Citrus Sinensis ID: 000471

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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-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070------1080------1090------1100------1110------1120------1130------1140------1150------1160------1170------1180------1190------1200------1210------1220------1230------1240------1250------1260------1270------1280------1290------1300------1310------1320------1330------1340------1350------1360------1370------1380------1390------1400------1410------1420------1430------1440------1450------1460------1470--
Protein Sequence
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQISS
Secondary Structure (PSIPRED)
cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccccccHHHHHHHHHHHcccccccccccEEEEEEEcccccHHHHHHHHHHcHHHHcccccEEEEEEcccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccEEEEEEcccccccHHcHHHHHHHHcccccccEEEEEcccHHHHHHHccccccccccccHHHHHHHHHHHccccccccccccHHHHHHHHHHHccccHHHHHHHHccccccccHHHHHHHHcccccccccccccHHHHccccccccccHHHccccccccccccccHHHHHHHHHHccccccccccccHHHHHHHHHHHHHHccccccccccccccEEcHHHHHHHHHHHHcccEEEcccccccccccccccEEEEEEEEcccccccccccccccccccEEEccccccccccccHHHHHHHHHcccccccEEEccccccccccccccccccccccccccccccccccHHHHHccccccccccccccccccHHHccccccccEEEcccccccccccccccccccccccccEEEcccccccccccccccccccEEEEEcccccccccccHHcccccccccccEEEEEcccccccccHHHHHHHHccccccccccccEEEEEccccccccccccccccccEEEEEccccccccccccccccccccccccccccEEEcccccccccccccccccEEEEccccccccccccccccccccccccccEEEEcccccccccccccccccEEEEEEccccccccccccccccEEEEcccccccccccccccHHHHccccccccccccccccccccccEEEcccccccccccccccccccccccccccEEEEEcccccccccccccccccccEEEEEccccccccccccccccccEEEEccccccccccHHHHccccccccEEEEEccccccccccccccccccEEEEEcccccccccHHHHccccccccEEEEEccccccccccccccccccEEEEcccccccccccccccccccccccccccccccccccccccEEEEEcccccccccccccccccccEEEEEccccccccccccccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccEEEEEcccccccccccccccccccEEEEEccccccccccccccccccEEEEEccccccccccccccccccccEEEEEcccccccccccccccccEEEEEcccccccccccccccccccEEEEEccccccccccccccccccEEEEcccHHHHHHHcccccccccccccccEEEEccEEcc
Secondary Structure Prediction (SSPRO)
cHHHHHHHHHHHHHHHHHHHccHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccHHHccccccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccccccccccccccccccccccccccEEcccHHHHHHHHHHHcccccccccEEEEEEEccccccHHHHHHHHHccHHHHHHccEEEEEEEcccccHHHHHHHHHHHHccccccccccHHHHHHHHHHHHcccEEEEEEEccccccHHHHHHHHHHHHccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHHcccccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHcHHHcccccccHHHHHEcHHccccHHHHHHHEHHcccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHHHHHcccccccccEEHHHHHHHHHHHHcccEEEEEcccccccccccccccEEEEEEEcccccccccccHHHHHHHccEEccccccccccccccHHHHHHHHHHHcEEEEEEcccccccccccccHccHHHHEEEEccccccccccHHHHHHHHHHHHHHcccHHHHHccHHHHcccccEEEEccccccccccccccccHHHHcEccEEEEcccccccHHHHHHHHHcccEEEEccccccccHHHHHHHcHHccccccEEEEEEcccccccccccHHHHHHHHHcccccccEEEEEEccccccccccccccccccEEEEEEccccccccccccccccHcEEEEcccccEEEccHHHcccccccccccccEEEEcccHHHHHHccccccccHccccccHcEEEEcccccHccccccccccccEEEEcccccccccccccccccEEEEEcccccEcccccHccHHHcHHHccccccccccccccccccEEEEEccccccEcccccccccccccccccccEEEEcccccHHcccHHccccccccEEEEcccccccccccccccccccEEEEEccccccccccHccccccccccEEEEcccccccccccccccccccEEEEcccccHccccHHHccccccccEEEEEcccccccccccccccccccEEEEcccccccccccHHcHHHHHcccccHHHccHHccccccccEEEEcccccHcccccccccccccEEEEEcccccccccccccccccccEEEEcccccHccccccccccccccEEEEccccccccccccccccccccEEEEcccHcHccccHHccccccccEEEEcccccccccccccccccccEEEEcccHHHHHccHHHccccccccEEEEccccccccccccccccccEEEEcccccHHcccccccccccccEEEEcccccHcccccccccccccEEEEcccHHHHHHHHcccccccccEEEccEEEEcccEcc
Coil and Loop (DISEMBL)
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADaedrqtkdESVKTWLDDLQNLAYDAEDVLDELETEALRRELLrqepaaadqpsssantskfrkliptcctnfsprsiQFESKMASQIEEVTARLQSIISTQKDLLKLKNVisdgksrnirqrlpttslvnEAKVYGREKEKEEIIELLLnddlrgddgfSVISIngmggvgkTTLAQLVYNDDRVQRHYEIKAwtcvsedfdvFRISKSILNsvasdqckdkdDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRwselrcpfvagaagskiVVTTRNLVVaermgadpvyqlkelsdddclcvltqislgardftrhLSLKEVGEQIVIKCGGLPLAAKTLggllrgrddprdwEFVLKTDiwnlrdsdilpalrvsyhflppqlkQCFAYcslfpkdyefQEEEIILLWTAEGlldqeyngrkmEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFrmegtlkgenqQKFSESLRHFSYIcgeydgdtrleFICDVQhlrtflpvnlsdyrhNYLAWSVLQRLLNHlprlrvfslrgcgnifnlpneignlkhlrclnlsrtRIQILPESINSLYNLHTILLEDCHQLKKLCKDmgnlrklhhLRNSTAnslkempkgfgKLTSLLTLGrfvvgkdsgsglreLKSLTHLqgtlrisklenvkdvgdaseaQLNNKVNLEALLLKWSArdvqnldqcefeTHVLSVlkphrdvqeltitgyggtkfpiwlgdssfSKLARLELrrctstslpsvgqlpflkelrisgmdgvksvgsefygnsrsvpfpsletlsffdmreweewipcgageevdeVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQClpalselqidgckrvvfssphlvhAVNVRKQAYfwrsetrlpqdirslnrlqisrcpqllslvteeehdqqqpespcrlqflklskcegltrlpQALLTLSSLTEMRISGCaslvsfpqaalpshlrtvkiedcnaleslpeawmhnsnssleslkirncnslvsfpevalpsqlrTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARiqlppslkRLIVSRCWNLRtligeqdicsssrgctsltyfsseneLPTMLEHLQVRFcsnlaflsrngnlpqALKYLRVEDCSKLESLAErldntsleEITISVLENLkslpadlhNLHHLQKIWInycpnlesfpeeglpstklteltiydcenlkalpncMHNLTSLLILEirgcpsvvsfpedgfptnlqslevrglkiskplpewgfnrftsLRRFTicggcpdlvspppfpasltnlwisdmpdlesissigenltsletlrlfncpklkyfpeqglpkslsrlsihncpliekrcrkdegkywpmishlpRVLINWQISS
Flexible Loop (DISEMBL)
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLadaedrqtkdESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRqepaaadqpsssantskfrKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLknvisdgksrnirqrlpttslvneakvygrekekEEIIELLlnddlrgdDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILnsvasdqckdKDDLNLLQEKLkkqlsgnkflLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGgllrgrddprdWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSlfqqsskdasRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNStanslkempKGFGKLTSLLTLGRFVVgkdsgsglrelkslthlqgtlrisklenvKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHvlsvlkphrdVQELTItgyggtkfpiWLGDSSFSKLARLELRRctstslpsvgqlpfLKELRISGMDGVKSVGSefygnsrsvpfpSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEehdqqqpesPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARiqlppslkrLIVSRCWNLRTLigeqdicsssrgCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLaerldntslEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCrkdegkywpmishlprvlinwqiss
Low Complexity Region (SEG)
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVldeletealrrellrqepaaaDQPSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSLVNEAKVYGRekekeeiielllnddlrgddgFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCkdkddlnllqeklkkqlSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTlpkrlllletlVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQISS
Disordered region (IsUnstruct)
***IGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADA********SVKTWLDDLQNLAYDAEDVLD*******************************RKLIPTCCTNFSPRSIQF*******IEEVTARLQSIISTQKDLLKLKNVI****************LVNEAKVYGR**EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRE**************SRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLR***********KGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGD**EAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLV*************CRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHN***SLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQI**
Disordered Region (DISOPRED)
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRR****************ANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLL************************NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS***********LQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGAR**TRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDV*********THVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS**NELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQIS*
Disordered Region (DISEMBL)
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLAD*********SVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQ***************KFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLV************PCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQISS
Disordered Region (DISPRO)
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQ**************SKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLK*********************LVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQIS*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooHHHHHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooHHHHHHHHHHHHHHHHiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxPAAADQPSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQISS
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	1472	2.2.26 [Sep-21-2011]
Q9LRR4	1054	Putative disease resistan	yes	no	0.669	0.935	0.387	0.0
Q9LRR5	1424	Putative disease resistan	no	no	0.599	0.620	0.368	1e-154
Q7XBQ9	970	Disease resistance protei	N/A	no	0.615	0.934	0.332	1e-133
Q7XA39	988	Putative disease resistan	N/A	no	0.639	0.953	0.334	1e-132
Q7XA42	979	Putative disease resistan	N/A	no	0.627	0.943	0.326	1e-132
Q7XA40	992	Putative disease resistan	N/A	no	0.616	0.914	0.335	1e-128
Q38834	852	Disease resistance RPP13-	no	no	0.545	0.942	0.270	6e-63
Q8W3K3	910	Putative disease resistan	no	no	0.557	0.901	0.260	2e-56
Q9SX38	857	Putative disease resistan	no	no	0.377	0.647	0.299	2e-54
P0C8S1	906	Probable disease resistan	no	no	0.472	0.767	0.274	7e-53

>sp|Q9LRR4|R13L1_ARATH Putative disease resistance RPP13-like protein 1 OS=Arabidopsis thaliana GN=RPPL1 PE=3 SV=1

 Score =  654 bits (1688), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 413/1067 (38%), Positives = 619/1067 (58%), Gaps = 81/1067 (7%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFI-KWKRMLKMIKAVLADAEDRQ 59
            M+ IGE  L+A ++ L + L S+    F + ++L  + + +    L  I AVL DAE++Q
Sbjct: 1    MTGIGEMFLAAFLQALFQTLVSEPFRSFFKRRELNENLLERLSTALLTITAVLIDAEEKQ 60

Query: 60   TKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLI 119
              +  V+ W+++L+++ Y AED LD++ TEALR  +         + SSS    + R  +
Sbjct: 61   ITNPVVEKWVNELRDVVYHAEDALDDIATEALRLNI-------GAESSSSNRLRQLRGRM 113

Query: 120  PTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPT 179
             +        S   E+++    E+VT RL+ + S Q+++L LK + +       +QRLPT
Sbjct: 114  -SLGDFLDGNSEHLETRL----EKVTIRLERLAS-QRNILGLKELTAMIP----KQRLPT 163

Query: 180  TSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV 239
            TSLV+E++V+GR+ +K+EI+  L+ ++ + D+G +V++I G+GGVGKTTL+QL+YND  V
Sbjct: 164  TSLVDESEVFGRDDDKDEIMRFLIPENGK-DNGITVVAIVGIGGVGKTTLSQLLYNDQHV 222

Query: 240  QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNK--FLL 297
            + ++  K W  VSE+FDVF+I+K +  SV S  C +  DL++LQ KLK++L+G    FLL
Sbjct: 223  RSYFGTKVWAHVSEEFDVFKITKKVYESVTSRPC-EFTDLDVLQVKLKERLTGTGLPFLL 281

Query: 298  VLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLC 357
            VLDD+WNEN+  W  LR PF+  A GS+I+VTTR+  VA  M A  V+ L+ LSD DC  
Sbjct: 282  VLDDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWS 341

Query: 358  VLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDI 417
            +  +   G ++   +  + ++ E+IV KC GLPLA KTLGG+LR      +WE VL + I
Sbjct: 342  LFMKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRI 401

Query: 418  WNL--RDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEY 475
            W+L    S++LP LRVSY++LP  LK+CFAYCS+FPK + F++++++LLW AEG L Q  
Sbjct: 402  WDLPADKSNLLPVLRVSYYYLPAHLKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTR 461

Query: 476  NGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGE 535
            + + +E+LG E+  EL SRSL Q   K  +R++MHD IN+LA++A+GE   + E   K  
Sbjct: 462  SSKNLEELGNEYFSELESRSLLQ---KTKTRYIMHDFINELAQFASGEFSSKFEDGCK-- 516

Query: 536  NQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSD-YRHNYLAWSVLQRLL 594
               + SE  R+ SY+   Y      E + +V+ LRTFLP++L++  R   L   V ++LL
Sbjct: 517  --LQVSERTRYLSYLRDNYAEPMEFEALREVKFLRTFLPLSLTNSSRSCCLDQMVSEKLL 574

Query: 595  NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLED 654
              L RLRV SL         P+   N+ H R L+LSRT ++ LP+S+  +YNL T+LL  
Sbjct: 575  PTLTRLRVLSLSHYKIARLPPDFFKNISHARFLDLSRTELEKLPKSLCYMYNLQTLLLSY 634

Query: 655  CHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
            C  LK+L  D+ NL  L +L +     L++MP+ FG+L SL TL  F V    GS + EL
Sbjct: 635  CSSLKELPTDISNLINLRYL-DLIGTKLRQMPRRFGRLKSLQTLTTFFVSASDGSRISEL 693

Query: 715  KSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKW-----SARDVQNLDQCEF 769
              L  L G L+I +L+ V DV DA+EA LN+K +L  +   W     S+ +  N  + + 
Sbjct: 694  GGLHDLHGKLKIVELQRVVDVADAAEANLNSKKHLREIDFVWRTGSSSSENNTNPHRTQN 753

Query: 770  ETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTS-TSLPSVGQLP 828
            E  V   L+PHR +++L I  Y G +FP WL D SFS++  + LR C   TSLPS+GQLP
Sbjct: 754  EAEVFEKLRPHRHIEKLAIERYKGRRFPDWLSDPSFSRIVCIRLRECQYCTSLPSLGQLP 813

Query: 829  FLKELRISGMDGVKSVGSEFYGN------SRSVPFPSLETLSFFDMREWEEWIPCGAGEE 882
             LKEL ISGM G++S+G +FY +          PF SLETL F ++ +W+EW+       
Sbjct: 814  CLKELHISGMVGLQSIGRKFYFSDQQLRDQDQQPFRSLETLRFDNLPDWQEWLDVRVTR- 872

Query: 883  VDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCK 942
              ++FP L+KL +  C +L GTLP                       LP+L  L I  C 
Sbjct: 873  -GDLFPSLKKLFILRCPELTGTLPT---------------------FLPSLISLHIYKCG 910

Query: 943  RVVFSSPHLVHAVNVRK-QAYFWRSE----TRLP-QDIRSLNRLQISRCPQLLSLVTEEE 996
             + F   H  H  + R  Q    +S      + P     +L++L++ +C  L SL    E
Sbjct: 911  LLDFQPDH--HEYSYRNLQTLSIKSSCDTLVKFPLNHFANLDKLEVDQCTSLYSLELSNE 968

Query: 997  HDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASL 1043
            H +     P  L+ L+++ C+ L  LP+ L  L    ++ I+ C  L
Sbjct: 969  HLR----GPNALRNLRINDCQNLQLLPK-LNALPQNLQVTITNCRYL 1010

Potential disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|Q9LRR5|DRL21_ARATH Putative disease resistance protein At3g14460 OS=Arabidopsis thaliana GN=At3g14460 PE=3 SV=1

 Score =  546 bits (1406), Expect = e-154,   Method: Compositional matrix adjust.
 Identities = 344/933 (36%), Positives = 518/933 (55%), Gaps = 50/933 (5%)

Query: 4   IGEAVLSASVELLIEKL-ASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKD 62
           +  + LS+   +++E++  S+ L    + K   A   + K  L     VLADA+ R    
Sbjct: 1   MANSYLSSCANVMVERINTSQELVELCKGKSSSALLKRLKVALVTANPVLADADQRAEHV 60

Query: 63  ESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTC 122
             VK WL  +++  + AED+LDEL+TEALRR ++ +   A        N    R+ I   
Sbjct: 61  REVKHWLTGIKDAFFQAEDILDELQTEALRRRVVAE---AGGLGGLFQNLMAGREAI--- 114

Query: 123 CTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSL 182
                      + K+  ++E+V   L+  +    +++ LK      ++R  + R  + S 
Sbjct: 115 -----------QKKIEPKMEKVVRLLEHHVK-HIEVIGLKEY---SETREPQWRQASRSR 159

Query: 183 VN---EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV 239
            +   + ++ GR ++K  ++ LLL+DD       +VIS+ GM GVGKTTL ++V+ND RV
Sbjct: 160 PDDLPQGRLVGRVEDKLALVNLLLSDDEISIGKPAVISVVGMPGVGKTTLTEIVFNDYRV 219

Query: 240 QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVL 299
             H+E+K W     +F+VF ++K++L  + S    + +DL  LQ +LKK LSG +FLLVL
Sbjct: 220 TEHFEVKMWISAGINFNVFTVTKAVLQDITSSAV-NTEDLPSLQIQLKKTLSGKRFLLVL 278

Query: 300 DDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVL 359
           DD W+E+   W   +  F     GSKIV+TTR+ +V+    A+ +YQ+K +++++C  ++
Sbjct: 279 DDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSEIVSTVAKAEKIYQMKLMTNEECWELI 338

Query: 360 TQISLGARDF-TRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIW 418
           ++ + G     + +  L+ +G++I  +C GLPLAA+ +   LR + +P DW  V K   +
Sbjct: 339 SRFAFGNISVGSINQELEGIGKRIAEQCKGLPLAARAIASHLRSKPNPDDWYAVSKN--F 396

Query: 419 NLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGR 478
           +   + ILP L++SY  LPPQLK+CFA CS+FPK + F  EE++LLW A  LL Q  + R
Sbjct: 397 SSYTNSILPVLKLSYDSLPPQLKRCFALCSIFPKGHVFDREELVLLWMAIDLLYQPRSSR 456

Query: 479 KMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQ 538
           ++ED+G +++ +L ++S FQ+     + FVMHDL+NDLA+  +G+  FR+E     +N  
Sbjct: 457 RLEDIGNDYLGDLVAQSFFQRLDITMTSFVMHDLMNDLAKAVSGDFCFRLE----DDNIP 512

Query: 539 KFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNL-SDYRHNYLAWSVLQRLLNHL 597
           +   + RHFS+   + D       IC  + LRT LP N  +      L   VL  LLN L
Sbjct: 513 EIPSTTRHFSFSRSQCDASVAFRSICGAEFLRTILPFNSPTSLESLQLTEKVLNPLLNAL 572

Query: 598 PRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQ 657
             LR+ SL     I NLP  +  LK LR L+LS T+I+ LPE + +L NL T+LL +C  
Sbjct: 573 SGLRILSLSHY-QITNLPKSLKGLKLLRYLDLSSTKIKELPEFVCTLCNLQTLLLSNCRD 631

Query: 658 LKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSL 717
           L  L K +  L  L  L +     L EMP G  KL SL  L  FV+G+ SG+GL ELK L
Sbjct: 632 LTSLPKSIAELINL-RLLDLVGTPLVEMPPGIKKLRSLQKLSNFVIGRLSGAGLHELKEL 690

Query: 718 THLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQ------NLDQCEFET 771
           +HL+GTLRIS+L+NV    +A +A L  K  L+ L+LKW+ +         N   C+ + 
Sbjct: 691 SHLRGTLRISELQNVAFASEAKDAGLKRKPFLDGLILKWTVKGSGFVPGSFNALACD-QK 749

Query: 772 HVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLPSVGQLPFL 830
            VL +L+PH  ++   I  Y G  FP WLGDSSF  +  + L  C    SLP VGQLP L
Sbjct: 750 EVLRMLEPHPHLKTFCIESYQGGAFPKWLGDSSFFGITSVTLSSCNLCISLPPVGQLPSL 809

Query: 831 KELRISGMDGVKSVGSEFY---GNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVF 887
           K L I   + ++ VG +F+    NSR VPF SL+ L F+ M  W+EWI     E  D +F
Sbjct: 810 KYLSIEKFNILQKVGLDFFFGENNSRGVPFQSLQILKFYGMPRWDEWI---CPELEDGIF 866

Query: 888 PKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSC 920
           P L+KL +  C  L+   P+ L     + I  C
Sbjct: 867 PCLQKLIIQRCPSLRKKFPEGLPSSTEVTISDC 899

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q7XBQ9|RGA2_SOLBU Disease resistance protein RGA2 OS=Solanum bulbocastanum GN=RGA2 PE=1 SV=1

 Score =  477 bits (1227), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 357/1074 (33%), Positives = 535/1074 (49%), Gaps = 168/1074 (15%)

Query: 34   LEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRR 93
             + +F +   M   I+AVL DA+++Q  ++ ++ WL  L    Y+ +D+LDE +T+A R 
Sbjct: 27   FQDEFQRLSSMFSTIQAVLEDAQEKQLNNKPLENWLQKLNAATYEVDDILDEYKTKATR- 85

Query: 94   ELLRQEPAAADQPSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIIS 153
                             + S++ +        + P+ I F  K+  ++++V  +L++I  
Sbjct: 86   ----------------FSQSEYGR--------YHPKVIPFRHKVGKRMDQVMKKLKAIAE 121

Query: 154  TQKDLLKLKNVISDGKSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGF 213
             +K+    + ++     R       T S++ E +VYGR+KEK+EI+++L+N ++      
Sbjct: 122  ERKNFHLHEKIVERQAVRR-----ETGSVLTEPQVYGRDKEKDEIVKILIN-NVSDAQHL 175

Query: 214  SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC 273
            SV+ I GMGG+GKTTLAQ+V+ND RV  H+  K W CVSEDFD  R+ K+I+ S+     
Sbjct: 176  SVLPILGMGGLGKTTLAQMVFNDQRVTEHFHSKIWICVSEDFDEKRLIKAIVESIEGRPL 235

Query: 274  KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL 333
              + DL  LQ+KL++ L+G ++LLVLDDVWNE+  +W+ LR     GA+G+ ++ TTR  
Sbjct: 236  LGEMDLAPLQKKLQELLNGKRYLLVLDDVWNEDQQKWANLRAVLKVGASGASVLTTTRLE 295

Query: 334  VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA 393
             V   MG    Y+L  LS +DC  +  Q + G ++   + +L  +G++IV K GG+PLAA
Sbjct: 296  KVGSIMGTLQPYELSNLSQEDCWLLFMQRAFGHQE-EINPNLVAIGKEIVKKSGGVPLAA 354

Query: 394  KTLGGLLRGRDDPRDWEFVLKTDIWNL--RDSDILPALRVSYHFLPPQLKQCFAYCSLFP 451
            KTLGG+L  + + R WE V  + IWNL   +S ILPALR+SYH LP  LKQCFAYC++FP
Sbjct: 355  KTLGGILCFKREERAWEHVRDSPIWNLPQDESSILPALRLSYHQLPLDLKQCFAYCAVFP 414

Query: 452  KDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQ-SSKDA-SRFVM 509
            KD + ++E++I LW A G L  + N  ++ED+G E  +EL+ RS FQ+   KD  + F M
Sbjct: 415  KDAKMEKEKLISLWMAHGFLLSKGN-MELEDVGDEVWKELYLRSFFQEIEVKDGKTYFKM 473

Query: 510  HDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHL 569
            HDLI+DLA                          +   SY      G   + F   +  L
Sbjct: 474  HDLIHDLAT-----------SLFSANTSSSNIREINKHSYTHMMSIGFAEVVFFYTLPPL 522

Query: 570  RTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNL 629
              F+                          LRV +L G      LP+ IG+L HLR LNL
Sbjct: 523  EKFI-------------------------SLRVLNL-GDSTFNKLPSSIGDLVHLRYLNL 556

Query: 630  SRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGF 689
              + ++ LP+ +  L NL T+ L+ C +L  L K+   L  L +L    + SL  MP   
Sbjct: 557  YGSGMRSLPKQLCKLQNLQTLDLQYCTKLCCLPKETSKLGSLRNLLLDGSQSLTCMPPRI 616

Query: 690  GKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNL 749
            G LT L TLG+FVVG+  G  L EL +L +L G+++IS LE VK+  DA EA L+ K NL
Sbjct: 617  GSLTCLKTLGQFVVGRKKGYQLGELGNL-NLYGSIKISHLERVKNDKDAKEANLSAKGNL 675

Query: 750  EALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLA 809
             +L + W+     ++ + E E  VL  LKPH ++  L I G+ G   P W+  S    + 
Sbjct: 676  HSLSMSWNNFG-PHIYESE-EVKVLEALKPHSNLTSLKIYGFRGIHLPEWMNHSVLKNIV 733

Query: 810  RL---ELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFF 866
             +     R C  + LP  G LP L+ L             E +  S  V +         
Sbjct: 734  SILISNFRNC--SCLPPFGDLPCLESL-------------ELHWGSADVEYVE------- 771

Query: 867  DMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPK----RLLLLETLVIKSCQQ 922
                 E  I   +G      FP LRKL ++    L+G L K    +  +LE ++I  C  
Sbjct: 772  -----EVDIDVHSGFPTRIRFPSLRKLDIWDFGSLKGLLKKEGEEQFPVLEEMIIHECPF 826

Query: 923  LIVTIQCLPALSELQIDGC-KRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQ 981
            L ++   L AL+ L+I  C  +V  S P                    + +++ +L  L 
Sbjct: 827  LTLSSN-LRALTSLRI--CYNKVATSFPE------------------EMFKNLANLKYLT 865

Query: 982  ISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCA 1041
            ISRC                                 L  LP +L +L++L  ++I  C 
Sbjct: 866  ISRC-------------------------------NNLKELPTSLASLNALKSLKIQLCC 894

Query: 1042 SLVSFPQAALP--SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLV 1093
            +L S P+  L   S L  + +E CN L+ LPE   H   ++L SLKIR C  L+
Sbjct: 895  ALESLPEEGLEGLSSLTELFVEHCNMLKCLPEGLQH--LTTLTSLKIRGCPQLI 946

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth. Confers a broad resistance to all known races of P.infestans.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA39|RGA4_SOLBU Putative disease resistance protein RGA4 OS=Solanum bulbocastanum GN=RGA4 PE=2 SV=1

 Score =  475 bits (1223), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 353/1056 (33%), Positives = 536/1056 (50%), Gaps = 114/1056 (10%)

Query: 4    IGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDE 63
            + EA L   +E L   +  K + +F   K+ E    K   +   I+AVL DA+++Q KD+
Sbjct: 1    MAEAFLQVLLENLTSFIGDKLVLIFGFEKECE----KLSSVFSTIQAVLQDAQEKQLKDK 56

Query: 64   SVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTCC 123
            +++ WL  L + AY+ +D+L E + EA+R E  R                          
Sbjct: 57   AIENWLQKLNSAAYEVDDILGECKNEAIRFEQSR-------------------------L 91

Query: 124  TNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSLV 183
              + P  I F  K+  +++E+  +L +I   ++    L+ +     +   R+   T  ++
Sbjct: 92   GFYHPGIINFRHKIGRRMKEIMEKLDAISEERRKFHFLEKITERQAAAATRE---TGFVL 148

