYLWSR D+   H+A+A+K GH+SR +  + +E+   E   +
Sbjct: 849 SVDVNDKQIEQWNVNPPLLYLWSRQDWTTKHRAIAQKCGHVSRRRRVSHLEKIQNEEPVL 908

Query: 424 DHP--KEEGQGDASMLID 439
           DHP   +   G  SM++D
Sbjct: 909 DHPMADQTHSGHVSMMLD 926

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147814981|emb|CAN61366.1| hypothetical protein VITISV_020586 [Vitis vinifera]

 Score =  551 bits (1420), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 317/647 (48%), Positives = 406/647 (62%), Gaps = 34/647 (5%)

Query: 4    SERLLVGSDSSRRAKATDVSRKSFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVTEG 63
            SE+   G D S+R K T  S+KS   NVKS+S +VD+SS  D  KTSLGE+LYA      
Sbjct: 1143 SEKRSSGPDPSKRLKVTGFSKKSLDDNVKSISKKVDKSSMADENKTSLGEQLYALIKNRS 1202

Query: 64   TEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEI 123
              +    K+D  + E  + V  K    K  S LPSLD DS+ R+ +++K++ S + +E++
Sbjct: 1203 EPR----KEDTPNSELEQKVVTK----KTSSSLPSLDRDSENRILAIIKESKSLITLEDV 1254

Query: 124  LKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVL 183
            +K+HK+PSTHAY+SK+ VD+ IT GKVEGS+EA+R ALKKL+  G SIEDAKAVCEPEVL
Sbjct: 1255 MKKHKVPSTHAYSSKNTVDRTITQGKVEGSIEALRAALKKLE-GGGSIEDAKAVCEPEVL 1313

Query: 184  SQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGA 243
            +QI KWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKL+ IV+KLH+YV +GD IVDFCCGA
Sbjct: 1314 NQIVKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLKEIVEKLHYYVKNGDTIVDFCCGA 1373

Query: 244  NDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP 303
            NDFSCLMK+KL+E GK C YKNYD++  KNDFNFEKRDWM+V+ KEL  GS+LIMGLNPP
Sbjct: 1374 NDFSCLMKQKLEEMGKKCSYKNYDVIQPKNDFNFEKRDWMSVKQKELPTGSQLIMGLNPP 1433

Query: 304  FGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPG 363
            FGVKA LAN FINKAL+F PKLLILIVPPETERLD+K   Y+L+WEDD  LSGKSFYLPG
Sbjct: 1434 FGVKASLANMFINKALQFKPKLLILIVPPETERLDKKRPPYDLIWEDDNELSGKSFYLPG 1493

Query: 364  SVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAV 423
            SVD NDKQ++QWN+  P LYLWSR D+   H+A+A+K GH+SR +  + +E+   E   +
Sbjct: 1494 SVDVNDKQIEQWNVNPPLLYLWSRQDWTTKHRAIAQKCGHVSRRRRVSHLEKIQNEEPVL 1553

Query: 424  DHPKEEG--QGDASMLIDLPLQINVTKELRNEAREDDKAGFPDNATEGGGESS-HGHGDN 480
            DHP  +    G  SM++D         E   E  E +     +  T G  ESS H   D 
Sbjct: 1554 DHPMADQTHSGHVSMMLD---------EHSVENHELEHEERREIVTAGRVESSPHSGVDR 1604

Query: 481  QSGKTSRKRKRDRKKHGSG---MRENSPLDGQNRGRHLASGIHGMSKHSPANIANVSPLL 537
            +        +  +++HG G    R  +  D +     ++    G S  S    ++    +
Sbjct: 1605 EDHGKKLLNENSKQRHGKGKHEKRTENISDDKQIMTPVSEMCKGTSCTSSPRASDARSTV 1664

Query: 538  EGHSSKSIDMPSHVGSGDNDCQHFSNKGMPLSSPTIVIDGTSPLGVHSSKTIEMLSH--- 594
            + H  +++   S V  G+    HF   G+P SS    +  T   G H+S   +M      
Sbjct: 1665 DIHQPEALKKSSPVEVGEEVYPHF-QPGVPDSS----LQRTGYGGSHASIPEDMARRYRL 1719

Query: 595  DDGCQCDQMPHRSPVNVSSGILEG--ESSKPIEIPALSGIGDGGYEH 639
            D         HR    VS G+  G   S +P        I + GY H
Sbjct: 1720 DSEEPFSSTIHRWSTGVSPGLDYGIRNSEEPFTSYMRGSIDNLGYRH 1766

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297737514|emb|CBI26715.3| unnamed protein product [Vitis vinifera]

 Score =  510 bits (1314), Expect = e-141,   Method: Compositional matrix adjust.
 Identities = 243/376 (64%), Positives = 300/376 (79%), Gaps = 4/376 (1%)

Query: 67  TKFGKQDNSDRETSRT-VTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEILK 125
           T F K+   D +T  + +  K + KK  S LPSLD DS+ R+ +++K++ S + +E+++K
Sbjct: 493 TGFSKKSLDDNDTPNSELEQKVVTKKTSSSLPSLDRDSENRILAIIKESKSLITLEDVMK 552

Query: 126 RHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQ 185
           +HK+PSTHAY+SK+ VD+ IT GKVEGS+EA+R ALKKL+  G SIEDAKAVCEPEVL+Q
Sbjct: 553 KHKVPSTHAYSSKNTVDRTITQGKVEGSIEALRAALKKLE-GGGSIEDAKAVCEPEVLNQ 611

Query: 186 IFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGAND 245
           I KWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKL+ IV+KLH+YV +GD IVDFCCGAND
Sbjct: 612 IVKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLKEIVEKLHYYVKNGDTIVDFCCGAND 671

Query: 246 FSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFG 305
           FSCLMK+KL+E GK C YKNYD++  KNDFNFEKRDWM+V+ KEL  GS+LIMGLNPPFG
Sbjct: 672 FSCLMKQKLEEMGKKCSYKNYDVIQPKNDFNFEKRDWMSVKQKELPTGSQLIMGLNPPFG 731

Query: 306 VKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSV 365
           VKA LAN FINKAL+F PKLLILIVPPETERLD+K   Y+L+WEDD  LSGKSFYLPGSV
Sbjct: 732 VKASLANMFINKALQFKPKLLILIVPPETERLDKKRPPYDLIWEDDNELSGKSFYLPGSV 791

Query: 366 DENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDH 425
           D NDKQ++QWN+  P LYLWSR D+   H+A+A+K GH+SR +  + +E+   E   +DH
Sbjct: 792 DVNDKQIEQWNVNPPLLYLWSRQDWTTKHRAIAQKCGHVSRRRRVSHLEKIQNEEPVLDH 851

Query: 426 P--KEEGQGDASMLID 439
           P   +   G  SM++D
Sbjct: 852 PMADQTHSGHVSMMLD 867

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356569700|ref|XP_003553034.1| PREDICTED: uncharacterized protein LOC100803073 [Glycine max]

 Score =  506 bits (1303), Expect = e-140,   Method: Compositional matrix adjust.
 Identities = 270/518 (52%), Positives = 339/518 (65%), Gaps = 34/518 (6%)

Query: 9   VGSDSSRRAKATDVSRK-------SFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVT 61
           VG   S +   +++SRK        F  N +S   +  + S     + SLG +L+A    
Sbjct: 493 VGDKKSEKISRSNISRKKINEASRCFNENKRSTISKETKKSDGAENRPSLGAKLFA-LKQ 551

Query: 62  EGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRME 121
             +E    G +  +D     T+ VKP  KKL S LP+LD DSKRRL +L K+A SSV +E
Sbjct: 552 NSSEHINSGNE--ADDVAKNTLVVKPT-KKLSSTLPALDADSKRRLLALFKEATSSVTLE 608

Query: 122 EILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPE 181
            ++K HK  +TH ++ KS V+K ITLGK+EGSVEA+RTAL+ L+ DG +I DA+AVC P+
Sbjct: 609 NVIKEHKFAATHTHSLKSVVEKTITLGKLEGSVEAVRTALRMLE-DGHNIRDAEAVCGPD 667

Query: 182 VLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCC 241
           VL+QIFKWK+KLKVYLAP L+G RYTSFGRHFT+++KL+ IVDKLHWYV +GD IVDFCC
Sbjct: 668 VLNQIFKWKDKLKVYLAPVLYGNRYTSFGRHFTQIEKLEGIVDKLHWYVQNGDTIVDFCC 727

Query: 242 GANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN 301
           GANDFS LM KKL+ETGK C YKN+D+LP KNDFNFE RDWMT++ KEL  GS+LIMGLN
Sbjct: 728 GANDFSILMNKKLEETGKRCSYKNFDLLPTKNDFNFEMRDWMTIQTKELPTGSQLIMGLN 787

Query: 302 PPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYL 361
           PPFG+KA LANKFI+KALEF PKLLILIVPPETERLD K S Y+LVWED +FL GKSFYL
Sbjct: 788 PPFGLKAALANKFIDKALEFRPKLLILIVPPETERLDEKRSPYDLVWEDKRFLLGKSFYL 847

Query: 362 PGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETH 421
           PGSVD ND+Q+DQWN+  PPLYLWSR D+   HKA+A KHGH    +   ++E    E  
Sbjct: 848 PGSVDANDRQIDQWNVKPPPLYLWSRPDWTDKHKAIARKHGHFISQRGLLRIESFDKEKS 907

Query: 422 AVDHPKEEGQGDASM-------LIDLPLQINVTKELRNEAREDDKAGFPDNATEGGGESS 474
              H  ++  G  SM       L D P+             E      P    +   +  
Sbjct: 908 PASHTLDDSSGFNSMPGHDILNLTDAPIN------------EGQTGCSPHGNVDRESQER 955

Query: 475 HGHGDNQSGKTSRKRKRDRKKHGSGMRENS---PLDGQ 509
             +   ++ KTS KRKR  +  G  +   S   P+DG+
Sbjct: 956 QKYMVRKADKTSWKRKRSEENDGRRLGVTSPPNPIDGR 993

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|145359280|ref|NP_200350.2| enhanced downy mildew 2 [Arabidopsis thaliana] gi|334188424|ref|NP_001190545.1| enhanced downy mildew 2 [Arabidopsis thaliana] gi|332009240|gb|AED96623.1| enhanced downy mildew 2 [Arabidopsis thaliana] gi|332009241|gb|AED96624.1| enhanced downy mildew 2 [Arabidopsis thaliana]

 Score =  499 bits (1285), Expect = e-138,   Method: Compositional matrix adjust.
 Identities = 246/397 (61%), Positives = 305/397 (76%), Gaps = 9/397 (2%)

Query: 48  KTSLGERLYAAFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRL 107
           K SLGERL++   T+     K G+    D + ++T ++    K+  SE+P+LD DS+RRL
Sbjct: 551 KISLGERLFS--YTQEPNPVKPGRVIPVDSKHNKTDSIA--SKEPGSEIPTLDNDSQRRL 606

Query: 108 SSLMKDAASSVRMEEILKRHKIPSTHA-YASKSAVDKAITLGKVEGSVEAIRTALKKLDV 166
            ++MK A   + M  ILK+ KI ST + +++++ VDK IT+GKVEGSV+AIRTALKKL+ 
Sbjct: 607 LAVMKKATEEITMGTILKKFKIQSTMSTHSTRNVVDKTITMGKVEGSVQAIRTALKKLE- 665

Query: 167 DGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKL 226
           +G +IEDAKAVCEPEVLSQI KWK+KLKVYLAPFLHG RYTSFGRHFT  +KLQ IVD+L
Sbjct: 666 EGGNIEDAKAVCEPEVLSQILKWKDKLKVYLAPFLHGARYTSFGRHFTNPEKLQQIVDRL 725

Query: 227 HWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVE 286
           HWY +DGDMIVDFCCG+NDFSCLM  KL+ETGK CLYKNYD+ PAKN+FNFE++DWMTV 
Sbjct: 726 HWYADDGDMIVDFCCGSNDFSCLMNAKLEETGKKCLYKNYDLFPAKNNFNFERKDWMTVS 785

Query: 287 PKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYEL 346
             EL PGS+LIMGLNPPFGV A LANKFI KALEF PK+LILIVPPETERLD+K+S+Y L
Sbjct: 786 KDELEPGSKLIMGLNPPFGVNASLANKFITKALEFRPKILILIVPPETERLDKKKSSYVL 845

Query: 347 VWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISR 406
           +WED  FLSG SFYLPGSV+E DKQ++ WN+  PPL LWSR D+AA HK +AEKH H+SR
Sbjct: 846 IWEDKTFLSGNSFYLPGSVNEEDKQLEDWNLVPPPLSLWSRSDFAAKHKKIAEKHCHLSR 905

Query: 407 PQSRTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQ 443
               ++++    E +A  HP     G   M  D+P++
Sbjct: 906 DVGSSKLKIVEEEANASLHPLGASDG---MCDDIPME 939

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297796419|ref|XP_002866094.1| hypothetical protein ARALYDRAFT_495622 [Arabidopsis lyrata subsp. lyrata] gi|297311929|gb|EFH42353.1| hypothetical protein ARALYDRAFT_495622 [Arabidopsis lyrata subsp. lyrata]

 Score =  488 bits (1257), Expect = e-135,   Method: Compositional matrix adjust.
 Identities = 242/397 (60%), Positives = 301/397 (75%), Gaps = 9/397 (2%)

Query: 48  KTSLGERLYAAFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRL 107
           K SLGERL+  ++ E     K G+    D + ++T ++    K+  SE+P+LD DS+RRL
Sbjct: 551 KVSLGERLFN-YIQEPN-LVKPGRMIPVDSKHNKTDSIA--SKEPGSEIPTLDNDSQRRL 606

Query: 108 SSLMKDAASSVRMEEILKRHKIPST-HAYASKSAVDKAITLGKVEGSVEAIRTALKKLDV 166
            ++MK A   + M  +LK+ K+ ST +  ++++ VDK IT+GKVEGSV+A+RTALKKL+ 
Sbjct: 607 LAVMKKATEEITMGTMLKKFKVQSTMNTNSTRNVVDKTITMGKVEGSVQAVRTALKKLE- 665

Query: 167 DGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKL 226
           +G +IEDAKAVCEPEVLSQI KWK+KLKVYLAPFLHG RYTSFGRHFT  +KLQ IVD+L
Sbjct: 666 EGGNIEDAKAVCEPEVLSQILKWKDKLKVYLAPFLHGARYTSFGRHFTNPEKLQQIVDRL 725

Query: 227 HWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVE 286
           HWY  DGDMIVDFCCG+NDFSCLM  KL+ETGK CLYKNYD+  AKN+FNFE++DWMTV 
Sbjct: 726 HWYAEDGDMIVDFCCGSNDFSCLMNTKLEETGKKCLYKNYDLFQAKNNFNFERKDWMTVS 785

Query: 287 PKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYEL 346
             EL PGS+LIMGLNPPFGV A LANKFI KALEF PK+LILIVPPETERLD+K+S+Y L
Sbjct: 786 KDELEPGSKLIMGLNPPFGVNASLANKFITKALEFRPKILILIVPPETERLDKKKSSYVL 845

Query: 347 VWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISR 406
           +WED  FLSG SFYLPGSV+E DKQ++ WN+  PPL LWSR D+AA HK +AEKH H+SR
Sbjct: 846 IWEDKTFLSGNSFYLPGSVNEEDKQLEDWNIVPPPLSLWSRSDFAAKHKKIAEKHCHLSR 905

Query: 407 PQSRTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQ 443
               ++++    E  A  HP     G   M  D+P++
Sbjct: 906 DVGSSKIKIVEEEAKASLHPLGPSDG---MCDDIPVE 939

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|357459829|ref|XP_003600195.1| hypothetical protein MTR_3g055370 [Medicago truncatula] gi|355489243|gb|AES70446.1| hypothetical protein MTR_3g055370 [Medicago truncatula]

 Score =  485 bits (1248), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 271/547 (49%), Positives = 355/547 (64%), Gaps = 71/547 (12%)

Query: 8    LVGSDSSRRAKATDVSRKSFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVTEGTEQT 67
            ++GS+  R+ KA + SR+    N +    + ++S   +  + SLG +LY+ +  +G++Q 
Sbjct: 494  ILGSNIPRK-KANEASRRLLNENKRPTLKEAEKSDH-EENQPSLGLQLYSHY-QKGSKQI 550

Query: 68   KFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEILKRH 127
              G   N+  + + +V  +P  KKL S  P LD DS+RRL +L+K+A+SS+ +E ++K H
Sbjct: 551  NSGNHVNNVADNTLSVK-RP--KKLSSAPPQLDADSERRLLALVKEASSSITLESVIKEH 607

Query: 128  KIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIF 187
            K  STH ++ K+ V+K IT+GK+EGSVEA+RTAL+ LD +G SI DA+AVC P+V++++F
Sbjct: 608  KFVSTHTHSLKNVVEKTITMGKLEGSVEAVRTALRMLD-EGHSIRDAEAVCGPDVMNRLF 666

Query: 188  KWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFS 247
            KWK+KLKVYLAP L+G RYTSFGRHFT+V+KL+ IVDKLHWYV + DMIVDFCCGANDFS
Sbjct: 667  KWKDKLKVYLAPVLYGNRYTSFGRHFTQVEKLEGIVDKLHWYVQNNDMIVDFCCGANDFS 726

Query: 248  CLMKKKLDETGKNCLYKNYDILPAK----------------------------------- 272
             LMKKKL+ETGK+CLYKN+D+LP K                                   
Sbjct: 727  RLMKKKLEETGKSCLYKNFDLLPTKAALHRLKLKSLGSVFSPTSQSPPPQKQNPTRWVFP 786

Query: 273  ---------NDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNP 323
                     NDFNFE RDW+TV+ KEL  GS+LIMGLNPPFG+KA LANKFI+KALEF P
Sbjct: 787  PDVVLICLQNDFNFEMRDWLTVQRKELPLGSQLIMGLNPPFGLKAALANKFIDKALEFEP 846

Query: 324  KLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLY 383
            KLLILIVPPETERLDRK S Y LVWED++FLSGKSFYLPGSVD NDKQM+QWN+  PPLY
Sbjct: 847  KLLILIVPPETERLDRKRSRYVLVWEDERFLSGKSFYLPGSVDSNDKQMEQWNVKPPPLY 906

Query: 384  LWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQ 443
            LWS  D+A  HK +A++HGH+ R +  ++ME    E  +  H  ++   D +ML D  L 
Sbjct: 907  LWSHPDWADKHKLIAQEHGHLFRERDVSRMESFDKEKSSASHSMDDNYFDDTML-DRMLD 965

Query: 444  INVTKELRNEAREDDKAGFPDNATEGGGESSHGHGDNQSGK-----------TSRKRKRD 492
             +  K     +  D  + F     EG   SSHG+    S +           TS KRKR 
Sbjct: 966  HDFLK-----STSDQDSSFMIGQMEG---SSHGNVFRVSQERQDYLTINAENTSWKRKRT 1017

Query: 493  RKKHGSG 499
             +  G G
Sbjct: 1018 EENDGRG 1024

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9758171|dbj|BAB08556.1| unnamed protein product [Arabidopsis thaliana]

 Score =  482 bits (1241), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 246/432 (56%), Positives = 305/432 (70%), Gaps = 44/432 (10%)

Query: 48  KTSLGERLYAAFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRL 107
           K SLGERL++   T+     K G+    D + ++T ++    K+  SE+P+LD DS+RRL
Sbjct: 551 KISLGERLFS--YTQEPNPVKPGRVIPVDSKHNKTDSIA--SKEPGSEIPTLDNDSQRRL 606

Query: 108 SSLMKDAASSVRMEEILKRHKIPSTHA-YASKSAVDKAITLGKVEGSVEAIRTALKKLDV 166
            ++MK A   + M  ILK+ KI ST + +++++ VDK IT+GKVEGSV+AIRTALKKL+ 
Sbjct: 607 LAVMKKATEEITMGTILKKFKIQSTMSTHSTRNVVDKTITMGKVEGSVQAIRTALKKLE- 665

Query: 167 DGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKL 226
           +G +IEDAKAVCEPEVLSQI KWK+KLKVYLAPFLHG RYTSFGRHFT  +KLQ IVD+L
Sbjct: 666 EGGNIEDAKAVCEPEVLSQILKWKDKLKVYLAPFLHGARYTSFGRHFTNPEKLQQIVDRL 725

Query: 227 HWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVE 286
           HWY +DGDMIVDFCCG+NDFSCLM  KL+ETGK CLYKNYD+ PAKN+FNFE++DWMTV 
Sbjct: 726 HWYADDGDMIVDFCCGSNDFSCLMNAKLEETGKKCLYKNYDLFPAKNNFNFERKDWMTVS 785

Query: 287 PKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETE----------- 335
             EL PGS+LIMGLNPPFGV A LANKFI KALEF PK+LILIVPPETE           
Sbjct: 786 KDELEPGSKLIMGLNPPFGVNASLANKFITKALEFRPKILILIVPPETERFQFPSISSAP 845

Query: 336 ------------------------RLDRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQ 371
                                   RLD+K+S+Y L+WED  FLSG SFYLPGSV+E DKQ
Sbjct: 846 LYHSITLIYRLLSLSLVKSITFLNRLDKKKSSYVLIWEDKTFLSGNSFYLPGSVNEEDKQ 905

Query: 372 MDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPKEEGQ 431
           ++ WN+  PPL LWSR D+AA HK +AEKH H+SR    ++++    E +A  HP     
Sbjct: 906 LEDWNLVPPPLSLWSRSDFAAKHKKIAEKHCHLSRDVGSSKLKIVEEEANASLHPLGASD 965

Query: 432 GDASMLIDLPLQ 443
           G   M  D+P++
Sbjct: 966 G---MCDDIPME 974

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225446989|ref|XP_002268363.1| PREDICTED: uncharacterized protein LOC100248222 [Vitis vinifera]

 Score =  471 bits (1212), Expect = e-130,   Method: Compositional matrix adjust.
 Identities = 240/433 (55%), Positives = 306/433 (70%), Gaps = 19/433 (4%)

Query: 10  GSDSSRRAKATDVSRKSFKGNVKSLSVQVDRSSSVDSKKTSLGERLYAAFVTEGTEQTKF 69
           G D   + K  D ++K  + NVKS+ V++  S +V   ++SL  R Y             
Sbjct: 510 GFDPPTKQKINDATKKFLRDNVKSVPVKICASVAVKGTQSSL--RNYNIK---------- 557

Query: 70  GKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASSVRMEEILKRHKI 129
            KQ N   +  +  ++KP  K+  S  P +D + + R+  LMK   SS  +EE  ++ K+
Sbjct: 558 PKQQNIPSKVEKITSLKPSMKRASSSQPLMDAELETRIVDLMKSTTSSFSLEEFREKQKV 617