Query: 184  NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY 243
             E KVYGR+KE++EI+++L+N+ +   +   V  I GMGG+GKTTLAQ+++ND+RV +H+
Sbjct: 149  TEPKVYGRDKEEDEIVKILINN-VNVAEELPVFPIIGMGGLGKTTLAQMIFNDERVTKHF 207

Query: 244  EIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVW 303
              K W CVS+DFD  R+ K+I+ ++        +DL   Q+KL++ L+G ++LLVLDDVW
Sbjct: 208  NPKIWVCVSDDFDEKRLIKTIIGNIERSS-PHVEDLASFQKKLQELLNGKRYLLVLDDVW 266

Query: 304  NENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQIS 363
            N++  +W++LR     GA G+ I+ TTR   V   MG    Y L  LS  D L +  Q +
Sbjct: 267  NDDLEKWAKLRAVLTVGARGASILATTRLEKVGSIMGTLQPYHLSNLSPHDSLLLFMQRA 326

Query: 364  LGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNL--R 421
             G +    + +L  +G++IV KCGG+PLAAKTLGGLLR + +  +WE V   +IW+L   
Sbjct: 327  FGQQK-EANPNLVAIGKEIVKKCGGVPLAAKTLGGLLRFKREESEWEHVRDNEIWSLPQD 385

Query: 422  DSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKME 481
            +S ILPALR+SYH LP  L+QCFAYC++FPKD +  +E +I LW A G L  + N  ++E
Sbjct: 386  ESSILPALRLSYHHLPLDLRQCFAYCAVFPKDTKMIKENLITLWMAHGFLLSKGN-LELE 444

Query: 482  DLGREFVRELHSRSLFQ--QSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQK 539
            D+G E   EL+ RS FQ  ++    + F +HDLI+DLA                      
Sbjct: 445  DVGNEVWNELYLRSFFQEIEAKSGNTYFKIHDLIHDLAT--------------------- 483

Query: 540  FSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNY------LAWSVLQRL 593
               SL   S  CG                      +N+ DY+H        +  S    L
Sbjct: 484  ---SLFSASASCG------------------NIREINVKDYKHTVSIGFAAVVSSYSPSL 522

Query: 594  LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
            L     LRV +L     +  LP+ IG+L HLR L+LS    + LPE +  L NL T+ + 
Sbjct: 523  LKKFVSLRVLNL-SYSKLEQLPSSIGDLLHLRYLDLSCNNFRSLPERLCKLQNLQTLDVH 581

Query: 654  DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
            +C+ L  L K    L  L HL       L   P   G LT L TLG F+VG   G  L E
Sbjct: 582  NCYSLNCLPKQTSKLSSLRHLVVDGC-PLTSTPPRIGLLTCLKTLGFFIVGSKKGYQLGE 640

Query: 714  LKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHV 773
            LK+L +L G++ I+ LE VK+  DA EA L+ K NL++L + W   D  N  + + E  V
Sbjct: 641  LKNL-NLCGSISITHLERVKNDTDA-EANLSAKANLQSLSMSWD-NDGPNRYESK-EVKV 696

Query: 774  LSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTST-SLPSVGQLPFLKE 832
            L  LKPH +++ L I  +GG +FP W+  S   K+  + ++ C +   LP  G+LP L+ 
Sbjct: 697  LEALKPHPNLKYLEIIAFGGFRFPSWINHSVLEKVISVRIKSCKNCLCLPPFGELPCLEN 756

Query: 833  LRI-SGMDGVKSVGSEFYGNSRSV--PFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPK 889
            L + +G   V+ V  +   +  S    FPSL+ L  +  R  +  +     EE +E FP 
Sbjct: 757  LELQNGSAEVEYVEEDDVHSRFSTRRSFPSLKKLRIWFFRSLKGLMK----EEGEEKFPM 812

Query: 890  LRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVV-FSS 948
            L ++++ +C          +  LE     + + L  +I  L  L+ L+I    R      
Sbjct: 813  LEEMAILYCPLFVFPTLSSVKKLEVHGNTNTRGL-SSISNLSTLTSLRIGANYRATSLPE 871

Query: 949  PHLVHAVNVRKQAYF-WRSETRLPQDIRSLN---RLQISRCPQLLSLVTEEEHDQQQPES 1004
                   N+   ++F +++   LP  + SLN   RLQI  C  L      E   +Q  E 
Sbjct: 872  EMFTSLTNLEFLSFFDFKNLKDLPTSLTSLNALKRLQIESCDSL------ESFPEQGLEG 925

Query: 1005 PCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGC 1040
               L  L +  C+ L  LP+ L  L++LT + +SGC
Sbjct: 926  LTSLTQLFVKYCKMLKCLPEGLQHLTALTNLGVSGC 961

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA42|RGA1_SOLBU Putative disease resistance protein RGA1 OS=Solanum bulbocastanum GN=RGA1 PE=2 SV=2

 Score =  474 bits (1219), Expect = e-132,   Method: Compositional matrix adjust.
 Identities = 355/1087 (32%), Positives = 555/1087 (51%), Gaps = 163/1087 (14%)

Query: 4    IGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDE 63
            + EA +   ++ L   L  + + LF      + +F +   M   I+AVL DA+++Q  D+
Sbjct: 1    MAEAFIQVVLDNLTSFLKGELVLLFG----FQDEFQRLSSMFSTIQAVLEDAQEKQLNDK 56

Query: 64   SVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTCC 123
             ++ WL  L    Y+ +D+LDE +T+A R   L+ E                        
Sbjct: 57   PLENWLQKLNAATYEVDDILDEYKTKATR--FLQSEYG---------------------- 92

Query: 124  TNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSLV 183
              + P+ I F  K+  ++++V  +L +I   +K     + +I     R    R  T S++
Sbjct: 93   -RYHPKVIPFRHKVGKRMDQVMKKLNAIAEERKKFHLQEKIIE----RQAATR-ETGSVL 146

Query: 184  NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY 243
             E +VYGR+KEK+EI+++L+N         SV+ I GMGG+GKTTL+Q+V+ND RV   +
Sbjct: 147  TEPQVYGRDKEKDEIVKILINTASDAQK-LSVLPILGMGGLGKTTLSQMVFNDQRVTERF 205

Query: 244  EIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVW 303
              K W C+S+DF+  R+ K+I+ S+      D D L  LQ+KL++ L+G ++ LVLDDVW
Sbjct: 206  YPKIWICISDDFNEKRLIKAIVESIEGKSLSDMD-LAPLQKKLQELLNGKRYFLVLDDVW 264

Query: 304  NENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQIS 363
            NE+  +W+ LR     GA+G+ ++ TTR   V   MG    Y+L  LS +DC  +  Q +
Sbjct: 265  NEDQHKWANLRAVLKVGASGAFVLTTTRLEKVGSIMGTLQPYELSNLSPEDCWFLFMQRA 324

Query: 364  LGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNL--R 421
             G ++   + +L  +G++IV KCGG+PLAAKTLGG+LR + + R+WE V  + IWNL   
Sbjct: 325  FGHQE-EINPNLMAIGKEIVKKCGGVPLAAKTLGGILRFKREEREWEHVRDSPIWNLPQD 383

Query: 422  DSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKME 481
            +S ILPALR+SYH LP  L+QCF YC++FPKD +  +E +I  W A G L  + N  ++E
Sbjct: 384  ESSILPALRLSYHHLPLDLRQCFVYCAVFPKDTKMAKENLIAFWMAHGFLLSKGN-LELE 442

Query: 482  DLGREFVRELHSRSLFQQSSKDASR--FVMHDLINDLARWAAGELYFRMEGTLKGENQQK 539
            D+G E   EL+ RS FQ+   ++ +  F MHDLI+DLA             +L   N   
Sbjct: 443  DVGNEVWNELYLRSFFQEIEVESGKTYFKMHDLIHDLAT------------SLFSANTS- 489

Query: 540  FSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPR 599
             S ++R    I   YDG                + +  ++   +Y + S+LQ+ ++    
Sbjct: 490  -SSNIRE---INANYDG--------------YMMSIGFAEVVSSY-SPSLLQKFVS---- 526

Query: 600  LRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRT-RIQILPESINSLYNLHTILLEDCHQL 658
            LRV +LR   N+  LP+ IG+L HLR L+LS   RI+ LP+ +  L NL T+ L  C  L
Sbjct: 527  LRVLNLRN-SNLNQLPSSIGDLVHLRYLDLSGNFRIRNLPKRLCKLQNLQTLDLHYCDSL 585

Query: 659  KKLCKDMGNLRKLHHLRNSTAN--SLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKS 716
              L K      KL  LRN   +  SL   P   G LT L +L  FV+GK  G  L ELK+
Sbjct: 586  SCLPKQTS---KLGSLRNLLLDGCSLTSTPPRIGLLTCLKSLSCFVIGKRKGHQLGELKN 642

Query: 717  LTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLD-QCEFETHVLS 775
            L +L G++ I+KL+ VK   DA EA L+ K NL +L L W      +LD +  +++ VL 
Sbjct: 643  L-NLYGSISITKLDRVKKDTDAKEANLSAKANLHSLCLSW------DLDGKHRYDSEVLE 695

Query: 776  VLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTS-LPSVGQLPFLKELR 834
             LKPH +++ L I G+GG + P W+  S    +  + +R C + S LP  G+LP L+ L 
Sbjct: 696  ALKPHSNLKYLEINGFGGIRLPDWMNQSVLKNVVSIRIRGCENCSCLPPFGELPCLESL- 754

Query: 835  ISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLS 894
                        E +  S  V +              E+ +  G        FP LRKL 
Sbjct: 755  ------------ELHTGSADVEYV-------------EDNVHPGR-------FPSLRKLV 782

Query: 895  LFHCHKLQGTLP----KRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPH 950
            ++    L+G L     K+  +LE +    C   ++     P LS ++     +V+ +   
Sbjct: 783  IWDFSNLKGLLKMEGEKQFPVLEEMTFYWCPMFVI-----PTLSSVK---TLKVIVTDAT 834

Query: 951  LVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQF 1010
            ++ +++                ++R+L  L IS   +  SL       ++  +S   L++
Sbjct: 835  VLRSIS----------------NLRALTSLDISDNVEATSL------PEEMFKSLANLKY 872

Query: 1011 LKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALP--SHLRTVKIEDCNALES 1068
            LK+S    L  LP +L +L++L  ++   C +L S P+  +   + L  + + +C  L+ 
Sbjct: 873  LKISFFRNLKELPTSLASLNALKSLKFEFCDALESLPEEGVKGLTSLTELSVSNCMMLKC 932

Query: 1069 LPEAWMH 1075
            LPE   H
Sbjct: 933  LPEGLQH 939

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q7XA40|RGA3_SOLBU Putative disease resistance protein RGA3 OS=Solanum bulbocastanum GN=RGA3 PE=2 SV=2

 Score =  461 bits (1187), Expect = e-128,   Method: Compositional matrix adjust.
 Identities = 351/1046 (33%), Positives = 533/1046 (50%), Gaps = 139/1046 (13%)

Query: 34   LEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRR 93
             E +F K   M  MI+AVL DA+++Q K +++K WL  L   AY+ +D+LD+ +TEA R 
Sbjct: 27   FEKEFKKLSSMFSMIQAVLEDAQEKQLKYKAIKNWLQKLNVAAYEVDDILDDCKTEAAR- 85

Query: 94   ELLRQEPAAADQPSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIIS 153
                                 F++ +      + PR+I F  K+  +++E+  +L +I  
Sbjct: 86   ---------------------FKQAV---LGRYHPRTITFCYKVGKRMKEMMEKLDAIAE 121

Query: 154  TQKDLLKLKNVISDGKSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGF 213
             +++    + +I    +R  RQ   T  ++ E KVYGREKE++EI+++L+N+ +   +  
Sbjct: 122  ERRNFHLDERIIERQAAR--RQ---TGFVLTEPKVYGREKEEDEIVKILINN-VSYSEEV 175

Query: 214  SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC 273
             V+ I GMGG+GKTTLAQ+V+ND R+  H+ +K W CVS+DFD  R+ K+I+ S+     
Sbjct: 176  PVLPILGMGGLGKTTLAQMVFNDQRITEHFNLKIWVCVSDDFDEKRLIKAIVESIEGKSL 235

Query: 274  KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL 333
             D D L  LQ+KL++ L+G ++ LVLDDVWNE+  +W  LR     GA+G+ I++TTR  
Sbjct: 236  GDMD-LAPLQKKLQELLNGKRYFLVLDDVWNEDQEKWDNLRAVLKIGASGASILITTRLE 294

Query: 334  VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA 393
             +   MG   +YQL  LS +DC  +  Q +   +  T    L E+G++IV KCGG+PLAA
Sbjct: 295  KIGSIMGTLQLYQLSNLSQEDCWLLFKQRAFCHQTETSP-KLMEIGKEIVKKCGGVPLAA 353

Query: 394  KTLGGLLRGRDDPRDWEFVLKTDIWNL--RDSDILPALRVSYHFLPPQLKQCFAYCSLFP 451
            KTLGGLLR + +  +WE V  ++IWNL   ++ +LPALR+SYH LP  L+QCFAYC++FP
Sbjct: 354  KTLGGLLRFKREESEWEHVRDSEIWNLPQDENSVLPALRLSYHHLPLDLRQCFAYCAVFP 413

Query: 452  KDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASR--FVM 509
            KD + ++E +I LW A   L  + N  ++ED+G E   EL+ RS FQ+    + +  F M
Sbjct: 414  KDTKIEKEYLIALWMAHSFLLSKGN-MELEDVGNEVWNELYLRSFFQEIEVKSGKTYFKM 472

Query: 510  HDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHL 569
            HDLI+DLA                  +    S S+R  +        D  + FI  V + 
Sbjct: 473  HDLIHDLATSMF--------------SASASSRSIRQINV-----KDDEDMMFI--VTNY 511

Query: 570  RTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNL 629
            +  + +  S+   +Y + S+ +R ++    LRV +L        LP+ +G+L HLR L+L
Sbjct: 512  KDMMSIGFSEVVSSY-SPSLFKRFVS----LRVLNLSN-SEFEQLPSSVGDLVHLRYLDL 565

Query: 630  SRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANS--LKEMPK 687
            S  +I  LP+ +  L NL T+ L +C  L  L K      KL  LRN   +   L  MP 
Sbjct: 566  SGNKICSLPKRLCKLQNLQTLDLYNCQSLSCLPKQTS---KLCSLRNLVLDHCPLTSMPP 622

Query: 688  GFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKV 747
              G LT L TLG FVVG+  G  L EL++L +L+G + I+ LE VK+  +A EA L+ K 
Sbjct: 623  RIGLLTCLKTLGYFVVGERKGYQLGELRNL-NLRGAISITHLERVKNDMEAKEANLSAKA 681

Query: 748  NLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSK 807
            NL +L + W   D  N  + E E  VL  LKPH +++ L I  + G   P W+  S    
Sbjct: 682  NLHSLSMSW---DRPNRYESE-EVKVLEALKPHPNLKYLEIIDFCGFCLPDWMNHSVLKN 737

Query: 808  LARLELRRCTSTS-LPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFF 866
            +  + +  C + S LP  G+LP L+ L +   DG             SV    +E   F 
Sbjct: 738  VVSILISGCENCSCLPPFGELPCLESLELQ--DG-------------SVEVEYVEDSGFL 782

Query: 867  DMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTL----PKRLLLLETLVIKSCQQ 922
              R                 FP LRKL +     L+G       ++  +LE + I  C  
Sbjct: 783  TRRR----------------FPSLRKLHIGGFCNLKGLQRMKGAEQFPVLEEMKISDCPM 826

Query: 923  LIV----TIQCLPALSELQIDGCKRV----------VFSSPHLVHAV------NVRKQAY 962
             +     +++ L    E    G   +          +FS+ H V ++      N+    Y
Sbjct: 827  FVFPTLSSVKKLEIWGEADAGGLSSISNLSTLTSLKIFSN-HTVTSLLEEMFKNLENLIY 885

Query: 963  ----FWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEG 1018
                F  +   LP  + SLN L   +C  +      E   ++  E    L  L +  C  
Sbjct: 886  LSVSFLENLKELPTSLASLNNL---KCLDIRYCYALESLPEEGLEGLSSLTELFVEHCNM 942

Query: 1019 LTRLPQALLTLSSLTEMRISGCASLV 1044
            L  LP+ L  L++LT ++I GC  L+
Sbjct: 943  LKCLPEGLQHLTTLTSLKIRGCPQLI 968

Disease resistance protein. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via a direct or indirect interaction with this avirulence protein. That triggers a defense system which restricts the pathogen growth.

Solanum bulbocastanum (taxid: 147425)

>sp|Q38834|R13L4_ARATH Disease resistance RPP13-like protein 4 OS=Arabidopsis thaliana GN=RPP13L4 PE=2 SV=2

 Score =  244 bits (622), Expect = 6e-63,   Method: Compositional matrix adjust.
 Identities = 249/922 (27%), Positives = 430/922 (46%), Gaps = 119/922 (12%)

Query: 6   EAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESV 65
           +AV++  +E  +  L  KG  +    K+LE      +  LK +++ L DAE ++  +E++
Sbjct: 3   DAVVTVFLEKTLNILEEKGRTVSDYRKQLE----DLQSELKYMQSFLKDAERQKRTNETL 58

Query: 66  KTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTCCTN 125
           +T + DL+ L Y+AED+L + +        L       +Q SS+A  S+           
Sbjct: 59  RTLVADLRELVYEAEDILVDCQ--------LADGDDGNEQRSSNAWLSRLH--------- 101

Query: 126 FSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSLVNE 185
             P  +  + K + +++E+  R+  I S  +   +     + G+     +   ++ + + 
Sbjct: 102 --PARVPLQYKKSKRLQEINERITKIKSQVEPYFEFITPSNVGRDNGTDRW--SSPVYDH 157

Query: 186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEI 245
            +V G E +K +I E L   +   D    +++  GMGG+GKTT+AQ V+ND  ++  +E 
Sbjct: 158 TQVVGLEGDKRKIKEWLFRSN---DSQLLIMAFVGMGGLGKTTIAQEVFNDKEIEHRFER 214

Query: 246 KAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNE 305
           + W  VS+ F   +I +SIL ++      D  D+  L  K+++ L G ++L+V+DDVW++
Sbjct: 215 RIWVSVSQTFTEEQIMRSILRNLGDASVGD--DIGTLLRKIQQYLLGKRYLIVMDDVWDK 272

Query: 306 NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGA--DPVYQLKELSDDDCLCVLTQIS 363
           N   W ++      G  GS ++VTTR+  VA+R+ A  D  ++ + LS D+   +   ++
Sbjct: 273 NLSWWDKIYQGLPRGQGGS-VIVTTRSESVAKRVQARDDKTHRPELLSPDNSWLLFCNVA 331

Query: 364 LGARDFT-RHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDP-RDWEFVLKTDIWNLR 421
             A D T     L++VG++IV KC GLPL  K +GGLL  +D    +W  + +     LR
Sbjct: 332 FAANDGTCERPELEDVGKEIVTKCKGLPLTIKAVGGLLLCKDHVYHEWRRIAEHFQDELR 391

Query: 422 DS-----DILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYN 476
            +     +++ +L++SY  LP  LK C    SL+P+D    +++++  W  EG +    N
Sbjct: 392 GNTSETDNVMSSLQLSYDELPSHLKSCILTLSLYPEDCVIPKQQLVHGWIGEGFV-MWRN 450

Query: 477 GRKMEDLGREFVRELHSRSLFQQSSKDASRFV----MHDLINDLARWAAGELYFRMEGTL 532
           GR   + G +    L +R L +   K  S  +    +HD++ DL    A +  F     L
Sbjct: 451 GRSATESGEDCFSGLTNRCLIEVVDKTYSGTIITCKIHDMVRDLVIDIAKKDSFSNPEGL 510

Query: 533 KGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQR 592
                     + RH   I G +D     E    V H    +         N L  S L +
Sbjct: 511 ----------NCRHLG-ISGNFD-----EKQIKVNHKLRGVVSTTKTGEVNKLN-SDLAK 553

Query: 593 LLNHLPRLRVFSLRGCGNIFNLP-----NEIGNLKHLRCLNLSRTRIQI-LPESINSLYN 646
                  LRV  +    +IF+ P     +EI +L+HL CL+LS T   I  P S+  L+N
Sbjct: 554 KFTDCKYLRVLDI--SKSIFDAPLSEILDEIASLQHLACLSLSNTHPLIQFPRSMEDLHN 611

Query: 647 LHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGK- 705
           L  +    C  LK+L   +   +KL  L  +   SL+  PKG G L  L  L  F   + 
Sbjct: 612 LQILDASYCQNLKQLQPCIVLFKKLLVLDMTNCGSLECFPKGIGSLVKLEVLLGFKPARS 671

Query: 706 DSGSGLRELKSLTHLQG-TLRISKLENVKDVGDASEAQLNNKVNLEALL-LKWSARDVQN 763
           ++G  L E+K+LT+L+   L +++ + ++      E +L++ +NL  L+ +  +  D   
Sbjct: 672 NNGCKLSEVKNLTNLRKLGLSLTRGDQIE------EEELDSLINLSKLMSISINCYDSYG 725

Query: 764 LDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPS 823
            D     T + ++  PH+ + EL++  Y G   P WL                      S
Sbjct: 726 DD---LITKIDALTPPHQ-LHELSLQFYPGKSSPSWL----------------------S 759

Query: 824 VGQLPFLKELRISGMDGVKSVGSEFYGNSRS---VPFPSLETLSFFDMREWEEWIPCGAG 880
             +LP L+ + I   + VK +   F+GN  +   +    L +LS  DM +W         
Sbjct: 760 PHKLPMLRYMSICSGNLVK-MQEPFWGNENTHWRIEGLMLSSLSDLDM-DW--------- 808

Query: 881 EEVDEVFPKLRKLSLFHCHKLQ 902
           E + +  P LR ++   C +L+
Sbjct: 809 EVLQQSMPYLRTVTANWCPELE 830

Disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8W3K3|DRL8_ARATH Putative disease resistance protein At1g58400 OS=Arabidopsis thaliana GN=At1g58400 PE=3 SV=1

 Score =  222 bits (565), Expect = 2e-56,   Method: Compositional matrix adjust.
 Identities = 251/962 (26%), Positives = 433/962 (45%), Gaps = 142/962 (14%)

Query: 6   EAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESV 65
           EA++S  VE L ++L  +    + + + +E    + K  L ++K+ L DAE ++   + V
Sbjct: 3   EAIVSFGVEKLWDRLTQE----YEQFQGVEDRIAELKSNLNLLKSFLKDAEAKKNTSQMV 58

Query: 66  KTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTCCTN 125
           +  +++++ + YD E+++   ET  L+              ++   +   R++    C  
Sbjct: 59  RHCVEEIKEIVYDTENMI---ETFILKE-------------AARKRSGIIRRITKLTCIK 102

Query: 126 FSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDG---------KSRNIRQR 176
                     + AS I  ++ R+  +I        ++ +ISDG         + R +RQ 
Sbjct: 103 VH------RWEFASDIGGISKRISKVIQDMHSF-GVQQMISDGSQSSHLLQEREREMRQ- 154

Query: 177 LPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND 236
             T S   E+   G E   ++++  L+ +D        ++S+ GMGG+GKTTLA+ V+N 
Sbjct: 155 --TFSRGYESDFVGLEVNVKKLVGYLVEED-----DIQIVSVTGMGGLGKTTLARQVFNH 207

Query: 237 DRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKD---KDDLNLLQEKLKKQLSGN 293
           + V+  ++  AW CVS++F    + + IL ++ S + KD   + +   L ++L + L  +
Sbjct: 208 EDVKHQFDRLAWVCVSQEFTRKNVWQMILQNLTSRETKDEILQMEEAELHDELFQLLETS 267

Query: 294 KFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDD 353
           K L+V DD+W E    W  L  P      G K+++T+R   +A   G       K     
Sbjct: 268 KSLIVFDDIWKEE--DWG-LINPIFPPKKGWKVLITSRTETIAMH-GNRRYVNFK----P 319

Query: 354 DCLCVLTQISLGAR---------DFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRD 404
           +CL +L    L  R         +F     ++ +G+Q++  CGGLPLA K LGGLL  + 
Sbjct: 320 ECLTILESWILFQRIAMPRVDESEFKVDKEMEMMGKQMIKYCGGLPLAVKVLGGLLAAKY 379

Query: 405 DPRDWE---------FVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYE 455
              DW+          V +TD  +  +S +   L +S+  LP  LK CF Y + FP+D+ 
Sbjct: 380 TFHDWKRLSENIGCHIVGRTDFSDGNNSSVYHVLSLSFEELPSYLKHCFLYLAHFPEDHN 439

Query: 456 FQEEEIILLWTAEGLLD-QEYNGRKMEDLGREFVRELHSRSLFQQSSKDAS--RFV---M 509
            + E++   W AEG+L+ + Y+G+ + D+G  ++ EL  R++   + +D +  RF    +
Sbjct: 440 IKVEKLSYCWAAEGILEPRHYHGQTIRDVGESYIEELVRRNMV-IAERDVTTLRFEACHL 498

Query: 510 HDLINDLARWAAGELYF-RMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQH 568
           HD++ ++    A E  F ++   L      ++  + R F          T L    D+ +
Sbjct: 499 HDMMREVCLLKAKEENFVQIASILPPTANSQYPGTSRRFV-----SQNPTTLHVSRDINN 553

Query: 569 --LRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSL-RGCGNIFNLPNEIGNLKHLR 625
             L++ L V    + +   +W +L      L  LRV  L +      NLP+ IG L HLR
Sbjct: 554 PKLQSLLIV----WENRRKSWKLLGSSFIRLELLRVLDLYKAKFEGRNLPSGIGKLIHLR 609

Query: 626 CLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEM 685
            LNL   R+  LP S+ +L  L  + +  C +   +   +  + +L +LR    N+ KE+
Sbjct: 610 YLNLDLARVSRLPSSLGNLRLLIYLDINVCTKSLFVPNCLMGMHELRYLR-LPFNTSKEI 668

Query: 686 PKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENV-KDVGDASEAQLN 744
             G   L +L TL  F     S   LR + SL     TL I   +++ K+   AS   + 
Sbjct: 669 KLGLCNLVNLETLENFSTENSSLEDLRGMVSLR----TLTIGLFKHISKETLFASILGMR 724

Query: 745 NKVNLEALLLKWSAR------DVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPI 798
           +  NL       S++      D   LD    +   L +  P    ++          FP 
Sbjct: 725 HLENLSIRTPDGSSKFKRIMEDGIVLDAIHLKQLNLRLYMPKLPDEQ---------HFP- 774

Query: 799 WLGDSSFSKLARLELRRC--TSTSLPSVGQLPFLKELRIS--GMDGVKSVGSEFYGNSRS 854
                  S L  + L  C      LP + +L  LKE+R+      G + V S+       
Sbjct: 775 -------SHLTSISLDGCCLVEDPLPILEKLLELKEVRLDFRAFCGKRMVSSD------- 820

Query: 855 VPFPSLETLSFFDMREWEEWIPCGAGEEVDE-VFPKLRKLSLFHCHKLQGTLPKRLLLLE 913
             FP L  L  + + EWEEWI       V+E   P+L  L++++C KL+  LP  L  + 
Sbjct: 821 GGFPQLHRLYIWGLAEWEEWI-------VEEGSMPRLHTLTIWNCQKLK-QLPDGLRFIY 872

Query: 914 TL 915
           ++
Sbjct: 873 SI 874

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SX38|DRL4_ARATH Putative disease resistance protein At1g50180 OS=Arabidopsis thaliana GN=At1g50180 PE=3 SV=2

 Score =  215 bits (548), Expect = 2e-54,   Method: Compositional matrix adjust.
 Identities = 191/637 (29%), Positives = 313/637 (49%), Gaps = 82/637 (12%)

Query: 45  LKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAAD 104
           LK +   L DA+++Q + E V+ W+  ++  +YDAED+L+    +A  R+          
Sbjct: 38  LKRLNCFLKDADEKQHESERVRNWVAGIREASYDAEDILEAFFLKAESRK---------- 87

Query: 105 QPSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNV 164
                      R+L   C  N    ++   S + S+I E+T+RL  I ++  D    +++
Sbjct: 88  ---QKGMKRVLRRL--ACILN---EAVSLHS-VGSEIREITSRLSKIAASMLDFGIKESM 138

Query: 165 ISDGKS-----RNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISIN 219
             +G S     R  RQ  P    V E  + G E+     +E L+ND + G +   V SI 
Sbjct: 139 GREGLSLSDSLREQRQSFP---YVVEHNLVGLEQS----LEKLVNDLVSGGEKLRVTSIC 191

Query: 220 GMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDL 279
           GMGG+GKTTLA+ +++  +V+RH++  AW  VS+D     + + I  +++    KD++  
Sbjct: 192 GMGGLGKTTLAKQIFHHHKVRRHFDRFAWVYVSQDCRRRHVWQDIFLNLSY---KDENQR 248

Query: 280 NL------LQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL 333
            L      L E+L + L  NK L+VLDD+W ++   W  L+  F     GS+I++TTRN 
Sbjct: 249 ILSLRDEQLGEELHRFLKRNKCLIVLDDIWGKDA--WDCLKHVF-PHETGSEIILTTRNK 305

Query: 334 VVAERMGADPVYQLKE---LSDDDCLCVLTQISLGARDFTRHLSLK---EVGEQIVIKCG 387
            VA  + ADP   L E   L+ ++   +L +ISL  R+    + +K   E+G+QIV++CG
Sbjct: 306 EVA--LYADPRGVLHEPQLLTCEESWELLEKISLSGRENIEPMLVKKMEEIGKQIVVRCG 363

Query: 388 GLPLAAKTLGGLLRGRDDPRDWEFV---LKTDIWNLRDSD------ILPALRVSYHFLPP 438
           GLPLA   LGGLL  +    +W+ V   +K+ + N   S+      +   L +SY +LPP
Sbjct: 364 GLPLAITVLGGLLATKSTWNEWQRVCENIKSYVSNGGSSNGSKNMLVADVLCLSYEYLPP 423

Query: 439 QLKQCFAYCSLFPKDYEFQEEEIILLWTAEGL---LDQEYNGRKMEDLGREFVRELHSRS 495
            +KQCF Y + +P+DYE     ++    AEG+   +     G  +ED+G++++ EL  RS
Sbjct: 424 HVKQCFLYFAHYPEDYEVHVGTLVSYCIAEGMVMPVKHTEAGTTVEDVGQDYLEELVKRS 483

Query: 496 LFQQSSKD-ASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEY 554
           +     +D  +  VM   ++DL R          E  L+   Q+ F +       +    
Sbjct: 484 MVMVGRRDIVTSEVMTCRMHDLMR----------EVCLQKAKQESFVQ-------VIDSR 526

Query: 555 DGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCG-NIFN 613
           D D    FI    +    + V L      +   S+ Q     +  LRV  L G       
Sbjct: 527 DQDEAEAFISLSTNTSRRISVQLHGGAEEHHIKSLSQVSFRKMKLLRVLDLEGAQIEGGK 586

Query: 614 LPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTI 650
           LP+++G+L HLR L++  T ++ L  SI +L  + T+
Sbjct: 587 LPDDVGDLIHLRNLSVRLTNVKELTSSIGNLKLMITL 623

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0C8S1|RP8L2_ARATH Probable disease resistance RPP8-like protein 2 OS=Arabidopsis thaliana GN=RPP8L2 PE=1 SV=1

 Score =  210 bits (534), Expect = 7e-53,   Method: Compositional matrix adjust.
 Identities = 229/833 (27%), Positives = 387/833 (46%), Gaps = 138/833 (16%)

Query: 4   IGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDE 63
           + EAV+S  VE L E L+ +   L    ++++      KR L  ++++L DA+ ++ + E
Sbjct: 1   MAEAVVSFGVEKLWELLSRESARLNGIDEQVDG----LKRQLGRLQSLLKDADAKKNETE 56

Query: 64  SVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTCC 123
            V+ +L+D++++ YDA+D+++      L  EL  +E     Q  + A            C
Sbjct: 57  RVRNFLEDVKDIVYDADDIIESF----LLNELRGKEKGIKKQVRTLA------------C 100

Query: 124 TNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNI----RQR--L 177
                R      K AS IE +T R+  +I   + L  +++ I+DG  R++    RQR   
Sbjct: 101 FLVDRR------KFASDIEGITKRISEVIVGMQSL-GIQH-IADGGGRSLSLQERQREIR 152

Query: 178 PTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDD 237
            T S  +E+ + G ++  EE++     D L  +D   V+S++GMGG+GKTTLA+ V++ D
Sbjct: 153 QTFSRNSESDLVGLDQSVEELV-----DHLVENDSVQVVSVSGMGGIGKTTLARQVFHHD 207

Query: 238 RVQRHYEIKAWTCVSEDFDVFRISKSILNSV-ASDQCKDKDDLNLLQEKLKKQLSGNKFL 296
            V+RH++  +W CVS+ F    + + IL  +   D+   + D   LQ +L + L   ++L
Sbjct: 208 IVRRHFDGFSWVCVSQQFTRKDVWQRILQDLRPYDEGIIQMDEYTLQGELFELLESGRYL 267

Query: 297 LVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMG--ADP---VYQLKELS 351
           LVLDDVW E    W  ++  F     G K+++T+RN    E +G  ADP    ++ + L+
Sbjct: 268 LVLDDVWKEE--DWDRIKAVF-PHKRGWKMLLTSRN----EGLGLHADPTCFAFRPRILT 320

Query: 352 DDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWE- 410
            +    +  +I    RD T     + +G+++V  CGGLPLA K LGGLL  +    +W+ 
Sbjct: 321 PEQSWKLFERIVSSRRDKTEFKVDEAMGKEMVTYCGGLPLAVKVLGGLLAKKHTVLEWKR 380

Query: 411 --------FVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEII 462
                    V K+ + +   + +   L +SY  LP QLK CF Y + FP+DY+   + + 
Sbjct: 381 VHSNIVTHIVGKSGLSDDNSNSVYRVLSLSYEDLPMQLKHCFFYLAHFPEDYKIDVKILF 440

Query: 463 LLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSL-FQQSSKDASRF---VMHDLINDLAR 518
             W AEG++   ++G  ++D G  ++ EL  R++   + S   SR     MHD++ ++  
Sbjct: 441 NYWVAEGIITPFHDGSTIQDTGESYLEELVRRNMVVVEESYLTSRIEYCQMHDMMREVCL 500

Query: 519 WAAGELYF--------RMEGTLKGENQQKFSESLRHFS---YICGEYDGDTRLEFICDVQ 567
             A E  F            T+  ++  +    + H     ++ G  D           +
Sbjct: 501 SKAKEENFIRVVKVPTTTSTTINAQSPCRSRRLVLHSGNALHMLGHKDN----------K 550

Query: 568 HLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGC---GNIFNLPNEIGNLKHL 624
             R+ L   + +       W    R    LP LRV  L      G    LP+ IG+L HL
Sbjct: 551 KARSVLIFGVEEK-----FWK--PRGFQCLPLLRVLDLSYVQFEGG--KLPSSIGDLIHL 601

Query: 625 RCLNLSRTRIQILPESINSLYNLHTILLEDCHQL----KKLCKDMGNLRKLHHLRNSTAN 680
           R L+L    +  LP S+ +L  L  + L    +L      + K+M  LR L   R+  A 
Sbjct: 602 RFLSLYEAGVSHLPSSLGNLKLLLCLNLGVADRLLVHVPNVLKEMQELRYLRLPRSMPAK 661

Query: 681 SLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASE 740
           +  E+    G L +L +L  F     S + L            LR++KL  +  +     
Sbjct: 662 TKLEL----GDLVNLESLTNFSTKHGSVTDL------------LRMTKLSVLNVI----- 700

Query: 741 AQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGG 793
              + +   E LLL  S R+++NL+   F            D Q++++  +GG
Sbjct: 701 --FSGECTFETLLL--SLRELRNLETLSFH-----------DFQKVSVANHGG 738

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

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	1472
284026888	1424	CC-NBS-LRR protein [Quercus suber]	0.929	0.960	0.432	0.0
359495024	1390	PREDICTED: putative disease resistance p	0.929	0.984	0.433	0.0
225449649	1418	PREDICTED: putative disease resistance p	0.945	0.981	0.429	0.0
359495026	2204	PREDICTED: uncharacterized protein LOC10	0.917	0.612	0.429	0.0
147860511	1406	hypothetical protein VITISV_014536 [Viti	0.900	0.942	0.432	0.0
359487225	1373	PREDICTED: putative disease resistance R	0.921	0.987	0.413	0.0
225450005	1490	PREDICTED: putative disease resistance p	0.964	0.953	0.406	0.0
225450003	1452	PREDICTED: putative disease resistance R	0.934	0.947	0.405	0.0
359487422	1455	PREDICTED: putative disease resistance R	0.938	0.949	0.398	0.0
225465831	1483	PREDICTED: putative disease resistance R	0.936	0.929	0.409	0.0

>gi|284026888|gb|ADB66335.1| CC-NBS-LRR protein [Quercus suber]

 Score = 1054 bits (2725), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 650/1502 (43%), Positives = 884/1502 (58%), Gaps = 134/1502 (8%)

Query: 3    FIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKD 62
             + E  L A + +L++ LA + L        ++    KW++ L  I+ VL DAE++Q  D
Sbjct: 1    MLAEVFLGAVLPVLLDMLAPQELMSLVFSGSVKKKLEKWRQTLLAIQMVLKDAEEKQLTD 60

Query: 63   ESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTC 122
              V  WL+ ++ LAYD ED+ D+   EA++R+L         QP SS+  S  R L+PT 
Sbjct: 61   ADVNQWLEAIRELAYDLEDLFDDFAIEAMQRKL-------KAQPESSSPASMVRSLVPT- 112

Query: 123  CTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTSL 182
               F+P +++F  KM  +IE+++ RL+ I + QKD L LK+    G S  I +R P+++ 
Sbjct: 113  --RFTPSAVKFNLKMKFEIEKISNRLKEI-TEQKDRLGLKD---GGMSVKIWKR-PSSTS 165

Query: 183  VNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRH 242
            V    V GR++++++IIEL+L D+   D  + VISI GM GVGKTTLA+LVYNDD V +H
Sbjct: 166  VPYGPVIGRDEDRKKIIELILKDEQTDDSNYHVISIVGMAGVGKTTLARLVYNDDAV-KH 224

Query: 243  YEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDV 302
            +  +AW CVS+DFDV  ++K++L SV S  C  K+ LN +Q KL  +L G KFLLVLDD+
Sbjct: 225  FNPRAWICVSDDFDVMMVTKALLESVTSQPCHLKE-LNEVQVKLASELEGKKFLLVLDDL 283

Query: 303  WNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQI 362
            WNENY  W  L  PF AGAAGS+I+VTTRN  V + MGA   Y L  +S++DC  +  Q 
Sbjct: 284  WNENYGLWEALLPPFRAGAAGSRIIVTTRNASVGKVMGAVQSYNLDFISNNDCWAIFVQH 343

Query: 363  SLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRD 422
            SL   +F R  +   + E+I+ +C GLPLAA+TLGGL RG++   +WE ++ + +W+  +
Sbjct: 344  SLMNENFGRPGNSGLIRERILERCRGLPLAARTLGGLFRGKE-LDEWEDIMNSKLWSSSN 402

Query: 423  --SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKM 480
              SDI P LR+SYH LP  LK+CFAYCSLFP+DYEF+E+++ILLW AEGL+ Q    + M
Sbjct: 403  MGSDIFPILRLSYHHLPHHLKRCFAYCSLFPRDYEFEEKQLILLWMAEGLIYQAEGDKPM 462

Query: 481  EDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKF 540
            EDLG E+ R+L SRS FQQSS + SRFVMHDLI DLA+W AG  YFR+E  LKG  Q K 
Sbjct: 463  EDLGGEYFRDLLSRSFFQQSSSNKSRFVMHDLITDLAQWVAGISYFRLETKLKGNEQSKV 522

Query: 541  SESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRL 600
            S   RH S++   YDG  + E I + +HLRTFLP+      ++YL++ ++ +LL  L  L
Sbjct: 523  SSKARHLSFVGSRYDGAKKFEAISEFKHLRTFLPLMAPYVGYSYLSYHIINQLLPKLQNL 582

Query: 601  RVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKK 660
            RV SL G   I  LP  IG+LKHLR L+LS T+++ LP SI++LYNL T+LLE+C  LK 
Sbjct: 583  RVLSLSGY-RIVYLPQTIGDLKHLRYLDLSCTQLRSLPTSISTLYNLQTLLLENCTSLKF 641

Query: 661  LCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGK-DSGSGLRELKSLTH 719
            L  D G L  L HL    +N L+ MP   G L+SL TL  FVVGK DS   +REL  L H
Sbjct: 642  LPPDFGKLFNLRHLNIFGSNLLEGMPLSIGNLSSLQTLSNFVVGKADSFCVIRELGPLVH 701

Query: 720  LQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKP 779
            L+GTL ISKLENV    +A ++ L  K +L  ++++WS+   ++ D+ E +  VL++L+P
Sbjct: 702  LRGTLCISKLENVTKAQEARDSYLYGKQDLNEVVMEWSSNLNESQDE-ETQLEVLNMLQP 760

Query: 780  HRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTS-TSLPSVGQLPFLKELRISGM 838
            +  ++ELT+  YGGTKFP W+GD SFS L  L    C +  SLP VGQLPFLK+L I GM
Sbjct: 761  NVKLKELTVKCYGGTKFPTWIGDPSFSNLVLLRFENCDNCNSLPPVGQLPFLKDLLIKGM 820

Query: 839  DGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHC 898
             GVKSVG EFYG S S PF SLETL F DM  W  WIP G    V+E F  L KLS+  C
Sbjct: 821  AGVKSVGREFYGESCSRPFQSLETLHFEDMPRWVNWIPLG----VNEAFACLHKLSIIRC 876

Query: 899  HKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKR------VVFSSPHLV 952
            H L   LP  L  L+ LVI  C  ++V++  LP L  L I+GCKR      V F SP   
Sbjct: 877  HNLVRKLPDHLPSLKKLVIHGCWNMVVSVSNLPMLCVLVIEGCKRVECESSVGFGSP--- 933

Query: 953  HAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLK 1012
            +++   K + F  +   L   +  +  L+I    +L +L       ++ PE   RL+FL+
Sbjct: 934  YSMAFSKISEFGNATAGLMHGVSKVEYLKIVDSEKLTTLW------EKIPEGLHRLKFLR 987

Query: 1013 LSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALES-LPE 1071
                                 E+ I  C +LVSFP +  PS L+ ++I+ C+ L+S LPE
Sbjct: 988  ---------------------ELSIEDCPTLVSFPASGFPSMLKVIQIKSCSGLKSLLPE 1026

Query: 1072 AWMHN-SNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISL------------ 1118
              +H+  N+ LE L +  C+S+ S     LP+ L+ ++I +C  L  +            
Sbjct: 1027 GTLHSRENACLERLCVVRCDSMKSIARGQLPTTLKKLEISHCMNLQCVLDEGEGSSSSSG 1086

Query: 1119 --PEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSS 1176
               E     S T L+ L IK C SL                                   
Sbjct: 1087 MHDEDINNRSKTHLQYLDIKSCPSL----------------------------------- 1111

Query: 1177 SRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAE 1236
                T+LT   S  +LP  L HL +R C  L  LS  G LP AL+YL ++  SKL+ +AE
Sbjct: 1112 ----TTLT---SSGKLPATLTHLLLRECPKLMCLSSTGKLPAALQYLEIQSISKLQKIAE 1164

Query: 1237 RL-DNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELT 1295
            RL  NTSLE I I     LKSLP DLHNL  L++  I +C +  SFP  GLPS  L  L 
Sbjct: 1165 RLHQNTSLECIKIWNCHGLKSLPEDLHNLSKLRQFLIFWCQSFSSFPAAGLPSN-LRVLG 1223

Query: 1296 IYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEW 1355
            I +C+NLKALPN M NLTSL  L+I      +  P++G PTNL  L +  LK  KP+ EW
Sbjct: 1224 IKNCKNLKALPNGMRNLTSLQKLDISHRLDSLPSPQEGLPTNLIELNMHDLKFYKPMFEW 1283

Query: 1356 GFNRFTSLRRFTICGGCPDLVSPPP---------FPASLTNLWISDMPDLESISSIG-EN 1405
            G  + TSL + +I G C D+ S P           P SL+ L IS   +LE +S  G +N
Sbjct: 1284 GLQQPTSLIKLSIHGECLDVDSYPGERENGVMMLLPNSLSILCISYFQNLECLSPKGFQN 1343

Query: 1406 LTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVL 1465
            LTSL  L+++NC KL   P++GLP SL++L I NCPL+ + C  ++G+ W  I+H+P VL
Sbjct: 1344 LTSLNQLKIYNCLKLTSLPKEGLPPSLTQLEIRNCPLLSQHCNNEKGQEWSKIAHIPCVL 1403

Query: 1466 IN 1467
            I+
Sbjct: 1404 ID 1405

Source: Quercus suber

Species: Quercus suber

Genus: Quercus

Family: Fagaceae

Order: Fagales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495024|ref|XP_002267933.2| PREDICTED: putative disease resistance protein At3g14460-like [Vitis vinifera]

 Score = 1028 bits (2657), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 634/1462 (43%), Positives = 876/1462 (59%), Gaps = 94/1462 (6%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
            M+F+GEA LSAS++ L++ LA   L  F R +++ A+  KW+ +L  I AVL DAE++Q 
Sbjct: 1    MAFVGEAFLSASIQKLVDMLACPDLRKFAREEQVHAELKKWEGILLKIHAVLHDAEEKQM 60

Query: 61   KDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIP 120
             +  V+ WL +L++LAYD ED+LD+  TEALRR L++ +P    QPS    TS  R LI 
Sbjct: 61   TNRFVQIWLAELRDLAYDVEDILDDFATEALRRNLIKDDP----QPS----TSTVRSLIS 112

Query: 121  TCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLP-T 179
            +  + F+P ++ +   M S+IEE+TARL  I STQK  L L+  + +G+S   R+R+P T
Sbjct: 113  SLSSRFNPNALVYNLNMGSKIEEITARLHEI-STQKGDLDLRENV-EGRSHRKRKRVPET 170

Query: 180  TSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV 239
             SLV E++VYGRE +KE I+E+LL D+L  D+   VI I GMGGVGKTTLAQL YNDDRV
Sbjct: 171  ASLVVESRVYGRETDKEAILEVLLRDELIHDNEVCVIPIVGMGGVGKTTLAQLAYNDDRV 230

Query: 240  QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVL 299
            + H++++AW CVS+DFDV RI+K++L S+AS   ++ +DLNLLQ K+K++LSG KFLLVL
Sbjct: 231  KNHFDLRAWVCVSDDFDVLRITKTLLQSIAS-YTREINDLNLLQVKMKEKLSGKKFLLVL 289

Query: 300  DDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVL 359
            DDVWNENY +W  L  P  AG  GSK+++TTRN+ VA        Y L+ELS+DDC  V 
Sbjct: 290  DDVWNENYDKWDSLCTPLRAGGPGSKVIITTRNMGVATLTRTVSPYLLQELSNDDCRAVF 349

Query: 360  TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN 419
             Q +LGAR+F  H  LK +GE++V +C GLPL AK LGG+LR   +   W+ +LK+ IW+
Sbjct: 350  AQHALGARNFEAHPHLKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWD 409

Query: 420  LRD--SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNG 477
            L +  S +LPAL++SYH LP  LKQCFAYC++FPK YEF+++E+ILLW  EG L Q    
Sbjct: 410  LPEEKSGVLPALKLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELILLWMGEGFLQQTKGK 469

Query: 478  RKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQ 537
            ++MEDLG ++  EL SRS FQQSS    RF+MHDLI+DLA+  AG +   +E  L  EN 
Sbjct: 470  KRMEDLGSKYFSELLSRSFFQQSSNIMPRFMMHDLIHDLAQSIAGNVCLNLEDKL--ENN 527

Query: 538  QKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFL--PVNLSDYRH-NYLAWSVLQRLL 594
            +   +  RH S+I    +   + E +   ++LRTFL  P+++S  +  +++   V   LL
Sbjct: 528  ENIFQKARHLSFIRQANEIFKKFEVVDKGKYLRTFLALPISVSFMKSLSFITTKVTHDLL 587

Query: 595  NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLED 654
              +  LRV SL G   + +LP+ I NL HLR LNL R+ I+ LP S+  LYNL T++L D
Sbjct: 588  MEMKCLRVLSLSG-YKMSDLPSSIDNLSHLRYLNLCRSSIKRLPNSVGHLYNLQTLILRD 646

Query: 655  CHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
            C  L ++   MGNL  L HL  +  + L+EMP   G LT+L TL +F+VGK +GS ++EL
Sbjct: 647  CWSLTEMPVGMGNLINLRHLDIAGTSQLEEMPPRMGSLTNLQTLSKFIVGKGNGSSIQEL 706

Query: 715  KSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVL 774
            K L  LQG L I  L NV++  DA +A L NK ++E L + WS  D  +      E  VL
Sbjct: 707  KHLLDLQGELSIQGLHNVRNTRDAMDACLKNKCHIEELTMGWSG-DFDDSRNELNEMLVL 765

Query: 775  SVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTS-TSLPSVGQLPFLKEL 833
             +L+P R++++LT+  YGG KFP W+G+ SFSK+  L L+ C   TSLP +G+L  LK L
Sbjct: 766  ELLQPQRNLKKLTVEFYGGPKFPSWIGNPSFSKMESLTLKNCGKCTSLPCLGRLSLLKAL 825

Query: 834  RISGMDGVKSVGSEFYGN-SRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRK 892
            RI GM  VK++G EF+G  S   PFP LE+L F DM EWE+W      EE + +F  LR+
Sbjct: 826  RIQGMCKVKTIGDEFFGEVSLFQPFPCLESLRFEDMPEWEDWCFSDMVEECEGLFSCLRE 885

Query: 893  LSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLV 952
            L +  C KL G+LP                      CLP+L+EL+I  C ++  + P L 
Sbjct: 886  LRIRECPKLTGSLP---------------------NCLPSLAELEIFECPKLKAALPRLA 924

Query: 953  HAVN---VRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQ 1009
            +  +   V       R+      D+ SL  L I R  +L  L   E   Q        LQ
Sbjct: 925  YVCSLNVVECNEVVLRNGV----DLSSLTTLNIQRISRLTCL--REGFTQLLAA----LQ 974

Query: 1010 FLKLSKCEGLTRLPQ---ALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNAL 1066
             L +  C  +T L +    L  L  L  + I  C  LVS  +  LP +L+ +KIE+C  L
Sbjct: 975  KLVIRGCGEMTSLWENRFGLECLRGLESIDIWQCHGLVSLEEQRLPCNLKHLKIENCANL 1034

Query: 1067 ESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNS 1126
            + LP      +   LE L +++C  L SFPE+ LP  LR++ ++ CN L  LP     N 
Sbjct: 1035 QRLPNGLQRLT--CLEELSLQSCPKLESFPEMGLPPMLRSLVLQKCNTLKLLP----HNY 1088

Query: 1127 NTS-LESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTY 1185
            N+  LE L I+ C  L      +LP SLK+L +  C NL+TL           G T    
Sbjct: 1089 NSGFLEYLEIEHCPCLISFPEGELPASLKQLKIKDCANLQTL---------PEGMTHHNS 1139

Query: 1186 FSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL--DNTSL 1243
              S N     LE L++R CS+L  L   G LP  LK L + DC + + ++E++   NT+L
Sbjct: 1140 MVSNNS--CCLEVLEIRKCSSLPSLP-TGELPSTLKRLEIWDCRQFQPISEKMLHSNTAL 1196

Query: 1244 EEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLK 1303
            E ++IS   N+K LP  LH+L +L   +I  C  L SFPE GLP+  L +L I +CENLK
Sbjct: 1197 EHLSISNYPNMKILPGFLHSLTYL---YIYGCQGLVSFPERGLPTPNLRDLYINNCENLK 1253

Query: 1304 ALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRG-LKISKPLPEWGFNRFTS 1362
            +LP+ M NL SL  L IR C  + SFPE G   NL SL +R  + +  PL EWG +R TS
Sbjct: 1254 SLPHQMQNLLSLQELNIRNCQGLESFPECGLAPNLTSLSIRDCVNLKVPLSEWGLHRLTS 1313

Query: 1363 LRRFTICGGCPDLVSPPP----FPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCP 1418
            L    I G CP L S        P +L+ L+IS +  L  ++   +NL+SLE + ++ CP
Sbjct: 1314 LSSLYISGVCPSLASLSDDECLLPTTLSKLFISKLDSLVCLAL--KNLSSLERISIYRCP 1371

Query: 1419 KLKYFPEQGLPKSLSRLSIHNC 1440
            KL+     GLP++LSRL I +C
Sbjct: 1372 KLRSI---GLPETLSRLEIRDC 1390

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225449649|ref|XP_002262753.1| PREDICTED: putative disease resistance protein At3g14460 [Vitis vinifera]

 Score = 1016 bits (2628), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 639/1487 (42%), Positives = 873/1487 (58%), Gaps = 95/1487 (6%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
            M  +G AVLSA   +L +KL S  L  F R +++ ++  KW++ L  I AVL DAE++Q 
Sbjct: 1    MDAVGGAVLSALFGVLFDKLTSADLT-FARREQIHSELKKWEKTLMKINAVLDDAEEKQM 59

Query: 61   KDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIP 120
             +  VK WL +L++LAYDA+D+LDE  T+A  R  L  E        S  + SK   LIP
Sbjct: 60   SNRFVKIWLSELRDLAYDADDILDEFATQAALRPNLISE--------SQGSPSKVWSLIP 111

Query: 121  TCCTNF-SPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPT 179
            TCCT   SP    F  +M S+I+++TARL  I ST++  L L+ V   G   +  QR PT
Sbjct: 112  TCCTTLISPTDFMFNVEMGSKIKDITARLMDI-STRRIELGLEKV---GGPVSTWQRPPT 167

Query: 180  TSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV 239
            T LVNE  VYGR+K+++ I++LLL D    +    V+ I GMGGVGKTTLA+LV+ND+ +
Sbjct: 168  TCLVNEPCVYGRDKDEKMIVDLLLRDG-GSESKVGVVPIVGMGGVGKTTLARLVFNDETI 226