Query: 130 PSTHAYASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGSSIEDAKAVCEPEVLSQIFKW 189
             ++   SK+ +D  IT GKVE SV+AIRTAL+KL+  G SIEDAKAVCEPEVL+QI +W
Sbjct: 618 LCSY---SKNVLDSTITQGKVEVSVKAIRTALEKLE-KGCSIEDAKAVCEPEVLNQIMRW 673

Query: 190 KNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCL 249
           K KLKVYLAPFLHGMRYTSFGRHFTKV+KL+ +VD+LHWYV  GDMIVDFCCG+NDFSCL
Sbjct: 674 KRKLKVYLAPFLHGMRYTSFGRHFTKVEKLREVVDRLHWYVQHGDMIVDFCCGSNDFSCL 733

Query: 250 MKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAG 309
           MK+KLD+ GK+C +KNYD++  KNDF+FEKRDWM++   EL  GS+LIMGLNPPFGVKA 
Sbjct: 734 MKEKLDKVGKSCSFKNYDLIQPKNDFSFEKRDWMSIHLDELPAGSQLIMGLNPPFGVKAS 793

Query: 310 LANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGSVDEND 369
           LANKFI+KAL F PKLLILIVP ET+RLD K+SAY+L+WED+  LSGKSFYLPGSVD +D
Sbjct: 794 LANKFIDKALSFRPKLLILIVPKETKRLDEKDSAYDLIWEDEDILSGKSFYLPGSVDMHD 853

Query: 370 KQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPKEE 429
           KQ++QWN+  P LYLWSR D+ + HKA+A+K GHIS  Q    +E N  E    ++  EE
Sbjct: 854 KQLEQWNLLPPLLYLWSRPDWTSRHKAVAQKCGHISIEQKDFLVEGNNVEREVSNYLMEE 913

Query: 430 GQ---GDASMLID 439
                GD S L++
Sbjct: 914 NHDCYGDFSNLMN 926

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	907
TAIR|locus:2173857	1297	EDM2 "ENHANCED DOWNY MILDEW 2"	0.424	0.296	0.621	1.6e-132
TAIR|locus:2162667	677	ELP1 "EDM2-like protein1" [Ara	0.364	0.488	0.521	1.2e-90

TAIR|locus:2173857 EDM2 "ENHANCED DOWNY MILDEW 2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1262 (449.3 bits), Expect = 1.6e-132, Sum P(2) = 1.6e-132
 Identities = 245/394 (62%), Positives = 304/394 (77%)

Query:    51 LGERLYAAFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSL 110
             LGERL++   T+     K G+    D + ++T ++    K+  SE+P+LD DS+RRL ++
Sbjct:   554 LGERLFS--YTQEPNPVKPGRVIPVDSKHNKTDSIAS--KEPGSEIPTLDNDSQRRLLAV 609

Query:   111 MKDAASSVRMEEILKRHKIPSTHA-YASKSAVDKAITLGKVEGSVEAIRTALKKLDVDGS 169
             MK A   + M  ILK+ KI ST + +++++ VDK IT+GKVEGSV+AIRTALKKL+ +G 
Sbjct:   610 MKKATEEITMGTILKKFKIQSTMSTHSTRNVVDKTITMGKVEGSVQAIRTALKKLE-EGG 668

Query:   170 SIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWY 229
             +IEDAKAVCEPEVLSQI KWK+KLKVYLAPFLHG RYTSFGRHFT  +KLQ IVD+LHWY
Sbjct:   669 NIEDAKAVCEPEVLSQILKWKDKLKVYLAPFLHGARYTSFGRHFTNPEKLQQIVDRLHWY 728

Query:   230 VNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKE 289
              +DGDMIVDFCCG+NDFSCLM  KL+ETGK CLYKNYD+ PAKN+FNFE++DWMTV   E
Sbjct:   729 ADDGDMIVDFCCGSNDFSCLMNAKLEETGKKCLYKNYDLFPAKNNFNFERKDWMTVSKDE 788

Query:   290 LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVWE 349
             L PGS+LIMGLNPPFGV A LANKFI KALEF PK+LILIVPPETERLD+K+S+Y L+WE
Sbjct:   789 LEPGSKLIMGLNPPFGVNASLANKFITKALEFRPKILILIVPPETERLDKKKSSYVLIWE 848

Query:   350 DDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQS 409
             D  FLSG SFYLPGSV+E DKQ++ WN+  PPL LWSR D+AA HK +AEKH H+SR   
Sbjct:   849 DKTFLSGNSFYLPGSVNEEDKQLEDWNLVPPPLSLWSRSDFAAKHKKIAEKHCHLSRDVG 908

Query:   410 RTQMERNCYETHAVDHPKEEGQGDASMLIDLPLQ 443
              ++++    E +A  HP   G  D  M  D+P++
Sbjct:   909 SSKLKIVEEEANASLHPL--GASDG-MCDDIPME 939

GO:0005634 "nucleus" evidence=ISM;IDA

GO:0008270 "zinc ion binding" evidence=IEA

GO:0003700 "sequence-specific DNA binding transcription factor activity" evidence=ISS

GO:0007165 "signal transduction" evidence=IMP

GO:0050832 "defense response to fungus" evidence=IMP

GO:0009911 "positive regulation of flower development" evidence=IMP

GO:0010228 "vegetative to reproductive phase transition of meristem" evidence=IMP

TAIR|locus:2162667 ELP1 "EDM2-like protein1" [Arabidopsis thaliana (taxid:3702)]

 Score = 904 (323.3 bits), Expect = 1.2e-90, P = 1.2e-90
 Identities = 181/347 (52%), Positives = 235/347 (67%)

Query:    98 SLDEDSKRRLSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAI 157
             S DE  ++R+  ++ +  SS   +E +K  +     +Y S +   K IT G V   V A 
Sbjct:   342 SCDE-VEQRVMGIIDEVESSFNFDEFVKSRRPTHIKSYHSGNYFSKNITTGLVRTHVNAA 400

Query:   158 RTALKKLDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVD 217
             R ALK  + +G    DA+A+ +P+ L Q+ K K KL++  +PFLHGMRYTSFGRHFT  +
Sbjct:   401 RAALKMFE-EGRD-RDARALFDPDSLLQLMKHKKKLEI--SPFLHGMRYTSFGRHFTNPE 456

Query:   218 KLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKNDFNF 277
             KL+ IV++LHWYV +GD +VDFCCG+NDFSCLMK+KL ETGK C YKN D++P KN+FNF
Sbjct:   457 KLKEIVERLHWYVENGDTVVDFCCGSNDFSCLMKEKLMETGKICFYKNLDLIPPKNNFNF 516

Query:   278 EKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERL 337
             E RDW++V+ +EL  GS+LIMGLNPPFG KA LAN FI KALEF PK+LILIVP ET+R+
Sbjct:   517 EMRDWLSVKEEELPDGSQLIMGLNPPFGYKASLANTFIKKALEFKPKILILIVPSETKRV 576

Query:   338 DRKESAYELVWEDDQFLSGKSFYLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHHKAL 397
             D  +  YEL+WED   L+G SFYLPGSVD NDK ++QWN   PPLYLWSR D +  HK  
Sbjct:   577 DAIDD-YELIWEDRNLLAGMSFYLPGSVDVNDKTIEQWNNITPPLYLWSRRDLSRSHKTT 635

Query:   398 AEKHGHISRPQSRTQMERNCY--ETHAVDHPKEEGQGDASMLIDLPL 442
             A + GHI      TQM    Y  ++H  + P  +G  D  M+ D+ +
Sbjct:   636 AVQQGHI------TQMHHFTYNGDSHHTEIP--QGDDDTDMVQDMEI 674


Parameters:
  V=100
  filter=SEG
  E=0.001

  ctxfactor=1.00

  Query                        -----  As Used  -----    -----  Computed  ----
  Frame  MatID Matrix name     Lambda    K       H      Lambda    K       H
   +0      0   BLOSUM62        0.314   0.131   0.388    same    same    same
               Q=9,R=2         0.244   0.0300  0.180     n/a     n/a     n/a

  Query
  Frame  MatID  Length  Eff.Length     E     S W   T  X   E2     S2
   +0      0      907       852   0.00082  122 3  11 23  0.45    34
                                                     37  0.45    37


Statistics:

  Database:  /share/blast/go-seqdb.fasta
   Title:  go_20130330-seqdb.fasta
   Posted:  5:47:42 AM PDT Apr 1, 2013
   Created:  5:47:42 AM PDT Apr 1, 2013
   Format:  XDF-1
   # of letters in database:  169,044,731
   # of sequences in database:  368,745
   # of database sequences satisfying E:  2
  No. of states in DFA:  625 (66 KB)
  Total size of DFA:  436 KB (2208 KB)
  Time to generate neighborhood:  0.00u 0.00s 0.00t   Elapsed:  00:00:00
  No. of threads or processors used:  24
  Search cpu time:  79.38u 0.12s 79.50t   Elapsed:  00:00:03
  Total cpu time:  79.38u 0.12s 79.50t   Elapsed:  00:00:03
  Start:  Tue May 21 14:14:29 2013   End:  Tue May 21 14:14:32 2013

GO:0005634 "nucleus" evidence=ISM

GO:0008270 "zinc ion binding" evidence=IEA

---

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

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00027233001 SubName- Full=Chromosome chr19 scaffold_4, whole genome shotgun sequence; (1259 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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	907
PRK00274	272	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	97.76
PHA03412	241	putative methyltransferase; Provisional	97.59
PF02384	311	N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 T	97.58
TIGR02987	524	met_A_Alw26 type II restriction m6 adenine DNA met	97.38
TIGR00755	253	ksgA dimethyladenosine transferase. Alternate name	97.23
PRK14896	258	ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1	97.2
PTZ00338	294	dimethyladenosine transferase-like protein; Provis	97.04
PF01170	179	UPF0020: Putative RNA methylase family UPF0020; In	96.82
PF13659	117	Methyltransf_26: Methyltransferase domain; PDB: 3G	96.15
PRK10909	199	rsmD 16S rRNA m(2)G966-methyltransferase; Provisio	95.61
PF00398	262	RrnaAD: Ribosomal RNA adenine dimethylase; InterPr	95.58
TIGR00479	431	rumA 23S rRNA (uracil-5-)-methyltransferase RumA.	95.19
TIGR01177	329	conserved hypothetical protein TIGR01177. This fam	94.51
smart00650	169	rADc Ribosomal RNA adenine dimethylases.	94.36
TIGR02085	374	meth_trns_rumB 23S rRNA (uracil-5-)-methyltransfer	94.17
PF05175	170	MTS: Methyltransferase small domain; InterPro: IPR	93.84
PRK03522	315	rumB 23S rRNA methyluridine methyltransferase; Rev	93.63
PRK13168	443	rumA 23S rRNA m(5)U1939 methyltransferase; Reviewe	93.36
TIGR03534	251	RF_mod_PrmC protein-(glutamine-N5) methyltransfera	92.75
COG2263	198	Predicted RNA methylase [Translation, ribosomal st	92.75
TIGR03533	284	L3_gln_methyl protein-(glutamine-N5) methyltransfe	92.48
PRK11805	307	N5-glutamine S-adenosyl-L-methionine-dependent met	91.71
COG2226	238	UbiE Methylase involved in ubiquinone/menaquinone	91.43
PRK11188	209	rrmJ 23S rRNA methyltransferase J; Provisional	91.37
PHA03411	279	putative methyltransferase; Provisional	91.35
PRK14967	223	putative methyltransferase; Provisional	91.3
COG2265	432	TrmA SAM-dependent methyltransferases related to t	90.93
PF07669	106	Eco57I: Eco57I restriction-modification methylase;	89.84
PRK05785	226	hypothetical protein; Provisional	88.66
PF02475	200	Met_10: Met-10+ like-protein; InterPro: IPR003402	88.48
PRK09328	275	N5-glutamine S-adenosyl-L-methionine-dependent met	88.29
TIGR00095	189	RNA methyltransferase, RsmD family. This model rep	87.75
TIGR02143	353	trmA_only tRNA (uracil-5-)-methyltransferase. This	87.56
TIGR03704	251	PrmC_rel_meth putative protein-(glutamine-N5) meth	87.43
PRK05031	362	tRNA (uracil-5-)-methyltransferase; Validated	86.87
COG0030	259	KsgA Dimethyladenosine transferase (rRNA methylati	85.13
TIGR03587	204	Pse_Me-ase pseudaminic acid biosynthesis-associate	84.0
TIGR00536	284	hemK_fam HemK family putative methylases. The gene	83.27
PF13679	141	Methyltransf_32: Methyltransferase domain	81.51
PF13489	161	Methyltransf_23: Methyltransferase domain; PDB: 3J	81.17
COG0286	489	HsdM Type I restriction-modification system methyl	80.2

>PRK00274 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Reviewed

Probab=97.76  E-value=2.1e-05  Score=79.38  Aligned_cols=152  Identities=22%  Similarity=0.300  Sum_probs=92.5

Q ss_pred             cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-hCccccccccccCC---CCCCccccccc
Q 002563          207 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDILP---AKNDFNFEKRD  281 (907)
Q Consensus       207 TSfGRHFT-K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~fKNyDliq---pKN~fnFEkrD  281 (907)
                      .+||.||. ..+-+..|++.+.  +.+|++|+|+.||.-.++..+-++... ++.+..-.-.+...   ....+++...|
T Consensus        18 k~~gq~fl~~~~i~~~i~~~l~--~~~~~~VLEiG~G~G~lt~~L~~~~~~v~avE~d~~~~~~~~~~~~~~~v~~i~~D   95 (272)
T PRK00274         18 KSLGQNFLIDENILDKIVDAAG--PQPGDNVLEIGPGLGALTEPLLERAAKVTAVEIDRDLAPILAETFAEDNLTIIEGD   95 (272)
T ss_pred             cccCcCcCCCHHHHHHHHHhcC--CCCcCeEEEeCCCccHHHHHHHHhCCcEEEEECCHHHHHHHHHhhccCceEEEECh
Confidence            37999995 5556677888774  478999999999999999888664210 01111100011110   01457788888


Q ss_pred             cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhcc--CCcEEEEecCCcc-ccccccCC--Cc---e------ee
Q 002563          282 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEF--NPKLLILIVPPET-ERLDRKES--AY---E------LV  347 (907)
Q Consensus       282 WmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~F--kPKLIILIvPpeT-eRLD~K~~--pY---~------Li  347 (907)
                      +.++...++.  ..+|+| ||||.+-    ..+|.+.|..  ...-++|++.+|. +||=.++.  -|   .      .-
T Consensus        96 ~~~~~~~~~~--~~~vv~-NlPY~is----s~ii~~~l~~~~~~~~~~l~~QkE~A~Rl~a~pg~~~y~~lSv~~~~~~~  168 (272)
T PRK00274         96 ALKVDLSELQ--PLKVVA-NLPYNIT----TPLLFHLLEERDPIRDMVVMVQKEVAERIVAKPGSKAYGRLSVLVQYYCD  168 (272)
T ss_pred             hhcCCHHHcC--cceEEE-eCCccch----HHHHHHHHhcCCCCCeeEEEeHHHHHHHHcCCCCCccccHHHHHHHHHcc
Confidence            8888765543  357787 9999954    5555555543  3456899999887 77743321  12   1      12


Q ss_pred             eccccccCCcceecCCCccc
Q 002563          348 WEDDQFLSGKSFYLPGSVDE  367 (907)
Q Consensus       348 WED~~~LsGkSFYlPGSVDv  367 (907)
                      ++--.-+.-++||=|--||.
T Consensus       169 ~~~~~~v~~~~F~P~PkV~s  188 (272)
T PRK00274        169 VEKVFDVPPSAFVPPPKVDS  188 (272)
T ss_pred             eEEEEEeChhhCCCCCCceE
Confidence            22223445677777666654

>PHA03412 putative methyltransferase; Provisional

Probab=97.59  E-value=0.00015  Score=75.00  Aligned_cols=173  Identities=17%  Similarity=0.273  Sum_probs=93.8

Q ss_pred             ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhC------ccccccccccCCCCC--Cccccc
Q 002563          208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG------KNCLYKNYDILPAKN--DFNFEK  279 (907)
Q Consensus       208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~g------K~C~fKNyDliqpKN--~fnFEk  279 (907)
                      ..|.+||-..-.+.++   .|.. .+..|||+|||+-.|+.+|.++..+..      .+..-....+.. +|  ...|..
T Consensus        29 ~~GqFfTP~~iAr~~~---i~~~-~~grVLDlG~GSG~Lalala~~~~~~~~~~V~aVEID~~Al~~Ar-~n~~~~~~~~  103 (241)
T PHA03412         29 ELGAFFTPIGLARDFT---IDAC-TSGSVVDLCAGIGGLSFAMVHMMMYAKPREIVCVELNHTYYKLGK-RIVPEATWIN  103 (241)
T ss_pred             cCCccCCCHHHHHHHH---Hhcc-CCCEEEEccChHHHHHHHHHHhcccCCCcEEEEEECCHHHHHHHH-hhccCCEEEE
Confidence            5688999888656554   2333 478999999999999998876532111      111111111111 11  123333


Q ss_pred             cccccccCCCCCCCCeeeeeeCCCccchh-----------hhHHHHHHhhhccCCcEEEEecCCccccccccCCCceeee
Q 002563          280 RDWMTVEPKELAPGSRLIMGLNPPFGVKA-----------GLANKFINKALEFNPKLLILIVPPETERLDRKESAYELVW  348 (907)
Q Consensus       280 rDWmtVqp~ELP~Gs~LIMGLNPPFG~kA-----------~LANKFIdkAL~FkPKLIILIvPpeTeRLD~K~~pY~LiW  348 (907)
                      .|.+...   +..-=-|||+ ||||+.-+           .+.++||.+|+..-+.=. ||+|.-.--.+---.+|   +
T Consensus       104 ~D~~~~~---~~~~FDlIIs-NPPY~~~~~~d~~ar~~g~~~~~~li~~A~~Ll~~G~-~ILP~~~~~~~y~~~~~---~  175 (241)
T PHA03412        104 ADALTTE---FDTLFDMAIS-NPPFGKIKTSDFKGKYTGAEFEYKVIERASQIARQGT-FIIPQMSANFRYSGTHY---F  175 (241)
T ss_pred             cchhccc---ccCCccEEEE-CCCCCCccccccCCcccccHHHHHHHHHHHHHcCCCE-EEeCcccccCcccCccc---e
Confidence            3333222   1111238888 99999322           457889999998765554 49998765333222222   2


Q ss_pred             ccccccCCcce----------ecCCCcccCchhhcccccCCCCeeeeecchhHHHH
Q 002563          349 EDDQFLSGKSF----------YLPGSVDENDKQMDQWNMTAPPLYLWSRHDYAAHH  394 (907)
Q Consensus       349 ED~~~LsGkSF----------YlPGSVDvnDKqieqWN~vPPpLyLWSRpDwt~kH  394 (907)
                      +...-..|+.+          .-||.=-.-.--+++|.-+-|. +=-+.-||+++.
T Consensus       176 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~  230 (241)
T PHA03412        176 RQDESTTSSKCKKFLDETGLEMNPGCGIDTGYYLEDWKGVKPL-CEVVCMEFNEPE  230 (241)
T ss_pred             eeccCcccHHHHHHHHhcCeeecCCCCccceeehhhccCCCcc-ceEEEEeecCcC
Confidence            22222233322          2355422223446888877654 444666776654

>PF02384 N6_Mtase: N-6 DNA Methylase; InterPro: IPR003356 This domain is fpound in N-6 adenine-specific DNA methylase (2

Probab=97.58  E-value=0.0001  Score=74.24  Aligned_cols=124  Identities=24%  Similarity=0.379  Sum_probs=63.7

Q ss_pred             ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh---hCcccccccccc-------------CCC
Q 002563          208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE---TGKNCLYKNYDI-------------LPA  271 (907)
Q Consensus       208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~---~gK~C~fKNyDl-------------iqp  271 (907)
                      +.|.+||-.+-.+-+++.|  =.+++++|+|+|||+-.|.--..+.+.+   ..+.+.+==.|+             +..
T Consensus        24 ~~G~~~TP~~i~~l~~~~~--~~~~~~~VlDPacGsG~fL~~~~~~i~~~~~~~~~~~i~G~ei~~~~~~la~~nl~l~~  101 (311)
T PF02384_consen   24 KLGQFYTPREIVDLMVKLL--NPKKGDSVLDPACGSGGFLVAAMEYIKEKRNKIKEINIYGIEIDPEAVALAKLNLLLHG  101 (311)
T ss_dssp             SCGGC---HHHHHHHHHHH--TT-TTEEEEETT-TTSHHHHHHHHHHHTCHHHHCCEEEEEEES-HHHHHHHHHHHHHTT
T ss_pred             ccceeehHHHHHHHHHhhh--hccccceeechhhhHHHHHHHHHHhhcccccccccceeEeecCcHHHHHHHHhhhhhhc
Confidence            5789999988888888877  4567889999999999996555444311   011111100111             000


Q ss_pred             --CCCccccccccccccCCCCCCCCeeeeeeCCCccchh--------------------hhHHHHHHhhhccCCc--EEE
Q 002563          272 --KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKA--------------------GLANKFINKALEFNPK--LLI  327 (907)
Q Consensus       272 --KN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA--------------------~LANKFIdkAL~FkPK--LII  327 (907)
                        .+.+++...|++.-....-..-=-+|++ |||||.+.                    ..-.-||.+|+.+=-+  .++
T Consensus       102 ~~~~~~~i~~~d~l~~~~~~~~~~~D~ii~-NPPf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~l~~Lk~~G~~~  180 (311)
T PF02384_consen  102 IDNSNINIIQGDSLENDKFIKNQKFDVIIG-NPPFGSKEWKDEELEKDERFKKYFPPKSNAEYAFIEHALSLLKPGGRAA  180 (311)
T ss_dssp             HHCBGCEEEES-TTTSHSCTST--EEEEEE-E--CTCES-STGGGCTTCCCTTCSSSTTEHHHHHHHHHHHTEEEEEEEE
T ss_pred             cccccccccccccccccccccccccccccC-CCCccccccccccccccccccccCCCccchhhhhHHHHHhhccccccee
Confidence              1112244444443322211122237787 99999881                    1112499999876522  578


Q ss_pred             EecCCcc
Q 002563          328 LIVPPET  334 (907)
Q Consensus       328 LIvPpeT  334 (907)
                      +|+|...
T Consensus       181 ~Ilp~~~  187 (311)
T PF02384_consen  181 IILPNGF  187 (311)
T ss_dssp             EEEEHHH
T ss_pred             EEecchh
Confidence            8888754

1.1.72 from EC) from Type I and Type IC restriction systems. These enzymes are responsible for the methylation of specific DNA sequences in order to prevent the host from digesting its own genome via its restriction enzymes. These methylases have the same sequence specificity as their corresponding restriction enzymes. The type I restriction and modification system is composed of three polypeptides R, M and S. The M and S subunits together form a methyltransferase that methylates two adenine residues in complementary strands of a bipartite DNA recognition sequence. In the presence of the R subunit, the complex can also act as an endonuclease, binding to the same target sequence but cutting the DNA some distance from this site. Whether the DNA is cut or modified depends on the methylation state of the target sequence. When the target site is unmodified, the DNA is cut. When the target site is hemimethylated, the complex acts as a maintenance methyltransferase, modifying the DNA so that both strands become methylated.; GO: 0003677 DNA binding, 0008170 N-methyltransferase activity, 0006306 DNA methylation; PDB: 2F8L_A 2Y7C_C 2Y7H_C 2AR0_B 3KHK_A 3LKD_A 2OKC_B.