Query: 240  QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVL 299
            ++++ +++W CVS++FD+ RI+K+IL+S+ S Q     DLN LQ KL   L+G +FLLVL
Sbjct: 227  KQYFTLRSWVCVSDEFDIIRITKAILDSITS-QTTALSDLNQLQVKLSDALAGKRFLLVL 285

Query: 300  DDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERM-GADPVYQLKELSDDDCLCV 358
            DDVWN+NY  W  LR PF  GAAGSKI+VTTR+  VA  M G+D  + +K LS DDC  V
Sbjct: 286  DDVWNKNYGDWVLLRSPFSTGAAGSKIIVTTRDAEVARMMAGSDNYHYVKALSYDDCWSV 345

Query: 359  LTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIW 418
              Q +   R+   H SL+ +G++IV KCGGLPLAAKTLGGLLR +    +WE VL + IW
Sbjct: 346  FVQHAFENRNICAHPSLEVIGKKIVQKCGGLPLAAKTLGGLLRSKSKDDEWEDVLYSKIW 405

Query: 419  NLRD--SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYN 476
            N  D  SDILPALR+SYH+LP  LK+CFAYCS+FPKDYEF ++E++LLW AEGL+ Q   
Sbjct: 406  NFPDKESDILPALRLSYHYLPSHLKRCFAYCSIFPKDYEFDKKELVLLWMAEGLIQQSPK 465

Query: 477  GRK-MEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGE 535
            G+K MED+G ++  EL SRS FQ SS + SRFVMHDLINDLA++ + E+ F +E +L   
Sbjct: 466  GKKQMEDMGSDYFCELLSRSFFQLSSCNGSRFVMHDLINDLAQYVSEEICFHLEDSLDSN 525

Query: 536  NQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFL--PVNLSDYRHNYLAWSVLQRL 593
             +  FS S+RH S+   +Y+   + E     ++LRTFL  P+++  Y   +L   V   L
Sbjct: 526  QKHTFSGSVRHSSFARCKYEVFRKFEDFYKAKNLRTFLALPIHMQYYDFFHLTDKVSHDL 585

Query: 594  LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
            L  L  LRV SL     I  LPN IG+LKHLR LNLS T IQ LP+S++ L+NL T++L 
Sbjct: 586  LPKLRYLRVLSLSH-YEIRELPNSIGDLKHLRYLNLSCTIIQELPDSLSDLHNLQTLVLF 644

Query: 654  DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
             C +L +L +   NL  L HL  +  + L+ MP   GKL SL TL +F+VGK    G++E
Sbjct: 645  RCRRLNRLPRGFKNLINLRHLDIAHTHQLEVMPPQMGKLKSLQTLSKFIVGKSKELGIKE 704

Query: 714  LKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHV 773
            L  L HL+G L I  L+NV D+ DA +A L +K +LE LL++WS+    +      E +V
Sbjct: 705  LGDLLHLRGKLSILDLQNVVDIQDARDANLKDKHHLEELLMEWSSNMFDDSQNETIELNV 764

Query: 774  LSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRC-TSTSLPSVGQLPFLKE 832
            L  L+P+ ++++LTI  YGG  FP W+GD SFSK+  LEL  C   T LPS+G+L  LK+
Sbjct: 765  LHFLQPNTNLKKLTIQSYGGLTFPYWIGDPSFSKMVCLELNYCRKCTLLPSLGRLSSLKK 824

Query: 833  LRISGMDGVKSVGSEFYGNSRSV--PFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKL 890
            L + GM GVKSVG EFYG       PFPSLE L F DM EWEEW  C +     E +P+L
Sbjct: 825  LCVKGMQGVKSVGIEFYGEPSLCVKPFPSLEFLRFEDMPEWEEW--CSS-----ESYPRL 877

Query: 891  RKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPH 950
            R+L + HC KL   LP  L  L  L I  C +L+  +  LP L +L +  C   +  S  
Sbjct: 878  RELEIHHCPKLIQKLPSHLPSLVKLDIIDCPKLVAPLPSLPFLRDLIVAECNEAMLRSG- 936

Query: 951  LVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQF 1010
                                  D+ SL  L++     L  L      ++        L+ 
Sbjct: 937  ---------------------GDLTSLITLRLENISNLTFL------NEGLVRFLGALEV 969

Query: 1011 LKLSKCEGLTRLPQALLTLSSLTEMR---ISGCASLVSFPQ-AALPSHLRTVKIEDCNAL 1066
            L++  C  L  L Q+ +   +L+ +R   I  C  LV   +   LP +L  ++I  C +L
Sbjct: 970  LEICNCSELKFLLQSGVGFENLSCIRHLVIVMCPKLVLLAEDQPLPCNLEYLEINKCASL 1029

Query: 1067 ESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNS 1126
            E LP      S +SL  L I+ C  L S  E+  P  L ++++  C  L SLP+  M N 
Sbjct: 1030 EKLPIGL--QSLTSLRELSIQKCPKLCSLAEMDFPPMLISLELYDCEGLESLPDGMMING 1087

Query: 1127 NTS----LESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTS 1182
                   LE L+I  C SL    R +LP  LK L +  C  L++L   + +      C  
Sbjct: 1088 ENRNFCLLECLKIVHCPSLICFPRGELPSKLKELEIIDCAKLQSL--PEGLILGDHTCH- 1144

Query: 1183 LTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTS 1242
                         LE L++  C  L+   R G LP  +K L + +C +LES++    +T+
Sbjct: 1145 -------------LEFLRIHRCPLLSSFPR-GLLPSTMKRLEIRNCKQLESISLLSHSTT 1190

Query: 1243 LEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENL 1302
            LE + I  L+   +    LH+L HL ++ I  C  LESFPE G  S  L  L I DC+NL
Sbjct: 1191 LEYLRIDRLK--INFSGCLHSLKHLIELHIYSCSGLESFPERGFSSPNLKMLHIDDCKNL 1248

Query: 1303 KALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLK-ISKPLPEWGFNRFT 1361
            K+LP  M + TSL  L I  CP++VSF E+G   NL S  +R  K +  PL +WG +  T
Sbjct: 1249 KSLPLQMQSFTSLRDLRIYDCPNLVSFAEEGLSLNLTSFWIRNCKNLKMPLYQWGLHGLT 1308

Query: 1362 SLRRFTICGGCP--DLVSPPPFPASLTNLWISDMPDLESISSIG-ENLTSLETLRLFNCP 1418
            SL+ F I    P  D  S P  P +LT L IS   +LES+SS+G +NLTSLE L +++CP
Sbjct: 1309 SLQTFVINNVAPFCDHDSLPLLPRTLTYLSISKFHNLESLSSMGLQNLTSLEILEIYSCP 1368

Query: 1419 KLKYF-PEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRV 1464
            KL+ F P++GL  +LS L I  CP+IE RCRK++G+ WPMISH+PR+
Sbjct: 1369 KLQTFLPKEGLSATLSNLRIKFCPIIEARCRKNKGEDWPMISHIPRI 1415

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359495026|ref|XP_003634900.1| PREDICTED: uncharacterized protein LOC100854556 [Vitis vinifera]

 Score = 1000 bits (2585), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 620/1443 (42%), Positives = 863/1443 (59%), Gaps = 92/1443 (6%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
            M+F+GEA LSAS++ L++ LA   L  F R +++ A+  KW+ +L  I AVL DAE++Q 
Sbjct: 1    MAFVGEAFLSASIQKLVDMLACPDLRKFAREEQVHAELKKWEGILLKIHAVLHDAEEKQM 60

Query: 61   KDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIP 120
             +  V+ WL +L++LAYD ED+LD+  TEALRR+L+  +P    QPS    TS  R +I 
Sbjct: 61   TNRFVQIWLAELRDLAYDVEDILDDFATEALRRKLITDDP----QPS----TSTVRSIIS 112

Query: 121  TCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLP-T 179
            +  + F+P ++ +   M S++EE+TARL  I STQK  L L+  + +  +R  R+R+P T
Sbjct: 113  SLSSRFNPNALVYNLNMGSKLEEITARLHEI-STQKGDLDLRENVEERSNRK-RKRVPET 170

Query: 180  TSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV 239
            TSLV E++VYGRE +KE I+E+LL D+   D+   VI I GMGGVGKTTLAQL Y+DDRV
Sbjct: 171  TSLVVESRVYGRETDKEAILEVLLRDESIHDNEVCVIPIVGMGGVGKTTLAQLAYHDDRV 230

Query: 240  QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVL 299
            + H++++AW CVS+DFDV RI+K++L S+AS   ++ +DLNLLQ KLK++LSG KFLLVL
Sbjct: 231  KNHFDLRAWVCVSDDFDVLRITKTLLQSIAS-YAREINDLNLLQVKLKEKLSGKKFLLVL 289

Query: 300  DDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVL 359
            DDVWNENY +W  L  P  AG  GSK+++TTRN+ VA        Y L+ELS+DDC  V 
Sbjct: 290  DDVWNENYDKWDRLCTPLRAGGPGSKVIITTRNMGVASLTRTVSPYPLQELSNDDCRAVF 349

Query: 360  TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN 419
             Q +LGAR+F  H  +K +GE++V +C GLPL AK LGG+LR   +   W+ +LK+ IW+
Sbjct: 350  AQHALGARNFEAHPHVKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWD 409

Query: 420  LRD--SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNG 477
            L +  S +LPAL++SYH LP  LKQCFAYC++FPK YEF+++E+ILLW  EG L Q    
Sbjct: 410  LPEEKSGVLPALKLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELILLWMGEGFL-QTKGK 468

Query: 478  RKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQ 537
            ++MEDLG ++  EL SRS FQQSS    RF+MHDLI+DLA+  AG + F +E  L  EN 
Sbjct: 469  KRMEDLGSKYFSELLSRSFFQQSSDVMPRFMMHDLIHDLAQSIAGNVSFNLEDKL--ENN 526

Query: 538  QKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFL--PVNLSDYRH-NYLAWSVLQRLL 594
            +   +  RH S+I    +   + E +   ++LRTFL  P+++S  +  +++   V   LL
Sbjct: 527  ENIFQKARHLSFIRQANEIFKKFEVVDKGKYLRTFLALPISVSFMKSLSFITTKVTHDLL 586

Query: 595  NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLED 654
              +  LRV SL G   +  LP+ I NL HLR LNL R+ I+ LP S+  LYNL T++L D
Sbjct: 587  MEMKCLRVLSLSG-YKMSELPSSIDNLSHLRYLNLCRSSIKRLPNSVGHLYNLQTLILRD 645

Query: 655  CHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
            C  L ++   MGNL  L HL  +  + L+EMP   G LT+L TL +F+VGK +GS ++EL
Sbjct: 646  CWSLTEMPVGMGNLINLRHLDIAGTSQLEEMPPRMGCLTNLQTLSKFIVGKGNGSSIQEL 705

Query: 715  KSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVL 774
            K L  LQG L I  L NV++  DA +A L NK ++E L + WS  D  +      E  VL
Sbjct: 706  KHLLDLQGELSIQGLHNVRNTRDAVDACLKNKCHIEELTMGWSG-DFDDSRNELNEMLVL 764

Query: 775  SVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTS-TSLPSVGQLPFLKEL 833
             +L+P R++++LT+  YGG KFP W+G+ SFSK+  L L+ C   TSLP +G+L  LK L
Sbjct: 765  ELLQPQRNLKKLTVEFYGGPKFPSWIGNPSFSKMESLTLKNCGKCTSLPCLGRLSLLKAL 824

Query: 834  RISGMDGVKSVGSEFYGN-SRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRK 892
            RI GM  VK++G EF+G  S   PFP LE+L F DM EWE+W      EE + +F  LR+
Sbjct: 825  RIQGMCKVKTIGDEFFGEVSLFKPFPCLESLRFEDMPEWEDWCFSDMVEECEGLFSCLRE 884

Query: 893  LSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLV 952
            L +  C KL G+LP                      CLP+L+EL+I  C ++  + P L 
Sbjct: 885  LRIRECPKLTGSLP---------------------NCLPSLAELEIFECPKLKAALPRLA 923

Query: 953  HAVN---VRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQ 1009
            +  +   V       R+      D+ SL  L I R  +L  L   E   Q        LQ
Sbjct: 924  YVCSLNVVECNEVVLRNGV----DLSSLTTLNIQRISRLTCL--REGFTQLLAA----LQ 973

Query: 1010 FLKLSKCEGLTRLPQ---ALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNAL 1066
             L +  C  +T L +    L  L  L  + I  C  L S  +  LP +L+ +KIE+C  L
Sbjct: 974  KLVIRGCGEMTSLWENRFGLECLRGLESIDIWQCHGLESLEEQRLPCNLKHLKIENCANL 1033

Query: 1067 ESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNS 1126
            + LP      S + LE L +++C  L SFPE+ LP  LR++ ++ CN L  LP     N 
Sbjct: 1034 QRLPNGL--QSLTCLEELSLQSCPKLESFPEMGLPPMLRSLVLQKCNTLKLLP----HNY 1087

Query: 1127 NTS-LESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTY 1185
            N+  LE L I+ C  L      +LP SLK+L +  C NL+TL           G      
Sbjct: 1088 NSGFLEYLEIEHCPCLISFPEGELPASLKQLKIKDCANLQTL---------PEGMMHHNS 1138

Query: 1186 FSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL--DNTSL 1243
              S N     LE L++R CS+L  L   G LP  LK L + DC + + ++E++   NT+L
Sbjct: 1139 MVSNNS--CCLEVLEIRKCSSLPSLP-TGELPSTLKRLEIWDCRQFQPISEKMLHSNTAL 1195

Query: 1244 EEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLK 1303
            E ++IS   N+K LP  LH+L +L   ++  C  L SFPE GLP+  L +L I +CENLK
Sbjct: 1196 EHLSISNYPNMKILPGFLHSLTYL---YMYGCQGLVSFPERGLPTPNLRDLYINNCENLK 1252

Query: 1304 ALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRG-LKISKPLPEWGFNRFTS 1362
            +LP+ M NL SL  L IR C  + SFPE G   NL SL +R  + +  PL EWG +R TS
Sbjct: 1253 SLPHQMQNLLSLQELNIRNCQGLESFPECGLAPNLTSLSIRDCVNLKVPLSEWGLHRLTS 1312

Query: 1363 LRRFTICGGCPDLVSPPP----FPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCP 1418
            L    I G CP L S        P++L+ L+IS +  L  ++   +NL+SLE + ++ CP
Sbjct: 1313 LSSLYISGVCPSLASLSDDDCLLPSTLSKLFISKLDSLACLAL--KNLSSLERISIYRCP 1370

Query: 1419 KLK 1421
            KL+
Sbjct: 1371 KLR 1373

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147860511|emb|CAN79726.1| hypothetical protein VITISV_014536 [Vitis vinifera]

 Score =  994 bits (2570), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 611/1412 (43%), Positives = 843/1412 (59%), Gaps = 87/1412 (6%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
            M+F+GEA LSAS++ L++ LA   L  F R +++ A+  KW+ +L  I AVL DAE++Q 
Sbjct: 1    MAFVGEAFLSASIQKLVDMLACPDLRKFAREEQVHAELKKWEGILLKIHAVLHDAEEKQM 60

Query: 61   KDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIP 120
             +  V+ WL +L++LAYD ED+LD+  TEALRR L++ +P    QPS    TS  R LI 
Sbjct: 61   TNRFVQIWLAELRDLAYDVEDILDDFATEALRRNLIKDDP----QPS----TSTVRSLIS 112

Query: 121  TCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLP-T 179
            +  + F+P ++ +   M S+IEE+TARL  I STQK  L L+  + +G+S   R+R+P T
Sbjct: 113  SLSSRFNPNALVYNLNMGSKIEEITARLHEI-STQKGDLDLRENV-EGRSHRKRKRVPET 170

Query: 180  TSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV 239
             SLV E++VYGRE +KE I+E+LL D+L  D+   VI I GMGGVGKTTLAQL YNDDRV
Sbjct: 171  ASLVVESRVYGRETDKEAILEVLLRDELIHDNEVCVIPIVGMGGVGKTTLAQLAYNDDRV 230

Query: 240  QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVL 299
            + H++++AW CVS+DFDV RI+K++L S+AS   ++ +DLNLLQ K+K++LSG KFLLVL
Sbjct: 231  KNHFDLRAWVCVSDDFDVLRITKTLLQSIAS-YTREINDLNLLQVKMKEKLSGKKFLLVL 289

Query: 300  DDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVL 359
            DDVWNENY +W  L  P  AG  GSK+++TTRN+ VA        Y L+ELS+DDC  V 
Sbjct: 290  DDVWNENYDKWDSLCTPLRAGGPGSKVIITTRNMGVATLTRTVSPYLLQELSNDDCRAVF 349

Query: 360  TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN 419
             Q +LGAR+F  H  LK +GE++V +C GLPL AK LGG+LR   +   W+ +LK+ IW+
Sbjct: 350  AQHALGARNFEAHPHLKIIGEEMVNRCRGLPLVAKALGGILRNELNHEAWDDILKSKIWD 409

Query: 420  LRD--SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNG 477
            L +  S +LPAL++SYH LP  LKQCFAYC++FPK YEF+++E+ILLW  EG L Q    
Sbjct: 410  LPEEKSGVLPALKLSYHHLPSHLKQCFAYCAIFPKGYEFKKDELILLWMGEGFLQQTKGK 469

Query: 478  RKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQ 537
            ++MEDLG ++  EL SRS FQQSS    RF+MHDLI+DLA+  AG +   +E  L  EN 
Sbjct: 470  KRMEDLGSKYFSELLSRSFFQQSSNIMPRFMMHDLIHDLAQSIAGNVCLNLEDKL--ENN 527

Query: 538  QKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFL--PVNLSDYRH-NYLAWSVLQRLL 594
            +   +  RH S+I    +   + E +   ++LRTFL  P+++S  +  +++   V   LL
Sbjct: 528  ENIFQKARHLSFIRQANEIFKKFEVVDKGKYLRTFLALPISVSFMKSLSFITTKVTHDLL 587

Query: 595  NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLED 654
              +  LRV SL G   + +LP+ I NL HLR LNL R+ I+ LP S+  LYNL T++L D
Sbjct: 588  MEMKCLRVLSLSG-YKMSDLPSSIDNLSHLRYLNLCRSSIKRLPNSVGHLYNLQTLILRD 646

Query: 655  CHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
            C  L ++   MGNL  L HL  +  + L+EMP   G LT+L TL +F VGK +GS ++EL
Sbjct: 647  CWSLTEMPVGMGNLINLRHLDIAGTSQLEEMPPRMGSLTNLQTLSKFXVGKGNGSSIQEL 706

Query: 715  KSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVL 774
            K L  LQG L I  L NV++  DA +A L NK ++E L + WS  D  +      E  VL
Sbjct: 707  KHLLDLQGELSIQGLHNVRNTRDAMDACLKNKCHIEELTMGWSG-DFDDSRNELNEMLVL 765

Query: 775  SVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTS-TSLPSVGQLPFLKEL 833
             +L+P R++++LT+  YGG KFP W+G+ SFSK+  L L+ C   TSLP +G+L  LK L
Sbjct: 766  ELLQPQRNLKKLTVEFYGGPKFPSWIGNPSFSKMESLTLKNCGKCTSLPCLGRLSLLKAL 825

Query: 834  RISGMDGVKSVGSEFYGN-SRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRK 892
            RI GM  VK++G EF+G  S   PFP LE+L F DM EWE+W      EE + +F  LR+
Sbjct: 826  RIQGMCKVKTIGDEFFGEVSLFQPFPCLESLRFEDMPEWEDWCFSDMVEECEGLFSCLRE 885

Query: 893  LSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLV 952
            L +  C KL G+LP                      CLP+L+EL+I  C ++  + P L 
Sbjct: 886  LRIRECPKLTGSLP---------------------NCLPSLAELEIFECPKLKAALPRLA 924

Query: 953  HAVN---VRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQ 1009
            +  +   V       R+      D+ SL  L I R  +L  L   E   Q        LQ
Sbjct: 925  YVCSLNVVECNEVVLRNGV----DLSSLTTLNIQRISRLTCL--REGFTQLLAA----LQ 974

Query: 1010 FLKLSKCEGLTRLPQ---ALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNAL 1066
             L +  C  +T L +    L  L  L  + I  C  LVS  +  LP +L+ +KIE+C  L
Sbjct: 975  KLVIRGCGEMTSLWENRFGLECLRGLESIDIWQCHGLVSLEEQRLPCNLKHLKIENCANL 1034

Query: 1067 ESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNS 1126
            + LP      +   LE L +++C  L SFPE+ LP  LR++ ++ CN L  LP  +   +
Sbjct: 1035 QRLPNGLQRLT--CLEELSLQSCPKLESFPEMGLPPMLRSLVLQKCNTLKLLPHNY---N 1089

Query: 1127 NTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYF 1186
            +  LE L I+ C  L      +LP SLK+L +  C NL+TL           G       
Sbjct: 1090 SGFLEYLEIEHCPCLISFPEGELPASLKQLKIKDCANLQTL---------PEGMMHHNSM 1140

Query: 1187 SSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL--DNTSLE 1244
             S N     LE L++R CS+L  L   G LP  LK L + DC + + ++E++   NT+LE
Sbjct: 1141 VSNNS--CCLEVLEIRKCSSLPSLP-TGELPSTLKRLEIWDCRQFQPISEKMLHSNTALE 1197

Query: 1245 EITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKA 1304
             ++IS   N+K LP  LH+L +L   +I  C  L SFPE GLP+  L +L I +CENLK+
Sbjct: 1198 HLSISNYPNMKILPGXLHSLTYL---YIYGCQGLVSFPERGLPTPNLRDLYINNCENLKS 1254

Query: 1305 LPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRG-LKISKPLPEWGFNRFTSL 1363
            LP+ M NL SL  L IR C  + SFPE G   NL SL +R  + +  PL EWG +R TSL
Sbjct: 1255 LPHQMQNLLSLQELNIRNCQGLESFPECGLAPNLTSLSIRDCVNLKVPLSEWGLHRLTSL 1314

Query: 1364 RRFTICGGCPDLVSPPP----FPASLTNLWIS 1391
                I G CP L S        P +L+ L+I+
Sbjct: 1315 SSLYISGVCPSLASLSDDECLLPTTLSKLFIN 1346

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487225|ref|XP_002268551.2| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  992 bits (2565), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 613/1482 (41%), Positives = 839/1482 (56%), Gaps = 126/1482 (8%)

Query: 2    SFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTK 61
              +GEAVLS  ++ L++ + S  L  + R ++++++  + K +L  I  VL DAE++Q  
Sbjct: 3    GIVGEAVLSCFIQKLVDMVTSPELWKYARKEQVDSELKRCKNILTKICLVLNDAEEKQMT 62

Query: 62   DESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPT 121
            +  VK WLD+L++LAYD ED+LD+   EALR  L+  +P            SK R ++  
Sbjct: 63   NPLVKIWLDELRDLAYDVEDILDDFAIEALRSSLIMAQPQQG--------ISKLRDML-- 112

Query: 122  CCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTS 181
              ++  P +    S M S+I+E+T RLQ I S QK+ L L+ +     S   R+R  TTS
Sbjct: 113  --SSLIPSASTSNSSMRSKIKEITERLQEI-SAQKNDLDLREIAGGWWSDRKRKREQTTS 169

Query: 182  LVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR 241
            LV E+ VYGREK K +I+++LL  D   DD  SVI I GMGG+GKTTLAQL +NDD V+ 
Sbjct: 170  LVVESDVYGREKNKADIVDMLLKHDPSSDDEVSVIPIVGMGGIGKTTLAQLAFNDDEVKG 229

Query: 242  HYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDD 301
             ++++AW CVS+DFDV +I+K+IL SV      D +DLNLLQ KLK++ SG KFLLVLDD
Sbjct: 230  RFDLRAWVCVSDDFDVSKITKTILQSVDPGT-HDVNDLNLLQVKLKEKFSGKKFLLVLDD 288

Query: 302  VWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQ 361
            VWNEN   W  L  P  AGA GSK++VTTRN  VA      P Y L+ELS++DCL + TQ
Sbjct: 289  VWNENCHEWDTLCMPMRAGAPGSKLIVTTRNEGVAAVTRTCPAYPLRELSNNDCLSLFTQ 348

Query: 362  ISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLR 421
             +L  R+F  H  LKEVGE+IV +C GLPLAAK LGG+LR +     W  +L + IW+L 
Sbjct: 349  QALRTRNFDAHPHLKEVGEEIVRRCKGLPLAAKALGGMLRNQLSRDAWANILTSRIWDLP 408

Query: 422  D--SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRK 479
            +  S ILPAL +SYH LP  LKQCFAYCS+FPKDYEF +++++LLW AEG L +     +
Sbjct: 409  EDKSHILPALMLSYHHLPSHLKQCFAYCSMFPKDYEFNKDDLVLLWMAEGFLQKTKEAAR 468

Query: 480  MEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQK 539
             EDLG ++  +L SRS FQ SS+++SR+VMHDLINDLA+  AGE+YF ++G  +   Q  
Sbjct: 469  PEDLGSKYFNDLFSRSFFQHSSRNSSRYVMHDLINDLAQSVAGEIYFHLDGAWENNKQST 528

Query: 540  FSESLRHFSYICGEYDGDTRLEFICDVQHLRTF--LPVNLSDYRHNYLAWSVLQRLLNHL 597
             SE  RH S+     +   + E    V+ LRT   LP++   +   Y++  VL  LL  +
Sbjct: 529  ISEKTRHSSFNRQHSETQRKFEPFHKVKCLRTLVALPMDQPVFSSGYISSKVLDDLLKEV 588

Query: 598  PRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQ 657
              LRV SL G   I+ LP+ IGNLK+LR LNLS + I+ LP+S+  LYNL  ++L DC  
Sbjct: 589  KYLRVLSLSG-YKIYGLPDSIGNLKYLRYLNLSGSSIRRLPDSVCHLYNLQALILSDCKD 647

Query: 658  LKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSL 717
            L  L   +GNL  L HL       L+EMP   G LT L TL +F+VG+ +  GLRELK+L
Sbjct: 648  LTTLPVGIGNLINLRHLHIFDTWKLQEMPSQTGNLTKLQTLSKFIVGEGNNLGLRELKNL 707

Query: 718  THLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVL 777
              L+G L I  L NV ++ D  +A L +K  +E L ++WS     + ++   E +VL  L
Sbjct: 708  FDLRGQLSILGLHNVMNIRDGRDANLESKHGIEELTMEWSDDFGASRNEMH-ERNVLEQL 766

Query: 778  KPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLPSVGQLPFLKELRIS 836
            +PHR++++LTI  YGG+ FP W+ D SF  +  L L+ C   TSLP++GQ+  LK L I 
Sbjct: 767  RPHRNLKKLTIASYGGSGFPNWMKDPSFPIMTHLILKDCKRCTSLPALGQISSLKVLHIK 826

Query: 837  GMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLF 896
            GM  V+++  EFYG     PFPSLE+L+F  M EWE W  C       E+FP LR L++ 
Sbjct: 827  GMSEVRTINEEFYGGIVK-PFPSLESLTFEVMAEWEYWF-CPDAVNEGELFPCLRLLTIR 884

Query: 897  HCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVN 956
             C KLQ  LP                      CLP+  +L I  C  + F+S        
Sbjct: 885  DCRKLQ-QLP---------------------NCLPSQVKLDISCCPNLGFASSRFASL-- 920

Query: 957  VRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKC 1016
                      E RL                                  PC L+ L++   
Sbjct: 921  ---------GEQRL----------------------------------PCNLKMLRIHDD 937

Query: 1017 EGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWM-H 1075
              L +LP  L TL+ L ++ I+GC SL  FP   LP+ L+++ I+DC  LE+LPE  M H
Sbjct: 938  ANLEKLPNGLQTLTCLEQLDITGCPSLRCFPNCELPTTLKSLCIKDCKNLEALPEGMMHH 997

Query: 1076 NSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRI 1135
            +S   LE LKI  C  L SFP+  LP  LR +++  C  L SLP  +   S+ +LESL I
Sbjct: 998  DSTCCLEELKIEGCPRLESFPDTGLPPLLRRLEVSECKGLKSLPHNY---SSCALESLEI 1054

Query: 1136 KGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTM 1195
              C SL+     +LP +LK + +  C NL +L  E  +   S  C               
Sbjct: 1055 SDCPSLRCFPNGELPTTLKSIWIQDCENLESL-PEGMMHHDSTCC--------------- 1098

Query: 1196 LEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL--DNTSLEEITISVLEN 1253
            LE + +  C  L      G LP  LK L +  C  LES++E +  +N++L+ + +    N
Sbjct: 1099 LEEVIIMGCPRLESFPDTGELPSTLKKLEICGCPDLESMSENMCPNNSALDNLVLEGYPN 1158

Query: 1254 LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLT 1313
            LK LP  LH+L  LQ I    C  LE FP  GL +  LT L I  CENLK+LP+ M +L 
Sbjct: 1159 LKILPECLHSLKSLQII---NCEGLECFPARGLSTPTLTSLRIEGCENLKSLPHQMRDLK 1215

Query: 1314 SLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLK-ISKPLPEWGFNRFTSLRRFTICGGC 1372
            SL  L I  CP V SFPEDG P NL SLE+   + + KP+    F+  TSL   TI    
Sbjct: 1216 SLRDLTILFCPGVESFPEDGMPPNLISLEISYCENLKKPIS--AFHTLTSLFSLTIENVF 1273

Query: 1373 PDLVS----PPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGL 1428
            PD+VS        P SLT+L I+ M  L  +S   +NL SL+ L +  CP L       +
Sbjct: 1274 PDMVSFRDEECLLPISLTSLRITAMESLAYLSL--QNLISLQYLEVATCPNLGSL--GSM 1329

Query: 1429 PKSLSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQI 1470
            P +L +L I  CP++E+R  K++G+YWP I+H+P + +  Q 
Sbjct: 1330 PATLEKLEIWCCPILEERYSKEKGEYWPKIAHIPCIAMRGQF 1371

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225450005|ref|XP_002272291.1| PREDICTED: putative disease resistance protein At3g14460 [Vitis vinifera]

 Score =  985 bits (2546), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 625/1536 (40%), Positives = 895/1536 (58%), Gaps = 116/1536 (7%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
            M  +GEA+LSA+   L +KL S  L  F R + +  +  KW++ L+ I+  + DAE++Q 
Sbjct: 1    MEVVGEALLSAAFGSLFDKLGSSDLIKFARQEDVHTELEKWEKELQSIRQEVNDAEEKQI 60

Query: 61   KDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIP 120
              E+VK+WL DL+ LAYD +D+LDE   E +R +L+  E   AD+    A+TSK RK IP
Sbjct: 61   TQEAVKSWLFDLRVLAYDMDDILDEFAYELMRTKLMGAE---ADE----ASTSKKRKFIP 113

Query: 121  TCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTT 180
            T  T+FSP  +  + K+ S+I E+T+RLQ I S +K  L L+   + G +   ++  PTT
Sbjct: 114  TFSTSFSPTHVVRDVKLGSKIREITSRLQHI-SARKAGLGLEKA-AGGATSAWQRPPPTT 171

Query: 181  SLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ 240
             +  E  VYGR+++K+ +++LL   +   +    VISI GMG +GKTTLA+LVYND+ + 
Sbjct: 172  PIAYEPGVYGRDEDKKVLLDLLHKVE-PNETNVGVISIVGMGWLGKTTLARLVYNDE-MA 229

Query: 241  RHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLD 300
            +++++KAW CVS+ FDV  I+K+ILNSV S       D   +Q+KL   L+G KFLL+LD
Sbjct: 230  KNFDLKAWVCVSDVFDVENITKAILNSVESSDASGSLDFQQVQKKLADALTGKKFLLILD 289

Query: 301  DVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADP-VYQLKELSDDDCLCVL 359
            DVWNE+   W+ LR PF  GA GSK++VTTRN  VA  MGA+  VY+LK LS+D C  V 
Sbjct: 290  DVWNEDSGNWNSLRAPFSVGAKGSKVMVTTRNKGVALMMGAEKNVYELKTLSEDACWSVF 349

Query: 360  TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN 419
             + +   R+   H +L  +G +IV KCGGLPLAA TLGGLLR +    +WE +L + IW 
Sbjct: 350  EKHAFEHRNIDEHPNLVSIGRKIVNKCGGLPLAATTLGGLLRSKRREDEWEKILSSKIWG 409

Query: 420  LRDS--DILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNG 477
               +  +ILPALR+SYH+LP  LK+CFAYC++FPKDYEF  + ++LLW AEGL+ Q   G
Sbjct: 410  WSGTEPEILPALRLSYHYLPSHLKRCFAYCAMFPKDYEFDSKNLVLLWMAEGLIQQPKGG 469

Query: 478  RK-MEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGEN 536
            R  MEDLG ++  EL SRS FQ SS   S FVMHDLI+DLA+  AGE+ F +E  L+   
Sbjct: 470  RHTMEDLGDDYFCELLSRSFFQSSSNHESHFVMHDLIHDLAQGVAGEICFCLEDELECNR 529

Query: 537  QQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLS-DYRHNYLAWSVLQRLLN 595
            Q   S+  RH S++  + D   + E   +V+HLRTF+ +N+      +Y+   V   L+ 
Sbjct: 530  QSTISKETRHSSFVRRDGDVLKKFEAFQEVKHLRTFVALNIHWASTKSYVTSLVCNHLVP 589

Query: 596  HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDC 655
               RLRV SL    NIF LP+ I  LKHLR LNLS T+I+ LP+S+ +LYNL T++L  C
Sbjct: 590  KFQRLRVLSLSQ-YNIFELPDSICELKHLRYLNLSYTKIRSLPDSVGNLYNLQTLMLSFC 648

Query: 656  HQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELK 715
              L +L  ++GNL  L HL +    SL+EMP+  GKL +L TL  F+VGK    G++ELK
Sbjct: 649  MHLTRLPPNIGNLINLRHL-SVVGCSLQEMPQQIGKLKNLQTLSDFIVGKSGFLGIKELK 707

Query: 716  SLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLS 775
             L+HL+G +RIS+L+NV ++ DA +A L  K+N+E L++ WS ++  +L   + +  VL 
Sbjct: 708  HLSHLRGKIRISQLKNVVNIQDAIDANLRTKLNVEELIMHWS-KEFDDLRNEDTKMEVLL 766

Query: 776  VLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLPSVGQLPFLKELR 834
             L+PH  +++L I G+GG +FP W+ D S+SKLA L L  C   TSLPSVGQLPFLK L 
Sbjct: 767  SLQPHTSLKKLNIEGFGGRQFPNWICDPSYSKLAELSLYGCIRCTSLPSVGQLPFLKRLF 826

Query: 835  ISGMDGVKSVGSEFYGNSR--SVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRK 892
            I GMDGV+ VG EF G     + PF  LE+L F +M+EW+EW          E F +L +
Sbjct: 827  IEGMDGVRRVGLEFEGQVSLYAKPFQCLESLCFENMKEWKEW------SWSRESFSRLLQ 880

Query: 893  LSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQC-LPALSELQIDGCKRVV--FSSP 949
            L +  C +L   LP  L  L  L I +C + +V +   LP+L EL I  C +++  +SS 
Sbjct: 881  LEIKDCPRLSKKLPTHLTSLVRLEINNCPETMVPLPTHLPSLKELNIYYCPKMMPLWSSF 940

Query: 950  HLVHAVNVRKQAYFWRSET-----------------RLPQD-IRSLNRLQ---------- 981
                 ++V++ +   RS T                 RL Q  +RSL RLQ          
Sbjct: 941  AFDPFISVKRGS---RSATDITSGIYLRINGMSGLSRLEQKFLRSLPRLQLLEIDNSGAL 997

Query: 982  -----------------ISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQ 1024
                             +S C QL+SL  EE         PC +Q+L++ KC+ L +LP 
Sbjct: 998  ECLWENGLGLGNLASLRVSGCNQLVSLGEEEVQGL-----PCNIQYLEICKCDNLEKLPH 1052

Query: 1025 ALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAW-MHNSNSSLES 1083
             L + +SLTE+ I  C+ LVSFP    P  LR + I +C +L SLP++    +S  +LE 
Sbjct: 1053 GLQSYASLTELIIKDCSKLVSFPDKGFPLMLRRLTISNCQSLSSLPDSSNCCSSVCALEY 1112

Query: 1084 LKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKY 1143
            LKI  C SL+ FP+  LP+ L+ + +  C  L SLPE        +LE + I+ C SL  
Sbjct: 1113 LKIEECPSLICFPKGQLPTTLKELYVSVCKNLKSLPE---DIEVCALEHIDIRWCSSLIG 1169

Query: 1144 IARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRF 1203
              + +LP +LK L +  C  L +L               + +  S +     L+ L +  
Sbjct: 1170 FPKGKLPSTLKNLTIGGCKKLESLP------------EGIMHHHSNHTTNCGLQFLDISK 1217

Query: 1204 CSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL---DNTSLEEITISVLENLKSLPAD 1260
            C +L    R G     LK +R+ DC++L+ + E +   +N +LE ++I    NLK++P  
Sbjct: 1218 CPSLTSFPR-GRFLSTLKSIRICDCAQLQPILEEMFHRNNNALEVLSIWGYPNLKTIPDC 1276

Query: 1261 LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEI 1320
            L+NL HLQ   I  C NLE  P +    T LT L + DCEN+K +P+C +NL  L I + 
Sbjct: 1277 LYNLKHLQ---IRKCENLELQPCQLQSLTSLTSLEMTDCENIKTIPDCFYNLRDLRIYK- 1332

Query: 1321 RGCPSVVSFPED-GFPTNLQSLEVRGLK-ISKPLPEWGFNRFTSLRRFTICGGCPDLVSP 1378
              C ++   P      T+L +LE+   + I  PL EWG  R TSL+   I          
Sbjct: 1333 --CENLELQPHQLQSLTSLATLEIINCENIKTPLSEWGLARLTSLKTLIISDYHHHHHHH 1390

Query: 1379 PPF--PASLTNLWISDMPDLESISSIG-ENLTSLETLRLFNCPKLKYF-PEQGLPKSLSR 1434
             PF  P ++  L IS   +L+S++ +  + LTSL++L +  CP L+ F P +GL  +LS 
Sbjct: 1391 HPFLLPTTVVELCISSFKNLDSLAFLSLQRLTSLKSLCISRCPNLQSFLPTEGLSDTLSE 1450

Query: 1435 LSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQI 1470
            LSI+ CPL+ +RC K++G+ WP I+H+P V I+ Q+
Sbjct: 1451 LSINGCPLLIQRCLKEKGEDWPKIAHIPYVKIDGQL 1486

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225450003|ref|XP_002272221.1| PREDICTED: putative disease resistance RPP13-like protein 1 [Vitis vinifera]

 Score =  970 bits (2508), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 623/1536 (40%), Positives = 875/1536 (56%), Gaps = 160/1536 (10%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
            M  +GEA+LS ++ LL +KLAS  L  F R + +  +  KW++ L+ I+  L DAE++Q 
Sbjct: 1    MEVVGEALLSTALGLLFDKLASSDLIKFARQEDVHTELKKWEKELQSIRQELNDAEEKQI 60

Query: 61   KDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIP 120
             DE+VK WL DL+ LAYD EDVLDE   E +RR+L+  E          A+TS  RK IP
Sbjct: 61   TDEAVKLWLFDLRVLAYDMEDVLDEFAYELMRRKLMGAE-------VDEASTSMVRKFIP 113

Query: 121  TCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTT 180
            TCCT+FSP  +    KM S+I  +T+RLQ I S +K  L L+   + G +   ++  PTT
Sbjct: 114  TCCTSFSPTHVVRNVKMGSKIRGITSRLQDI-SARKAGLGLEKA-AGGATSAWQRPPPTT 171

Query: 181  SLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ 240
             +  E  VYGR+++K+ I++LL     + ++   VISI GMGG+GKTTLA+LVYND+ + 
Sbjct: 172  PIAYEPGVYGRDEDKKAILDLLRKVGPK-ENSVGVISIVGMGGLGKTTLARLVYNDE-MA 229

Query: 241  RHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLD 300
            +++++KAW CVS+ FDV  I+K+ILNSV S       D   +Q+KL  +L+G KFLL+LD
Sbjct: 230  KNFDLKAWVCVSDVFDVENITKAILNSVESSDASGSLDFQQVQKKLTDELTGKKFLLILD 289

Query: 301  DVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGA-DPVYQLKELSDDDCLCVL 359
            DVWNE+   W  LR P   GA GSK++VTTRN  VA  MGA + +++L  LS+D C  V 
Sbjct: 290  DVWNEDSDNWDRLRAPLSVGAKGSKVIVTTRNKNVALMMGAAENLHELNPLSEDACWSVF 349

Query: 360  TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN 419
             + +    +   H +L  +G +IV KCGGLPLAAK LGGLLR +    +WE V  + IW+
Sbjct: 350  EKHAFEHINMEDHPNLVSIGRKIVGKCGGLPLAAKALGGLLRSKQREEEWERVSNSKIWD 409

Query: 420  LRDSD--ILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEY-N 476
               ++  ILPALR+SYH+LP  LK+CFAYC++F  DYEF  + ++LLW AEGL+ Q   +
Sbjct: 410  FSSTECEILPALRLSYHYLPSYLKRCFAYCAMFRNDYEFDSKTLVLLWMAEGLIQQPIAD 469

Query: 477  GRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGEN 536
             R MEDLG +   EL SRS FQ S  D  RFVMHDLI DLAR A+GE+ F +E  L+   
Sbjct: 470  NRTMEDLGDDNFCELLSRSFFQSSGIDEFRFVMHDLICDLARVASGEICFCLEDNLESNR 529

Query: 537  QQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTF--LPVNLSDYRHNYLAWSVLQRLL 594
            Q   S+  RH S+I G++D   + E   +++HLRTF  LP++   +  +++   V   L+
Sbjct: 530  QSTISKETRHLSFIRGKFDVLKKFEAFQELEHLRTFVALPIH-GTFTESFVTSLVCDHLV 588

Query: 595  NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLED 654
                +LRV SL     IF LP+ IG LKHLR LNLS T+I++LP+S+ +LYNL T++L +
Sbjct: 589  PKFQQLRVLSLSEYV-IFELPDSIGGLKHLRYLNLSFTQIKLLPDSVTNLYNLQTLILSN 647

Query: 655  CHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
            C  L +L  ++GNL  L HL +    SL+EMP+  GKL  L TL  F+V K    G++EL
Sbjct: 648  CKHLTRLPSNIGNLISLRHL-DVVGCSLQEMPQQIGKLKKLQTLSDFIVAKRGFLGIKEL 706

Query: 715  KSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVL 774
            K L++L+G + ISKLENV DV DA +A LN K+N+E L + WS   V + ++ + E  VL
Sbjct: 707  KDLSNLRGKICISKLENVVDVQDARDANLNTKLNVENLSMIWSKELVDSHNE-DTEMEVL 765

Query: 775  SVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLPSVGQLPFLKEL 833
              L+PH +++EL I  YGG KFP W+ D S++KL  L L  C    SLPSVGQLP LK+L
Sbjct: 766  LSLQPHTNLKELRIEYYGGRKFPNWMCDPSYTKLVALSLIGCIRCISLPSVGQLPLLKKL 825

Query: 834  RISGMDGVKSVGSEFYGNS--RSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLR 891
             I  MDGVKSVG EF G     + PF  LE+L F DM+ WEEW  C + +     F +LR
Sbjct: 826  VIKKMDGVKSVGLEFEGQVSLHATPFQCLESLWFEDMKGWEEW--CWSTKS----FSRLR 879

Query: 892  KLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQC-LPALSELQIDGCKRVV--FSS 948
            +L + +C +L   LP  L  L  L I++C +++V +   LP+L EL I  C  +   F +
Sbjct: 880  QLEIKNCPRLIKKLPTHLTSLVKLNIENCPEMMVPLPTDLPSLEELNIYYCPEMTPQFDN 939

Query: 949  PHLV---------HAVNVRKQAYFWRSE----TRL-PQDIRSLNRLQ------------- 981
               +          A+++    Y   S     +RL P+ ++SL RL+             
Sbjct: 940  HEFLIMPQRGASRSAIDITSHIYLEVSGISGLSRLQPEFMQSLPRLELLEIDNSGQLQCL 999

Query: 982  --------------ISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALL 1027
                          I  C QL+SL  EEE        P  LQ L++SKC+ L +LP+ L 
Sbjct: 1000 WLDGLGLGNLSLLRILGCNQLVSLGEEEEQGL-----PYNLQRLEISKCDKLEKLPRGLQ 1054

Query: 1028 TLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSS----LES 1083
              +SL E+ I  C  LVSFP+   P  LR + I +C +L SLP+  M  ++S+    LE 
Sbjct: 1055 IYTSLAELIIEDCPKLVSFPEKGFPLMLRGLSICNCESLSSLPDRMMMRNSSNNVCHLEY 1114

Query: 1084 LKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKY 1143
            L+I  C SL+ FP+  LP+ LR + I  C  L+SLPE        +LE L I+ C SL  
Sbjct: 1115 LEIEECPSLICFPKGRLPTTLRRLFISNCENLVSLPE---DIHVCALEQLIIERCPSLIG 1171

Query: 1144 IARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRF 1203
              + +LPP+LK+L +  C  L +L               + +  S N     L+ L +  
Sbjct: 1172 FPKGKLPPTLKKLYIRGCEKLESLP------------EGIMHHHSNNTANCGLQILDISQ 1219

Query: 1204 CSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL---DNTSLEEITISVLENLKSLPAD 1260
            CS+LA     G  P  LK + +++C++L+ ++E +   +N  LE+++IS   NLK++P  
Sbjct: 1220 CSSLASFP-TGKFPSTLKSITIDNCAQLQPISEEMFHCNNNELEKLSISRHPNLKTIPDC 1278

Query: 1261 LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEI 1320
            L+NL                            +L I  CENL   P+ + NLTSL  L+I
Sbjct: 1279 LYNLK---------------------------DLRIEKCENLDLQPHLLRNLTSLASLQI 1311

Query: 1321 RGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP 1380
              C +                      I  PL EWG  R TSLR  TI G  P+  S   
Sbjct: 1312 TNCEN----------------------IKVPLSEWGLARLTSLRTLTIGGIFPEATSFSN 1349

Query: 1381 -------FPASLTNLWISDMPDLESISSIG-ENLTSLETLRLFNCPKLKYF-PEQGLPKS 1431
                    P +L  L IS   +LES++ +  + LTSL  L +F CPKL+ F P +GLP  
Sbjct: 1350 HHHHLFLLPTTLVELCISRFQNLESLAFLSLQTLTSLRKLDVFRCPKLQSFMPREGLPDM 1409

Query: 1432 LSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLIN 1467
            LS L I +CPL+ +RC K++G+ WP I+H+P V I+
Sbjct: 1410 LSELYIRDCPLLIQRCSKEKGEDWPKIAHIPCVKID 1445

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359487422|ref|XP_002271916.2| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  967 bits (2500), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 614/1539 (39%), Positives = 878/1539 (57%), Gaps = 157/1539 (10%)

Query: 1    MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
            M  IG+A+LS  +E L +KLAS  L  F RH+ +  +  KW++ L+ I+  L DAE++Q 
Sbjct: 1    MDIIGDALLSTVIEFLFDKLASSDLMKFARHEDVHTELKKWEKELQSIREELNDAEEKQI 60

Query: 61   KDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIP 120
              E+VK+WL DL++LAYD ED+LDE   E +RR+L+  E   AD+    A+TSK R+ + 
Sbjct: 61   TQEAVKSWLFDLRDLAYDMEDILDEFAYEVMRRKLMGAE---ADE----ASTSKIRRFVS 113

Query: 121  TCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTT 180
            +CCT+F+P  +    K  S+I ++T+RLQ I S +K    L+ +     +   ++  PTT
Sbjct: 114  SCCTSFNPTHVVRNVKTGSKIRQITSRLQDI-SARKARFGLEKLRGAAATSAWQRPPPTT 172

Query: 181  SLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ 240
             +  E  VYGR+++K  ++++L   +   ++   +ISI GMGG+GKTTLA+LVYNDD + 
Sbjct: 173  PMAYEPDVYGRDEDKTLVLDMLRKVE-PNENNVGLISIVGMGGLGKTTLARLVYNDD-LA 230

Query: 241  RHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLD 300
            +++E++AW CV+EDFDV +I+K+ILNSV +       D   +Q KL   L+G    L+LD
Sbjct: 231  KNFELRAWVCVTEDFDVEKITKAILNSVLNSDASGSLDFQQVQRKLTDTLAGKTLFLILD 290

Query: 301  DVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMG-ADPVYQLKELSDDDCLCVL 359
            DVWNENY  W  LR PF   A GSK++VTTRN  VA  MG A+ +++L  LS+D C  V 
Sbjct: 291  DVWNENYCNWDRLRAPFSVVAKGSKVIVTTRNKNVALMMGAAENLHELNPLSEDACWSVF 350

Query: 360  TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN 419
             + +   R+   H +L  +G +IV KCGGLPLAAK LGGLLR +    +WE VL + IW+
Sbjct: 351  EKHACEHRNMEDHPNLVSIGRKIVGKCGGLPLAAKALGGLLRSKHREEEWERVLNSKIWD 410

Query: 420  LRDS--DILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQ-EYN 476
               +  +ILPALR+SYH+LP  LK CFAYC++FPKDYE+  + ++LLW AEGL+ Q   +
Sbjct: 411  FSSAECEILPALRLSYHYLPSYLKGCFAYCAIFPKDYEYDSKTLVLLWMAEGLIQQPNAD 470

Query: 477  GRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGEN 536
             + MEDLG  +  EL SRS FQ S  D SRFVMHDLI DLAR A+GE+ F +E  L+  +
Sbjct: 471  SQTMEDLGDNYFCELLSRSFFQSSGNDESRFVMHDLICDLARVASGEISFCLEDNLESNH 530

Query: 537  QQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTF--LPVNLSDYRHNYLAWSVLQRLL 594
            +   S+  RH S+I G++D   + E   + +HLRTF  LP++   +  +++   V  RL+
Sbjct: 531  RSTISKETRHSSFIRGKFDVFKKFEAFQEFEHLRTFVALPIH-GTFTKSFVTSLVCDRLV 589

Query: 595  NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLED 654
                +LRV SL     IF LP+ IG LKHLR LNLS T+I++LP+S+ +LYNL T++L +
Sbjct: 590  PKFRQLRVLSLSE-YMIFELPDSIGGLKHLRYLNLSFTQIKLLPDSVTNLYNLQTLILSN 648

Query: 655  CHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
            C  L +L   +GNL  L HL N    SL++MP+  GKL  L TL  F+V K    G++EL
Sbjct: 649  CKHLTRLPSKIGNLISLRHL-NVVGCSLQDMPQQIGKLKKLQTLSDFIVSKRGFLGIKEL 707

Query: 715  KSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVL 774
            K L+HL+G + ISKLENV DV DA +A L  K+N+E L + WS     + D+ + E  VL
Sbjct: 708  KDLSHLRGEICISKLENVVDVQDARDANLKAKLNVERLSMIWSKELDGSHDE-DAEMEVL 766

Query: 775  SVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLPSVGQLPFLKEL 833
              L+PH  +++L I GYGG +FP W+ D S+ KL  L L  C    S+PSVGQLPFLK+L
Sbjct: 767  LSLQPHTSLKKLNIEGYGGRQFPNWICDPSYIKLVELSLIGCIRCISVPSVGQLPFLKKL 826

Query: 834  RISGMDGVKSVGSEFYGNS--RSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLR 891
             I  MDGVKSVG EF G     + PF  LE+L F DM EWEEW  C + +     F  L 
Sbjct: 827  VIKRMDGVKSVGLEFEGQVSLHAKPFQCLESLWFEDMMEWEEW--CWSKKS----FSCLH 880

Query: 892  KLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQC-LPALSELQIDGC--------- 941
            +L + +C +L   LP  L  L  L I++C +++V +   LP+L EL I  C         
Sbjct: 881  QLEIKNCPRLIKKLPTHLTSLVKLSIENCPEMMVPLPTDLPSLEELNIYYCPEMTPQFDN 940

Query: 942  ------------KRVVFSSPHLVHAVN-----VRKQAYFWRSETRLP------------- 971
                        +  +  + H+   V+      R Q  F +S  RL              
Sbjct: 941  HEFPLMPLRGASRSAIGITSHIYLEVSGISQLSRLQPEFMQSLPRLELLEIDNSGQLQCL 1000

Query: 972  ----QDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALL 1027
                  + +L+RLQI  C QL+SL  EEE +Q  P +   LQ L++ KC+ L +LP+ L 
Sbjct: 1001 WLDGLGLGNLSRLQILSCDQLVSLGEEEEEEQGLPYN---LQHLEIRKCDKLEKLPRGLQ 1057

Query: 1028 TLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSS----LES 1083
            + +SL E+ I  C  LVSFP+   P  LR + I +C +L SLP+  M  ++S+    LE 
Sbjct: 1058 SYTSLAELIIEDCPKLVSFPEKGFPLMLRGLAISNCESLSSLPDRMMMRNSSNNVCHLEY 1117

Query: 1084 LKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKY 1143
            L+I  C SL+ FP+  LP+ LR + I  C  L SLPE   + +  +LE L I+ C SL  
Sbjct: 1118 LEIEECPSLIYFPQGRLPTTLRRLLISNCEKLESLPE---EINACALEQLIIERCPSLIG 1174

Query: 1144 IARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRF 1203
              + +LPP+LK+L +  C  L +L               + +  S N     L+ L +  
Sbjct: 1175 FPKGKLPPTLKKLWIGECEKLESLP------------EGIMHHHSNNTTNCGLQILDILE 1222

Query: 1204 CSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL---DNTSLEEITISVLENLKSLPAD 1260
             S+LA     G  P   K + +++C++L+ ++E +   +N +LEE++I  L NLK++P  
Sbjct: 1223 GSSLASFP-TGKFPSTCKSIMMDNCAQLQPISEEMFHCNNNALEELSILRLPNLKTIPDC 1281

Query: 1261 LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEI 1320
            L+N                           L +L I  CENL   P+ + NLTSL  L+I
Sbjct: 1282 LYN---------------------------LKDLRIEKCENLDLQPHLLRNLTSLASLQI 1314

Query: 1321 RGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP 1380
              C +                      I  PL EWG  R TSLR  TI G   +  S   
Sbjct: 1315 TNCEN----------------------IKVPLSEWGLARLTSLRTLTIGGIFLEATSFSN 1352

Query: 1381 -------FPASLTNLWISDMPDLESISSIG-ENLTSLETLRLFNCPKLKYF-PEQGLPKS 1431
                    P +L  + IS   +LES++ +  + LTSL  L +F CPKL+ F P++GLP  
Sbjct: 1353 HHHHFFLLPTTLVEVCISSFQNLESLAFLSLQTLTSLRKLGVFQCPKLQSFIPKEGLPDM 1412