>TIGR02987 met_A_Alw26 type II restriction m6 adenine DNA methyltransferase, Alw26I/Eco31I/Esp3I family

Probab=97.38  E-value=0.00067  Score=74.22  Aligned_cols=49  Identities=31%  Similarity=0.513  Sum_probs=40.7

Q ss_pred             ccCcccchhhhHHHHHHhhccccc-----CCCcEEeccCCcchHHHHHHHHHHh
Q 002563          208 SFGRHFTKVDKLQAIVDKLHWYVN-----DGDMIVDFCCGANDFSCLMKKKLDE  256 (907)
Q Consensus       208 SfGRHFTK~ekL~eIvdkLhwyV~-----~GDtiVDfcCG~NdFS~LMk~KLe~  256 (907)
                      ++|.+||-..-.+.+++.+.-+..     .+.+|+|+|||+-.|..-+-+++.+
T Consensus         2 ~~GqfyTP~~ia~~mv~~~~~~~~~~~~~~~~~ilDP~cGsG~fl~~~~~~~~~   55 (524)
T TIGR02987         2 AYGTFFTPPDIAKAMVANLVNEIGKNDKSTKTKIIDPCCGDGRLIAALLKKNEE   55 (524)
T ss_pred             CCcccCCcHHHHHHHHHHHhhhcchhhcccceEEEeCCCCccHHHHHHHHHHHh
Confidence            589999999999999998865543     3457999999999999888877754

Members of this family are the m6-adenine DNA methyltransferase protein, or domain of a fusion protein that also carries m5 cytosine methyltransferase activity, of type II restriction systems of the Alw26I/Eco31I/Esp3I family. A methyltransferase of this family is alway accompanied by a type II restriction endonuclease from the Alw26I/Eco31I/Esp3I family (TIGR02986) and by an adenine-specific modification methyltransferase. Members of this family are unusual in that regions of similarity to homologs outside this family are circularly permuted.

>TIGR00755 ksgA dimethyladenosine transferase

Probab=97.23  E-value=0.00086  Score=66.76  Aligned_cols=148  Identities=22%  Similarity=0.342  Sum_probs=91.6

Q ss_pred             ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCcccc-c-ccccc-------CCCCCCccc
Q 002563          208 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCL-Y-KNYDI-------LPAKNDFNF  277 (907)
Q Consensus       208 SfGRHF-TK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~-f-KNyDl-------iqpKN~fnF  277 (907)
                      +||-|| +...-+.+|++.+.  +.++++|+|+.||.-.++..|.++..    .+. + .+-++       +.....+.+
T Consensus         6 ~~gq~fl~d~~i~~~i~~~~~--~~~~~~VLEiG~G~G~lt~~L~~~~~----~v~~iE~d~~~~~~l~~~~~~~~~v~v   79 (253)
T TIGR00755         6 SLGQNFLIDESVIQKIVEAAN--VLEGDVVLEIGPGLGALTEPLLKRAK----KVTAIEIDPRLAEILRKLLSLYERLEV   79 (253)
T ss_pred             CCCCccCCCHHHHHHHHHhcC--CCCcCEEEEeCCCCCHHHHHHHHhCC----cEEEEECCHHHHHHHHHHhCcCCcEEE
Confidence            689999 67777888888875  36899999999999999999966431    111 0 00000       111234555


Q ss_pred             cccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhh-ccCCcEEEEecCCc-ccccccc-----CCCceeee--
Q 002563          278 EKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKAL-EFNPKLLILIVPPE-TERLDRK-----ESAYELVW--  348 (907)
Q Consensus       278 EkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL-~FkPKLIILIvPpe-TeRLD~K-----~~pY~LiW--  348 (907)
                      ...|.+.+...++.. .-+|+| |+||.    ++..++.+.| ...+..++|++..| .+||=.+     .....++|  
T Consensus        80 ~~~D~~~~~~~~~d~-~~~vvs-NlPy~----i~~~il~~ll~~~~~~~~~~~~q~e~a~Rl~a~pg~~~y~~lsv~~~~  153 (253)
T TIGR00755        80 IEGDALKVDLPDFPK-QLKVVS-NLPYN----ISSPLIFKLLEKPKFRLAVLMVQKEVAERLTAKPGSKDYGRLSVLVQY  153 (253)
T ss_pred             EECchhcCChhHcCC-cceEEE-cCChh----hHHHHHHHHhccCCCceEEEEehHHHHHHHccCCCCCcccHHHHHHHH
Confidence            666666655443321 247888 99999    4555666666 67778899999988 3444322     11111111  


Q ss_pred             ----ccccccCCcceecCCCccc
Q 002563          349 ----EDDQFLSGKSFYLPGSVDE  367 (907)
Q Consensus       349 ----ED~~~LsGkSFYlPGSVDv  367 (907)
                          +--.-+...+||-|--||.
T Consensus       154 ~~~~~~~~~v~~~~F~P~PkVds  176 (253)
T TIGR00755       154 FANVEIVFKVPPSAFYPPPKVDS  176 (253)
T ss_pred             HcceEEEEEEchhhCcCCCCeeE
Confidence                1223345788998887775

Alternate name: S-adenosylmethionine--6-N',N'-adenosyl (rRNA) dimethyltransferase

>PRK14896 ksgA 16S ribosomal RNA methyltransferase KsgA/Dim1 family protein; Provisional

Probab=97.20  E-value=0.00027  Score=70.89  Aligned_cols=149  Identities=19%  Similarity=0.247  Sum_probs=85.2

Q ss_pred             ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-hCccccccccccC----CCCCCccccccc
Q 002563          208 SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCLYKNYDIL----PAKNDFNFEKRD  281 (907)
Q Consensus       208 SfGRHF-TK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~fKNyDli----qpKN~fnFEkrD  281 (907)
                      +||.|| +....++.|++.+.  +.+|++|||+.||.-.++..|-++... ++.+..-+-++.+    .....+.|...|
T Consensus         6 ~~GQnfl~d~~~~~~iv~~~~--~~~~~~VLEIG~G~G~lt~~L~~~~~~v~~vEid~~~~~~l~~~~~~~~~v~ii~~D   83 (258)
T PRK14896          6 KLGQHFLIDDRVVDRIVEYAE--DTDGDPVLEIGPGKGALTDELAKRAKKVYAIELDPRLAEFLRDDEIAAGNVEIIEGD   83 (258)
T ss_pred             cCCccccCCHHHHHHHHHhcC--CCCcCeEEEEeCccCHHHHHHHHhCCEEEEEECCHHHHHHHHHHhccCCCEEEEEec
Confidence            799999 68888899999875  678999999999999999988764110 0011110001000    111345555666


Q ss_pred             cccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee------ec
Q 002563          282 WMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV------WE  349 (907)
Q Consensus       282 WmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpe-TeRLD~K~-----~pY~Li------WE  349 (907)
                      ++.+....+    .+|+| ||||.+-    ...+.+.+.+...-.+|.+..| .+||=.+.     ....++      .+
T Consensus        84 ~~~~~~~~~----d~Vv~-NlPy~i~----s~~~~~l~~~~~~~~~l~~q~e~A~rl~a~~g~~~yg~lsv~~~~~~~~~  154 (258)
T PRK14896         84 ALKVDLPEF----NKVVS-NLPYQIS----SPITFKLLKHGFEPAVLMYQKEFAERMVAKPGTKEYGRLSVMVQYYADVE  154 (258)
T ss_pred             cccCCchhc----eEEEE-cCCcccC----cHHHHHHHhhccceeEEEeeHHHHHHhcCCCCCccccHHHHHHHHHeeeE
Confidence            665543322    47888 9999864    4555555555554345544443 34443221     111222      22


Q ss_pred             cccccCCcceecCCCccc
Q 002563          350 DDQFLSGKSFYLPGSVDE  367 (907)
Q Consensus       350 D~~~LsGkSFYlPGSVDv  367 (907)
                      --..+.-+.|+-|-.||.
T Consensus       155 ~~~~v~~~~F~P~PkV~s  172 (258)
T PRK14896        155 IVEKVPPGAFSPKPKVDS  172 (258)
T ss_pred             EEEEeChHhCCCCCCceE
Confidence            223345678887666663

>PTZ00338 dimethyladenosine transferase-like protein; Provisional

Probab=97.04  E-value=0.00092  Score=69.65  Aligned_cols=154  Identities=19%  Similarity=0.276  Sum_probs=92.5

Q ss_pred             cccccc-ccCccc-chhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccc-cc----------ccccc
Q 002563          202 HGMRYT-SFGRHF-TKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNC-LY----------KNYDI  268 (907)
Q Consensus       202 hG~RYT-SfGRHF-TK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C-~f----------KNyDl  268 (907)
                      ||+|.. +||.|| +...-+..|++.+.  +.+|++|||+.||.-.+...+-++   ..+-+ .=          +|+.-
T Consensus         6 ~~~~~kk~~GQnFL~d~~i~~~Iv~~~~--~~~~~~VLEIG~G~G~LT~~Ll~~---~~~V~avEiD~~li~~l~~~~~~   80 (294)
T PTZ00338          6 SGMVFNKKFGQHILKNPLVLDKIVEKAA--IKPTDTVLEIGPGTGNLTEKLLQL---AKKVIAIEIDPRMVAELKKRFQN   80 (294)
T ss_pred             CCcCcCCCCCccccCCHHHHHHHHHhcC--CCCcCEEEEecCchHHHHHHHHHh---CCcEEEEECCHHHHHHHHHHHHh
Confidence            455544 899999 78888899999874  679999999999999998777442   11100 00          11110


Q ss_pred             CCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc-ccccccC--CCc-
Q 002563          269 LPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET-ERLDRKE--SAY-  344 (907)
Q Consensus       269 iqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeT-eRLD~K~--~pY-  344 (907)
                      ......+.+...|++.+...++   + +|++ ||||.+-..+--|++....  ..+-.+|++-+|. +||=.++  .-| 
T Consensus        81 ~~~~~~v~ii~~Dal~~~~~~~---d-~Vva-NlPY~Istpil~~ll~~~~--~~~~~vlm~QkEvA~Rl~A~pg~k~y~  153 (294)
T PTZ00338         81 SPLASKLEVIEGDALKTEFPYF---D-VCVA-NVPYQISSPLVFKLLAHRP--LFRCAVLMFQKEFALRLLAQPGDELYC  153 (294)
T ss_pred             cCCCCcEEEEECCHhhhccccc---C-EEEe-cCCcccCcHHHHHHHhcCC--CCceeeeeehHHHHHHHhcCCCCcccC
Confidence            0002346666677766554333   2 6666 9999966665555554432  3346777777776 7774331  112 


Q ss_pred             --eeee------ccccccCCcceecCCCccc
Q 002563          345 --ELVW------EDDQFLSGKSFYLPGSVDE  367 (907)
Q Consensus       345 --~LiW------ED~~~LsGkSFYlPGSVDv  367 (907)
                        .++|      +--.-+.-.+||=|=-||-
T Consensus       154 ~LSv~~q~~~~~~~~~~V~~~~F~P~PkVdS  184 (294)
T PTZ00338        154 RLSVNTQLLCRVTHLMKVSKNSFNPPPKVES  184 (294)
T ss_pred             HHHHHHHHHhceEEEEEeCchhCCCCCCcEE
Confidence              1221      2223355678887766663

>PF01170 UPF0020: Putative RNA methylase family UPF0020; InterPro: IPR000241 This domain is probably a methylase

Probab=96.82  E-value=0.0028  Score=61.12  Aligned_cols=99  Identities=23%  Similarity=0.418  Sum_probs=53.1

Q ss_pred             cCCCcEEeccCCcchHHH---HHHHHHH---------hhCcccc-------ccccccCCCCCCccccccccccccCCCCC
Q 002563          231 NDGDMIVDFCCGANDFSC---LMKKKLD---------ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELA  291 (907)
Q Consensus       231 ~~GDtiVDfcCG~NdFS~---LMk~KLe---------~~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ELP  291 (907)
                      ++|++|+|.+||+-.|..   +|....-         -.|.+..       -.|..-..-.+...|...|...+.   ++
T Consensus        27 ~~~~~vlDP~CGsGtiliEaa~~~~~~~~~~~~~~~~~~g~Di~~~~v~~a~~N~~~ag~~~~i~~~~~D~~~l~---~~  103 (179)
T PF01170_consen   27 RPGDVVLDPFCGSGTILIEAALMGANIPPLNDINELKIIGSDIDPKAVRGARENLKAAGVEDYIDFIQWDARELP---LP  103 (179)
T ss_dssp             -TTS-EEETT-TTSHHHHHHHHHHTTTSTTTH-CH--EEEEESSHHHHHHHHHHHHHTT-CGGEEEEE--GGGGG---GT
T ss_pred             CCCCEEeecCCCCCHHHHHHHHHhhCcccccccccccEEecCCCHHHHHHHHHHHHhcccCCceEEEecchhhcc---cc
Confidence            789999999999999862   2211111         0011110       122222222344566666666665   45


Q ss_pred             CCCeeeeeeCCCccchhh-------hHHHHHHhhhc-cCCcEEEEecCC
Q 002563          292 PGSRLIMGLNPPFGVKAG-------LANKFINKALE-FNPKLLILIVPP  332 (907)
Q Consensus       292 ~Gs~LIMGLNPPFG~kA~-------LANKFIdkAL~-FkPKLIILIvPp  332 (907)
                      .|+.=+|--|||||.+..       |-.+|++.+-. ++|++++|+...
T Consensus       104 ~~~~d~IvtnPPyG~r~~~~~~~~~ly~~~~~~~~~~l~~~~v~l~~~~  152 (179)
T PF01170_consen  104 DGSVDAIVTNPPYGRRLGSKKDLEKLYRQFLRELKRVLKPRAVFLTTSN  152 (179)
T ss_dssp             TSBSCEEEEE--STTSHCHHHHHHHHHHHHHHHHHCHSTTCEEEEEESC
T ss_pred             cCCCCEEEECcchhhhccCHHHHHHHHHHHHHHHHHHCCCCEEEEEECC
Confidence            666656667999999855       34567777777 898666666553

It is associated with the THUMP domain that also occurs with RNA modification domains [].; PDB: 3LDU_A 3LDG_A 3K0B_A 3V8V_B 3V97_A 3TLJ_A 3TM5_B 3TM4_A 3TMA_A.

>PF13659 Methyltransf_26: Methyltransferase domain; PDB: 3GJY_A 3LPM_B 2NP6_D 1AQI_B 2ADM_B 2IH2_A 2JG3_A 2IBS_D 2NP7_A 2IBT_A

Probab=96.15  E-value=0.003  Score=54.05  Aligned_cols=87  Identities=22%  Similarity=0.316  Sum_probs=55.5

Q ss_pred             CCcEEeccCCcchHHHHHHHHH--HhhCcccc-------ccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCC
Q 002563          233 GDMIVDFCCGANDFSCLMKKKL--DETGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPP  303 (907)
Q Consensus       233 GDtiVDfcCG~NdFS~LMk~KL--e~~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPP  303 (907)
                      |++|+|+|||.-.|...+-++.  .-+|.+..       -+|+....-.....|...|+.++. ++++.+..=++-.|||
T Consensus         1 g~~vlD~~~G~G~~~~~~~~~~~~~~~gvdi~~~~~~~a~~~~~~~~~~~~~~~~~~D~~~~~-~~~~~~~~D~Iv~npP   79 (117)
T PF13659_consen    1 GDRVLDPGCGSGTFLLAALRRGAARVTGVDIDPEAVELARRNLPRNGLDDRVEVIVGDARDLP-EPLPDGKFDLIVTNPP   79 (117)
T ss_dssp             TEEEEEETSTTCHHHHHHHHHCTCEEEEEESSHHHHHHHHHHCHHCTTTTTEEEEESHHHHHH-HTCTTT-EEEEEE--S
T ss_pred             CCEEEEcCcchHHHHHHHHHHCCCeEEEEEECHHHHHHHHHHHHHccCCceEEEEECchhhch-hhccCceeEEEEECCC
Confidence            7889999999999999997764  01111111       134444433456888889998886 5566666644444999


Q ss_pred             ccch-------hhhHHHHHHhhhc
Q 002563          304 FGVK-------AGLANKFINKALE  320 (907)
Q Consensus       304 FG~k-------A~LANKFIdkAL~  320 (907)
                      |+..       ..+...|+.+|..
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~  103 (117)
T PF13659_consen   80 YGPRSGDKAALRRLYSRFLEAAAR  103 (117)
T ss_dssp             TTSBTT----GGCHHHHHHHHHHH
T ss_pred             CccccccchhhHHHHHHHHHHHHH
Confidence            9954       2367788888764

...

>PRK10909 rsmD 16S rRNA m(2)G966-methyltransferase; Provisional

Probab=95.61  E-value=0.047  Score=54.39  Aligned_cols=120  Identities=18%  Similarity=0.211  Sum_probs=62.1

Q ss_pred             cCCCcEEeccCCcchHHHH-HHHH-HHhhCccc-------cccccccCCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 002563          231 NDGDMIVDFCCGANDFSCL-MKKK-LDETGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN  301 (907)
Q Consensus       231 ~~GDtiVDfcCG~NdFS~L-Mk~K-Le~~gK~C-------~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLN  301 (907)
                      ..|.+|+|++||+-.|+-. +... ..-++.+.       .-+|.....- ++..|...|++..-+.  ..+..=++-+|
T Consensus        52 ~~~~~vLDl~~GsG~l~l~~lsr~a~~V~~vE~~~~a~~~a~~Nl~~~~~-~~v~~~~~D~~~~l~~--~~~~fDlV~~D  128 (199)
T PRK10909         52 IVDARCLDCFAGSGALGLEALSRYAAGATLLEMDRAVAQQLIKNLATLKA-GNARVVNTNALSFLAQ--PGTPHNVVFVD  128 (199)
T ss_pred             cCCCEEEEcCCCccHHHHHHHHcCCCEEEEEECCHHHHHHHHHHHHHhCC-CcEEEEEchHHHHHhh--cCCCceEEEEC
Confidence            5788999999999999964 3321 01111111       1245544432 2466777777653222  12334456689


Q ss_pred             CCccchhhhHHHHHHhhhc---cCCcEEEEec-CCccccccccCCCceeeeccccccCCcce
Q 002563          302 PPFGVKAGLANKFINKALE---FNPKLLILIV-PPETERLDRKESAYELVWEDDQFLSGKSF  359 (907)
Q Consensus       302 PPFG~kA~LANKFIdkAL~---FkPKLIILIv-PpeTeRLD~K~~pY~LiWED~~~LsGkSF  359 (907)
                      |||-.  .+..+-++....   ..|+=||.|- +..++ +......+.++ ..+..  |+++
T Consensus       129 PPy~~--g~~~~~l~~l~~~~~l~~~~iv~ve~~~~~~-~~~~~~~~~~~-~~k~y--G~s~  184 (199)
T PRK10909        129 PPFRK--GLLEETINLLEDNGWLADEALIYVESEVENG-LPTVPANWQLH-REKVA--GQVA  184 (199)
T ss_pred             CCCCC--ChHHHHHHHHHHCCCcCCCcEEEEEecCCCC-cccCCCccEEE-EEecC--CCEE
Confidence            99843  344443333333   3677666665 43332 33333345554 33333  6654

>PF00398 RrnaAD: Ribosomal RNA adenine dimethylase; InterPro: IPR001737 This family of proteins include rRNA adenine dimethylases (e

Probab=95.58  E-value=0.017  Score=58.39  Aligned_cols=155  Identities=21%  Similarity=0.331  Sum_probs=86.6

Q ss_pred             cccCcccc-hhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhh---CccccccccccC----CCCCCcccc
Q 002563          207 TSFGRHFT-KVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET---GKNCLYKNYDIL----PAKNDFNFE  278 (907)
Q Consensus       207 TSfGRHFT-K~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~---gK~C~fKNyDli----qpKN~fnFE  278 (907)
                      .+||-||- ...-++.|++.+..-  .+++|||+-.|...|++.|-++...+   .++-.|  ++.+    ....++..-
T Consensus         6 k~~gQnFL~~~~~~~~Iv~~~~~~--~~~~VlEiGpG~G~lT~~L~~~~~~v~~vE~d~~~--~~~L~~~~~~~~~~~vi   81 (262)
T PF00398_consen    6 KSLGQNFLVDPNIADKIVDALDLS--EGDTVLEIGPGPGALTRELLKRGKRVIAVEIDPDL--AKHLKERFASNPNVEVI   81 (262)
T ss_dssp             CGCTSSEEEHHHHHHHHHHHHTCG--TTSEEEEESSTTSCCHHHHHHHSSEEEEEESSHHH--HHHHHHHCTTCSSEEEE
T ss_pred             CCCCcCeeCCHHHHHHHHHhcCCC--CCCEEEEeCCCCccchhhHhcccCcceeecCcHhH--HHHHHHHhhhcccceee
Confidence            47899997 667778899988544  89999999999999999886644110   000000  1111    112334444


Q ss_pred             ccccccccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-cccccccC-----CCceee----
Q 002563          279 KRDWMTVEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRKE-----SAYELV----  347 (907)
Q Consensus       279 krDWmtVqp~E-LP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpe-TeRLD~K~-----~pY~Li----  347 (907)
                      ..|.++++..+ +.....+|+| |.||.+-..|-.+++. ...+...-++|+++.| .+||=.+.     ..-.++    
T Consensus        82 ~~D~l~~~~~~~~~~~~~~vv~-NlPy~is~~il~~ll~-~~~~g~~~~~l~vq~e~a~rl~a~pg~~~~~~lsv~~q~~  159 (262)
T PF00398_consen   82 NGDFLKWDLYDLLKNQPLLVVG-NLPYNISSPILRKLLE-LYRFGRVRMVLMVQKEVAERLLAKPGSKRYSRLSVLAQAF  159 (262)
T ss_dssp             ES-TTTSCGGGHCSSSEEEEEE-EETGTGHHHHHHHHHH-HGGGCEEEEEEEEEHHHHHHHHTSTTSTTCSHHHHHHHHH
T ss_pred             ecchhccccHHhhcCCceEEEE-EecccchHHHHHHHhh-cccccccceEEEEehhhhhhccCCCCCCccchhhhhhhhh
Confidence            56666666554 3456667777 9999755555555554 1122224566666655 46665532     111122    


Q ss_pred             --eccccccCCcceecCCCccc
Q 002563          348 --WEDDQFLSGKSFYLPGSVDE  367 (907)
Q Consensus       348 --WED~~~LsGkSFYlPGSVDv  367 (907)
                        ++--.-+....||=+-.||.
T Consensus       160 ~~i~~l~~v~~~~F~P~PkVds  181 (262)
T PF00398_consen  160 FDIKLLFKVPPSCFYPPPKVDS  181 (262)
T ss_dssp             EEEEEEEEE-GGGEESSSSS-E
T ss_pred             hceeEecccCCccccCCCCCce
Confidence              22223344567775555664

g. KsgA) and the Erythromycin resistance methylases (Erm). The bacterial enzyme KsgA catalyses the transfer of a total of four methyl groups from S-adenosyl-l-methionine (S-AdoMet) to two adjacent adenosine bases in 16S rRNA. This enzyme and the resulting modified adenosine bases appear to be conserved in all species of eubacteria, eukaryotes, and archaea, and in eukaryotic organelles. Bacterial resistance to the aminoglycoside antibiotic kasugamycin involves inactivation of KsgA and resulting loss of the dimethylations, with modest consequences to the overall fitness of the organism. In contrast, the yeast ortholog, Dim1, is essential. In Saccharomyces cerevisiae (Baker's yeast), and presumably in other eukaryotes, the enzyme performs a vital role in pre-rRNA processing in addition to its methylating activity. The best conserved region in these enzymes is located in the N-terminal section and corresponds to a region that is probably involved in S-adenosyl methionine (SAM) binding domain. The crystal structure of KsgA from Escherichia coli has been solved to a resolution of 2.1A. It bears a strong similarity to the crystal structure of ErmC' from Bacillus stearothermophilus and a lesser similarity to the yeast mitochondrial transcription factor, sc-mtTFB []. The Erm family of RNA methyltransferases, which methylate a single adenosine base in 23S rRNA confer resistance to the MLS-B group of antibiotics. Despite their sequence similarity, the two enzyme families have strikingly different levels of regulation that remain to be elucidated. Other orthologs, of this family include the yeast and Homo sapiens (Human) mitochondrial transcription factors (MTF1 and h-mtTFB respectively), which are nuclear encoded []. Human-mtTFB is able to stimulate transcription in vitro independently of its S-adenosylmethionine binding and rRNA methyltransferase activity [].; GO: 0000179 rRNA (adenine-N6,N6-)-dimethyltransferase activity, 0008649 rRNA methyltransferase activity, 0000154 rRNA modification; PDB: 3FTF_A 3R9X_B 3FTE_A 3FTC_A 3FTD_A 3GRY_A 3FYC_A 3GRU_A 3FYD_A 3GRV_A ....