Query: 1432 LSRLSIHNCPLIEKRCRKDEGKYWPMISHLPRVLINWQI 1470
            LS L I +CPL+ +RC K++G+ WP I+H+P V I+ ++
Sbjct: 1413 LSELYIRDCPLLIQRCSKEKGEDWPKIAHIPCVKIDGKL 1451

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225465831|ref|XP_002264750.1| PREDICTED: putative disease resistance RPP13-like protein 1-like [Vitis vinifera]

 Score =  957 bits (2473), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 611/1493 (40%), Positives = 860/1493 (57%), Gaps = 114/1493 (7%)

Query: 3    FIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKD 62
            F+GEAVLS  +E L + + S  L  F   + + ++  KWK +L  I AVL DAE++Q  +
Sbjct: 4    FVGEAVLSVFIEKLADMVTSPELWNFASEELVHSELNKWKTILMKIYAVLHDAEEKQMTN 63

Query: 63   ESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSA-NTSKFRKLIPT 121
              VK WLD+L +LAYD ED+LD   TE+LRR L+     A   PS +  +TSK   LIP+
Sbjct: 64   PRVKMWLDELGDLAYDVEDILDGFATESLRRNLM-----AETHPSGTERSTSKLWSLIPS 118

Query: 122  CCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTTS 181
            CCT+F+P +I+F ++M S+I+ +T  LQ I S QK  L L   IS  +S   R+ LPTTS
Sbjct: 119  CCTSFTPNAIKFNAEMLSKIKMITTSLQEI-SAQKSDLHLTENISGERSTKTREILPTTS 177

Query: 182  LVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR 241
            LV+E++VYGRE +KE I  LLL DD   D+   VI + GM G+GKTTL QL +NDD V+ 
Sbjct: 178  LVDESRVYGRETDKEAIANLLLRDDPSTDE-ICVIPVVGMAGIGKTTLTQLAFNDDEVKD 236

Query: 242  HYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDD 301
            H++++ W  VS+DFDV +I+K+IL SV S   ++ DDLNLLQ +L+++LSG KFLL+LDD
Sbjct: 237  HFDLRVWVYVSDDFDVLKITKTILQSV-SLATQNVDDLNLLQMELREKLSGQKFLLILDD 295

Query: 302  VWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQ 361
            VWNE+Y  W  L  P  +GA GSK++VTTRN  V    G  P Y L+ELS +DCL V TQ
Sbjct: 296  VWNESYDSWDLLCMPMRSGAPGSKLIVTTRNEGVVSITGTRPAYCLQELSYEDCLFVFTQ 355

Query: 362  ISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNL- 420
             +L   +F  H  LKEVGE+IV +C GLPLAAK LGG+LR +     WE +L + IW+L 
Sbjct: 356  QALRRSNFDAHSHLKEVGEEIVRRCKGLPLAAKALGGMLRNQVSHDAWENILTSKIWDLP 415

Query: 421  -RDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRK 479
               S +LPAL++SY+ LP  L++CFAYCS+FPK YEF ++E++ LW AEG  +Q    ++
Sbjct: 416  QDKSRVLPALKLSYNHLPSHLRKCFAYCSIFPKGYEFDKDELVQLWMAEGFFEQT---KE 472

Query: 480  MEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQK 539
             EDLG ++  +L SRS FQQS+ D+SRFVMHDLINDLA++ AGE+ F +EG      Q  
Sbjct: 473  AEDLGSKYFYDLLSRSFFQQSNHDSSRFVMHDLINDLAQYVAGEISFNLEGMSVNNKQHS 532

Query: 540  FSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDY-RHNYLAWSVLQRLLNHLP 598
              + +RH S+   EY+   R +    ++ LRT + + L+ + R++++   VL  L+    
Sbjct: 533  IFKKVRHSSFNRQEYEKFERFKTFHKMKCLRTLVALPLNAFSRYHFIPSKVLDDLIKQFK 592

Query: 599  RLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQL 658
             LRV SL G      LP+ IG+L+HLR LNLS + I++LP+S+  LYNL T++L DC +L
Sbjct: 593  CLRVLSLSGYYISGELPHSIGDLRHLRYLNLSNSSIKMLPDSVGHLYNLETLILSDCWRL 652

Query: 659  KKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLT 718
             KL   +G+L  L H+  S  + L+EMP     LT+L TL +++VG+++   +RELK+L 
Sbjct: 653  TKLPIVIGDLINLRHIDISGTSQLQEMPSEISNLTNLQTLSKYIVGENNSLRIRELKNLQ 712

Query: 719  HLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLK 778
             L+G L IS L NV D  DA +A+L  K N+E L ++W +  V++ ++   E +VL  L+
Sbjct: 713  DLRGKLSISGLHNVVDSQDAVDAKLEEKHNIEELTMEWGSDFVKSRNEMN-EMNVLEGLR 771

Query: 779  PHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTS-TSLPSVGQLPFLKELRISG 837
            P R++++LT+  YGG+ F  W+ D SF  + +L L+ C   TSLPS+G+L FLK L I G
Sbjct: 772  PPRNLKKLTVASYGGSTFSGWIRDPSFPSMTQLILKNCKRCTSLPSLGKLSFLKTLHIEG 831

Query: 838  MDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFH 897
            M  ++++  EFYG     P PSLE L F DM +WE+W    A E V E+FP+LR+L++ +
Sbjct: 832  MSEIRTIDVEFYGGVVQ-PLPSLELLKFEDMLKWEDWFFPDAVEGV-ELFPRLRELTIRN 889

Query: 898  CHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNV 957
            C KL   LP RL  L  L I +CQ L V      +L EL+ID CK +V  S  +  + + 
Sbjct: 890  CSKLVKQLPDRLPSLVKLDISNCQNLAVPFLRFASLGELEIDECKEMVLRSGVVADSGDQ 949

Query: 958  RKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCE 1017
                + +            L      RC  L+SL      D Q+   PC L+ LK+  C 
Sbjct: 950  MTSRWVY----------SGLQSAVFERCDWLVSL------DDQR--LPCNLKMLKIVDCV 991

Query: 1018 GLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNS 1077
             L  L   L +L+ L E+ I GC +L SF +  LP  LR + ++ C++L  LP  +   S
Sbjct: 992  NLKSLQNGLQSLTCLEELEIVGCRALDSFREIDLPPRLRRLVLQRCSSLRWLPHNY---S 1048

Query: 1078 NSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTS------LE 1131
            +  LESL+IR C SL  FP   LP+ L+ + +  C  L SLP+  M  ++T       L+
Sbjct: 1049 SCPLESLEIRFCPSLAGFPSGELPTTLKQLTVADCMRLRSLPDGMMHPNSTHSNNACCLQ 1108

Query: 1132 SLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENE 1191
             LRI  C SL    R +L  +LKRL +  C NL ++   + +  SSR             
Sbjct: 1109 ILRIHDCQSLVSFPRGELSSTLKRLEIQHCSNLESV--SKKMSPSSRA------------ 1154

Query: 1192 LPTMLEHLQVRFCSNLAFLSRNGNLPQAL---KYLRVEDCSKLESLAER-LDNTSLEEIT 1247
                LE+L++R   NL        LPQ L   K L +EDC  LE   ER L   +L E+ 
Sbjct: 1155 ----LEYLEMRSYPNLKI------LPQCLHNVKQLNIEDCGGLEGFPERGLSAPNLRELR 1204

Query: 1248 ISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPN 1307
            I   +NLK LP  + NL  LQ + I + P ++SFPE GLP T L  L++ + +NLK   +
Sbjct: 1205 IWRCQNLKCLPHQMKNLTSLQFLNIGHSPRVDSFPEGGLPPT-LKFLSVVNYKNLKTPIS 1263

Query: 1308 --CMHNLTSLLILEIRGC-PSVVSFPEDG--FPTNLQSLEVRGLKISKPLPEWGFNRFTS 1362
               +H LTSL  L+I G      S  +D   FPT+L +L +  +   + L     N   S
Sbjct: 1264 EWGLHTLTSLSTLKIWGMFADKASLWDDEFLFPTSLTNLHISHM---ESLASLDLNSIIS 1320

Query: 1363 LRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLE------------------------- 1397
            L+   I G CP L S      +L +L I D P L+                         
Sbjct: 1321 LQHLYI-GSCPKLHSLTLRDTTLASLEIIDCPLLQKTNFPFSAHIPKFRMSGRVCQTKGL 1379

Query: 1398 ----SISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKR 1446
                S+  I + LT L+T  ++ C  L +  EQGLP +L  L   NC   EK+
Sbjct: 1380 PATLSMLKIKKFLT-LKTGEIWQCHGLVFLEEQGLPHNLKYLKPENCANQEKQ 1431

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	1472
TAIR|locus:2091662	1424	AT3G14460 [Arabidopsis thalian	0.459	0.474	0.399	6.6e-167
TAIR|locus:2091672	1054	AT3G14470 [Arabidopsis thalian	0.659	0.921	0.359	1.5e-155
UNIPROTKB|O48647	1802	O48647 "XA1" [Oryza sativa (ta	0.845	0.690	0.266	1.4e-68
TAIR|locus:2078012	852	ZAR1 "HOPZ-ACTIVATED RESISTANC	0.394	0.681	0.294	1.2e-53
TAIR|locus:2169523	901	AT5G35450 [Arabidopsis thalian	0.246	0.402	0.296	2.4e-48
TAIR|locus:504956184	1017	AT1G58807 "AT1G58807" [Arabido	0.438	0.634	0.268	2.6e-45
TAIR|locus:2827038	1017	AT1G59124 "AT1G59124" [Arabido	0.438	0.634	0.268	2.6e-45
TAIR|locus:2011982	857	AT1G50180 [Arabidopsis thalian	0.332	0.570	0.286	3.6e-44
TAIR|locus:2037639	907	AT1G58390 "AT1G58390" [Arabido	0.434	0.704	0.276	5.3e-43
TAIR|locus:504956483	847	AT3G46730 [Arabidopsis thalian	0.324	0.563	0.300	1.2e-41

TAIR|locus:2091662 AT3G14460 [Arabidopsis thaliana (taxid:3702)]

 Score = 1236 (440.2 bits), Expect = 6.6e-167, Sum P(3) = 6.6e-167
 Identities = 280/701 (39%), Positives = 404/701 (57%)

Query:   214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC 273
             +VIS+ GM GVGKTTL ++V+ND RV  H+E+K W     +F+VF ++K++L  + S   
Sbjct:   194 AVISVVGMPGVGKTTLTEIVFNDYRVTEHFEVKMWISAGINFNVFTVTKAVLQDITSS-A 252

Query:   274 XXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL 333
                              SG +FLLVLDD W+E+   W   +  F     GSKIV+TTR+ 
Sbjct:   253 VNTEDLPSLQIQLKKTLSGKRFLLVLDDFWSESDSEWESFQVAFTDAEEGSKIVLTTRSE 312

Query:   334 VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDF-TRHLSLKEVGEQIVIKCGGLPLA 392
             +V+    A+ +YQ+K +++++C  ++++ + G     + +  L+ +G++I  +C GLPLA
Sbjct:   313 IVSTVAKAEKIYQMKLMTNEECWELISRFAFGNISVGSINQELEGIGKRIAEQCKGLPLA 372

Query:   393 AKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPK 452
             A+ +   LR + +P DW  V K   ++   + ILP L++SY  LPPQLK+CFA CS+FPK
Sbjct:   373 ARAIASHLRSKPNPDDWYAVSKN--FSSYTNSILPVLKLSYDSLPPQLKRCFALCSIFPK 430

Query:   453 DYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDL 512
              + F  EE++LLW A  LL Q  + R++ED+G +++ +L ++S FQ+     + FVMHDL
Sbjct:   431 GHVFDREELVLLWMAIDLLYQPRSSRRLEDIGNDYLGDLVAQSFFQRLDITMTSFVMHDL 490

Query:   513 INDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTF 572
             +NDLA+  +G+  FR+E     +N  +   + RHFS+   + D       IC  + LRT 
Sbjct:   491 MNDLAKAVSGDFCFRLED----DNIPEIPSTTRHFSFSRSQCDASVAFRSICGAEFLRTI 546

Query:   573 LPVNL-SDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSR 631
             LP N  +      L   VL  LLN L  LR+ SL     I NLP  +  LK LR L+LS 
Sbjct:   547 LPFNSPTSLESLQLTEKVLNPLLNALSGLRILSLSHY-QITNLPKSLKGLKLLRYLDLSS 605

Query:   632 TRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGK 691
             T+I+ LPE + +L NL T+LL +C  L  L K +  L  L  L +     L EMP G  K
Sbjct:   606 TKIKELPEFVCTLCNLQTLLLSNCRDLTSLPKSIAELINLR-LLDLVGTPLVEMPPGIKK 664

Query:   692 LTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEA 751
             L SL  L  FV+G+ SG+GL ELK L+HL+GTLRIS+L+NV    +A +A L  K  L+ 
Sbjct:   665 LRSLQKLSNFVIGRLSGAGLHELKELSHLRGTLRISELQNVAFASEAKDAGLKRKPFLDG 724

Query:   752 LLLKWSARDVQ------NLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSF 805
             L+LKW+ +         N   C+ +  VL +L+PH  ++   I  Y G  FP WLGDSSF
Sbjct:   725 LILKWTVKGSGFVPGSFNALACD-QKEVLRMLEPHPHLKTFCIESYQGGAFPKWLGDSSF 783

Query:   806 SKLARLELRRCT-STSLPSVGQLPFLKELRISGMDGVKSVGSEFY---GNSRSVPFPSLE 861
               +  + L  C    SLP VGQLP LK L I   + ++ VG +F+    NSR VPF SL+
Sbjct:   784 FGITSVTLSSCNLCISLPPVGQLPSLKYLSIEKFNILQKVGLDFFFGENNSRGVPFQSLQ 843

Query:   862 TLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQ 902
              L F+ M  W+EWI C   E  D +FP L+KL +  C  L+
Sbjct:   844 ILKFYGMPRWDEWI-CPELE--DGIFPCLQKLIIQRCPSLR 881

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2091672 AT3G14470 [Arabidopsis thaliana (taxid:3702)]

 Score = 1464 (520.4 bits), Expect = 1.5e-155, Sum P(2) = 1.5e-155
 Identities = 376/1045 (35%), Positives = 571/1045 (54%)

Query:     1 MSFIGEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT 60
             M+ IGE  L+A ++ L + L S+    F + ++L  + ++  R+   +  + A   D + 
Sbjct:     1 MTGIGEMFLAAFLQALFQTLVSEPFRSFFKRRELNENLLE--RLSTALLTITAVLIDAEE 58

Query:    61 KDESVKTWLDDLQNLAYDAEDVXXXXXXXXXXXXXXXXXXXXXDQPSSSANTSKFRKLIP 120
             K  +       ++    +  DV                      + SSS    + R  + 
Sbjct:    59 KQITNPV----VEKWVNELRDVVYHAEDALDDIATEALRLNIGAESSSSNRLRQLRGRMS 114

Query:   121 TCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRNIRQRLPTT 180
                 +F   + +    + +++E+VT RL+ + S Q+++L LK + +       +QRLPTT
Sbjct:   115 L--GDFLDGNSEH---LETRLEKVTIRLERLAS-QRNILGLKELTA----MIPKQRLPTT 164

Query:   181 SLVNEAKVYGRXXXXXXXXXXXXXXXXXXXXXFSVISINGMGGVGKTTLAQLVYNDDRVQ 240
             SLV+E++V+GR                      +V++I G+GGVGKTTL+QL+YND  V+
Sbjct:   165 SLVDESEVFGRDDDKDEIMRFLIPENGKDNG-ITVVAIVGIGGVGKTTLSQLLYNDQHVR 223

Query:   241 RHYEIKAWTCVSEDFDVFRISKSILNSVASDQCXXXXXXXXXXXXXXXXX-SGNKFLLVL 299
              ++  K W  VSE+FDVF+I+K +  SV S  C                  +G  FLLVL
Sbjct:   224 SYFGTKVWAHVSEEFDVFKITKKVYESVTSRPCEFTDLDVLQVKLKERLTGTGLPFLLVL 283

Query:   300 DDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVL 359
             DD+WNEN+  W  LR PF+  A GS+I+VTTR+  VA  M A  V+ L+ LSD DC  + 
Sbjct:   284 DDLWNENFADWDLLRQPFIHAAQGSQILVTTRSQRVASIMCAVHVHNLQPLSDGDCWSLF 343

Query:   360 TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN 419
              +   G ++   +  + ++ E+IV KC GLPLA KTLGG+LR      +WE VL + IW+
Sbjct:   344 MKTVFGNQEPCLNREIGDLAERIVHKCRGLPLAVKTLGGVLRFEGKVIEWERVLSSRIWD 403

Query:   420 L-RD-SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNG 477
             L  D S++LP LRVSY++LP  LK+CFAYCS+FPK + F++++++LLW AEG L Q  + 
Sbjct:   404 LPADKSNLLPVLRVSYYYLPAHLKRCFAYCSIFPKGHAFEKDKVVLLWMAEGFLQQTRSS 463

Query:   478 RKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQ 537
             + +E+LG E+  EL SRSL Q   K  +R++MHD IN+LA++A+GE   + E   K    
Sbjct:   464 KNLEELGNEYFSELESRSLLQ---KTKTRYIMHDFINELAQFASGEFSSKFEDGCK---- 516

Query:   538 QKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDY-RHNYLAWSVLQRLLNH 596
              + SE  R+ SY+   Y      E + +V+ LRTFLP++L++  R   L   V ++LL  
Sbjct:   517 LQVSERTRYLSYLRDNYAEPMEFEALREVKFLRTFLPLSLTNSSRSCCLDQMVSEKLLPT 576

Query:   597 LPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDC 655
             L RLRV SL     I  LP +   N+ H R L+LSRT ++ LP+S+  +YNL T+LL  C
Sbjct:   577 LTRLRVLSLSHY-KIARLPPDFFKNISHARFLDLSRTELEKLPKSLCYMYNLQTLLLSYC 635

Query:   656 HQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELK 715
               LK+L  D+ NL  L +L +     L++MP+ FG+L SL TL  F V    GS + EL 
Sbjct:   636 SSLKELPTDISNLINLRYL-DLIGTKLRQMPRRFGRLKSLQTLTTFFVSASDGSRISELG 694

Query:   716 SLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKW-----SARDVQNLDQCEFE 770
              L  L G L+I +L+ V DV DA+EA LN+K +L  +   W     S+ +  N  + + E
Sbjct:   695 GLHDLHGKLKIVELQRVVDVADAAEANLNSKKHLREIDFVWRTGSSSSENNTNPHRTQNE 754

Query:   771 THVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLPSVGQLPF 829
               V   L+PHR +++L I  Y G +FP WL D SFS++  + LR C   TSLPS+GQLP 
Sbjct:   755 AEVFEKLRPHRHIEKLAIERYKGRRFPDWLSDPSFSRIVCIRLRECQYCTSLPSLGQLPC 814

Query:   830 LKELRISGMDGVKSVGSEFYGNSRSV------PFPSLETLSFFDMREWEEWIPCGAGEEV 883
             LKEL ISGM G++S+G +FY + + +      PF SLETL F ++ +W+EW+        
Sbjct:   815 LKELHISGMVGLQSIGRKFYFSDQQLRDQDQQPFRSLETLRFDNLPDWQEWLDVRVTR-- 872

Query:   884 DEVFPKLRKLSLFHCHKLQGTXXXXXXXXXXXVIKSCQQLIVTIQCLPALSELQIDGCKR 943
              ++FP L+KL +  C +L GT                   + T   LP+L  L I  C  
Sbjct:   873 GDLFPSLKKLFILRCPELTGT-------------------LPTF--LPSLISLHIYKCGL 911

Query:   944 VVFSSPHLVHAV-NVRKQAYFWRSET--RLPQD-IRSLNRLQISRCPQLLSLVTEEEHDQ 999
             + F   H  ++  N++  +     +T  + P +   +L++L++ +C  L SL    EH +
Sbjct:   912 LDFQPDHHEYSYRNLQTLSIKSSCDTLVKFPLNHFANLDKLEVDQCTSLYSLELSNEHLR 971

Query:  1000 QQPESPCRLQFLKLSKCEGLTRLPQ 1024
                  P  L+ L+++ C+ L  LP+
Sbjct:   972 ----GPNALRNLRINDCQNLQLLPK 992

GO:0005576 "extracellular region" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

UNIPROTKB|O48647 O48647 "XA1" [Oryza sativa (taxid:4530)]

 Score = 716 (257.1 bits), Expect = 1.4e-68, Sum P(2) = 1.4e-68
 Identities = 367/1377 (26%), Positives = 606/1377 (44%)

Query:   134 ESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRN---IRQRLPTTSLVNEAKVYG 190
             +++++++I+ +T +L+  ++   ++++L    S  +SR          T+S + E  VYG
Sbjct:   243 KAELSNRIQCMTHQLEEAVN---EVMRLCRSSSSNQSRQGTPPATNATTSSYLPEPIVYG 299

Query:   191 RXXXXXXXXXXXXXXXXXXXXXFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC 250
             R                      +V+ I G GG+GKTTLAQLV  D  ++  + +K W  
Sbjct:   300 RAAEMETIKQLIMSNRSNG---ITVLPIVGNGGIGKTTLAQLVCKDLVIKSQFNVKIWVY 356

Query:   251 VSEDFDVFRISKSILNSVASDQCXXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRW 310
             VS+ FDV +I++ IL+ V++                       KFL+VLDDVW      W
Sbjct:   357 VSDKFDVVKITRQILDHVSNQSHEGISNLDTLQQDLEEQMKSKKFLIVLDDVWEIRTDDW 416

Query:   311 SELRCPFVAG---------AAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQ 361
              +L  P             A G+ I++TTR   +A+ +G     +L+ L DDD   +   
Sbjct:   417 KKLLAPLRPNDQVNSSQEEATGNMIILTTRIQSIAKSLGTVQSIKLEALKDDDIWSLFKV 476

Query:   362 ISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRD-WEFVLKTDIW-N 419
              + G         L+ +G+QI  +  G PLAAKT+G LL G +   D W+ ++K++ W +
Sbjct:   477 HAFGNDKHDSSPGLQVLGKQIASELKGNPLAAKTVGSLL-GTNLTIDHWDSIIKSEEWKS 535

Query:   420 LRDS-DILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGR 478
             L+ +  I+ AL++SY  L   L+QC +YCSLFPK Y F + ++I +W A+G +++  +  
Sbjct:   536 LQQAYGIMQALKLSYDHLSNPLQQCVSYCSLFPKGYSFSKAQLIQIWIAQGFVEE--SSE 593

Query:   479 KMEDLGREFVRELHSRSLFQQ--SSKDASR-FVMHDLINDLARWAAGELYFRMEGTLKGE 535
             K+E  G +++ EL +    QQ  S++ +S  FVMHDL++DLA+  +   Y     T+ G 
Sbjct:   594 KLEQKGWKYLAELVNSGFLQQVESTRFSSEYFVMHDLMHDLAQKVSQTEY----ATIDGS 649

Query:   536 NQQKFSESLRHFSYICG------EYDGDTRLEF----ICDVQH---LRTFLPVNLSDYRH 582
                + + S+RH S +        +Y   +R E     +  V+    LR+ + +   D  H
Sbjct:   650 ECTELAPSIRHLSIVTDSAYRKEKYRNISRNEVFEKRLMKVKSRSKLRSLVLIGQYD-SH 708

Query:   583 NYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNL-SRTRIQILPESI 641
              +  +    +   HL  L++ +     + F   + + N  HLR L + +    + LP S+
Sbjct:   709 FFKYFKDAFKEAQHLRLLQITATYADSDSFL--SSLVNSTHLRYLKIVTEESGRTLPRSL 766

Query:   642 NSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHL--RNSTANSLKEMPKGFGKLTSLLTLG 699
                Y+L  + +     + ++  D+ NL  L HL   +   +S+  +    GK+TSL  LG
Sbjct:   767 RKYYHLQVLDIGYRFGIPRISNDINNLLSLRHLVAYDEVCSSIANI----GKMTSLQELG 822

Query:   700 RFVVGKD-SGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSA 758
              F+V  + SG  + +LKS+  L   L +S+LENV+   +A  A+L +K +LE L L W  
Sbjct:   823 NFIVQNNLSGFEVTQLKSMNKLV-QLSVSQLENVRTQEEACGAKLKDKQHLEKLHLSW-- 879

Query:   759 RDVQN-LDQCE-FETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRC 816
             +D  N  D  E +E    S +    + +EL++    G +  +    +  S+LA  E+   
Sbjct:   880 KDAWNGYDSDESYEDEYGSDMNIETEGEELSVGDANGAQ-SLQHHSNISSELASSEVLEG 938

Query:   817 TSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIP 876
                  P  G    LK LRISG +G  S    +  +S +     L+TL      +W+  +P
Sbjct:   939 LE---PHHG----LKYLRISGYNG--STSPTWLPSSLTC----LQTLHLEKCGKWQI-LP 984

Query:   877 CGA-GEEVDEVFPKLRKLSLFHCHKLQGTXXXXXXXXXXXVIKSCQQL-----IVTIQCL 930
                 G  V  V  K+R  +      L+                S + L     ++ I+  
Sbjct:   985 LERLGLLVKLVLIKMRNATELSIPSLEELVLIALPSLNTCSCTSIRNLNSSLKVLKIKNC 1044

Query:   931 PALSEL---QIDGCKRVVFSSPHLVHAVNVR-KQAYFWRSETRLPQDIRSLNRLQISRC- 985
             P L      +I     +  +S  L H   +           + LP    S    +  RC 
Sbjct:  1045 PVLKVFPLFEISQKFEIERTSSWLPHLSKLTIYNCPLSCVHSSLPPSAIS-GYGEYGRCT 1103

Query:   986 -PQLLSLVTEEEHDQQQPESPC---RLQFLKLSKCEGLTRLPQALL-TLSSLTEMRISGC 1040
              PQ L  +   E+ Q+  + PC    L  L+     G + L    L + ++L E+ I  C
Sbjct:  1104 LPQSLEELYIHEYSQETLQ-PCFSGNLTLLRKLHVLGNSNLVSLQLHSCTALEELIIQSC 1162

Query:  1041 ASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVAL 1100
              SL S     L  +LR ++   C  L    E        SLE L I   +     P  + 
Sbjct:  1163 ESLSSLDGLQLLGNLRLLRAHRC--LSGHGEDGRCILPQSLEELYIHEYSQETLQPCFSG 1220

Query:  1101 P-SQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVS 1159
               + LR + +   + L+SL      +S T+LE L I+ C+SL  +  +QL  +L+ L   
Sbjct:  1221 NLTLLRKLHVLGNSNLVSL----QLHSCTALEELIIQSCESLSSLDGLQLLGNLRLLRAH 1276

Query:  1160 RCWNLRTLIGEQDICSSSRGCTSLTY--FSSENELP------TMLEHLQVRFCSNLAFLS 1211
             RC +     GE   C   +    L    +S E   P      T+L  L V   SN  F+S
Sbjct:  1277 RCLSGH---GEDGRCILPQSLEELYIHEYSQETLQPCFSGNLTLLRKLHVLGNSN--FVS 1331