>TIGR00479 rumA 23S rRNA (uracil-5-)-methyltransferase RumA

Probab=95.19  E-value=0.034  Score=59.60  Aligned_cols=129  Identities=21%  Similarity=0.365  Sum_probs=73.5

Q ss_pred             hhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHHh-hCcccc-------ccccccCCCCCCcccccccccc
Q 002563          215 KVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMT  284 (907)
Q Consensus       215 K~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~-------fKNyDliqpKN~fnFEkrDWmt  284 (907)
                      ..+-.+.+++++..+++  ++++|+|++||.-.|+..|.++... ++.+..       =+|..... -++..|...|+..
T Consensus       273 N~~~~~~l~~~~~~~l~~~~~~~vLDl~cG~G~~sl~la~~~~~V~~vE~~~~av~~a~~n~~~~~-~~nv~~~~~d~~~  351 (431)
T TIGR00479       273 NSGQNEKLVDRALEALELQGEELVVDAYCGVGTFTLPLAKQAKSVVGIEVVPESVEKAQQNAELNG-IANVEFLAGTLET  351 (431)
T ss_pred             CHHHHHHHHHHHHHHhccCCCCEEEEcCCCcCHHHHHHHHhCCEEEEEEcCHHHHHHHHHHHHHhC-CCceEEEeCCHHH
Confidence            56667777777777764  6789999999999999888653210 111110       12222211 1235566666654


Q ss_pred             ccCCC-CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 002563          285 VEPKE-LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV  347 (907)
Q Consensus       285 Vqp~E-LP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIv-PpeTeRLD~K---~~pY~Li  347 (907)
                      .-++. +..++.=++-+|||-   +.++..|++.....+|+-||.|. -|.|---|-+   ..+|.+.
T Consensus       352 ~l~~~~~~~~~~D~vi~dPPr---~G~~~~~l~~l~~l~~~~ivyvsc~p~tlard~~~l~~~gy~~~  416 (431)
T TIGR00479       352 VLPKQPWAGQIPDVLLLDPPR---KGCAAEVLRTIIELKPERIVYVSCNPATLARDLEFLCKEGYGIT  416 (431)
T ss_pred             HHHHHHhcCCCCCEEEECcCC---CCCCHHHHHHHHhcCCCEEEEEcCCHHHHHHHHHHHHHCCeeEE
Confidence            32211 112222233469994   34778888887788898777665 4555433432   2356543

This protein family was first proposed to be RNA methyltransferases by homology to the TrmA family. The member from E. coli has now been shown to act as the 23S RNA methyltransferase for the conserved U1939. The gene is now designated rumA and was previously designated ygcA.

>TIGR01177 conserved hypothetical protein TIGR01177

Probab=94.51  E-value=0.19  Score=52.45  Aligned_cols=104  Identities=21%  Similarity=0.344  Sum_probs=53.7

Q ss_pred             HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC--------------CCCCcccccccccc
Q 002563          219 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP--------------AKNDFNFEKRDWMT  284 (907)
Q Consensus       219 L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq--------------pKN~fnFEkrDWmt  284 (907)
                      ...+++.+.  +++|++|+|++||.-.|..-+..    .|.  ..--.|+-+              -.+ ..|...|-..
T Consensus       171 a~~~~~l~~--~~~g~~vLDp~cGtG~~lieaa~----~~~--~v~g~Di~~~~~~~a~~nl~~~g~~~-i~~~~~D~~~  241 (329)
T TIGR01177       171 ARAMVNLAR--VTEGDRVLDPFCGTGGFLIEAGL----MGA--KVIGCDIDWKMVAGARINLEHYGIED-FFVKRGDATK  241 (329)
T ss_pred             HHHHHHHhC--CCCcCEEEECCCCCCHHHHHHHH----hCC--eEEEEcCCHHHHHHHHHHHHHhCCCC-CeEEecchhc
Confidence            344454444  48999999999999988543211    121  111122211              111 3344444333


Q ss_pred             ccCCCCCCCCeeeeeeCCCccchhhh--------HHHHHHhhhc-cCCc-EEEEecCCcc
Q 002563          285 VEPKELAPGSRLIMGLNPPFGVKAGL--------ANKFINKALE-FNPK-LLILIVPPET  334 (907)
Q Consensus       285 Vqp~ELP~Gs~LIMGLNPPFG~kA~L--------ANKFIdkAL~-FkPK-LIILIvPpeT  334 (907)
                      ..   ++.+..=++-.|||||.+...        -.+|++.+.. .+|. .+++++|...
T Consensus       242 l~---~~~~~~D~Iv~dPPyg~~~~~~~~~~~~l~~~~l~~~~r~Lk~gG~lv~~~~~~~  298 (329)
T TIGR01177       242 LP---LSSESVDAIATDPPYGRSTTAAGDGLESLYERSLEEFHEVLKSEGWIVYAVPTRI  298 (329)
T ss_pred             CC---cccCCCCEEEECCCCcCcccccCCchHHHHHHHHHHHHHHccCCcEEEEEEcCCC
Confidence            21   123433344459999986533        4566666654 4554 3555666643

This family is found exclusively in the Archaea.

>smart00650 rADc Ribosomal RNA adenine dimethylases

Probab=94.36  E-value=0.039  Score=51.73  Aligned_cols=111  Identities=17%  Similarity=0.283  Sum_probs=61.4

Q ss_pred             HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccc--cc---cccC----CCCCCccccccccccccCCC
Q 002563          219 LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLY--KN---YDIL----PAKNDFNFEKRDWMTVEPKE  289 (907)
Q Consensus       219 L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~f--KN---yDli----qpKN~fnFEkrDWmtVqp~E  289 (907)
                      ++.|++.+.+  .+|++|+|+.||.-.++..+-++    +..+..  .|   .++.    ...+.+.|...|.+.+...+
T Consensus         2 ~~~i~~~~~~--~~~~~vLEiG~G~G~lt~~l~~~----~~~v~~vE~~~~~~~~~~~~~~~~~~v~ii~~D~~~~~~~~   75 (169)
T smart00650        2 IDKIVRAANL--RPGDTVLEIGPGKGALTEELLER----AARVTAIEIDPRLAPRLREKFAAADNLTVIHGDALKFDLPK   75 (169)
T ss_pred             HHHHHHhcCC--CCcCEEEEECCCccHHHHHHHhc----CCeEEEEECCHHHHHHHHHHhccCCCEEEEECchhcCCccc
Confidence            3556776664  67899999999999999887553    111110  00   1111    11234556667776664332


Q ss_pred             CCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCc-ccccccc
Q 002563          290 LAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPE-TERLDRK  340 (907)
Q Consensus       290 LP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpe-TeRLD~K  340 (907)
                      .  .--+|++ ||||.+...+-.+++.... ..+.. +|++-.| .+||-.+
T Consensus        76 ~--~~d~vi~-n~Py~~~~~~i~~~l~~~~-~~~~~-~l~~q~e~a~rl~~~  122 (169)
T smart00650       76 L--QPYKVVG-NLPYNISTPILFKLLEEPP-AFRDA-VLMVQKEVARRLAAK  122 (169)
T ss_pred             c--CCCEEEE-CCCcccHHHHHHHHHhcCC-CcceE-EEEEEHHHhHHhcCC
Confidence            1  1246777 9999864444444444332 22344 4455544 4577665

>TIGR02085 meth_trns_rumB 23S rRNA (uracil-5-)-methyltransferase RumB

Probab=94.17  E-value=0.048  Score=58.19  Aligned_cols=115  Identities=16%  Similarity=0.246  Sum_probs=64.3

Q ss_pred             chhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHHh-hCcccc-------ccccccCCCCCCccccccccc
Q 002563          214 TKVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWM  283 (907)
Q Consensus       214 TK~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~-------fKNyDliqpKN~fnFEkrDWm  283 (907)
                      |..+-.+.+++.+.-++.  ++.+|+|++||.-.|+..+-.+... +|.++.       -+|.....-. +..|...|..
T Consensus       213 ~n~~~~~~l~~~~~~~l~~~~~~~vLDL~cG~G~~~l~la~~~~~v~~vE~~~~av~~a~~N~~~~~~~-~~~~~~~d~~  291 (374)
T TIGR02085       213 TNPKVAAQLYATARQWVREIPVTQMWDLFCGVGGFGLHCAGPDTQLTGIEIESEAIACAQQSAQMLGLD-NLSFAALDSA  291 (374)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCCEEEEccCCccHHHHHHhhcCCeEEEEECCHHHHHHHHHHHHHcCCC-cEEEEECCHH
Confidence            444445555555544443  5789999999999999877543211 122211       1222222111 3445555543


Q ss_pred             cccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEe-cCCcc
Q 002563          284 TVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILI-VPPET  334 (907)
Q Consensus       284 tVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILI-vPpeT  334 (907)
                      +.-+. + .+..=++-+|||.   +.+..++|+.++.++|+-||.| .-|.|
T Consensus       292 ~~~~~-~-~~~~D~vi~DPPr---~G~~~~~l~~l~~~~p~~ivyvsc~p~T  338 (374)
T TIGR02085       292 KFATA-Q-MSAPELVLVNPPR---RGIGKELCDYLSQMAPKFILYSSCNAQT  338 (374)
T ss_pred             HHHHh-c-CCCCCEEEECCCC---CCCcHHHHHHHHhcCCCeEEEEEeCHHH
Confidence            32211 1 1122345569996   4788999999999999655544 45554

This family consists of RNA methyltransferases designated RumB, formerly YbjF. Members act on 23S rRNA U747 and the equivalent position in other proteobacterial species. This family is homologous to the other 23S rRNA methyltransferase RumA and to the tRNA methyltransferase TrmA.

>PF05175 MTS: Methyltransferase small domain; InterPro: IPR007848 This domain is found in ribosomal RNA small subunit methyltransferase C and in other methyltransferases

Probab=93.84  E-value=0.058  Score=51.04  Aligned_cols=84  Identities=23%  Similarity=0.344  Sum_probs=53.8

Q ss_pred             CCCcEEeccCCcchHHHHHHHHHHhhC----------ccccccccccCCCCCCccccccccccccCCCCCCCCeeeeeeC
Q 002563          232 DGDMIVDFCCGANDFSCLMKKKLDETG----------KNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLN  301 (907)
Q Consensus       232 ~GDtiVDfcCG~NdFS~LMk~KLe~~g----------K~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLN  301 (907)
                      .+..|+|+|||+--.+-++.++.....          ..|.-+|.....-.+ ..+...||+.    .++.+..=++-.|
T Consensus        31 ~~~~vLDlG~G~G~i~~~la~~~~~~~v~~vDi~~~a~~~a~~n~~~n~~~~-v~~~~~d~~~----~~~~~~fD~Iv~N  105 (170)
T PF05175_consen   31 KGGRVLDLGCGSGVISLALAKRGPDAKVTAVDINPDALELAKRNAERNGLEN-VEVVQSDLFE----ALPDGKFDLIVSN  105 (170)
T ss_dssp             TTCEEEEETSTTSHHHHHHHHTSTCEEEEEEESBHHHHHHHHHHHHHTTCTT-EEEEESSTTT----TCCTTCEEEEEE-
T ss_pred             cCCeEEEecCChHHHHHHHHHhCCCCEEEEEcCCHHHHHHHHHHHHhcCccc-cccccccccc----cccccceeEEEEc
Confidence            788999999999999999877544311          123445655555444 6777788864    3444555455559


Q ss_pred             CCccchhh----hHHHHHHhhhc
Q 002563          302 PPFGVKAG----LANKFINKALE  320 (907)
Q Consensus       302 PPFG~kA~----LANKFIdkAL~  320 (907)
                      |||--...    +..+||..|..
T Consensus       106 PP~~~~~~~~~~~~~~~i~~a~~  128 (170)
T PF05175_consen  106 PPFHAGGDDGLDLLRDFIEQARR  128 (170)
T ss_dssp             --SBTTSHCHHHHHHHHHHHHHH
T ss_pred             cchhcccccchhhHHHHHHHHHH
Confidence            99965444    77899988754

; GO: 0008168 methyltransferase activity; PDB: 1WY7_A 1DUS_A 2OZV_A 2PJD_A 1VQ1_A 1NV9_A 1SG9_C 1NV8_A 3Q87_B 3DMF_A ....

>PRK03522 rumB 23S rRNA methyluridine methyltransferase; Reviewed

Probab=93.63  E-value=0.075  Score=55.13  Aligned_cols=109  Identities=14%  Similarity=0.202  Sum_probs=57.4

Q ss_pred             hhhhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHHHH-hhCccccc-------cccccCCCCCCcccccccccc
Q 002563          215 KVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLD-ETGKNCLY-------KNYDILPAKNDFNFEKRDWMT  284 (907)
Q Consensus       215 K~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~KLe-~~gK~C~f-------KNyDliqpKN~fnFEkrDWmt  284 (907)
                      ..+-.+.+++.+.-+++  ++++|+|+|||.-.|+..+-++.. -+|.+.+-       +|.....- ++..|...|..+
T Consensus       154 n~~~~~~l~~~v~~~l~~~~~~~VLDl~cG~G~~sl~la~~~~~V~gvD~s~~av~~A~~n~~~~~l-~~v~~~~~D~~~  232 (315)
T PRK03522        154 NPAVAAQLYATARDWVRELPPRSMWDLFCGVGGFGLHCATPGMQLTGIEISAEAIACAKQSAAELGL-TNVQFQALDSTQ  232 (315)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCEEEEccCCCCHHHHHHHhcCCEEEEEeCCHHHHHHHHHHHHHcCC-CceEEEEcCHHH
Confidence            33333444443333333  579999999999999987765321 11222111       12211111 234566665544


Q ss_pred             ccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEe
Q 002563          285 VEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILI  329 (907)
Q Consensus       285 Vqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILI  329 (907)
                      ..+.  ..+..=++-+|||   ++.+..+.+.-....+|+-||.|
T Consensus       233 ~~~~--~~~~~D~Vv~dPP---r~G~~~~~~~~l~~~~~~~ivyv  272 (315)
T PRK03522        233 FATA--QGEVPDLVLVNPP---RRGIGKELCDYLSQMAPRFILYS  272 (315)
T ss_pred             HHHh--cCCCCeEEEECCC---CCCccHHHHHHHHHcCCCeEEEE
Confidence            3221  1122223446999   45566777777777888777665

>PRK13168 rumA 23S rRNA m(5)U1939 methyltransferase; Reviewed

Probab=93.36  E-value=0.11  Score=56.27  Aligned_cols=124  Identities=21%  Similarity=0.307  Sum_probs=68.7

Q ss_pred             HHHHHHhhcccc--cCCCcEEeccCCcchHHHHHHHHHHh-hCcccc-------ccccccCCCCCCccccccccccccCC
Q 002563          219 LQAIVDKLHWYV--NDGDMIVDFCCGANDFSCLMKKKLDE-TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPK  288 (907)
Q Consensus       219 L~eIvdkLhwyV--~~GDtiVDfcCG~NdFS~LMk~KLe~-~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~  288 (907)
                      .+.+++.+.-++  .+|++|+|+|||.-.|+..|-++... +|.+.+       -+|.....-+ +..|...||...-++
T Consensus       282 ~e~l~~~vl~~l~~~~~~~VLDlgcGtG~~sl~la~~~~~V~gvD~s~~al~~A~~n~~~~~~~-~v~~~~~d~~~~l~~  360 (443)
T PRK13168        282 NQKMVARALEWLDPQPGDRVLDLFCGLGNFTLPLARQAAEVVGVEGVEAMVERARENARRNGLD-NVTFYHANLEEDFTD  360 (443)
T ss_pred             HHHHHHHHHHHhcCCCCCEEEEEeccCCHHHHHHHHhCCEEEEEeCCHHHHHHHHHHHHHcCCC-ceEEEEeChHHhhhh
Confidence            444555554444  57899999999999999988654211 111111       1333222222 367888887654221


Q ss_pred             -CCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec-CCcccccccc---CCCceee
Q 002563          289 -ELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELV  347 (907)
Q Consensus       289 -ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIv-PpeTeRLD~K---~~pY~Li  347 (907)
                       .++.++.=++-+|||..-    +.+++......+|+-||.|. -|.|---|-+   +.+|.|.
T Consensus       361 ~~~~~~~fD~Vi~dPPr~g----~~~~~~~l~~~~~~~ivyvSCnp~tlaRDl~~L~~~gY~l~  420 (443)
T PRK13168        361 QPWALGGFDKVLLDPPRAG----AAEVMQALAKLGPKRIVYVSCNPATLARDAGVLVEAGYRLK  420 (443)
T ss_pred             hhhhcCCCCEEEECcCCcC----hHHHHHHHHhcCCCeEEEEEeChHHhhccHHHHhhCCcEEE
Confidence             122332223346999863    23556666666777776665 5555433432   2467664

>TIGR03534 RF_mod_PrmC protein-(glutamine-N5) methyltransferase, release factor-specific

Probab=92.75  E-value=0.22  Score=48.08  Aligned_cols=69  Identities=25%  Similarity=0.456  Sum_probs=40.6

Q ss_pred             cCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC-------------CCCCccccccccccccCCCCCCCC-ee
Q 002563          231 NDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP-------------AKNDFNFEKRDWMTVEPKELAPGS-RL  296 (907)
Q Consensus       231 ~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq-------------pKN~fnFEkrDWmtVqp~ELP~Gs-~L  296 (907)
                      ..+.+|+|+|||.-.|...+.+.+.    .+.+--.|+-+             .-.+..|...||.+.    ++.++ -+
T Consensus        86 ~~~~~ilDig~G~G~~~~~l~~~~~----~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~~~d~~~~----~~~~~fD~  157 (251)
T TIGR03534        86 KGPLRVLDLGTGSGAIALALAKERP----DARVTAVDISPEALAVARKNAARLGLDNVTFLQSDWFEP----LPGGKFDL  157 (251)
T ss_pred             cCCCeEEEEeCcHhHHHHHHHHHCC----CCEEEEEECCHHHHHHHHHHHHHcCCCeEEEEECchhcc----CcCCceeE
Confidence            4556899999999999888876432    12222222210             011366777777652    23343 35


Q ss_pred             eeeeCCCccchh
Q 002563          297 IMGLNPPFGVKA  308 (907)
Q Consensus       297 IMGLNPPFG~kA  308 (907)
                      |+. ||||....
T Consensus       158 Vi~-npPy~~~~  168 (251)
T TIGR03534       158 IVS-NPPYIPEA  168 (251)
T ss_pred             EEE-CCCCCchh
Confidence            554 99998543

Members of this protein family are HemK (PrmC), a protein once thought to be involved in heme biosynthesis but now recognized to be a protein-glutamine methyltransferase that modifies the peptide chain release factors. All members of the seed alignment are encoded next to the release factor 1 gene (prfA) and confirmed by phylogenetic analysis. SIMBAL analysis (manuscript in prep.) shows the motif [LIV]PRx[DE]TE (in Escherichia coli, IPRPDTE) confers specificity for the release factors rather than for ribosomal protein L3.

>COG2263 Predicted RNA methylase [Translation, ribosomal structure and biogenesis]

Probab=92.75  E-value=0.38  Score=49.58  Aligned_cols=125  Identities=23%  Similarity=0.325  Sum_probs=70.1

Q ss_pred             HHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccc-----cCCCcEEeccCCcchHHHHHH---------
Q 002563          186 IFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYV-----NDGDMIVDFCCGANDFSCLMK---------  251 (907)
Q Consensus       186 L~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV-----~~GDtiVDfcCG~NdFS~LMk---------  251 (907)
                      |..--.||+-+..|=+.=.-|+-=+          .++..+.|.+     ..|-+|+|++||.--|++-..         
T Consensus         4 Le~~l~kl~~f~~p~~~LEQY~Tp~----------~~Aa~il~~a~~~g~l~g~~V~DlG~GTG~La~ga~~lGa~~V~~   73 (198)
T COG2263           4 LEILLEKLKGFPNPKLGLEQYRTPA----------PLAAYILWVAYLRGDLEGKTVLDLGAGTGILAIGAALLGASRVLA   73 (198)
T ss_pred             hhhhhhhhcCCCCCCccceecCCCh----------HHHHHHHHHHHHcCCcCCCEEEEcCCCcCHHHHHHHhcCCcEEEE
Confidence            3444456666666655555554322          2566666766     345579999999999886432         


Q ss_pred             -----HHHHhhCccccccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhH-HHHHHhhhccCCcE
Q 002563          252 -----KKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFNPKL  325 (907)
Q Consensus       252 -----~KLe~~gK~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LA-NKFIdkAL~FkPKL  325 (907)
                           +.++.....|.=    +   ..++.|...|=-.+..+-    +..|  .|||||.+..=| ..|++|||+-. +.
T Consensus        74 vdiD~~a~ei~r~N~~~----l---~g~v~f~~~dv~~~~~~~----dtvi--mNPPFG~~~rhaDr~Fl~~Ale~s-~v  139 (198)
T COG2263          74 VDIDPEALEIARANAEE----L---LGDVEFVVADVSDFRGKF----DTVI--MNPPFGSQRRHADRPFLLKALEIS-DV  139 (198)
T ss_pred             EecCHHHHHHHHHHHHh----h---CCceEEEEcchhhcCCcc----ceEE--ECCCCccccccCCHHHHHHHHHhh-he
Confidence                 222221111210    0   134445444433322221    1233  399999986655 36999999998 77


Q ss_pred             EEEecCCcc
Q 002563          326 LILIVPPET  334 (907)
Q Consensus       326 IILIvPpeT  334 (907)
                      |--|---.+
T Consensus       140 VYsiH~a~~  148 (198)
T COG2263         140 VYSIHKAGS  148 (198)
T ss_pred             EEEeecccc
Confidence            766654443

>TIGR03533 L3_gln_methyl protein-(glutamine-N5) methyltransferase, ribosomal protein L3-specific

Probab=92.48  E-value=0.22  Score=51.55  Aligned_cols=72  Identities=18%  Similarity=0.260  Sum_probs=43.1

Q ss_pred             cCCCcEEeccCCcchHHHHHHHHHHh---hCcc-------ccccccccCCCCCCccccccccccccCCCCCCCC-eeeee
Q 002563          231 NDGDMIVDFCCGANDFSCLMKKKLDE---TGKN-------CLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMG  299 (907)
Q Consensus       231 ~~GDtiVDfcCG~NdFS~LMk~KLe~---~gK~-------C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs-~LIMG  299 (907)
                      .++..|+|+|||+--++..+.++...   ++.+       +.-+|.....-.+...|...||++.    ++.+. -+|+ 
T Consensus       120 ~~~~~vLDlG~GsG~i~~~la~~~~~~~v~avDis~~al~~A~~n~~~~~~~~~i~~~~~D~~~~----~~~~~fD~Iv-  194 (284)
T TIGR03533       120 EPVKRILDLCTGSGCIAIACAYAFPEAEVDAVDISPDALAVAEINIERHGLEDRVTLIQSDLFAA----LPGRKYDLIV-  194 (284)
T ss_pred             CCCCEEEEEeCchhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhhc----cCCCCccEEE-
Confidence            45678999999999999888765321   1111       1123333222235677888888642    33332 3555 


Q ss_pred             eCCCccch
Q 002563          300 LNPPFGVK  307 (907)
Q Consensus       300 LNPPFG~k  307 (907)
                      .||||.-.
T Consensus       195 ~NPPy~~~  202 (284)
T TIGR03533       195 SNPPYVDA  202 (284)
T ss_pred             ECCCCCCc
Confidence            49999643

Members of this protein family methylate ribosomal protein L3 on a glutamine side chain. This family is related to HemK, a protein-glutamine methyltranferase for peptide chain release factors.

>PRK11805 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional

Probab=91.71  E-value=0.29  Score=51.37  Aligned_cols=69  Identities=17%  Similarity=0.279  Sum_probs=40.8

Q ss_pred             CcEEeccCCcchHHHHHHHHHHh---hCcccc-------ccccccCCCCCCccccccccccccCCCCCCCC-eeeeeeCC
Q 002563          234 DMIVDFCCGANDFSCLMKKKLDE---TGKNCL-------YKNYDILPAKNDFNFEKRDWMTVEPKELAPGS-RLIMGLNP  302 (907)
Q Consensus       234 DtiVDfcCG~NdFS~LMk~KLe~---~gK~C~-------fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs-~LIMGLNP  302 (907)
                      .+|+|+|||+-.++..+.++...   ++.+.+       =+|.....-.+...|...||.+.    +|.++ -+|+. ||
T Consensus       135 ~~VLDlG~GsG~iai~la~~~p~~~V~avDis~~al~~A~~n~~~~~l~~~i~~~~~D~~~~----l~~~~fDlIvs-NP  209 (307)
T PRK11805        135 TRILDLCTGSGCIAIACAYAFPDAEVDAVDISPDALAVAEINIERHGLEDRVTLIESDLFAA----LPGRRYDLIVS-NP  209 (307)
T ss_pred             CEEEEEechhhHHHHHHHHHCCCCEEEEEeCCHHHHHHHHHHHHHhCCCCcEEEEECchhhh----CCCCCccEEEE-CC
Confidence            68999999999999888664321   111111       12322222234577888888653    33333 35655 99


Q ss_pred             Cccch
Q 002563          303 PFGVK  307 (907)
Q Consensus       303 PFG~k  307 (907)
                      ||--.
T Consensus       210 Pyi~~  214 (307)
T PRK11805        210 PYVDA  214 (307)
T ss_pred             CCCCc
Confidence            99643

>COG2226 UbiE Methylase involved in ubiquinone/menaquinone biosynthesis [Coenzyme metabolism]

Probab=91.43  E-value=0.25  Score=51.34  Aligned_cols=58  Identities=26%  Similarity=0.441  Sum_probs=47.5

Q ss_pred             hHHhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563          181 EVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK  253 (907)
Q Consensus       181 ~vL~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K  253 (907)
                      ++..++.++.|...          +--|||.|.+-...|.+....-     +|+.|+|.|||.-|+..++.+.
T Consensus        15 ~vF~~ia~~YD~~n----------~~~S~g~~~~Wr~~~i~~~~~~-----~g~~vLDva~GTGd~a~~~~k~   72 (238)
T COG2226          15 KVFDKVAKKYDLMN----------DLMSFGLHRLWRRALISLLGIK-----PGDKVLDVACGTGDMALLLAKS   72 (238)
T ss_pred             HHHHhhHHHHHhhc----------ccccCcchHHHHHHHHHhhCCC-----CCCEEEEecCCccHHHHHHHHh
Confidence            45568888888876          4448999999999887765432     9999999999999999998773

>PRK11188 rrmJ 23S rRNA methyltransferase J; Provisional

Probab=91.37  E-value=1.4  Score=43.84  Aligned_cols=65  Identities=22%  Similarity=0.254  Sum_probs=44.7

Q ss_pred             hhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC--CCCCcccccccccc
Q 002563          216 VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP--AKNDFNFEKRDWMT  284 (907)
Q Consensus       216 ~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq--pKN~fnFEkrDWmt  284 (907)
                      ..||.+|.+++. ++.+|++|||++||.-.|+..+-+   ..+..|..--.|+-+  +..+..|..-|+.+
T Consensus        36 ~~kl~~~~~~~~-~~~~~~~VLDlG~GtG~~t~~l~~---~~~~~~~V~aVDi~~~~~~~~v~~i~~D~~~  102 (209)
T PRK11188         36 WFKLDEIQQSDK-LFKPGMTVVDLGAAPGGWSQYAVT---QIGDKGRVIACDILPMDPIVGVDFLQGDFRD  102 (209)
T ss_pred             HHhhHHHHHHhc-cCCCCCEEEEEcccCCHHHHHHHH---HcCCCceEEEEecccccCCCCcEEEecCCCC
Confidence            457888888764 678999999999999999998755   344455555556543  11234555566554

>PHA03411 putative methyltransferase; Provisional

Probab=91.35  E-value=0.12  Score=54.92  Aligned_cols=40  Identities=20%  Similarity=0.253  Sum_probs=30.5

Q ss_pred             cCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563          209 FGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK  252 (907)
Q Consensus       209 fGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~  252 (907)
                      .|-+||-..-+..++    +....+.+|+|+|||.-.|+.++-+
T Consensus        45 ~G~FfTP~~i~~~f~----~~~~~~grVLDLGcGsGilsl~la~   84 (279)
T PHA03411         45 SGAFFTPEGLAWDFT----IDAHCTGKVLDLCAGIGRLSFCMLH   84 (279)
T ss_pred             ceeEcCCHHHHHHHH----hccccCCeEEEcCCCCCHHHHHHHH
Confidence            499999887765543    2334578999999999999887754

>PRK14967 putative methyltransferase; Provisional

Probab=91.30  E-value=0.79  Score=45.05  Aligned_cols=34  Identities=15%  Similarity=0.322  Sum_probs=26.0

Q ss_pred             hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563          217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK  252 (907)
Q Consensus       217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~  252 (907)
                      +.|.+++.++  .+.+|++|+|++||.--|+..+.+
T Consensus        23 ~~l~~~l~~~--~~~~~~~vLDlGcG~G~~~~~la~   56 (223)
T PRK14967         23 QLLADALAAE--GLGPGRRVLDLCTGSGALAVAAAA   56 (223)
T ss_pred             HHHHHHHHhc--ccCCCCeEEEecCCHHHHHHHHHH
Confidence            4455555554  368899999999999999888765

>COG2265 TrmA SAM-dependent methyltransferases related to tRNA (uracil-5-)-methyltransferase [Translation, ribosomal structure and biogenesis]

Probab=90.93  E-value=0.39  Score=53.34  Aligned_cols=116  Identities=19%  Similarity=0.458  Sum_probs=80.1

Q ss_pred             cccccccCcccchh--hhHHHHHHhhccccc--CCCcEEeccCCcchHHHHHHHH-------------HHhhCcccc---
Q 002563          203 GMRYTSFGRHFTKV--DKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKK-------------LDETGKNCL---  262 (907)
Q Consensus       203 G~RYTSfGRHFTK~--ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~K-------------Le~~gK~C~---  262 (907)
                      |..|.=..|.|+++  +-.+.+++...-+++  .+|+++|+.||.-.|+-.|-++             .++....+-   
T Consensus       260 ~~~~~~~~~sF~Q~N~~~~ekl~~~a~~~~~~~~~~~vlDlYCGvG~f~l~lA~~~~~V~gvEi~~~aV~~A~~NA~~n~  339 (432)
T COG2265         260 GVSFQISPRSFFQVNPAVAEKLYETALEWLELAGGERVLDLYCGVGTFGLPLAKRVKKVHGVEISPEAVEAAQENAAANG  339 (432)
T ss_pred             ceEEEeCCCCceecCHHHHHHHHHHHHHHHhhcCCCEEEEeccCCChhhhhhcccCCEEEEEecCHHHHHHHHHHHHHcC
Confidence            56777778899865  445566666666676  6789999999999999887532             222222222   


Q ss_pred             ccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEec
Q 002563          263 YKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV  330 (907)
Q Consensus       263 fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIv  330 (907)
                      ..| --|..-..+.|..+-|..-.|+       +|+ ++||   ++-+...|++..++++|+-||-|.
T Consensus       340 i~N-~~f~~~~ae~~~~~~~~~~~~d-------~Vv-vDPP---R~G~~~~~lk~l~~~~p~~IvYVS  395 (432)
T COG2265         340 IDN-VEFIAGDAEEFTPAWWEGYKPD-------VVV-VDPP---RAGADREVLKQLAKLKPKRIVYVS  395 (432)
T ss_pred             CCc-EEEEeCCHHHHhhhccccCCCC-------EEE-ECCC---CCCCCHHHHHHHHhcCCCcEEEEe
Confidence            344 3455556666666666333344       444 5999   566899999999999999988885

>PF07669 Eco57I: Eco57I restriction-modification methylase; InterPro: IPR011639 This entry contains restriction modification methylases, which in the case of endonuclease Eco57I is found adjacent to the DNA cleavage domain, which recognises asymmetric DNA sequence 5'-CTGAAG [, ]

Probab=89.84  E-value=0.28  Score=44.16  Aligned_cols=39  Identities=31%  Similarity=0.498  Sum_probs=30.8

Q ss_pred             eeeeeCCCccchhhhH-------------HHHHHhhhccCCcEEEEecCCccc
Q 002563          296 LIMGLNPPFGVKAGLA-------------NKFINKALEFNPKLLILIVPPETE  335 (907)
Q Consensus       296 LIMGLNPPFG~kA~LA-------------NKFIdkAL~FkPKLIILIvPpeTe  335 (907)
                      +|+| |||++....+.             .-||.+|++.-.-.+.+|+|...=
T Consensus         5 ~VIG-NPPY~~~~~~~~~~~~~~~~~dlY~~Fie~~~~ll~G~~~~I~P~~~l   56 (106)
T PF07669_consen    5 VVIG-NPPYIKIKSLSKKKKKKKKKSDLYILFIEKSLNLLNGYLSFITPNSFL   56 (106)
T ss_pred             EEEE-CCCChhhccccchhhcccccCcHHHHHHHHHHHHhCCeEEEEeChHHh
Confidence            8999 99998765322             129999998888999999997654

The methylase causes specific methylation on A-5 on one strand, the other strand being methylated by the Eco57IB methylase []. ; GO: 0003677 DNA binding, 0003824 catalytic activity, 0006304 DNA modification

>PRK05785 hypothetical protein; Provisional

Probab=88.66  E-value=0.59  Score=46.77  Aligned_cols=58  Identities=21%  Similarity=0.329  Sum_probs=41.1

Q ss_pred             HhHHHHHhhccccccccccccccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563          183 LSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK  253 (907)
Q Consensus       183 L~QL~rwk~kLkvYLAPfLhG~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K  253 (907)
                      -+.+..+.|.+.          |..|||++---   -+++++.|..+..++.+|+|++||.-++...+.++
T Consensus        15 f~~iA~~YD~~n----------~~~s~g~~~~w---r~~~~~~l~~~~~~~~~VLDlGcGtG~~~~~l~~~   72 (226)
T PRK05785         15 YNKIPKAYDRAN----------RFISFNQDVRW---RAELVKTILKYCGRPKKVLDVAAGKGELSYHFKKV   72 (226)
T ss_pred             HHhhhHHHHHhh----------hhccCCCcHHH---HHHHHHHHHHhcCCCCeEEEEcCCCCHHHHHHHHh
Confidence            445666666553          55678877322   23456666666667899999999999999998776

>PF02475 Met_10: Met-10+ like-protein; InterPro: IPR003402 This entry represents the Trm5 family

Probab=88.48  E-value=0.16  Score=51.12  Aligned_cols=86  Identities=24%  Similarity=0.338  Sum_probs=43.3

Q ss_pred             hhcccccCCCcEEeccCCcchHHHHHHHHHHhhCcccccccccc--------------CCCCCCccccccccccccCCCC
Q 002563          225 KLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDI--------------LPAKNDFNFEKRDWMTVEPKEL  290 (907)
Q Consensus       225 kLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDl--------------iqpKN~fnFEkrDWmtVqp~EL  290 (907)
                      ||--.|.+|++|+|++||---|+-.+-+.    ++.|..-.-|+              =.-++....-.-|..++-+  -
T Consensus        94 Ri~~~v~~~e~VlD~faGIG~f~l~~ak~----~~~~~V~A~d~Np~a~~~L~~Ni~lNkv~~~i~~~~~D~~~~~~--~  167 (200)
T PF02475_consen   94 RIANLVKPGEVVLDMFAGIGPFSLPIAKH----GKAKRVYAVDLNPDAVEYLKENIRLNKVENRIEVINGDAREFLP--E  167 (200)
T ss_dssp             HHHTC--TT-EEEETT-TTTTTHHHHHHH----T-SSEEEEEES-HHHHHHHHHHHHHTT-TTTEEEEES-GGG-----T
T ss_pred             HHHhcCCcceEEEEccCCccHHHHHHhhh----cCccEEEEecCCHHHHHHHHHHHHHcCCCCeEEEEcCCHHHhcC--c
Confidence            44445999999999999999999988551    33332222222              1112333233334443333  2


Q ss_pred             CCCCeeeeeeCCCccchhhhHHHHHHhhhccCC
Q 002563          291 APGSRLIMGLNPPFGVKAGLANKFINKALEFNP  323 (907)
Q Consensus       291 P~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkP  323 (907)
                      ..-+.+|||| |+.      |..|++.|+....
T Consensus       168 ~~~drvim~l-p~~------~~~fl~~~~~~~~  193 (200)
T PF02475_consen  168 GKFDRVIMNL-PES------SLEFLDAALSLLK  193 (200)
T ss_dssp             T-EEEEEE---TSS------GGGGHHHHHHHEE
T ss_pred             cccCEEEECC-hHH------HHHHHHHHHHHhc
Confidence            3445899995 664      4578888876543

Trm5 specifically methylates the N1 position of guanosine-37 in various tRNAs [, , ]. Another members of this family, tRNA wybutosine-synthesizing protein 2 (Tyw2) and its homologues, are S-adenosyl-L-methionine-dependent transferases that act as a component of the wybutosine biosynthesis pathway [, ]. tRNA wybutosine-synthesizing protein 2 was originally thought to be a methyltransferase [].; GO: 0016740 transferase activity; PDB: 3A27_A 2ZZN_B 2YX1_A 2ZZM_A 3AY0_B 3K6R_A 3A26_A 3A25_A.

>PRK09328 N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase; Provisional

Probab=88.29  E-value=0.68  Score=45.74  Aligned_cols=74  Identities=20%  Similarity=0.349  Sum_probs=42.4

Q ss_pred             ccCCCcEEeccCCcchHHHHHHHHHHhh---Cc-------cccccccccCCCCCCccccccccccccCCCCCCCCe-eee
Q 002563          230 VNDGDMIVDFCCGANDFSCLMKKKLDET---GK-------NCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSR-LIM  298 (907)
Q Consensus       230 V~~GDtiVDfcCG~NdFS~LMk~KLe~~---gK-------~C~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~-LIM  298 (907)
                      ..++.+|+|+|||.-.+...|.+.+...   +.       .+.-+|.. ....+...|...||+.-    ++.+.. +|+
T Consensus       106 ~~~~~~vLDiG~GsG~~~~~la~~~~~~~v~~iDis~~~l~~a~~n~~-~~~~~~i~~~~~d~~~~----~~~~~fD~Iv  180 (275)
T PRK09328        106 LKEPLRVLDLGTGSGAIALALAKERPDAEVTAVDISPEALAVARRNAK-HGLGARVEFLQGDWFEP----LPGGRFDLIV  180 (275)
T ss_pred             ccCCCEEEEEcCcHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHH-hCCCCcEEEEEccccCc----CCCCceeEEE
Confidence            3577899999999999988886654110   00       11112222 11234567777788542    223333 555


Q ss_pred             eeCCCccchhh
Q 002563          299 GLNPPFGVKAG  309 (907)
Q Consensus       299 GLNPPFG~kA~  309 (907)
                      . ||||.-...
T Consensus       181 ~-npPy~~~~~  190 (275)
T PRK09328        181 S-NPPYIPEAD  190 (275)
T ss_pred             E-CCCcCCcch
Confidence            4 999975443

>TIGR00095 RNA methyltransferase, RsmD family

Probab=87.75  E-value=2  Score=42.33  Aligned_cols=110  Identities=14%  Similarity=0.149  Sum_probs=56.1

Q ss_pred             hhhHH-HHHHhhcccccCCCcEEeccCCcchHHHHHHHHHH--hhCcccc-------ccccccCCCCCCccccccccccc
Q 002563          216 VDKLQ-AIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLD--ETGKNCL-------YKNYDILPAKNDFNFEKRDWMTV  285 (907)
Q Consensus       216 ~ekL~-eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe--~~gK~C~-------fKNyDliqpKN~fnFEkrDWmtV  285 (907)
                      .++++ .+...|.-++ .|..|+|+|||+-.|+-..-.+..  -+..+..       -+|.....-.+...|.+.|-+..
T Consensus        33 ~~~vrea~f~~l~~~~-~g~~vLDLfaGsG~lglea~srga~~v~~vE~~~~a~~~~~~N~~~~~~~~~~~~~~~D~~~~  111 (189)
T TIGR00095        33 TRVVRELFFNILRPEI-QGAHLLDVFAGSGLLGEEALSRGAKVAFLEEDDRKANQTLKENLALLKSGEQAEVVRNSALRA  111 (189)
T ss_pred             hHHHHHHHHHHHHHhc-CCCEEEEecCCCcHHHHHHHhCCCCEEEEEeCCHHHHHHHHHHHHHhCCcccEEEEehhHHHH
Confidence            34444 4556554444 588999999999999876644321  1111111       24444443333344555554332


Q ss_pred             cCCCCC-CCC-eeeeeeCCCccchhhhHHHHHH---hhhccCCcEEEEe
Q 002563          286 EPKELA-PGS-RLIMGLNPPFGVKAGLANKFIN---KALEFNPKLLILI  329 (907)
Q Consensus       286 qp~ELP-~Gs-~LIMGLNPPFG~kA~LANKFId---kAL~FkPKLIILI  329 (907)
                      -. .+. .+. -.|+=++|||+...  -.+-+.   +.--.++.-||++
T Consensus       112 l~-~~~~~~~~~dvv~~DPPy~~~~--~~~~l~~l~~~~~l~~~~iiv~  157 (189)
T TIGR00095       112 LK-FLAKKPTFDNVIYLDPPFFNGA--LQALLELCENNWILEDTVLIVV  157 (189)
T ss_pred             HH-HhhccCCCceEEEECcCCCCCc--HHHHHHHHHHCCCCCCCeEEEE
Confidence            11 121 222 47778899998532  222222   2222566766555

This model represents a family of uncharacterized bacterial proteins. Members are present in nearly every complete bacterial genome, always in a single copy. PSI-BLAST analysis shows homology to several families of SAM-dependent methyltransferases, including ribosomal RNA adenine dimethylases.