Query:  1212 RNGNLPQALKYLRVEDCSKLESL--AERLDNTSLEEITISVLENLKSLPADLHNLHHLQK 1269
                +   AL+ L ++ C  L SL   + L N  L +    +  + +     L     L++
Sbjct:  1332 LQLHSCTALEELIIQSCESLSSLDGLQLLGNLRLLQAHRCLSGHGEDGRCILPQ--SLEE 1389

Query:  1270 IWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSF 1329
             ++I+        P      T L +L +    NL +L   +H+ T+L  L I+ C S+ S 
Sbjct:  1390 LYIHEYSQETLQPCFSGNLTLLRKLHVLGNSNLVSLQ--LHSCTALEELIIQSCESLSSL 1447

Query:  1330 PEDGFPTNLQSL-EVRGLKISKPLPEWGFN-RFT---SLRRFTICGGCPDLVSPPPFPAS 1384
               DG    LQ L  +R L+  + L   G + R     SL    I     + + P  F  +
Sbjct:  1448 --DG----LQLLGNLRLLQAHRCLSGHGEDGRCILPQSLEELYIHEYSQETLQPC-FSGN 1500

Query:  1385 LTNLWISDMPDLESISSIG-ENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNC 1440
             LT L    +    ++ S+   + TSLE L++ +C  L       L  +L  L  H C
Sbjct:  1501 LTLLRKLHVLGNSNLVSLQLHSCTSLEELKIQSCESLSSLDGLQLLGNLRLLQAHRC 1557

GO:0006915 "apoptotic process" evidence=IGI

GO:0006952 "defense response" evidence=IGI

TAIR|locus:2078012 ZAR1 "HOPZ-ACTIVATED RESISTANCE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 540 (195.1 bits), Expect = 1.2e-53, Sum P(2) = 1.2e-53
 Identities = 187/634 (29%), Positives = 307/634 (48%)

Query:   215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCX 274
             +++  GMGG+GKTT+AQ V+ND  ++  +E + W  VS+ F   +I +SIL ++      
Sbjct:   184 IMAFVGMGGLGKTTIAQEVFNDKEIEHRFERRIWVSVSQTFTEEQIMRSILRNLGD--AS 241

Query:   275 XXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV 334
                              G ++L+V+DDVW++N   W ++      G  GS ++VTTR+  
Sbjct:   242 VGDDIGTLLRKIQQYLLGKRYLIVMDDVWDKNLSWWDKIYQGLPRGQGGS-VIVTTRSES 300

Query:   335 VAERMGA--DPVYQLKELSDDDCLCVLTQISLGARDFT-RHLSLKEVGEQIVIKCGGLPL 391
             VA+R+ A  D  ++ + LS D+   +   ++  A D T     L++VG++IV KC GLPL
Sbjct:   301 VAKRVQARDDKTHRPELLSPDNSWLLFCNVAFAANDGTCERPELEDVGKEIVTKCKGLPL 360

Query:   392 AAKTLGGLLRGRDDP-RDWEFV---LKTDI-WNLRDSD-ILPALRVSYHFLPPQLKQCFA 445
               K +GGLL  +D    +W  +    + ++  N  ++D ++ +L++SY  LP  LK C  
Sbjct:   361 TIKAVGGLLLCKDHVYHEWRRIAEHFQDELRGNTSETDNVMSSLQLSYDELPSHLKSCIL 420

Query:   446 YCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDAS 505
               SL+P+D    +++++  W  EG +    NGR   + G +    L +R L +   K  S
Sbjct:   421 TLSLYPEDCVIPKQQLVHGWIGEGFVMWR-NGRSATESGEDCFSGLTNRCLIEVVDKTYS 479

Query:   506 RFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICD 565
               ++   I+D+ R    +L   +       N +  +   RH   I G +D + +++    
Sbjct:   480 GTIITCKIHDMVR----DLVIDIAKKDSFSNPEGLN--CRHLG-ISGNFD-EKQIK---- 527

Query:   566 VQH-LRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLP-----NEIG 619
             V H LR  +    +    N L  S L +       LRV  +    +IF+ P     +EI 
Sbjct:   528 VNHKLRGVVSTTKTG-EVNKLN-SDLAKKFTDCKYLRVLDISK--SIFDAPLSEILDEIA 583

Query:   620 NLKHLRCLNLSRTRIQI-LPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNST 678
             +L+HL CL+LS T   I  P S+  L+NL  +    C  LK+L   +   +KL  L  + 
Sbjct:   584 SLQHLACLSLSNTHPLIQFPRSMEDLHNLQILDASYCQNLKQLQPCIVLFKKLLVLDMTN 643

Query:   679 ANSLKEMPKGFGKLTSL-LTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGD 737
               SL+  PKG G L  L + LG      ++G  L E+K+LT+L+  L +S        GD
Sbjct:   644 CGSLECFPKGIGSLVKLEVLLGFKPARSNNGCKLSEVKNLTNLR-KLGLSLTR-----GD 697

Query:   738 A-SEAQLNNKVNLEALL-LKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTK 795
                E +L++ +NL  L+ +  +  D    D     T + ++  PH+ + EL++  Y G  
Sbjct:   698 QIEEEELDSLINLSKLMSISINCYDSYGDDLI---TKIDALTPPHQ-LHELSLQFYPGKS 753

Query:   796 FPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPF 829
              P WL   S  KL  L      S +L  + Q PF
Sbjct:   754 SPSWL---SPHKLPMLRYMSICSGNLVKM-QEPF 783

GO:0005634 "nucleus" evidence=ISM

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2169523 AT5G35450 [Arabidopsis thaliana (taxid:3702)]

 Score = 399 (145.5 bits), Expect = 2.4e-48, Sum P(5) = 2.4e-48
 Identities = 120/405 (29%), Positives = 195/405 (48%)

Query:   136 KMASQIEEVTARLQSIISTQKDLLKLKNVISDGKS-------RNIRQRLPTTSLVNEAKV 188
             K+AS IE +T R+  +I   + L   + +I  G+S       R IRQ  P +S   E+ +
Sbjct:   107 KVASDIEGITKRISKVIGEMQSLGIQQQIIDGGRSLSLQDIQREIRQTFPNSS---ESDL 163

Query:   189 YGRXXXXXXXXXXXXXXXXXXXXXFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAW 248
              G                        V+SI+GMGG+GKTTLA+ +++ D V+RH++  AW
Sbjct:   164 VG-----VEQSVEELVGPMVEIDNIQVVSISGMGGIGKTTLARQIFHHDLVRRHFDGFAW 218

Query:   249 TCVSEDFDVFRISKSILNSVAS-DQCXXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENY 307
              CVS+ F    + + IL  +   D                      ++L+VLDDVW E  
Sbjct:   219 VCVSQQFTQKHVWQRILQELRPHDGEILQMDEYTIQGKLFQLLETGRYLVVLDDVWKEE- 277

Query:   308 IRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPV---YQLKELSDDDCLCVLTQISL 364
               W  ++  F     G K+++T+RN  V   + ADP    ++ + L+  +   +  +I +
Sbjct:   278 -DWDRIKEVFPR-KRGWKMLLTSRNEGVG--LHADPTCLSFRARILNPKESWKLFERI-V 332

Query:   365 GARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFV---LKTDIWN-- 419
               R+ T +  ++ +G+++V  CGGLPLA K LGGLL  +    +W+ V   +   I    
Sbjct:   333 PRRNETEYEEMEAIGKEMVTYCGGLPLAVKVLGGLLANKHTASEWKRVSENIGAQIVGKS 392

Query:   420 -LRDSDILPALRV---SYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEY 475
              L D+ +    R+   SY  LP  LK CF Y + FP+DY+ +   +   W AEG+    Y
Sbjct:   393 CLDDNSLNSVYRILSLSYEDLPTDLKHCFLYLAHFPEDYKIKTRTLYSYWAAEGI----Y 448

Query:   476 NGRKMEDLGREFVRELHSRSLFQQSSKDAS-RFV---MHDLINDL 516
             +G  + D G +++ EL  R+L      + S R     MHD++ ++
Sbjct:   449 DGLTILDSGEDYLEELVRRNLVIAEKSNLSWRLKLCQMHDMMREV 493

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:504956184 AT1G58807 "AT1G58807" [Arabidopsis thaliana (taxid:3702)]

 Score = 445 (161.7 bits), Expect = 2.6e-45, Sum P(3) = 2.6e-45
 Identities = 192/715 (26%), Positives = 317/715 (44%)

Query:   215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVA---SD 271
             V+SI GMGG+GKTTLA+ V+N + V+  ++  +W CVS+DF    + + IL  +     +
Sbjct:   185 VVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDLKPKEEE 244

Query:   272 QCXXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTR 331
             +                    +K L+VLDD+W +    W EL  P      G K+++T+R
Sbjct:   245 KKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKE--DW-ELIKPIFPPTKGWKVLLTSR 301

Query:   332 NLVVAERMGADPV-YQLKELSDDDCLCVLTQISLGARD---FTRHLSLKEVGEQIVIKCG 387
             N  VA R     + ++ + L+ +D   +  +I+L  +D   F      +E+G+ ++  CG
Sbjct:   302 NESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEKEELGKLMIKHCG 361

Query:   388 GLPLAAKTLGGLLRGRDDPRDWEFVL----------KTDIWNLRDSDILPALRVSYHFLP 437
             GLPLA + LGG+L  +    DW  +           +T+  +  ++     L +S+  LP
Sbjct:   362 GLPLAIRVLGGMLAEKYTSHDWRRLSENIGSHLVGGRTNFNDDNNNTCNNVLSLSFEELP 421

Query:   438 PQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLD-QEYNGRKMEDLGREFVRELHSRSL 496
               LK CF Y + FP+DYE + E +   W AEG+   + Y+G  + D+G  ++ EL  R++
Sbjct:   422 SYLKHCFLYLAHFPEDYEIKVENLSYYWAAEGIFQPRHYDGETIRDVGDVYIEELVRRNM 481

Query:   497 -FQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGE-- 553
                +     SRF    L +D+ R     L  + E  L+  + +  + +L+  S +     
Sbjct:   482 VISERDVKTSRFETCHL-HDMMREVC-LLKAKEENFLQITSSRPSTANLQ--STVTSRRF 537

Query:   554 -YDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRL--LNHLPRLRVFSLRGCGN 610
              Y   T L    D+ + +    V ++    N LA S   RL  L  L  + V  ++G G 
Sbjct:   538 VYQYPTTLHVEKDINNPKLRALVVVTLGSWN-LAGSSFTRLELLRVLDLIEV-KIKG-GK 594

Query:   611 IFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRK 670
             + +    IG L HLR L+L    +  +P S+ +L  L  + L    +   +   +  +++
Sbjct:   595 LASC---IGKLIHLRYLSLEYAEVTHIPYSLGNLKLLIYLNLASFGRSTFVPNVLMGMQE 651

Query:   671 LHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLE 730
             L +L          +P   G+ T L  L   V  +   +   E  SL  L G +R+S L 
Sbjct:   652 LRYLA---------LPSDMGRKTKL-ELSNLVKLETLENFSTENSSLEDLCGMVRLSTL- 700

Query:   731 NVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITG 790
             N+K + + S   L   +     L K    D  +    E  T    ++     ++ L +  
Sbjct:   701 NIKLIEETSLETLAASIGGLKYLEKLEIYDHGS----EMRTKEAGIVFDFVHLKRLWLKL 756

Query:   791 YGGTKFPIWLGDSSF-SKLARLELRRCT--STSLPSVGQLPFLKELRISGMDGVKSVGSE 847
             Y     P    +  F S L  L L  C      +P + +L  LKEL + G +     G +
Sbjct:   757 Y----MPRLSTEQHFPSHLTTLYLESCRLEEDPMPILEKLLQLKELEL-GFESFS--GKK 809

Query:   848 FYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQ 902
                +S    FP L+ LS   + EWE+W      EE     P LR L +  C KL+
Sbjct:   810 MVCSSGG--FPQLQRLSLLKLEEWEDW----KVEESS--MPLLRTLDIQVCRKLK 856

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2827038 AT1G59124 "AT1G59124" [Arabidopsis thaliana (taxid:3702)]

 Score = 445 (161.7 bits), Expect = 2.6e-45, Sum P(3) = 2.6e-45
 Identities = 192/715 (26%), Positives = 317/715 (44%)

Query:   215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVA---SD 271
             V+SI GMGG+GKTTLA+ V+N + V+  ++  +W CVS+DF    + + IL  +     +
Sbjct:   185 VVSITGMGGLGKTTLAKQVFNHEDVKHQFDGLSWVCVSQDFTRMNVWQKILRDLKPKEEE 244

Query:   272 QCXXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTR 331
             +                    +K L+VLDD+W +    W EL  P      G K+++T+R
Sbjct:   245 KKIMEMTQDTLQGELIRLLETSKSLIVLDDIWEKE--DW-ELIKPIFPPTKGWKVLLTSR 301

Query:   332 NLVVAERMGADPV-YQLKELSDDDCLCVLTQISLGARD---FTRHLSLKEVGEQIVIKCG 387
             N  VA R     + ++ + L+ +D   +  +I+L  +D   F      +E+G+ ++  CG
Sbjct:   302 NESVAMRRNTSYINFKPECLTTEDSWTLFQRIALPMKDAAEFKIDEEKEELGKLMIKHCG 361

Query:   388 GLPLAAKTLGGLLRGRDDPRDWEFVL----------KTDIWNLRDSDILPALRVSYHFLP 437
             GLPLA + LGG+L  +    DW  +           +T+  +  ++     L +S+  LP
Sbjct:   362 GLPLAIRVLGGMLAEKYTSHDWRRLSENIGSHLVGGRTNFNDDNNNTCNNVLSLSFEELP 421

Query:   438 PQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLD-QEYNGRKMEDLGREFVRELHSRSL 496
               LK CF Y + FP+DYE + E +   W AEG+   + Y+G  + D+G  ++ EL  R++
Sbjct:   422 SYLKHCFLYLAHFPEDYEIKVENLSYYWAAEGIFQPRHYDGETIRDVGDVYIEELVRRNM 481

Query:   497 -FQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGE-- 553
                +     SRF    L +D+ R     L  + E  L+  + +  + +L+  S +     
Sbjct:   482 VISERDVKTSRFETCHL-HDMMREVC-LLKAKEENFLQITSSRPSTANLQ--STVTSRRF 537

Query:   554 -YDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRL--LNHLPRLRVFSLRGCGN 610
              Y   T L    D+ + +    V ++    N LA S   RL  L  L  + V  ++G G 
Sbjct:   538 VYQYPTTLHVEKDINNPKLRALVVVTLGSWN-LAGSSFTRLELLRVLDLIEV-KIKG-GK 594

Query:   611 IFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRK 670
             + +    IG L HLR L+L    +  +P S+ +L  L  + L    +   +   +  +++
Sbjct:   595 LASC---IGKLIHLRYLSLEYAEVTHIPYSLGNLKLLIYLNLASFGRSTFVPNVLMGMQE 651

Query:   671 LHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLE 730
             L +L          +P   G+ T L  L   V  +   +   E  SL  L G +R+S L 
Sbjct:   652 LRYLA---------LPSDMGRKTKL-ELSNLVKLETLENFSTENSSLEDLCGMVRLSTL- 700

Query:   731 NVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITG 790
             N+K + + S   L   +     L K    D  +    E  T    ++     ++ L +  
Sbjct:   701 NIKLIEETSLETLAASIGGLKYLEKLEIYDHGS----EMRTKEAGIVFDFVHLKRLWLKL 756

Query:   791 YGGTKFPIWLGDSSF-SKLARLELRRCT--STSLPSVGQLPFLKELRISGMDGVKSVGSE 847
             Y     P    +  F S L  L L  C      +P + +L  LKEL + G +     G +
Sbjct:   757 Y----MPRLSTEQHFPSHLTTLYLESCRLEEDPMPILEKLLQLKELEL-GFESFS--GKK 809

Query:   848 FYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQ 902
                +S    FP L+ LS   + EWE+W      EE     P LR L +  C KL+
Sbjct:   810 MVCSSGG--FPQLQRLSLLKLEEWEDW----KVEESS--MPLLRTLDIQVCRKLK 856

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2011982 AT1G50180 [Arabidopsis thaliana (taxid:3702)]

 Score = 433 (157.5 bits), Expect = 3.6e-44, Sum P(4) = 3.6e-44
 Identities = 154/538 (28%), Positives = 252/538 (46%)

Query:   137 MASQIEEVTARLQSIISTQKDLLKLKNVISDGKSRN--IRQRLPTTSLVNEAKVYGRXXX 194
             + S+I E+T+RL  I ++  D    +++  +G S +  +R++  +   V E  + G    
Sbjct:   111 VGSEIREITSRLSKIAASMLDFGIKESMGREGLSLSDSLREQRQSFPYVVEHNLVG---- 166

Query:   195 XXXXXXXXXXXXXXXXXXFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED 254
                                 V SI GMGG+GKTTLA+ +++  +V+RH++  AW  VS+D
Sbjct:   167 LEQSLEKLVNDLVSGGEKLRVTSICGMGGLGKTTLAKQIFHHHKVRRHFDRFAWVYVSQD 226

Query:   255 FDVFRISKSI-LNSVASD--QCXXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRWS 311
                  + + I LN    D  Q                    NK L+VLDD+W ++   W 
Sbjct:   227 CRRRHVWQDIFLNLSYKDENQRILSLRDEQLGEELHRFLKRNKCLIVLDDIWGKD--AWD 284

Query:   312 ELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKE---LSDDDCLCVLTQISLGARD 368
              L+  F     GS+I++TTRN  VA  + ADP   L E   L+ ++   +L +ISL  R+
Sbjct:   285 CLKHVF-PHETGSEIILTTRNKEVA--LYADPRGVLHEPQLLTCEESWELLEKISLSGRE 341

Query:   369 FTRHLSLK---EVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFV---LKTDIWNLRD 422
                 + +K   E+G+QIV++CGGLPLA   LGGLL  +    +W+ V   +K+ + N   
Sbjct:   342 NIEPMLVKKMEEIGKQIVVRCGGLPLAITVLGGLLATKSTWNEWQRVCENIKSYVSNGGS 401

Query:   423 SD------ILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLL---DQ 473
             S+      +   L +SY +LPP +KQCF Y + +P+DYE     ++    AEG++     
Sbjct:   402 SNGSKNMLVADVLCLSYEYLPPHVKQCFLYFAHYPEDYEVHVGTLVSYCIAEGMVMPVKH 461

Query:   474 EYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYFRMEGTLK 533
                G  +ED+G++++ EL  RS+     +D    V  +++             RM   ++
Sbjct:   462 TEAGTTVEDVGQDYLEELVKRSMVMVGRRD---IVTSEVMT-----------CRMHDLMR 507

Query:   534 GENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRL 593
                 QK  +    F  +    D D    FI    +    + V L      +   S+ Q  
Sbjct:   508 EVCLQKAKQE--SFVQVIDSRDQDEAEAFISLSTNTSRRISVQLHGGAEEHHIKSLSQVS 565

Query:   594 LNHLPRLRVFSLRGCG-NIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTI 650
                +  LRV  L G       LP+++G+L HLR L++  T ++ L  SI +L  + T+
Sbjct:   566 FRKMKLLRVLDLEGAQIEGGKLPDDVGDLIHLRNLSVRLTNVKELTSSIGNLKLMITL 623

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

GO:0009506 "plasmodesma" evidence=IDA

TAIR|locus:2037639 AT1G58390 "AT1G58390" [Arabidopsis thaliana (taxid:3702)]

 Score = 458 (166.3 bits), Expect = 5.3e-43, Sum P(3) = 5.3e-43
 Identities = 195/704 (27%), Positives = 321/704 (45%)

Query:   215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS---- 270
             V+SI GMGG+GKTTLA+ V+N + V+  ++  AW CVS++F    + + IL ++ S    
Sbjct:   185 VVSITGMGGLGKTTLARQVFNHEDVKHQFDRLAWVCVSQEFTRKNVWQMILQNLTSREKK 244

Query:   271 DQCXXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT 330
             D+                  + +K L+V DD+W +    W  ++ P      G K+++T+
Sbjct:   245 DEILQMEEAELHDKLFQLLET-SKSLIVFDDIWKDE--DWDLIK-PIFPPNKGWKVLLTS 300

Query:   331 RNLVVAERMGADPV-YQLKELSDDDCLCVLTQISLGARDFTRHL---SLKEVGEQIVIKC 386
             +N  VA R     + ++ + L+ +D   +  +I+   +D +       ++++G+Q++  C
Sbjct:   301 QNESVAVRGDIKYLNFKPECLAIEDSWTLFQRIAFPKKDASESKVDEEMEDMGKQMLKHC 360

Query:   387 GGLPLAAKTLGGLLRGRDDPRDWEFV---LKTDI---WNLRDSDILPALRVSYHFLPPQL 440
             GGLPLA K LGGLL  +    DWE +   + +DI    +  +S I   L +S+  LP  L
Sbjct:   361 GGLPLAIKVLGGLLAAKYTMHDWERLSVNIGSDIVGRTSSNNSSIYHVLSMSFEELPSYL 420

Query:   441 KQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQE--YNGRKMEDLGREFVRELHSRSLF- 497
             K CF Y + FP+D++   E++   W AEG+   E  +NG  ++D+G+ ++ EL  R++  
Sbjct:   421 KHCFLYLAHFPEDHKINVEKLSYCWAAEGISTAEDYHNGETIQDVGQSYLEELVRRNMII 480

Query:   498 QQSSKDASRFV---MHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGE- 553
              +    ASRF    +HD++ ++  + A E  F ++  +K       S S  +    C   
Sbjct:   481 WERDATASRFGTCHLHDMMREVCLFKAKEENF-LQIAVKSVGVT--SSSTGNSQSPCRSR 537

Query:   554 ---YDGDTRLEFICDVQH--LRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGC 608
                Y   T L    D+ +  LR+ + +    +  N   W +L      L  LRV  L   
Sbjct:   538 RLVYQCPTTLHVERDINNPKLRSLVVLWHDLWVEN---WKLLGTSFTRLKLLRVLDLFYV 594

Query:   609 G-NIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE-DCHQLKKLCKDMG 666
                   LP  IGNL HLR L+L   ++  LP S+ +L  L  + L+ D   +     D+ 
Sbjct:   595 DFEGMKLPFGIGNLIHLRYLSLQDAKVSHLPSSLGNLMLLIYLNLDVDTEFI--FVPDV- 651

Query:   667 NLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRI 726
                ++H LR      L    K    L +L+ L   V      S  ++L  +T L  TL I
Sbjct:   652 -FMRMHELRYLKL-PLHMHKKTRLSLRNLVKLETLVYFSTWHSSSKDLCGMTRLM-TLAI 708

Query:   727 SKLENVKDVGDASEAQLNNKVNLEALLLKWS-ARDVQN----LDQCEFETHVLSVLKPHR 781
              +L  V      S A ++   NLE L +  + ++ ++     LD    +  +L +  P +
Sbjct:   709 -RLTRVTSTETLS-ASISGLRNLEYLYIVGTHSKKMREEGIVLDFIHLKHLLLDLYMPRQ 766

Query:   782 D--VQELTIT-----GYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELR 834
                   LT       G      PI         +  L+   C    + S G  P LK+L 
Sbjct:   767 QHFPSRLTFVKLSECGLEEDPMPILEKLLHLKGVILLKGSYCGRRMVCSGGGFPQLKKLE 826

Query:   835 ISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCG 878
             I G++  +    E+     S+P   LETLS  D  E +E IP G
Sbjct:   827 IVGLNKWE----EWLVEEGSMPL--LETLSILDCEELKE-IPDG 863

GO:0005575 "cellular_component" evidence=ND

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:504956483 AT3G46730 [Arabidopsis thaliana (taxid:3702)]

 Score = 457 (165.9 bits), Expect = 1.2e-41, Sum P(3) = 1.2e-41
 Identities = 158/526 (30%), Positives = 260/526 (49%)

Query:   215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF---DVF-RISKS--ILNSV 268
             +ISI GMGG+GKT LA+ +YN   V+R ++ +AWT VS+++   D+  RI +S  I+++ 
Sbjct:   187 IISIFGMGGLGKTALARKLYNSGDVKRRFDCRAWTYVSQEYKTRDILIRIIRSLGIVSAE 246

Query:   269 ASDQCXXXXXXXXXXXXXXXXXSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV 328
               ++                   G  +++V+DDVW+ +   W  L+        GSK+++
Sbjct:   247 EMEKIKMFEEDEELEVYLYGLLEGKNYMVVVDDVWDPD--AWESLKRALPCDHRGSKVII 304

Query:   329 TTRNLVVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCG 387
             TTR   +AE + G    ++L+ L+ ++   +  + +    +      L+  G+++V KCG
Sbjct:   305 TTRIRAIAEGVEGTVYAHKLRFLTFEESWTLFERKAFSNIEKVDE-DLQRTGKEMVKKCG 363

Query:   388 GLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN-LRDSDI--LPALRVSYHFLPPQLKQCF 444
             GLPLA   L GLL  R    +W  V  + +W  L+D+ I       +S+  +  +LK CF
Sbjct:   364 GLPLAIVVLSGLL-SRKRTNEWHEVCAS-LWRRLKDNSIHISTVFDLSFKEMRHELKLCF 421

Query:   445 AYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDA 504
              Y S+FP+DYE + E++I L  AEG + QE     MED+ R ++ EL  RSL +    + 
Sbjct:   422 LYFSVFPEDYEIKVEKLIHLLVAEGFI-QEDEEMMMEDVARCYIDELVDRSLVKAERIER 480

Query:   505 SRFV---MHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLE 561
              + +   +HDL+ DLA   A EL F      K  +       + H  ++  +Y       
Sbjct:   481 GKVMSCRIHDLLRDLAIKKAKELNFVNVYNEKQHSSDICRREVVH--HLMNDY------- 531

Query:   562 FICDVQ---HLRTFLPVNLSDYR-HNYLAWSVLQRLLNHLPRLRVFSLRGC----GNIFN 613
             ++CD +    +R+FL +   + R   Y+  + L+     L  LRV ++ G      NI N
Sbjct:   532 YLCDRRVNKRMRSFLFIG--ERRGFGYVNTTNLK-----LKLLRVLNMEGLLFVSKNISN 584

Query:   614 -LPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLH 672
              LP+ IG L HLR L ++ T + ILP SI++L  L T+        +       +L KL 
Sbjct:   585 TLPDVIGELIHLRYLGIADTYVSILPASISNLRFLQTLDASGNDPFQYTT----DLSKLT 640

Query:   673 HLRNSTANSLKEMPKGFG-KLTSLLTLGRFVVGKDSGSGLRELKSL 717
              LR+     + E   G G  L +L ++  +   K +   LR L+ L
Sbjct:   641 SLRHVIGKFVGECLIGEGVNLQTLRSISSYSWSKLNHELLRNLQDL 686

GO:0006952 "defense response" evidence=IEA;ISS

GO:0043531 "ADP 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: GSVIVG00010803001 SubName- Full=Chromosome chr13 scaffold_286, whole genome shotgun sequence; (1418 aa) (Vitis vinifera)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

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Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	1472
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	2e-75
PLN03210	1153	PLN03210, PLN03210, Resistant to P	4e-17
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-12
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-06
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-05
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	1e-04
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	5e-04
PRK15386	426	PRK15386, PRK15386, type III secretion protein Gog	0.001
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	0.002
PRK15386	426	PRK15386, PRK15386, type III secretion protein Gog	0.002
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.003