>TIGR02143 trmA_only tRNA (uracil-5-)-methyltransferase

Probab=87.56  E-value=0.57  Score=50.06  Aligned_cols=116  Identities=16%  Similarity=0.234  Sum_probs=62.8

Q ss_pred             HHHHHHhhccccc-CCCcEEeccCCcchHHHHHHHHHHh-hC-------ccccccccccCCCCCCccccccccccccCC-
Q 002563          219 LQAIVDKLHWYVN-DGDMIVDFCCGANDFSCLMKKKLDE-TG-------KNCLYKNYDILPAKNDFNFEKRDWMTVEPK-  288 (907)
Q Consensus       219 L~eIvdkLhwyV~-~GDtiVDfcCG~NdFS~LMk~KLe~-~g-------K~C~fKNyDliqpKN~fnFEkrDWmtVqp~-  288 (907)
                      .+.+++.+.-++. .++.|+|++||.-.|+..+.++... ++       ..+-=+|..+-.-+ +..|...|..+.-+. 
T Consensus       183 ~~~l~~~v~~~~~~~~~~vlDl~~G~G~~sl~la~~~~~v~~vE~~~~av~~a~~n~~~~~~~-~v~~~~~d~~~~~~~~  261 (353)
T TIGR02143       183 NIKMLEWACEVTQGSKGDLLELYCGNGNFSLALAQNFRRVLATEIAKPSVNAAQYNIAANNID-NVQIIRMSAEEFTQAM  261 (353)
T ss_pred             HHHHHHHHHHHhhcCCCcEEEEeccccHHHHHHHHhCCEEEEEECCHHHHHHHHHHHHHcCCC-cEEEEEcCHHHHHHHH
Confidence            3444444433454 3457999999999999988765210 00       01112344333322 255666665442221 


Q ss_pred             ----CCC--CC----C--eeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCccccccc
Q 002563          289 ----ELA--PG----S--RLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPETERLDR  339 (907)
Q Consensus       289 ----ELP--~G----s--~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeTeRLD~  339 (907)
                          .++  .|    .  .=++-|+||   ++.+..++++..+.. .++|.+=.-|.|=-=|-
T Consensus       262 ~~~~~~~~~~~~~~~~~~~d~v~lDPP---R~G~~~~~l~~l~~~-~~ivYvsC~p~tlaRDl  320 (353)
T TIGR02143       262 NGVREFRRLKGIDLKSYNCSTIFVDPP---RAGLDPDTCKLVQAY-ERILYISCNPETLKANL  320 (353)
T ss_pred             hhccccccccccccccCCCCEEEECCC---CCCCcHHHHHHHHcC-CcEEEEEcCHHHHHHHH
Confidence                110  11    0  124567999   678888998877772 35555555666544443

This family consists exclusively of proteins believed to act as tRNA (uracil-5-)-methyltransferase. All members of far are proteobacterial. The seed alignment was taken directly from pfam05958 in Pfam 12.0, but higher cutoffs are used to select only functionally equivalent proteins. Homologous proteins excluded by the higher cutoff scores of this model include other uracil methyltransferases, such as RumA, active on rRNA.

>TIGR03704 PrmC_rel_meth putative protein-(glutamine-N5) methyltransferase, unknown substrate-specific

Probab=87.43  E-value=0.35  Score=49.25  Aligned_cols=68  Identities=22%  Similarity=0.384  Sum_probs=38.7

Q ss_pred             CCcEEeccCCcchHHHHHHHHHHh---hCccc-------cccccccCCCCCCccccccccccccCCCCCCCCeeeeeeCC
Q 002563          233 GDMIVDFCCGANDFSCLMKKKLDE---TGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNP  302 (907)
Q Consensus       233 GDtiVDfcCG~NdFS~LMk~KLe~---~gK~C-------~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNP  302 (907)
                      +..|+|+|||+--|+..+.++...   ++.+.       .-+|...    |...|...||...-++.+. +..=++-+||
T Consensus        87 ~~~vLDlg~GsG~i~l~la~~~~~~~v~~vDis~~al~~A~~N~~~----~~~~~~~~D~~~~l~~~~~-~~fDlVv~NP  161 (251)
T TIGR03704        87 TLVVVDLCCGSGAVGAALAAALDGIELHAADIDPAAVRCARRNLAD----AGGTVHEGDLYDALPTALR-GRVDILAANA  161 (251)
T ss_pred             CCEEEEecCchHHHHHHHHHhCCCCEEEEEECCHHHHHHHHHHHHH----cCCEEEEeechhhcchhcC-CCEeEEEECC
Confidence            357999999999999887654321   11111       1233322    2246777888764443332 3323344599


Q ss_pred             Ccc
Q 002563          303 PFG  305 (907)
Q Consensus       303 PFG  305 (907)
                      ||-
T Consensus       162 Py~  164 (251)
T TIGR03704       162 PYV  164 (251)
T ss_pred             CCC
Confidence            985

This protein family is closely related to two different families of protein-(glutamine-N5) methyltransferase. The first is PrmB, which modifies ribosomal protein L3 in some bacteria. The second is PrmC (HemK), which modifies peptide chain release factors 1 and 2 in most bacteria and also in eukaryotes. The glutamine side chain-binding motif NPPY shared by PrmB and PrmC is N[VAT]PY in this family. The protein substrate is unknown.

>PRK05031 tRNA (uracil-5-)-methyltransferase; Validated

Probab=86.87  E-value=0.95  Score=48.51  Aligned_cols=115  Identities=12%  Similarity=0.215  Sum_probs=62.6

Q ss_pred             hhhhHHHHHHhhcccccC-CCcEEeccCCcchHHHHHHHHHHh-hCc-------cccccccccCCCCCCccccccccccc
Q 002563          215 KVDKLQAIVDKLHWYVND-GDMIVDFCCGANDFSCLMKKKLDE-TGK-------NCLYKNYDILPAKNDFNFEKRDWMTV  285 (907)
Q Consensus       215 K~ekL~eIvdkLhwyV~~-GDtiVDfcCG~NdFS~LMk~KLe~-~gK-------~C~fKNyDliqpKN~fnFEkrDWmtV  285 (907)
                      +.+-.+.+++.+..+++. +..|+|++||...|+..+.++... ++.       .+.=+|..+-.- ++..|...|..+.
T Consensus       188 N~~~~e~l~~~v~~~~~~~~~~vLDl~~G~G~~sl~la~~~~~v~~vE~~~~ai~~a~~N~~~~~~-~~v~~~~~d~~~~  266 (362)
T PRK05031        188 NAAVNEKMLEWALDATKGSKGDLLELYCGNGNFTLALARNFRRVLATEISKPSVAAAQYNIAANGI-DNVQIIRMSAEEF  266 (362)
T ss_pred             CHHHHHHHHHHHHHHhhcCCCeEEEEeccccHHHHHHHhhCCEEEEEECCHHHHHHHHHHHHHhCC-CcEEEEECCHHHH
Confidence            344566777777777763 457999999999999988764220 000       111133322221 1344555554442


Q ss_pred             cCC-----CC--CC-----C-CeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecCCcc
Q 002563          286 EPK-----EL--AP-----G-SRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVPPET  334 (907)
Q Consensus       286 qp~-----EL--P~-----G-s~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvPpeT  334 (907)
                      -++     ++  +.     + ..=++-|+||.   +.+..+.|...++. .++|++=.-|.|
T Consensus       267 l~~~~~~~~~~~~~~~~~~~~~~D~v~lDPPR---~G~~~~~l~~l~~~-~~ivyvSC~p~t  324 (362)
T PRK05031        267 TQAMNGVREFNRLKGIDLKSYNFSTIFVDPPR---AGLDDETLKLVQAY-ERILYISCNPET  324 (362)
T ss_pred             HHHHhhcccccccccccccCCCCCEEEECCCC---CCCcHHHHHHHHcc-CCEEEEEeCHHH
Confidence            111     00  01     1 11255579995   57889998888773 355554444544

>COG0030 KsgA Dimethyladenosine transferase (rRNA methylation) [Translation, ribosomal structure and biogenesis]

Probab=85.13  E-value=1.5  Score=46.51  Aligned_cols=117  Identities=21%  Similarity=0.346  Sum_probs=73.5

Q ss_pred             cccCcccchhhh-HHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHh-----hCccc---------cccccccCCC
Q 002563          207 TSFGRHFTKVDK-LQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDE-----TGKNC---------LYKNYDILPA  271 (907)
Q Consensus       207 TSfGRHFTK~ek-L~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~-----~gK~C---------~fKNyDliqp  271 (907)
                      -+||.||..-.. +.+||+...  ++++|+||+.-+|--.+-.-|-++...     ....|         .+.|++||. 
T Consensus         6 K~~GQnFL~d~~v~~kIv~~a~--~~~~d~VlEIGpG~GaLT~~Ll~~~~~v~aiEiD~~l~~~L~~~~~~~~n~~vi~-   82 (259)
T COG0030           6 KRLGQNFLIDKNVIDKIVEAAN--ISPGDNVLEIGPGLGALTEPLLERAARVTAIEIDRRLAEVLKERFAPYDNLTVIN-   82 (259)
T ss_pred             CCcccccccCHHHHHHHHHhcC--CCCCCeEEEECCCCCHHHHHHHhhcCeEEEEEeCHHHHHHHHHhcccccceEEEe-
Confidence            489999976544 577887764  567999999999999887665433221     00000         355666664 


Q ss_pred             CCCccccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCc--EEEEecCCc-ccccccc
Q 002563          272 KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPK--LLILIVPPE-TERLDRK  340 (907)
Q Consensus       272 KN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPK--LIILIvPpe-TeRLD~K  340 (907)
                              .|-|.++..+|- +...|+| |.||.    ++..+|-|.|+..+.  -.++.+=.| -+||=.+
T Consensus        83 --------~DaLk~d~~~l~-~~~~vVa-NlPY~----Isspii~kll~~~~~~~~~v~M~QkEva~Rl~A~  140 (259)
T COG0030          83 --------GDALKFDFPSLA-QPYKVVA-NLPYN----ISSPILFKLLEEKFIIQDMVLMVQKEVAERLVAK  140 (259)
T ss_pred             --------CchhcCcchhhc-CCCEEEE-cCCCc----ccHHHHHHHHhccCccceEEEEeHHHHHHHHhCC
Confidence                    444555555544 6668888 99999    566666666666654  445544333 3444433

>TIGR03587 Pse_Me-ase pseudaminic acid biosynthesis-associated methylase

Probab=84.00  E-value=1.2  Score=44.06  Aligned_cols=51  Identities=12%  Similarity=0.051  Sum_probs=45.2

Q ss_pred             cccccccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHH
Q 002563          203 GMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKK  253 (907)
Q Consensus       203 G~RYTSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~K  253 (907)
                      |.+|+.-+|...-+.+..+.+.++...+.++++|+|+.||.-.+...|.+.
T Consensus        14 g~~~~~rn~~~~~~~~~~~~~~~~l~~~~~~~~VLDiGCG~G~~~~~L~~~   64 (204)
T TIGR03587        14 GKEYIDRNSRQSLVAAKLAMFARALNRLPKIASILELGANIGMNLAALKRL   64 (204)
T ss_pred             cchhhhccccHHHHHHHHHHHHHHHHhcCCCCcEEEEecCCCHHHHHHHHh
Confidence            779999999888888887888888888999999999999999999988664

Members of this small clade are methyltransferases of the pfam08241 family and are observed within operons for the biosynthesis of pseudaminic acid, a component of exopolysaccharide and flagellin glycosyl modifications. Notable among these genomes is Pseudomonas fluorescens PfO-1. Possibly one of the two hydroxyl groups of pseudaminic acid, at positions 4 and 8 is converted to a methoxy group by this enzyme

>TIGR00536 hemK_fam HemK family putative methylases

Probab=83.27  E-value=0.95  Score=46.44  Aligned_cols=68  Identities=16%  Similarity=0.218  Sum_probs=39.7

Q ss_pred             CcEEeccCCcchHHHHHHHHHHh---hCccc-------cccccccCCCCCCccccccccccccCCCCCCC-CeeeeeeCC
Q 002563          234 DMIVDFCCGANDFSCLMKKKLDE---TGKNC-------LYKNYDILPAKNDFNFEKRDWMTVEPKELAPG-SRLIMGLNP  302 (907)
Q Consensus       234 DtiVDfcCG~NdFS~LMk~KLe~---~gK~C-------~fKNyDliqpKN~fnFEkrDWmtVqp~ELP~G-s~LIMGLNP  302 (907)
                      ..|+|+|||+--+...+...+..   ++.+.       --+|.....-.+...|...||+..    ++.. =-+|+. ||
T Consensus       116 ~~vLDlG~GsG~i~l~la~~~~~~~v~avDis~~al~~a~~n~~~~~~~~~v~~~~~d~~~~----~~~~~fDlIvs-NP  190 (284)
T TIGR00536       116 LHILDLGTGSGCIALALAYEFPNAEVIAVDISPDALAVAEENAEKNQLEHRVEFIQSNLFEP----LAGQKIDIIVS-NP  190 (284)
T ss_pred             CEEEEEeccHhHHHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHcCCCCcEEEEECchhcc----CcCCCccEEEE-CC
Confidence            68999999999998888664321   11111       113332222234578888898763    2321 235554 99


Q ss_pred             Cccc
Q 002563          303 PFGV  306 (907)
Q Consensus       303 PFG~  306 (907)
                      ||--
T Consensus       191 Pyi~  194 (284)
T TIGR00536       191 PYID  194 (284)
T ss_pred             CCCC
Confidence            9853

The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. Both E. coli and H. influenzae have two members rather than one. The members from the Mycoplasmas have an additional C-terminal domain.

>PF13679 Methyltransf_32: Methyltransferase domain

Probab=81.51  E-value=9.6  Score=35.46  Aligned_cols=109  Identities=17%  Similarity=0.266  Sum_probs=65.3

Q ss_pred             hhhhHHHHHHhhccc---ccCCCcEEeccCCcchHHHHHHHHHHhhCccccccccccCC----------------CCCCc
Q 002563          215 KVDKLQAIVDKLHWY---VNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP----------------AKNDF  275 (907)
Q Consensus       215 K~ekL~eIvdkLhwy---V~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq----------------pKN~f  275 (907)
                      .++.+.++++.+.-.   ..+..+|||||||---.++++-..|......+..--.|.=+                -.+.+
T Consensus         5 Ei~~~~~~i~~~~~~~~~~~~~~~vvD~GsG~GyLs~~La~~l~~~~~~~~v~~iD~~~~~~~~a~~~~~~~~~~~~~~~   84 (141)
T PF13679_consen    5 EIERMAELIDSLCDSVGESKRCITVVDLGSGKGYLSRALAHLLCNSSPNLRVLGIDCNESLVESAQKRAQKLGSDLEKRL   84 (141)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCEEEEeCCChhHHHHHHHHHHHhcCCCCeEEEEECCcHHHHHHHHHHHHhcchhhccc
Confidence            345566666666544   46788899999999999999988666554444433333211                11334


Q ss_pred             cccccccccccCCCCCCCCeeeeeeCCCccchhhhHHHHHHhhhccCCcEEEEecC
Q 002563          276 NFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIVP  331 (907)
Q Consensus       276 nFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIvP  331 (907)
                      .|.+-+.-...   ...+..+++||-.    =+.|+-.-|..+..-+.+.|+ +||
T Consensus        85 ~~~~~~~~~~~---~~~~~~~~vgLHa----CG~Ls~~~l~~~~~~~~~~l~-~vp  132 (141)
T PF13679_consen   85 SFIQGDIADES---SSDPPDILVGLHA----CGDLSDRALRLFIRPNARFLV-LVP  132 (141)
T ss_pred             hhhccchhhhc---ccCCCeEEEEeec----ccchHHHHHHHHHHcCCCEEE-EcC
Confidence            44433322221   1566678888764    346888888888883344443 344

>PF13489 Methyltransf_23: Methyltransferase domain; PDB: 3JWJ_A 3JWH_B 2AOV_B 2AOT_A 1JQD_B 2AOX_A 1JQE_A 2AOU_B 2AOW_A 3DLI_C

Probab=81.17  E-value=2  Score=38.16  Aligned_cols=36  Identities=19%  Similarity=0.433  Sum_probs=30.3

Q ss_pred             hhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHH
Q 002563          217 DKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKK  252 (907)
Q Consensus       217 ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~  252 (907)
                      +.+.+++.+|..+..++..|+|+-||...|+..|++
T Consensus         7 ~~~~~~~~~~~~~~~~~~~vLDiGcG~G~~~~~l~~   42 (161)
T PF13489_consen    7 RAYADLLERLLPRLKPGKRVLDIGCGTGSFLRALAK   42 (161)
T ss_dssp             HCHHHHHHHHHTCTTTTSEEEEESSTTSHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCEEEEEcCCCCHHHHHHHH
Confidence            345667777877789999999999999999999955

...

>COG0286 HsdM Type I restriction-modification system methyltransferase subunit [Defense mechanisms]

Probab=80.20  E-value=2.1  Score=48.07  Aligned_cols=49  Identities=22%  Similarity=0.278  Sum_probs=43.7

Q ss_pred             ccCcccchhhhHHHHHHhhcccccCCCcEEeccCCcchHHHHHHHHHHhhC
Q 002563          208 SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETG  258 (907)
Q Consensus       208 SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~g  258 (907)
                      +.|.+||-.+-.+=||+.|-.  +++++|.|.|||+-.|.....+.+.+..
T Consensus       164 ~~GEfyTP~~v~~liv~~l~~--~~~~~i~DpacGsgg~l~~a~~~~~~~~  212 (489)
T COG0286         164 EAGEFYTPREVSELIVELLDP--EPRNSIYDPACGSGGMLLQAAKYLKRHQ  212 (489)
T ss_pred             CCCccCChHHHHHHHHHHcCC--CCCCeecCCCCchhHHHHHHHHHHHhhc
Confidence            789999999999999999988  9999999999999999988888776533

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	907
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-05

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 56.8 bits (136), Expect = 3e-08
 Identities = 100/743 (13%), Positives = 186/743 (25%), Gaps = 280/743 (37%)

Query: 254 LD-ETGKNCLYKNYDILPA-KNDF--NFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAG 309
           +D ETG++  Y+  DIL   ++ F  NF+ +D                        V+  
Sbjct: 7   MDFETGEH-QYQYKDILSVFEDAFVDNFDCKD------------------------VQDM 41

Query: 310 LANKFINKALEFNPKLLILIVPPETERLDRKESAYELVW--EDDQFLSGKSFYLPGSVDE 367
             +    + ++      I++         R      L W     Q    + F     V  
Sbjct: 42  PKSILSKEEIDH-----IIMSKDAVSGTLR------LFWTLLSKQEEMVQKFV--EEVLR 88

Query: 368 NDKQMDQWNMTAPPLYLWSRHDYAAHHKALAEKHGHISRPQSRTQMERNCYETHAVDHPK 427
            +             Y +           L      I   Q +  M    Y        +
Sbjct: 89  IN-------------YKF-----------LMSP---IKTEQRQPSMMTRMYIEQ-----R 116

Query: 428 EEGQGDASMLIDLPLQINVT-----KELRNEAREDDKAGFPDNATEGGGESSHG---HGD 479
           +    D  +        NV+      +LR    E   A                    G 
Sbjct: 117 DRLYNDNQVFAKY----NVSRLQPYLKLRQALLELRPAK--------------NVLIDGV 158

Query: 480 NQSGKTS--RKRKRDRKKHGSGMRENSPLDGQNRGRHLASGIHGMS---KHSPANI---- 530
             SGKT          K                    +   I  ++    +SP  +    
Sbjct: 159 LGSGKTWVALDVCLSYKVQ----------------CKMDFKIFWLNLKNCNSPETVLEML 202

Query: 531 ----ANVSPLLEGHSSKSIDMPSHVGSGDNDCQH-FSNKGMPLSSPTIVIDGTSPLGVHS 585
                 + P     S  S ++   + S   + +    +K        +V+       V +
Sbjct: 203 QKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENC--LLVLL-----NVQN 255

Query: 586 SKTIEMLSHDDGCQ----------CDQMP-----HRSPVNVSSGILEGES----SK---- 622
           +K       +  C+           D +      H S  + S  +   E      K    
Sbjct: 256 AKAWNAF--NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDC 313

Query: 623 -----PIEI----P-ALSGIGDGGYEHFGVGMSHHSAATVIDGASSLQGLS-------SK 665
                P E+    P  LS I                  ++ DG ++            + 
Sbjct: 314 RPQDLPREVLTTNPRRLSIIA----------------ESIRDGLATWDNWKHVNCDKLTT 357

Query: 666 SIEMPSYTQFDDNVHQH-FED-----KGVPRCSPAKVIA-------------------KS 700
            IE  S    +   ++  F+             P  +++                   K 
Sbjct: 358 IIES-SLNVLEPAEYRKMFDRLSVFPPSAH--IPTILLSLIWFDVIKSDVMVVVNKLHKY 414

Query: 701 SL--EDHSSKSIDIPSQTGFGSDYQHHEPTRSSSH--IGTTYYGTQAGIPNDMGSYGMSS 756
           SL  +     +I IPS      + +       + H  I   Y   +    +D+       
Sbjct: 415 SLVEKQPKESTISIPSIY---LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP----- 466

Query: 757 LNNGLSHGANLDERYTGYVRNTDSLGYRPSMSTDRELTMWPLAR-IYGQDFP-------A 808
                     LD     Y  +   +G+   +          L R ++  DF         
Sbjct: 467 --------PYLD----QYFYS--HIGHH--LKNIEHPERMTLFRMVF-LDFRFLEQKIRH 509

Query: 809 PTPGYGQMGSVPSNL-----YGNLGSSAEASYRMSTSAMDRYAPRLHQLNNTRMNTFRSE 863
            +  +   GS+ + L     Y       +  Y    +A+  + P++ +      N   S+
Sbjct: 510 DSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEE------NLICSK 563

Query: 864 -------PFMPSRFGFYDSRAPQ 879
                    M      ++    Q
Sbjct: 564 YTDLLRIALMAEDEAIFEEAHKQ 586

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 54.5 bits (130), Expect = 1e-07
 Identities = 58/385 (15%), Positives = 112/385 (29%), Gaps = 116/385 (30%)

Query: 7   LLVGSD--SSRRAKATDVSRK-----SFKGNVKSLSVQVDRSSSVDSKKTSLGER----L 55
           LLV  +  +++   A ++S K      FK     LS       S+D    +L       L
Sbjct: 247 LLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSL 306

Query: 56  YAAFVTEGT----EQTK---------FGK--QDNSDR-ETSRTVTVKPLRKKLISELPSL 99
              ++         +             +  +D     +  + V    L   + S L  L
Sbjct: 307 LLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVL 366

Query: 100 DEDSKRR----LSSLMKDAASSVRMEEILKRHKIPSTHAYASKSAVDKAITL---GKVEG 152
           +    R+    LS     A              IP+             ++L     ++ 
Sbjct: 367 EPAEYRKMFDRLSVFPPSA-------------HIPT-----------ILLSLIWFDVIKS 402

Query: 153 SVEAI------RTALKKLDVDGS-SIED------AKAVCEPEVLSQIFKWKNKLKVY--- 196
            V  +       + ++K   + + SI         K   E  +   I    N  K +   
Sbjct: 403 DVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSD 462

Query: 197 --LAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKL 254
             + P+L    Y+  G H   ++  + +      +       +DF      F   +++K+
Sbjct: 463 DLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVF-------LDF-----RF---LEQKI 507

Query: 255 DETGKNC--------------LYKNYDILPAKNDFNFEKR--DWMTVEPKE-----LAPG 293
                                 YK Y I    ND  +E+     +   PK       +  
Sbjct: 508 RHDSTAWNASGSILNTLQQLKFYKPY-I--CDNDPKYERLVNAILDFLPKIEENLICSKY 564

Query: 294 SRLI-MGLNPPFGVKAGLANKFINK 317
           + L+ + L          A+K + +
Sbjct: 565 TDLLRIALMAEDEAIFEEAHKQVQR 589

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 47.9 bits (113), Expect = 2e-05
 Identities = 67/505 (13%), Positives = 126/505 (24%), Gaps = 198/505 (39%)

Query: 58  AFVTEGTEQTKFGKQDNSDRETSRTVTVKPLRKKLISELPSLDEDSKRRLSSLMKDAASS 117
           AFV        F  +D  D    +++  K     +I         + R   +L+      
Sbjct: 28  AFVDN------FDCKDVQDMP--KSILSKEEIDHIIMS-KDAVSGTLRLFWTLLSKQEEM 78

Query: 118 VR--------------MEEILKRHKIPSTHAYASKSAVDKAITLGKVEGSVEAIRTALKK 163
           V+              M  I    + PS          D+     +V            K
Sbjct: 79  VQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQV----------FAK 128

Query: 164 LDVDGSSIEDAKAVCEPEVLSQIFKWKNKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIV 223
            +V              +   ++ +   +L+      + G+     G+ +  +D   +  
Sbjct: 129 YNV-----------SRLQPYLKLRQALLELRPAKNVLIDGV--LGSGKTWVALDVCLSYK 175

Query: 224 ------DKLHWYVNDG---------DMIVDFC-------CGANDFSCLMKKKLDET---- 257
                  K+ W +N           +M+              +D S  +K ++       
Sbjct: 176 VQCKMDFKIFW-LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234

Query: 258 --------GKNCLY-----KNYDILPAKNDFNFEKRDWMTVEPKELA-----------PG 293
                    +NCL      +N       N FN   +  +T   K++              
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAW---NAFNLSCKILLTTRFKQVTDFLSAATTTHISL 291

Query: 294 SRLIMGLNPPFGVKAGLANKFIN--------KALEFNPKLLILIV--------------- 330
               M L P       L  K+++        + L  NP+ L +I                
Sbjct: 292 DHHSMTLTPDEVK--SLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKH 349

Query: 331 ------------------PPETERL---------DRK--ESAYELVWEDD---------Q 352
                             P E  ++                   L+W D           
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVN 409

Query: 353 FLSGKS----------FYLPG-SVD-----ENDKQM--------------DQWNMTAPPL 382
            L   S            +P   ++     EN+  +              D  ++  P L
Sbjct: 410 KLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL 469

Query: 383 --YLWSRHDYAAHHKALAEKHGHIS 405
             Y +S   +  HH    E    ++
Sbjct: 470 DQYFYS---HIGHHLKNIEHPERMT 491

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

No hit with probability above 80.00

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

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

ID	Length	Definition	E-value
Query	907
d1rpxa_	230	c.1.2.2 (A:) D-ribulose-5-phosphate 3-epimerase {P	0.004

>d1rpxa_ c.1.2.2 (A:) D-ribulose-5-phosphate 3-epimerase {Potato (Solanum tuberosum) [TaxId: 4113]} Length = 230

class: Alpha and beta proteins (a/b)
fold: TIM beta/alpha-barrel
superfamily: Ribulose-phoshate binding barrel
family: D-ribulose-5-phosphate 3-epimerase
domain: D-ribulose-5-phosphate 3-epimerase
species: Potato (Solanum tuberosum) [TaxId: 4113]

 Score = 37.3 bits (86), Expect = 0.004
 Identities = 28/182 (15%), Positives = 54/182 (29%), Gaps = 9/182 (4%)

Query: 191 NKLKVYLAPFLHGMRYTSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLM 250
           +K  + ++P +    ++  G     +++     D +H  V DG  + +   G      L 
Sbjct: 7   SKSDIIVSPSILSANFSKLGEQVKAIEQAGC--DWIHVDVMDGRFVPNITIGPLVVDSLR 64

Query: 251 KKKLDETGKNCLYKNYDILPAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGL 310
                    + +    D               +  E        R I       G KAG+
Sbjct: 65  PITDLPLDVHLMIVEPDQRVPDFIKAGADIVSVHCEQSSTIHLHRTI-NQIKSLGAKAGV 123

Query: 311 A------NKFINKALEFNPKLLILIVPPETERLDRKESAYELVWEDDQFLSGKSFYLPGS 364
                     I   L+    +LI+ V P        ES  + + +  +  + +       
Sbjct: 124 VLNPGTPLTAIEYVLDAVDLVLIMSVNPGFGGQSFIESQVKKISDLRKICAERGLNPWIE 183

Query: 365 VD 366
           VD
Sbjct: 184 VD 185

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	907
d2okca1	425	Type I restriction enzyme StySJI M protein {Bacter	97.93
d2ar0a1	524	M.EcoKI {Escherichia coli [TaxId: 562]}	97.73
d2f8la1	328	Hypothetical protein Lmo1582 {Listeria monocytogen	97.57
d2ih2a1	223	DNA methylase TaqI, N-terminal domain {Thermus aqu	97.48
d1wy7a1	201	Hypothetical protein PH1948 {Archaeon Pyrococcus h	95.68
d1uwva2	358	rRNA (Uracil-5-)-methyltransferase RumA, catalytic	95.58
d1ne2a_	197	Hypothetical protein Ta1320 {Archaeon Thermoplasma	95.52
d2esra1	152	Putative methyltransferase SPy1538 {Streptococcus	92.31
d1ws6a1	171	Methyltransferase TTHA0928 {Thermus thermophilus [	85.55
d1ej0a_	180	RNA methyltransferase FtsJ {Escherichia coli [TaxI	83.84
d2fpoa1	183	Methylase YhhF {Escherichia coli [TaxId: 562]}	83.39
d1dusa_	194	Hypothetical protein MJ0882 {Archaeon Methanococcu	82.71

>d2okca1 c.66.1.45 (A:9-433) Type I restriction enzyme StySJI M protein {Bacteroides thetaiotaomicron [TaxId: 818]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: N-6 DNA Methylase-like
domain: Type I restriction enzyme StySJI M protein
species: Bacteroides thetaiotaomicron [TaxId: 818]

Probab=97.93  E-value=1.4e-05  Score=52.30  Aligned_cols=122  Identities=20%  Similarity=0.301  Sum_probs=74.9

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCC---------CCCCCCC--------
Q ss_conf             34575440254599999764102238990886147965378999998876076664---------4334457--------
Q 002563          207 TSFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCL---------YKNYDIL--------  269 (907)
Q Consensus       207 TSfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~---------fKNyDli--------  269 (907)
                      ...|.+||-.+-.+.+|+.|..  ..+++|.|+|||...|..-.-+.+....+...         .--.|+-        
T Consensus       139 k~~G~f~TP~~Iv~~mv~ll~~--~~~~~IlDPacGsG~fL~~a~~~~~~~~~~~~~~~~~~~~~l~g~E~~~~~~~la~  216 (425)
T d2okca1         139 SGAGQYFTPRPLIQAMVDCINP--QMGETVCDPACGTGGFLLTAYDYMKGQSASKEKRDFLRDKALHGVDNTPLVVTLAS  216 (425)
T ss_dssp             TCCGGGCCCHHHHHHHHHHHCC--CTTCCEEETTCTTCHHHHHHHHHHHTCC-CCHHHHHHHHTTEEEEESCHHHHHHHH
T ss_pred             CCCHHHCCCHHHHHHHHEECCC--CCCCEEECCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCHHHHHHHH
T ss_conf             2211321433455721013267--66652402321457517999999986323145666654223466541578889988


Q ss_pred             -------CCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHH----------------HHHHHHHHHHCCCCC--
Q ss_conf             -------7888766212454202688889988024541899630133----------------478998753113973--
Q 002563          270 -------PAKNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAG----------------LANKFINKALEFNPK--  324 (907)
Q Consensus       270 -------qpKN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~----------------LANKFIdkAL~FkPK--  324 (907)
                             -..+..++...|+++-.+.+   --.+|++ |||||.+..                ...-||.+++..--.  
T Consensus       217 ~n~~l~g~~~~~~~i~~~d~l~~~~~~---~fD~Ii~-NPPfg~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~~~~Lk~~G  292 (425)
T d2okca1         217 MNLYLHGIGTDRSPIVCEDSLEKEPST---LVDVILA-NPPFGTRPAGSVDINRPDFYVETKNNQLNFLQHMMLMLKTGG  292 (425)
T ss_dssp             HHHHHTTCCSSCCSEEECCTTTSCCSS---CEEEEEE-CCCSSCCCTTCCCCCCTTSSSCCSCHHHHHHHHHHHHEEEEE
T ss_pred             HHHHHCCCCCCCCEEECCCHHHHHCCC---CCCEEEE-CCCCCCCCCCCCHHHHHHCCCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             501103775432034237504431123---4452783-388787766632021232046666278899999999658998


Q ss_pred             EEEEECCCCC
Q ss_conf             8999549853
Q 002563          325 LLILIVPPET  334 (907)
Q Consensus       325 LIILIvPpeT  334 (907)
                      .+++|+|...
T Consensus       293 ~~~iI~p~~~  302 (425)
T d2okca1         293 RAAVVLPDNV  302 (425)
T ss_dssp             EEEEEEEHHH
T ss_pred             EEEEEECHHH
T ss_conf             1899942488

>d2ar0a1 c.66.1.45 (A:6-529) M.EcoKI {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: N-6 DNA Methylase-like
domain: M.EcoKI
species: Escherichia coli [TaxId: 562]

Probab=97.73  E-value=5.6e-05  Score=48.32  Aligned_cols=152  Identities=19%  Similarity=0.328  Sum_probs=82.7

Q ss_pred             CHHHHHHHHHHHHCCCCCCC-----CCCCCCCCC------------CCCCCCCHHHHHHHHHHHHCCCCCCCCCEEECCC
Q ss_conf             93578689987510100012-----322455323------------4575440254599999764102238990886147
Q 002563          179 EPEVLSQIFKWKNKLKVYLA-----PFLHGMRYT------------SFGRHFTKVDKLQAIVDKLHWYVNDGDMIVDFCC  241 (907)
Q Consensus       179 eP~vL~QL~rwk~kLkvYLA-----PfLhG~RYT------------SfGRHFTK~ekL~eIvdkLhwyV~~GDtiVDfcC  241 (907)
                      +|..|++|...=+.+..+-.     .-+.|.-|-            +-|.+||-.+-.+.+|+-|.+  +++++|.|+||
T Consensus        96 ~~~~l~~li~~i~~~~~~~~~~~~~~D~lG~~YE~ll~~~~~~~~~~~GqfyTP~~Iv~~mv~ll~~--~~~~~i~DPac  173 (524)
T d2ar0a1          96 EPKQITALVSNMDSLDWYNGAHGKSRDDFGDMYEGLLQKNANETKSGAGQYFTPRPLIKTIIHLLKP--QPREVVQDPAA  173 (524)
T ss_dssp             CHHHHHHHHHHHHTCCC--------------------------------CCCCCHHHHHHHHHHHCC--CTTCCEEETTC
T ss_pred             CHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCHHCCCCCHHHHHHHCCCC--CCCHHHCCHHH
T ss_conf             8388999997330122101223320567999999999998764034541111452455731320268--63132236564


Q ss_pred             CCCHHHHHHHHHHHHHCCCCC--------------CCCCCCC------------CCCCCCCCCCCCCC------CCCCCC
Q ss_conf             965378999998876076664--------------4334457------------78887662124542------026888
Q 002563          242 GANDFSCLMKKKLDETGKNCL--------------YKNYDIL------------PAKNDFNFEKRDWM------TVEPKE  289 (907)
Q Consensus       242 G~NdFS~LMk~KLe~~gK~C~--------------fKNyDli------------qpKN~fnFEkrDWm------tVqp~E  289 (907)
                      |...|..-.-+.+.+......              +-..|+-            -+-...++...+.+      .-....
T Consensus       174 GsG~fL~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~~G~E~~~~~~~la~~nl~l~~~~~~i~~~~~~~~~~~l~~d~~~  253 (524)
T d2ar0a1         174 GTAGFLIEADRYVKSQTNDLDDLDGDTQDFQIHRAFIGLELVPGTRRLALMNCLLHDIEGNLDHGGAIRLGNTLGSDGEN  253 (524)
T ss_dssp             TTTHHHHHHHHHHHTTTTTTTTSCHHHHHHHHHTSEEEEESCHHHHHHHHHHHHTTTCCCBGGGTBSEEESCTTSHHHHT
T ss_pred             HCCHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCC
T ss_conf             30523689999999834763323236788888753565306789999999988863353232336355553444202544


Q ss_pred             CCCCCEEEEEECCCCCCHHHH-------------HHHHHHHHHCC-CCC-EEEEECCCCC
Q ss_conf             899880245418996301334-------------78998753113-973-8999549853
Q 002563          290 LAPGSRLIMGLNPPFGVKAGL-------------ANKFINKALEF-NPK-LLILIVPPET  334 (907)
Q Consensus       290 LP~Gs~LIMGLNPPFG~kA~L-------------ANKFIdkAL~F-kPK-LIILIvPpeT  334 (907)
                      + ..-.+|++ |||||.+...             ---||.|++.. +|. .+++|+|...
T Consensus       254 ~-~kfD~Ii~-NPPfg~~~~~~~~~~~~~~~~~~~~~Fi~~~l~~Lk~gGr~aiIlP~~~  311 (524)
T d2ar0a1         254 L-PKAHIVAT-NPPFGSAAGTNITRTFVHPTSNKQLCFMQHIIETLHPGGRAAVVVPDNV  311 (524)
T ss_dssp             S-CCEEEEEE-CCCCTTCSSCCCCSCCSSCCSCHHHHHHHHHHHHEEEEEEEEEEEEHHH
T ss_pred             C-CCCEEEEE-CCCCCCCCCCCCHHHHCCCCCCCCHHHHHHHHHHCCCCCCEEEEEEHHH
T ss_conf             3-33404774-6996655565420111001466127999999986456675899973487

>d2f8la1 c.66.1.45 (A:2-329) Hypothetical protein Lmo1582 {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: N-6 DNA Methylase-like
domain: Hypothetical protein Lmo1582
species: Listeria monocytogenes [TaxId: 1639]

Probab=97.57  E-value=5.5e-05  Score=48.41  Aligned_cols=124  Identities=14%  Similarity=0.198  Sum_probs=69.2

Q ss_pred             CCCCCCCCHHHHHHHHHHHHCCC--CCCCCCEEECCCCCCHHHHHHHHHHHHHC-CCCCCCCCCCCC------------C
Q ss_conf             34575440254599999764102--23899088614796537899999887607-666443344577------------8
Q 002563          207 TSFGRHFTKVDKLQAIVDKLHWY--VNDGDMIVDFCCGANDFSCLMKKKLDETG-KNCLYKNYDILP------------A  271 (907)
Q Consensus       207 TSfGRHFTK~ekL~eIvdkLhwy--V~~GDtiVDfcCG~NdFS~LMk~KLe~~g-K~C~fKNyDliq------------p  271 (907)
                      ...|++||-..-..-+++-+..+  .+++++|.|+|||...|..-.-+.+.+.. ..+.+-.+|+-+            .
T Consensus        90 ~~~g~~~TP~~i~~~m~~l~~~~~~~~~~~~vlDp~~GsG~~l~~~~~~l~~~~~~~~~~~g~di~~~~~~~a~~~~~~~  169 (328)
T d2f8la1          90 IQVNHQMTPDSIGFIVAYLLEKVIQKKKNVSILDPACGTANLLTTVINQLELKGDVDVHASGVDVDDLLISLALVGADLQ  169 (328)
T ss_dssp             CCGGGCCCCHHHHHHHHHHHHHHHTTCSEEEEEETTCTTSHHHHHHHHHHHTTSSCEEEEEEEESCHHHHHHHHHHHHHH
T ss_pred             CCCCEEECCHHHHHHHHHHHHHHHCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEECCCHHHHHHHHHHHHHH
T ss_conf             65885878689999999999998478889889857898656599999888860576514997656189999999999872


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHH-----------------HHHHHHHHHHCC--CCCEEEEECCC
Q ss_conf             88766212454202688889988024541899630133-----------------478998753113--97389995498
Q 002563          272 KNDFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAG-----------------LANKFINKALEF--NPKLLILIVPP  332 (907)
Q Consensus       272 KN~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~-----------------LANKFIdkAL~F--kPKLIILIvPp  332 (907)
                      ....++...|++...+.   ..-.+|++ |||||.+..                 +...||.+++..  .--.+++|+|.
T Consensus       170 ~~~~~~~~~d~~~~~~~---~~fD~vi~-NPPy~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~~~~~Lk~~G~~~~I~p~  245 (328)
T d2f8la1         170 RQKMTLLHQDGLANLLV---DPVDVVIS-DLPVGYYPDDENAKTFELCREEGHSFAHFLFIEQGMRYTKPGGYLFFLVPD  245 (328)
T ss_dssp             TCCCEEEESCTTSCCCC---CCEEEEEE-ECCCSEESCHHHHTTSTTCCSSSCEEHHHHHHHHHHHTEEEEEEEEEEEEG
T ss_pred             HHHHHHHCCCCCCCCCC---CCCCCCCC-CCCCCCCCCCHHHHHCCHHCCCCCCHHHHHHHHHHHHHCCCCCCEEEEECC
T ss_conf             20244420243334220---00233345-798777753012220001103574469999999999846898856999257


Q ss_pred             CC
Q ss_conf             53
Q 002563          333 ET  334 (907)
Q Consensus       333 eT  334 (907)
                      ..
T Consensus       246 ~~  247 (328)
T d2f8la1         246 AM  247 (328)
T ss_dssp             GG
T ss_pred             CC
T ss_conf             20

>d2ih2a1 c.66.1.27 (A:21-243) DNA methylase TaqI, N-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: DNA methylase TaqI, N-terminal domain
domain: DNA methylase TaqI, N-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=97.48  E-value=0.00038  Score=42.97  Aligned_cols=114  Identities=22%  Similarity=0.355  Sum_probs=69.6

Q ss_pred             CCHHHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCC----CCCCCCCCCCCCCCC
Q ss_conf             4025459999976410223899088614796537899999887607666443344577888----766212454202688
Q 002563          213 FTKVDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILPAKN----DFNFEKRDWMTVEPK  288 (907)
Q Consensus       213 FTK~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliqpKN----~fnFEkrDWmtVqp~  288 (907)
                      ||-.+-.+.+++.+.  ...+++|.|+|||...|...+.+.   ..+.+.+--+|+-+.--    .-++-..|++...+.
T Consensus         2 ~TP~~i~~~m~~l~~--~~~~~~IlDp~~G~G~fl~~~~~~---~~~~~~i~g~ei~~~~~~~~~~~~~~~~~~~~~~~~   76 (223)
T d2ih2a1           2 ETPPEVVDFMVSLAE--APRGGRVLEPACAHGPFLRAFREA---HGTAYRFVGVEIDPKALDLPPWAEGILADFLLWEPG   76 (223)
T ss_dssp             CCCHHHHHHHHHHCC--CCTTCEEEEETCTTCHHHHHHHHH---HCSCSEEEEEESCTTTCCCCTTEEEEESCGGGCCCS
T ss_pred             CCCHHHHHHHHHHCC--CCCCCEEEECCCCHHHHHHHHHHH---CCCCCEEEEEECCHHHHHHCCCCEEEEEEHHCCCCC
T ss_conf             797899999999528--899699997878657999999986---644552786645888885133322553201033433


Q ss_pred             CCCCCCEEEEEECCCCCCH----------------------------HHHHHHHHHHHHCCCCC--EEEEECCCCCC
Q ss_conf             8899880245418996301----------------------------33478998753113973--89995498532
Q 002563          289 ELAPGSRLIMGLNPPFGVK----------------------------AGLANKFINKALEFNPK--LLILIVPPETE  335 (907)
Q Consensus       289 ELP~Gs~LIMGLNPPFG~k----------------------------A~LANKFIdkAL~FkPK--LIILIvPpeTe  335 (907)
                         ..-.+|++ ||||+..                            ..+...|+.+|+.+--+  .+++|+|..+-
T Consensus        77 ---~~fd~ii~-npP~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Fi~~al~~lk~~G~~~~I~p~~~l  149 (223)
T d2ih2a1          77 ---EAFDLILG-NPPYGIVGEASKYPIHVFKAVKDLYKKAFSTWKGKYNLYGAFLEKAVRLLKPGGVLVFVVPATWL  149 (223)
T ss_dssp             ---SCEEEEEE-CCCCCCBSCTTTCSBCCCHHHHHHHHHHCTTCCTTCCHHHHHHHHHHHHEEEEEEEEEEEEGGGG
T ss_pred             ---CCCCEECC-CCCCCCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHCCCCCCEEEEEEEEEC
T ss_conf             ---23001024-68643345543353001233210011014557886057999999999840268866999841020

>d1wy7a1 c.66.1.32 (A:4-204) Hypothetical protein PH1948 {Archaeon Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Ta1320-like
domain: Hypothetical protein PH1948
species: Archaeon Pyrococcus horikoshii [TaxId: 53953]

Probab=95.68  E-value=0.006  Score=35.20  Aligned_cols=109  Identities=17%  Similarity=0.158  Sum_probs=59.3

Q ss_pred             CCCCCCCHHHHHHHHHHHHCCCC-CCCCCEEECCCCCCHHHHHHHHHHH--HHCCCCCC-------CCCCCCCCCCCCCC
Q ss_conf             45754402545999997641022-3899088614796537899999887--60766644-------33445778887662
Q 002563          208 SFGRHFTKVDKLQAIVDKLHWYV-NDGDMIVDFCCGANDFSCLMKKKLD--ETGKNCLY-------KNYDILPAKNDFNF  277 (907)
Q Consensus       208 SfGRHFTK~ekL~eIvdkLhwyV-~~GDtiVDfcCG~NdFS~LMk~KLe--~~gK~C~f-------KNyDliqpKN~fnF  277 (907)
                      ..+.++|-.+-..+++....-.- ..|..|+|+|||...++..+.....  -++.+...       +|.....  ...+|
T Consensus        21 ~l~qy~Tp~~~a~~~~~~~~~~~dl~g~~vLDlg~GtG~l~i~a~~~g~~~v~~vdi~~~~~~~a~~N~~~~~--~~~~~   98 (201)
T d1wy7a1          21 WLEQYRTPGNAASELLWLAYSLGDIEGKVVADLGAGTGVLSYGALLLGAKEVICVEVDKEAVDVLIENLGEFK--GKFKV   98 (201)
T ss_dssp             GGTCCCCCHHHHHHHHHHHHHTTSSTTCEEEEETCTTCHHHHHHHHTTCSEEEEEESCHHHHHHHHHHTGGGT--TSEEE
T ss_pred             CCCCCCCCHHHHHHHHHHHHHCCCCCCCEEEECCCCCHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHCC--CCCEE
T ss_conf             3312899999999999999965998999999876763699999997499879997076999999999999759--98559


Q ss_pred             CCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHH-HHHHHHHHCCCCC
Q ss_conf             1245420268888998802454189963013347-8998753113973
Q 002563          278 EKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFNPK  324 (907)
Q Consensus       278 EkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LA-NKFIdkAL~FkPK  324 (907)
                      ...|     ..+++.---+|+ .|||||.....+ ..|+.+++....-
T Consensus        99 ~~~d-----~~~~~~~fD~Vi-~nPP~~~~~~~~d~~~l~~~~~~~~~  140 (201)
T d1wy7a1          99 FIGD-----VSEFNSRVDIVI-MNPPFGSQRKHADRPFLLKAFEISDV  140 (201)
T ss_dssp             EESC-----GGGCCCCCSEEE-ECCCCSSSSTTTTHHHHHHHHHHCSE
T ss_pred             EECC-----HHHHCCCCCEEE-ECCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf             9775-----355077675898-76764311221217999998732323

>d1uwva2 c.66.1.40 (A:75-432) rRNA (Uracil-5-)-methyltransferase RumA, catalytic domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: (Uracil-5-)-methyltransferase
domain: rRNA (Uracil-5-)-methyltransferase RumA, catalytic domain
species: Escherichia coli [TaxId: 562]

Probab=95.58  E-value=0.023  Score=31.50  Aligned_cols=123  Identities=16%  Similarity=0.266  Sum_probs=69.1

Q ss_pred             CHHHHHHHHHHHHCCCCC--CCCCEEECCCCCCHHHHHHHHHHHH-------------HC---CCCCCCCCCCCCCCCCC
Q ss_conf             025459999976410223--8990886147965378999998876-------------07---66644334457788876
Q 002563          214 TKVDKLQAIVDKLHWYVN--DGDMIVDFCCGANDFSCLMKKKLDE-------------TG---KNCLYKNYDILPAKNDF  275 (907)
Q Consensus       214 TK~ekL~eIvdkLhwyV~--~GDtiVDfcCG~NdFS~LMk~KLe~-------------~g---K~C~fKNyDliqpKN~f  275 (907)
                      +..+-.+.+++.+.-++.  .+++++|++||...|+..+-++-..             ..   +.-...|...+......
T Consensus       192 ~N~~~~e~l~~~v~~~~~~~~~~~vlDLycG~G~fsl~La~~~~~V~gvE~~~~ai~~A~~na~~n~i~n~~~~~~~~~~  271 (358)
T d1uwva2         192 VNAGVNQKMVARALEWLDVQPEDRVLDLFCGMGNFTLPLATQAASVVGVEGVPALVEKGQQNARLNGLQNVTFYHENLEE  271 (358)
T ss_dssp             SBHHHHHHHHHHHHHHHTCCTTCEEEEESCTTTTTHHHHHTTSSEEEEEESCHHHHHHHHHHHHHTTCCSEEEEECCTTS
T ss_pred             CCHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCHHCCCCCCEEEECCCCHHHHHHHHHHHHHCCCCCCEEEECCHHH
T ss_conf             33034467798898752467884499953666655210035652798224749999999984875532462134220454


Q ss_pred             CCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEEC-CCCCCCCCCC---CCCCEEEE
Q ss_conf             6212454202688889988024541899630133478998753113973899954-9853224345---78821453
Q 002563          276 NFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEFNPKLLILIV-PPETERLDRK---ESAYELVW  348 (907)
Q Consensus       276 nFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~FkPKLIILIv-PpeTeRLD~K---~~pY~LiW  348 (907)
                      .+      ........  ..=++-||||=   +-+. ++|...+..+|+-||.|. =|.|---|-+   ..+|.|.+
T Consensus       272 ~~------~~~~~~~~--~~d~vilDPPR---~G~~-~~~~~l~~~~~~~ivYVSCnp~TlaRDl~~l~~~gy~l~~  336 (358)
T d1uwva2         272 DV------TKQPWAKN--GFDKVLLDPAR---AGAA-GVMQQIIKLEPIRIVYVSCNPATLARDSEALLKAGYTIAR  336 (358)
T ss_dssp             CC------SSSGGGTT--CCSEEEECCCT---TCCH-HHHHHHHHHCCSEEEEEESCHHHHHHHHHHHHHTTCEEEE
T ss_pred             HH------HHHHHHHC--CCCEEEECCCC---CCHH-HHHHHHHHCCCCEEEEEECCHHHHHHHHHHHHHCCCEEEE
T ss_conf             32------34455404--67559967997---3479-9999999749998999928989988779999877976759

>d1ne2a_ c.66.1.32 (A:) Hypothetical protein Ta1320 {Archaeon Thermoplasma acidophilum [TaxId: 2303]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Ta1320-like
domain: Hypothetical protein Ta1320
species: Archaeon Thermoplasma acidophilum [TaxId: 2303]

Probab=95.52  E-value=0.0066  Score=34.97  Aligned_cols=119  Identities=18%  Similarity=0.148  Sum_probs=64.0

Q ss_pred             CCCCCCHHHHHHHHHHHHCCCC-CCCCCEEECCCCCCHHHHHHHHHHH--HHCCCCCCCCCCCCCCCC--CCCCCCCCCC
Q ss_conf             5754402545999997641022-3899088614796537899999887--607666443344577888--7662124542
Q 002563          209 FGRHFTKVDKLQAIVDKLHWYV-NDGDMIVDFCCGANDFSCLMKKKLD--ETGKNCLYKNYDILPAKN--DFNFEKRDWM  283 (907)
Q Consensus       209 fGRHFTK~ekL~eIvdkLhwyV-~~GDtiVDfcCG~NdFS~LMk~KLe--~~gK~C~fKNyDliqpKN--~fnFEkrDWm  283 (907)
                      ..-..|-.+-..+++..+.-.- ..|.+|+|+|||..-++..+....-  -++-++....-++.. +|  +.+|...|+ 
T Consensus        24 leQy~T~~~~a~~~~~~~~~~~dl~Gk~VLDlGcGtG~l~i~a~~~ga~~V~~vDid~~a~~~ar-~N~~~~~~~~~D~-  101 (197)
T d1ne2a_          24 LEQYPTDASTAAYFLIEIYNDGNIGGRSVIDAGTGNGILACGSYLLGAESVTAFDIDPDAIETAK-RNCGGVNFMVADV-  101 (197)
T ss_dssp             ---CCCCHHHHHHHHHHHHHHTSSBTSEEEEETCTTCHHHHHHHHTTBSEEEEEESCHHHHHHHH-HHCTTSEEEECCG-
T ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCCCEEEEECCCCCHHHHHHHHCCCCCCCCCCCCHHHHHHHH-HCCCCCCEEEEEH-
T ss_conf             03589998999999999987599897999990798719999999758873230146999999999-7354015799762-


Q ss_pred             CCCCCCCCCCCEEEEEECCCCCCHHHHH-HHHHHHHHCCCCCEEEEECCCCCC
Q ss_conf             0268888998802454189963013347-899875311397389995498532
Q 002563          284 TVEPKELAPGSRLIMGLNPPFGVKAGLA-NKFINKALEFNPKLLILIVPPETE  335 (907)
Q Consensus       284 tVqp~ELP~Gs~LIMGLNPPFG~kA~LA-NKFIdkAL~FkPKLIILIvPpeTe  335 (907)
                          .+++. .-=++-.|||||.+...+ -.|+++|+.-. ++|..|-...+.
T Consensus       102 ----~~l~~-~fD~Vi~NPPfg~~~~~~D~~fl~~a~~~~-~~iy~ih~~~~~  148 (197)
T d1ne2a_         102 ----SEISG-KYDTWIMNPPFGSVVKHSDRAFIDKAFETS-MWIYSIGNAKAR  148 (197)
T ss_dssp             ----GGCCC-CEEEEEECCCC-------CHHHHHHHHHHE-EEEEEEEEGGGH
T ss_pred             ----HHCCC-CCEEEEECCCCCHHHHHCHHHHHHHHHHCC-CEEEEEHHHHHH
T ss_conf             ----20377-400887276645013323199999987148-719971665389

>d2esra1 c.66.1.46 (A:28-179) Putative methyltransferase SPy1538 {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Putative methyltransferase SPy1538
species: Streptococcus pyogenes [TaxId: 1314]

Probab=92.31  E-value=0.14  Score=26.43  Aligned_cols=126  Identities=16%  Similarity=0.281  Sum_probs=71.2

Q ss_pred             HHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCC------------CCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             999764102238990886147965378999998876076664------------43344577888766212454202688
Q 002563          221 AIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCL------------YKNYDILPAKNDFNFEKRDWMTVEPK  288 (907)
Q Consensus       221 eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~------------fKNyDliqpKN~fnFEkrDWmtVqp~  288 (907)
                      .+..-|-.|+ .|..|+|++||...|+--.   +..--+.+.            -+|...+..++.+.+-+.|+...-. 
T Consensus         4 ~~fn~l~~~~-~g~~vlDl~~GtG~~~iea---~~rga~~v~~ve~~~~a~~~~~~n~~~~~~~~~~~ii~~D~~~~l~-   78 (152)
T d2esra1           4 AIFNMIGPYF-NGGRVLDLFAGSGGLAIEA---VSRGMSAAVLVEKNRKAQAIIQDNIIMTKAENRFTLLKMEAERAID-   78 (152)
T ss_dssp             HHHHHHCSCC-CSCEEEEETCTTCHHHHHH---HHTTCCEEEEECCCHHHHHHHHHHHHTTTCGGGEEEECSCHHHHHH-
T ss_pred             HHHHHHHHHC-CCCEEEECCCCCCHHHHHH---HHHCCCEEEEEHHCHHHHHHHHHHHHHCCCCCCHHHHCCCCCCCCC-
T ss_conf             9998878667-9996999178207999999---8727640553111624432100322201333201121023221001-


Q ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHC---CCCCEEEEE-CCCCCCCCCCCCCCCEEEECCCCCCCCCC
Q ss_conf             88998802454189963013347899875311---397389995-49853224345788214531554347841
Q 002563          289 ELAPGSRLIMGLNPPFGVKAGLANKFINKALE---FNPKLLILI-VPPETERLDRKESAYELVWEDDQFLSGKS  358 (907)
Q Consensus       289 ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~---FkPKLIILI-vPpeTeRLD~K~~pY~LiWED~~~LsGkS  358 (907)
                       .+.+..=|+=+||||..  .+..++++....   .+|.-+|+| .++.. .++.....|. +|+++..  |++
T Consensus        79 -~~~~~fDiIf~DPPy~~--~~~~~~l~~i~~~~~L~~~g~iiiE~~~~~-~~~~~~~~~~-i~~~k~y--G~t  145 (152)
T d2esra1          79 -CLTGRFDLVFLDPPYAK--ETIVATIEALAAKNLLSEQVMVVCETDKTV-LLPKEIATLG-IWKEKIY--GIS  145 (152)
T ss_dssp             -HBCSCEEEEEECCSSHH--HHHHHHHHHHHHTTCEEEEEEEEEEEETTC-CCCSEETTEE-EEEEEEE--TTE
T ss_pred             -CCCCCCCEEEECHHHCC--CHHHHHHHHHHHCCCCCCCEEEEEEECCCC-CCCCCCCCCE-EEEEEEC--CCE
T ss_conf             -22233432676222101--069999999998798389859999817987-8865677646-9999951--979

>d1ws6a1 c.66.1.46 (A:15-185) Methyltransferase TTHA0928 {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Methyltransferase TTHA0928
species: Thermus thermophilus [TaxId: 274]

Probab=85.55  E-value=0.086  Score=27.75  Aligned_cols=104  Identities=13%  Similarity=0.119  Sum_probs=49.6

Q ss_pred             HHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCC------------CCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             99997641022389908861479653789999988760766644------------334457788876621245420268
Q 002563          220 QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLY------------KNYDILPAKNDFNFEKRDWMTVEP  287 (907)
Q Consensus       220 ~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~f------------KNyDliqpKN~fnFEkrDWmtVqp  287 (907)
                      +.+.+-|.-++..|..|+|+|||...++.-.   +.. |..+.+            +|...+.-.+...+...|.+.- .
T Consensus        29 e~lf~~l~~~~~~g~~vLDl~~G~G~~~i~a---~~~-ga~vv~vD~~~~a~~~~~~N~~~~~~~~~v~~~~~d~~~~-~  103 (171)
T d1ws6a1          29 KALFDYLRLRYPRRGRFLDPFAGSGAVGLEA---ASE-GWEAVLVEKDPEAVRLLKENVRRTGLGARVVALPVEVFLP-E  103 (171)
T ss_dssp             HHHHHHHHHHCTTCCEEEEETCSSCHHHHHH---HHT-TCEEEEECCCHHHHHHHHHHHHHHTCCCEEECSCHHHHHH-H
T ss_pred             HHHHHHHHCCCCCCCEEEEECCCCCHHHHHH---HHC-CCHHHHCCCCHHHHHHHHHHHHHHCCCCCEEEEEHHCCCC-C
T ss_conf             9999986201569986998125311154543---312-1012102468788765667887622432125420102331-0


Q ss_pred             CCCCCCCEEEEEECCCCCCHH-HHHHHHHHHHHCCCCCEEEEE
Q ss_conf             888998802454189963013-347899875311397389995
Q 002563          288 KELAPGSRLIMGLNPPFGVKA-GLANKFINKALEFNPKLLILI  329 (907)
Q Consensus       288 ~ELP~Gs~LIMGLNPPFG~kA-~LANKFIdkAL~FkPKLIILI  329 (907)
                      ........=++-+||||+... .+...++.+.+ .+|.=+|++
T Consensus       104 ~~~~~~~fD~If~DPPY~~~~~~~l~~l~~~~l-l~~~g~ivi  145 (171)
T d1ws6a1         104 AKAQGERFTVAFMAPPYAMDLAALFGELLASGL-VEAGGLYVL  145 (171)
T ss_dssp             HHHTTCCEEEEEECCCTTSCTTHHHHHHHHHTC-EEEEEEEEE
T ss_pred             CCCCCCCCCEEEECCCCCCCHHHHHHHHHHCCC-CCCCEEEEE
T ss_conf             124577633058736555688999999998098-487969999

>d1ej0a_ c.66.1.2 (A:) RNA methyltransferase FtsJ {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: RNA methyltransferase FtsJ
domain: RNA methyltransferase FtsJ
species: Escherichia coli [TaxId: 562]

Probab=83.84  E-value=0.77  Score=21.60  Aligned_cols=51  Identities=22%  Similarity=0.323  Sum_probs=37.3

Q ss_pred             HHHHHHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCC
Q ss_conf             5459999976410223899088614796537899999887607666443344577
Q 002563          216 VDKLQAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCLYKNYDILP  270 (907)
Q Consensus       216 ~ekL~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~fKNyDliq  270 (907)
                      .+||.||.+|.. .+.+++.|||+||+-..|++-+.++....++   ---.|+.+
T Consensus         7 afKL~EI~~k~~-l~k~~~~vlDLg~aPGgw~q~~~~~~~~~~~---v~~vDl~~   57 (180)
T d1ej0a_           7 WFKLDEIQQSDK-LFKPGMTVVDLGAAPGGWSQYVVTQIGGKGR---IIACDLLP   57 (180)
T ss_dssp             HHHHHHHHHHHC-CCCTTCEEEEESCTTCHHHHHHHHHHCTTCE---EEEEESSC
T ss_pred             HHHHHHHHHHHC-CCCCCCEEEEEECCCCCCEEEEEEECCCCCE---EEEEECCC
T ss_conf             999999999848-5679986999851289642898751465431---78750454

>d2fpoa1 c.66.1.46 (A:10-192) Methylase YhhF {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: YhhF-like
domain: Methylase YhhF
species: Escherichia coli [TaxId: 562]

Probab=83.39  E-value=1.1  Score=20.53  Aligned_cols=128  Identities=19%  Similarity=0.235  Sum_probs=64.1

Q ss_pred             HHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHHCCCCC------------CCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9999764102238990886147965378999998876076664------------4334457788876621245420268
Q 002563          220 QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDETGKNCL------------YKNYDILPAKNDFNFEKRDWMTVEP  287 (907)
Q Consensus       220 ~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~gK~C~------------fKNyDliqpKN~fnFEkrDWmtVqp  287 (907)
                      +.+.+-|..++ .+-.|+|+|||...++.=.   ++.-.+.|.            -+|...+... +..+-..|++..-.
T Consensus        32 e~lfn~l~~~~-~~~~vLDlfaGsG~~giea---lsrGa~~v~~VE~~~~a~~~~k~N~~~~~~~-~~~ii~~d~~~~l~  106 (183)
T d2fpoa1          32 ETLFNWLAPVI-VDAQCLDCFAGSGALGLEA---LSRYAAGATLIEMDRAVSQQLIKNLATLKAG-NARVVNSNAMSFLA  106 (183)
T ss_dssp             HHHHHHHHHHH-TTCEEEETTCTTCHHHHHH---HHTTCSEEEEECSCHHHHHHHHHHHHHTTCC-SEEEECSCHHHHHS
T ss_pred             HHHHHHHHCCC-CHHHHHHHHCCCCCEEEEE---EECCCCEEEEEEEEECHHHHHHHHHHHCCCC-CEEEEEECCCCCCC
T ss_conf             99973410133-0325334311334334667---7437621579997313056788777640343-30466302232212


Q ss_pred             CCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHC---CCCCEEEEE-CCCCCCCCCCCCCCCEEEECCCCCCCCCCEE
Q ss_conf             888998802454189963013347899875311---397389995-4985322434578821453155434784111
Q 002563          288 KELAPGSRLIMGLNPPFGVKAGLANKFINKALE---FNPKLLILI-VPPETERLDRKESAYELVWEDDQFLSGKSFY  360 (907)
Q Consensus       288 ~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~---FkPKLIILI-vPpeTeRLD~K~~pY~LiWED~~~LsGkSFY  360 (907)
                      .  .....=++=++|||+.  .+..+.++....   .+|.-+|+| .+..++ ++.....|.++ ..+..  |++.+
T Consensus       107 ~--~~~~fDlIf~DPPY~~--~~~~~~l~~l~~~~~L~~~~iIiiE~~~~~~-~~~~~~~~~i~-k~k~y--G~t~i  175 (183)
T d2fpoa1         107 Q--KGTPHNIVFVDPPFRR--GLLEETINLLEDNGWLADEALIYVESEVENG-LPTVPANWSLH-REKVA--GQVAY  175 (183)
T ss_dssp             S--CCCCEEEEEECCSSST--TTHHHHHHHHHHTTCEEEEEEEEEEEEGGGC-SCCCCTTEEEE-EEEEE--TTEEE
T ss_pred             C--CCCCCCEEEECCCCCC--CHHHHHHHHHHHCCCCCCCEEEEEEECCCCC-CCCCCCCCEEE-EEEEE--CCEEE
T ss_conf             4--5432678998274435--6399999999978887998299999627678-66588883999-99970--86999

>d1dusa_ c.66.1.4 (A:) Hypothetical protein MJ0882 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: S-adenosyl-L-methionine-dependent methyltransferases
superfamily: S-adenosyl-L-methionine-dependent methyltransferases
family: Hypothetical protein MJ0882
domain: Hypothetical protein MJ0882
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=82.71  E-value=0.68  Score=21.96  Aligned_cols=129  Identities=17%  Similarity=0.279  Sum_probs=67.4

Q ss_pred             CCCCCCCCCCCC---C---CCCCCCHHHHH-HHHHHHHCCCCCCCCCEEECCCCCCHHHHHHHHHHHHH-CCCCCC----
Q ss_conf             012322455323---4---57544025459-99997641022389908861479653789999988760-766644----
Q 002563          196 YLAPFLHGMRYT---S---FGRHFTKVDKL-QAIVDKLHWYVNDGDMIVDFCCGANDFSCLMKKKLDET-GKNCLY----  263 (907)
Q Consensus       196 YLAPfLhG~RYT---S---fGRHFTK~ekL-~eIvdkLhwyV~~GDtiVDfcCG~NdFS~LMk~KLe~~-gK~C~f----  263 (907)
                      ++..+|.|..++   .   |++.+.  +.. +-.++.|  ...+++.|+|++||...++..+.+..-.+ +.+.+-    
T Consensus        13 ~~~~~~~g~~~~~~t~~gvF~~~~~--d~~t~lLi~~l--~~~~~~~VLDiGcG~G~~~~~la~~~~~v~~iD~s~~~i~   88 (194)
T d1dusa_          13 IVEDILRGKKLKFKTDSGVFSYGKV--DKGTKILVENV--VVDKDDDILDLGCGYGVIGIALADEVKSTTMADINRRAIK   88 (194)
T ss_dssp             EEEEEETTEEEEEEEETTSTTTTSC--CHHHHHHHHHC--CCCTTCEEEEETCTTSHHHHHHGGGSSEEEEEESCHHHHH
T ss_pred             EEEEEECCEEEEEECCCCCCCCCCC--CHHHHHHHHHC--CCCCCCEEEEEEECCCHHHHHHHHHCCCCCEEEECCCCCH
T ss_conf             8889988906899768986689986--99999999837--7488982999951178627888751013411310001001


Q ss_pred             ---CCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCC-CCC-EEEEECCC
Q ss_conf             ---3344577888-766212454202688889988024541899630133478998753113-973-89995498
Q 002563          264 ---KNYDILPAKN-DFNFEKRDWMTVEPKELAPGSRLIMGLNPPFGVKAGLANKFINKALEF-NPK-LLILIVPP  332 (907)
Q Consensus       264 ---KNyDliqpKN-~fnFEkrDWmtVqp~ELP~Gs~LIMGLNPPFG~kA~LANKFIdkAL~F-kPK-LIILIvPp  332 (907)
                         +|.....-++ ...|...||+.    .++.++.=++-.||||-..-....+|+..+... +|. .|++++..
T Consensus        89 ~a~~n~~~~~l~~~~i~~~~~d~~~----~~~~~~fD~Ii~~~p~~~~~~~~~~~l~~~~~~LkpgG~l~i~~~~  159 (194)
T d1dusa_          89 LAKENIKLNNLDNYDIRVVHSDLYE----NVKDRKYNKIITNPPIRAGKEVLHRIIEEGKELLKDNGEIWVVIQT  159 (194)
T ss_dssp             HHHHHHHHTTCTTSCEEEEECSTTT----TCTTSCEEEEEECCCSTTCHHHHHHHHHHHHHHEEEEEEEEEEEES
T ss_pred             HHHHHHHHHCCCCCEEEEEECCHHH----HHCCCCCEEEEECCCEEECCHHHHHHHHHHHHHCCCCCEEEEEEEC
T ss_conf             6777788737765228999712455----3136775299986647861213466899999850868499999967