>gnl|CDD|216202 pfam00931, NB-ARC, NB-ARC domain

 Score =  251 bits (644), Expect = 2e-75
 Identities = 115/290 (39%), Positives = 164/290 (56%), Gaps = 13/290 (4%)

Query: 191 REKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC 250
           RE   E +IE LL       D   V+ I GMGGVGKTTLA+ +YNDD V  H++  AW  
Sbjct: 1   REDMIEALIEKLL----EMSDNLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVV 56

Query: 251 VSEDFDVFRISKSILNSVASDQC-KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIR 309
           VS+ +  FR+ K IL  +  D     + + + L  K+K+ L   +FLLVLDDVW +N   
Sbjct: 57  VSKTYTEFRLQKDILQELGLDDSDWVEKNESELAVKIKEALLRKRFLLVLDDVWEKN--D 114

Query: 310 WSELRCPFVAGAAGSKIVVTTRNLVVAERMGA-DPVYQLKELSDDDCLCVLTQISLGARD 368
           W ++  PF  G  GS+++VTTR+  VA RMG     ++++ L  ++    L    +  ++
Sbjct: 115 WDKIGVPFPDGENGSRVIVTTRSESVAGRMGGTSKPHEVESLEPEESW-ELFSNKVFEKE 173

Query: 369 FTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSD---- 424
                 L+EV ++IV KC GLPLA K LGGLL  +   ++WE VL+     L   D    
Sbjct: 174 LPPCPELEEVAKEIVEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNE 233

Query: 425 ILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQE 474
           +L  L +SY  LP  LK+CF Y +LFP+DY  ++E++I LW AEG +   
Sbjct: 234 VLSILSLSYDNLPMHLKRCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPS 283

Length = 285

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 87.2 bits (216), Expect = 4e-17
 Identities = 95/374 (25%), Positives = 170/374 (45%), Gaps = 56/374 (14%)

Query: 1042 SLVSFPQAALPSHLRT---VKIEDCNA-LESLPEAWMHNSNSSLESLKIRNCNSLVSFPE 1097
                +P   +PS+ R    VK++   + LE L +  +H S + L ++ +R   +L   P+
Sbjct: 595  RWDKYPLRCMPSNFRPENLVKLQMQGSKLEKLWDG-VH-SLTGLRNIDLRGSKNLKEIPD 652

Query: 1098 VALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIAR-IQLPPSLKRL 1156
            +++ + L T+K+  C++L+ LP + +Q  N  LE L +  C++L+ +   I L  SL RL
Sbjct: 653  LSMATNLETLKLSDCSSLVELPSS-IQYLN-KLEDLDMSRCENLEILPTGINLK-SLYRL 709

Query: 1157 IVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNL 1216
             +S C  L++     DI  S+         ++  E P+ L  L+     NL  L      
Sbjct: 710  NLSGCSRLKSFP---DI--STNISWLDLDETAIEEFPSNL-RLE-----NLDELILCEMK 758

Query: 1217 PQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCP 1276
             + L + RV+  + L ++     + SL  + +S + +L  LP+ + NLH L+        
Sbjct: 759  SEKL-WERVQPLTPLMTML----SPSLTRLFLSDIPSLVELPSSIQNLHKLE-------- 805

Query: 1277 NLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPT 1336
                             L I +C NL+ LP  + NL SL  L++ GC  + +FP+    T
Sbjct: 806  ----------------HLEIENCINLETLPTGI-NLESLESLDLSGCSRLRTFPD--IST 846

Query: 1337 NLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDL 1396
            N+  L +    I + +P W   +F++L    +  GC +L       + L +L   D  D 
Sbjct: 847  NISDLNLSRTGIEE-VP-WWIEKFSNLSFLDM-NGCNNLQRVSLNISKLKHLETVDFSDC 903

Query: 1397 ESISSIGENLTSLE 1410
             +++    N +  E
Sbjct: 904  GALTEASWNGSPSE 917

syringae 6; Provisional. Length = 1153

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 72.2 bits (177), Expect = 2e-12
 Identities = 71/223 (31%), Positives = 106/223 (47%), Gaps = 19/223 (8%)

Query: 1229 SKLESLAERLDN-TSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLP 1287
            SKLE L + + + T L  I +   +NLK +P DL    +L+ + ++ C +L   P     
Sbjct: 621  SKLEKLWDGVHSLTGLRNIDLRGSKNLKEIP-DLSMATNLETLKLSDCSSLVELPSSIQY 679

Query: 1288 STKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLK 1347
              KL +L +  CENL+ LP  + NL SL  L + GC  + SFP+    TN+  L++    
Sbjct: 680  LNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLSGCSRLKSFPD--ISTNISWLDLDETA 736

Query: 1348 ISKPLPEWGFN-RFTSLRRFTIC----GGCPDLVSP-PPF----PASLTNLWISDMPDLE 1397
            I     E+  N R  +L    +C        + V P  P       SLT L++SD+P L 
Sbjct: 737  IE----EFPSNLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLV 792

Query: 1398 SISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNC 1440
             + S  +NL  LE L + NC  L+  P     +SL  L +  C
Sbjct: 793  ELPSSIQNLHKLEHLEIENCINLETLPTGINLESLESLDLSGC 835

syringae 6; Provisional. Length = 1153

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 53.0 bits (127), Expect = 1e-06
 Identities = 74/314 (23%), Positives = 122/314 (38%), Gaps = 85/314 (27%)

Query: 1008 LQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALE 1067
            L+ LKLS C  L  LP ++  L+ L ++ +S C +L   P          + ++      
Sbjct: 659  LETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG--------INLK------ 704

Query: 1068 SLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSN 1127
                        SL  L +  C+ L SFP++   + +  + +    A+   P      SN
Sbjct: 705  ------------SLYRLNLSGCSRLKSFPDI--STNISWLDL-DETAIEEFP------SN 743

Query: 1128 TSLESL-RIKGCD--SLKYIARIQ--------LPPSLKRLIVSRCWNLRTLIGEQDICSS 1176
              LE+L  +  C+  S K   R+Q        L PSL RL +S   ++ +L+   ++ SS
Sbjct: 744  LRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLS---DIPSLV---ELPSS 797

Query: 1177 SRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAE 1236
             +                 LEHL++  C NL  L    NL  +L+ L +  CS+L +  +
Sbjct: 798  IQNLHK-------------LEHLEIENCINLETLPTGINLE-SLESLDLSGCSRLRTFPD 843

Query: 1237 --------RLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPS 1288
                     L  T +EE+           P  +    +L  + +N C NL+         
Sbjct: 844  ISTNISDLNLSRTGIEEV-----------PWWIEKFSNLSFLDMNGCNNLQRVSLNISKL 892

Query: 1289 TKLTELTIYDCENL 1302
              L  +   DC  L
Sbjct: 893  KHLETVDFSDCGAL 906

syringae 6; Provisional. Length = 1153

>gnl|CDD|215633 PLN03210, PLN03210, Resistant to P

 Score = 48.7 bits (116), Expect = 2e-05
 Identities = 59/238 (24%), Positives = 110/238 (46%), Gaps = 35/238 (14%)

Query: 215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASD--- 271
           ++ I G  G+GKTT+A+ +++  R+ R ++    + V  D      S  I +S   D   
Sbjct: 209 MVGIWGSSGIGKTTIARALFS--RLSRQFQ----SSVFIDRAFISKSMEIYSSANPDDYN 262

Query: 272 -----------QCKDKDDLNL-----LQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRC 315
                      +  DK D+ +     ++E+LK +    K L+ +DD+ +++ +     + 
Sbjct: 263 MKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHR----KVLIFIDDLDDQDVLDALAGQT 318

Query: 316 PFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSL 375
            +    +GS+I+V T++       G D +Y++   S++  L +  + +   +  +     
Sbjct: 319 QWFG--SGSRIIVITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAF--KKNSPPDGF 374

Query: 376 KEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSY 433
            E+  ++ ++ G LPL    LG  LRGRD   DW  +L   + N  D  I   LRVSY
Sbjct: 375 MELASEVALRAGNLPLGLNVLGSYLRGRDK-EDWMDMLPR-LRNGLDGKIEKTLRVSY 430

syringae 6; Provisional. Length = 1153

>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]

 Score = 45.7 bits (108), Expect = 1e-04
 Identities = 59/200 (29%), Positives = 91/200 (45%), Gaps = 15/200 (7%)

Query: 563 ICDVQHLRTFLPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGN 620
           I D+  L   L  NL   D   N +    L   L +LP L+   L    ++ +LP  + N
Sbjct: 128 ITDIPPLIGLLKSNLKELDLSDNKI--ESLPSPLRNLPNLKNLDLSFN-DLSDLPKLLSN 184

Query: 621 LKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTAN 680
           L +L  L+LS  +I  LP  I  L  L  + L + + + +L   + NL+ L  L  S  N
Sbjct: 185 LSNLNNLDLSGNKISDLPPEIELLSALEELDLSN-NSIIELLSSLSNLKNLSGLELSN-N 242

Query: 681 SLKEMPKGFGKLTSLLTLGRFVVGKD---SGSGLRELKSLTHL--QGTLRISKLENVKDV 735
            L+++P+  G L++L TL    +  +   S S L  L +L  L   G    + L  +  +
Sbjct: 243 KLEDLPESIGNLSNLETLD---LSNNQISSISSLGSLTNLRELDLSGNSLSNALPLIALL 299

Query: 736 GDASEAQLNNKVNLEALLLK 755
               E  LN  + L+AL LK
Sbjct: 300 LLLLELLLNLLLTLKALELK 319

Length = 394

>gnl|CDD|99707 cd00009, AAA, The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

 Score = 41.7 bits (98), Expect = 5e-04
 Identities = 21/114 (18%), Positives = 38/114 (33%), Gaps = 21/114 (18%)

Query: 189 YGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAW 248
            G+E+  E + E L     +       + + G  G GKTTLA+ +             A 
Sbjct: 1   VGQEEAIEALREALELPPPKN------LLLYGPPGTGKTTLARAI-------------AN 41

Query: 249 TCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDV 302
                      ++ S L             L  L  +L ++      +L +D++
Sbjct: 42  ELFRPGAPFLYLNASDLLEGLVVAELFGHFLVRLLFELAEK--AKPGVLFIDEI 93

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases. Length = 151

>gnl|CDD|237954 PRK15386, PRK15386, type III secretion protein GogB; Provisional

 Score = 42.5 bits (100), Expect = 0.001
 Identities = 41/142 (28%), Positives = 65/142 (45%), Gaps = 25/142 (17%)

Query: 1030 SSLTEMRISGCASLV-----SFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESL 1084
              + E R SG   +      S P   LP+ L  + IE+CN L +LP +        LE L
Sbjct: 46   PQIEEARASGRLYIKDCDIESLPV--LPNELTEITIENCNNLTTLPGSI----PEGLEKL 99

Query: 1085 KIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYI 1144
             + +C  +       LP  +R+++I+  +A  S     ++N    L SL I   +  +  
Sbjct: 100  TVCHCPEISG-----LPESVRSLEIK-GSATDS-----IKNVPNGLTSLSINSYNP-ENQ 147

Query: 1145 ARIQ--LPPSLKRLIVSRCWNL 1164
            ARI   + PSLK L ++ C N+
Sbjct: 148  ARIDNLISPSLKTLSLTGCSNI 169

Length = 426

>gnl|CDD|227223 COG4886, COG4886, Leucine-rich repeat (LRR) protein [Function unknown]

 Score = 42.3 bits (99), Expect = 0.002
 Identities = 54/217 (24%), Positives = 85/217 (39%), Gaps = 32/217 (14%)

Query: 1229 SKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPS 1288
               E+L   L   SL+     +  N+  L  +L NL  L     N        P  GL  
Sbjct: 84   DGSENLLNLLPLPSLDLNLNRLRSNISEL-LELTNLTSLDLDNNNITDIP---PLIGLLK 139

Query: 1289 TKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKI 1348
            + L EL + D   +++LP+ + NL +L  L++               +NL +L++ G KI
Sbjct: 140  SNLKELDLSD-NKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGNKI 198

Query: 1349 SKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTS 1408
            S                        DL       ++L  L +S+   +E +SS+  NL +
Sbjct: 199  S------------------------DLPPEIELLSALEELDLSNNSIIELLSSLS-NLKN 233

Query: 1409 LETLRLFNCPKLKYFPEQ-GLPKSLSRLSIHNCPLIE 1444
            L  L L N  KL+  PE  G   +L  L + N  +  
Sbjct: 234  LSGLELSN-NKLEDLPESIGNLSNLETLDLSNNQISS 269

Length = 394

>gnl|CDD|237954 PRK15386, PRK15386, type III secretion protein GogB; Provisional

 Score = 42.2 bits (99), Expect = 0.002
 Identities = 42/171 (24%), Positives = 66/171 (38%), Gaps = 21/171 (12%)

Query: 1237 RLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTI 1296
              D T     T +  E    +   +       +++I  C ++ES P   LP+ +LTE+TI
Sbjct: 24   EPDGTFCSNSTETSAEIRSEITPQIEEARASGRLYIKDC-DIESLPV--LPN-ELTEITI 79

Query: 1297 YDCENLKALPNCM-HNLTSLLI---LEIRGCPSVVSFPE---------DGFPTNLQSLEV 1343
             +C NL  LP  +   L  L +    EI G P  V   E            P  L SL +
Sbjct: 80   ENCNNLTTLPGSIPEGLEKLTVCHCPEISGLPESVRSLEIKGSATDSIKNVPNGLTSLSI 139

Query: 1344 RGLKISKPLPEWGFNRFTSLRRFTI-CGGCPDLVSPPPFPASLTNLWISDM 1393
                   P  +   +   S    T+   GC +++ P   P SL ++ +   
Sbjct: 140  NSY---NPENQARIDNLISPSLKTLSLTGCSNIILPEKLPESLQSITLHIE 187

Length = 426

>gnl|CDD|221970 pfam13191, AAA_16, AAA ATPase domain

 Score = 39.9 bits (93), Expect = 0.003
 Identities = 28/137 (20%), Positives = 51/137 (37%), Gaps = 30/137 (21%)

Query: 187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIK 246
           ++ GRE+E E +++ L         G   + + G  G GKT+L +       +     + 
Sbjct: 1   RLVGREEELERLLDAL---RRARSGGPPSVLLTGPSGTGKTSLLR------ELLEGLLVA 51

Query: 247 AWTCVSEDFDVFRISKSILNSV--------------------ASDQCKDKDDLNLLQEKL 286
           A  C   + +        L  +                    A+   +  + L  L E L
Sbjct: 52  AGKCDQAERNPPYAFSQALRELLRQLLRELAAELLLLREALLAALGAELIEGLQDLVELL 111

Query: 287 KKQLSGNKFL-LVLDDV 302
           ++ L+  + L LVLDD+
Sbjct: 112 ERLLARARPLVLVLDDL 128

This family of domains contain a P-loop motif that is characteristic of the AAA superfamily. Length = 154

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1472
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.92
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.92
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.92
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.9
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.89
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.88
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.88
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.85
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.85
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.59
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.55
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.39
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.38
PRK04841	903	transcriptional regulator MalT; Provisional	99.36
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.35
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.32
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.29
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.27
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.25
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.25
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	99.17
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.09
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	99.02
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	99.0
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.99
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.98
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.94
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.93
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.89
PF05729	166	NACHT: NACHT domain	98.85
KOG4341	483	consensus F-box protein containing LRR [General fu	98.83
KOG4341	483	consensus F-box protein containing LRR [General fu	98.8
COG3899	849	Predicted ATPase [General function prediction only	98.64
PRK06893	229	DNA replication initiation factor; Validated	98.62
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.59
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.57
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.56
PRK15386	426	type III secretion protein GogB; Provisional	98.55
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.54
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.54
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.54
PRK13342	413	recombination factor protein RarA; Reviewed	98.51
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.47
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.47
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.45
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.44
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.44
PRK12402	337	replication factor C small subunit 2; Reviewed	98.43
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.41
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.41
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.41
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.4
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.36
PRK04195	482	replication factor C large subunit; Provisional	98.35
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.33
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.31
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	98.3
PLN03025	319	replication factor C subunit; Provisional	98.3
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.29
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.29
PF13173	128	AAA_14: AAA domain	98.29
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.29
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.27
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.27
PTZ00202	550	tuzin; Provisional	98.26
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.26
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.24
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.24
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	98.24
KOG2028	554	consensus ATPase related to the helicase subunit o	98.23
cd01128	249	rho_factor Transcription termination factor rho is	98.23
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.23
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	98.23
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.22
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	98.21
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	98.21
PRK08727	233	hypothetical protein; Validated	98.2
PRK15386	426	type III secretion protein GogB; Provisional	98.2
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	98.2
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.19
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	98.18
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.18
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.17
PRK08084	235	DNA replication initiation factor; Provisional	98.17
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK13341	725	recombination factor protein RarA/unknown domain f	98.16
PLN03150	623	hypothetical protein; Provisional	98.16
PRK09087	226	hypothetical protein; Validated	98.15
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.15
COG3903	414	Predicted ATPase [General function prediction only	98.14
PRK07940	394	DNA polymerase III subunit delta'; Validated	98.13
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.13
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	98.12
PRK09376	416	rho transcription termination factor Rho; Provisio	98.12
PRK05642	234	DNA replication initiation factor; Validated	98.11
PLN03150	623	hypothetical protein; Provisional	98.11
PRK09112	351	DNA polymerase III subunit delta'; Validated	98.1
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	98.1
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.07
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	98.05
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	98.04
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	98.02
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	98.01
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.98
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.98
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.97
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.97
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.95
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.95
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	97.94
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.93
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.91
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	97.91
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.9
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.89
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	97.87
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.86
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.86
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.86
PRK06620	214	hypothetical protein; Validated	97.85
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.85
TIGR00767	415	rho transcription termination factor Rho. Members	97.84
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.81
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.8
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.8
PHA02544	316	44 clamp loader, small subunit; Provisional	97.8
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.79
CHL00181	287	cbbX CbbX; Provisional	97.78
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.77
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.74
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.74
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.73
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.71
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.68
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.68
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.67
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.66
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.65
PRK12422	445	chromosomal replication initiation protein; Provis	97.63
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.62
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.61
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.59
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.59
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.58
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.57
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.55
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.54
PF14516	331	AAA_35: AAA-like domain	97.53
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.53
KOG2982	418	consensus Uncharacterized conserved protein [Funct	97.47
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.45
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.44
CHL00095	821	clpC Clp protease ATP binding subunit	97.39
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.37
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.36
PF00004	132	AAA: ATPase family associated with various cellula	97.36
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	97.34
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	97.32
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.3
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.3
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.3
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.27
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.23
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.23
PRK08116	268	hypothetical protein; Validated	97.21
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.2
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.19
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.18
PRK08058	329	DNA polymerase III subunit delta'; Validated	97.18
smart00382	148	AAA ATPases associated with a variety of cellular	97.13
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.11
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	97.07
PRK10536	262	hypothetical protein; Provisional	97.04
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	97.04
PRK10865	857	protein disaggregation chaperone; Provisional	97.03
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.0
CHL00176	638	ftsH cell division protein; Validated	97.0
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	96.98
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.94
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	96.93
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.92
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.9
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	96.89
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	96.89
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.88
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	96.87
PRK08118	167	topology modulation protein; Reviewed	96.87
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.85
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.81
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	96.79
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.79
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	96.76
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	96.75
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.75
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.73
PRK08939	306	primosomal protein DnaI; Reviewed	96.72
PRK08181	269	transposase; Validated	96.71
PRK13531	498	regulatory ATPase RavA; Provisional	96.7
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.68
KOG1514	767	consensus Origin recognition complex, subunit 1, a	96.66
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.63
PRK06526	254	transposase; Provisional	96.62
PRK10865	857	protein disaggregation chaperone; Provisional	96.6
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.6
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.59
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	96.58
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.56
PRK07952	244	DNA replication protein DnaC; Validated	96.54
PRK09183	259	transposase/IS protein; Provisional	96.51
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.5
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.5
PRK12377	248	putative replication protein; Provisional	96.5
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	96.47
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.44
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.41
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.41
PRK06921	266	hypothetical protein; Provisional	96.4
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	96.39
PRK12608	380	transcription termination factor Rho; Provisional	96.38
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	96.37
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.33
PRK04132	846	replication factor C small subunit; Provisional	96.31
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	96.3
PRK04296	190	thymidine kinase; Provisional	96.26
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	96.25
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	96.24
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.2
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.2
PRK07261	171	topology modulation protein; Provisional	96.19
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	96.13
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.07
PRK06835	329	DNA replication protein DnaC; Validated	96.04
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	96.02
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	96.02
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.02
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.01
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.0
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.99
cd00983	325	recA RecA is a bacterial enzyme which has roles in	95.99
CHL00095	821	clpC Clp protease ATP binding subunit	95.99
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	95.98
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	95.96
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.96
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.91
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	95.87
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.86
PRK09354	349	recA recombinase A; Provisional	95.85
PRK15455	644	PrkA family serine protein kinase; Provisional	95.84
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	95.83
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	95.82
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	95.82
PHA02244	383	ATPase-like protein	95.76
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	95.76
PRK05541	176	adenylylsulfate kinase; Provisional	95.75
PRK06696	223	uridine kinase; Validated	95.74
CHL00195	489	ycf46 Ycf46; Provisional	95.72
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	95.72
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.7
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.63
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.62
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.62
PRK13695	174	putative NTPase; Provisional	95.56
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	95.56
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.55
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.53
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.51
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.5
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	95.49
PRK06762	166	hypothetical protein; Provisional	95.46
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	95.46
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.45
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.44
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.42
PRK07132	299	DNA polymerase III subunit delta'; Validated	95.4
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.4
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.39
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.36
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.34
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	95.32
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	95.31
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	95.29
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.26
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	95.25
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.23
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.23
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.2
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	95.19
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.18
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	95.14
PRK08233	182	hypothetical protein; Provisional	95.12
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.1
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.08
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.06
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.05
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.01
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	94.96
PTZ00035	337	Rad51 protein; Provisional	94.94
PRK11608	326	pspF phage shock protein operon transcriptional ac	94.92
TIGR02236	310	recomb_radA DNA repair and recombination protein R	94.91
PF00154	322	RecA: recA bacterial DNA recombination protein; In	94.89
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	94.88
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	94.87
PRK06067	234	flagellar accessory protein FlaH; Validated	94.84
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	94.82
TIGR00959	428	ffh signal recognition particle protein. This mode	94.78
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	94.72
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.72
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	94.72
TIGR01817	534	nifA Nif-specific regulatory protein. This model r	94.71
PRK00625	173	shikimate kinase; Provisional	94.71
PRK10867	433	signal recognition particle protein; Provisional	94.7
cd03216	163	ABC_Carb_Monos_I This family represents the domain	94.69
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.69
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	94.68
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	94.67
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.67
PRK05986	191	cob(I)alamin adenolsyltransferase/cobinamide ATP-d	94.67
COG2884	223	FtsE Predicted ATPase involved in cell division [C	94.62
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.61
PRK14974	336	cell division protein FtsY; Provisional	94.6
TIGR01650	327	PD_CobS cobaltochelatase, CobS subunit. This model	94.58
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.57
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.55
cd03246	173	ABCC_Protease_Secretion This family represents the	94.5
PF08298	358	AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 Thi	94.47
TIGR02974	329	phageshock_pspF psp operon transcriptional activat	94.42
PRK07667	193	uridine kinase; Provisional	94.38
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.35
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.35
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	94.35
PTZ00301	210	uridine kinase; Provisional	94.35
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.31
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	94.29
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	94.25
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.21
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	94.2
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	94.2
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	94.15
PRK13948	182	shikimate kinase; Provisional	94.13
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	94.11
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	94.1
PRK06547	172	hypothetical protein; Provisional	94.1
PTZ00494	664	tuzin-like protein; Provisional	94.07
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	94.05
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	93.98
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	93.96
PRK05439	311	pantothenate kinase; Provisional	93.96
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	93.94
KOG0727	408	consensus 26S proteasome regulatory complex, ATPas	93.94
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	93.94
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	93.93
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	93.92
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.92
PRK05022	509	anaerobic nitric oxide reductase transcription reg	93.9
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	93.89
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	93.89
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	93.87
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	93.86
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	93.85
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	93.84
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	93.83
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	93.83
TIGR00235	207	udk uridine kinase. Model contains a number of lon	93.82
KOG0736	953	consensus Peroxisome assembly factor 2 containing	93.82
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	93.81
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	93.81
PRK05480	209	uridine/cytidine kinase; Provisional	93.79
COG2842	297	Uncharacterized ATPase, putative transposase [Gene	93.79
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	93.79
PF07726	131	AAA_3: ATPase family associated with various cellu	93.75
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	93.73
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	93.71
PTZ00088	229	adenylate kinase 1; Provisional	93.71
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	93.64
PRK00889	175	adenylylsulfate kinase; Provisional	93.54
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	93.51
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	93.5
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	93.45
PRK09519	790	recA DNA recombination protein RecA; Reviewed	93.39
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	93.34
PHA00729	226	NTP-binding motif containing protein	93.33
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	93.31
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	93.3
PRK10820	520	DNA-binding transcriptional regulator TyrR; Provis	93.23
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	93.2
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	93.18
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	93.14
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	93.1
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	93.1
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.09
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	93.08
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	93.05
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	93.01
KOG4252	246	consensus GTP-binding protein [Signal transduction	92.93
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	92.93
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	92.91
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	92.9
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	92.9
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	92.88
PRK04040	188	adenylate kinase; Provisional	92.88
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.87
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	92.87
KOG0473	326	consensus Leucine-rich repeat protein [Function un	92.84
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	92.82
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	92.81
PRK03839	180	putative kinase; Provisional	92.79
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	92.77
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	92.77
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	92.77
PRK04328	249	hypothetical protein; Provisional	92.75
KOG0473	326	consensus Leucine-rich repeat protein [Function un	92.67
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	92.66
cd03215	182	ABC_Carb_Monos_II This family represents domain II	92.66
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	92.64
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	92.62
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	92.57
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	92.56
PRK05917	290	DNA polymerase III subunit delta'; Validated	92.55
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	92.52
PRK07276	290	DNA polymerase III subunit delta'; Validated	92.47
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	92.46
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	92.46
COG0714	329	MoxR-like ATPases [General function prediction onl	92.45
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	92.44
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	92.44
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	92.33
PTZ00185	574	ATPase alpha subunit; Provisional	92.25
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	92.24
PRK08533	230	flagellar accessory protein FlaH; Reviewed	92.16
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	92.14
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	92.14
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	92.12
PRK13765	637	ATP-dependent protease Lon; Provisional	92.11
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	92.11
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	92.09
PRK11823	446	DNA repair protein RadA; Provisional	92.08
PRK05973	237	replicative DNA helicase; Provisional	92.06
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	92.02
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	92.01
PRK10416	318	signal recognition particle-docking protein FtsY;	92.01
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	92.01
cd01134	369	V_A-ATPase_A V/A-type ATP synthase catalytic subun	92.0
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	91.99
PRK11388	638	DNA-binding transcriptional regulator DhaR; Provis	91.94
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	91.94
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	91.93
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	91.93
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	91.9
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	91.87
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	91.83
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	91.81
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	91.79
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	91.79
PRK00131	175	aroK shikimate kinase; Reviewed	91.78
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	91.74
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	91.74
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	91.71
PRK08149	428	ATP synthase SpaL; Validated	91.69
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	91.68
PRK12678	672	transcription termination factor Rho; Provisional	91.63
PF01078	206	Mg_chelatase: Magnesium chelatase, subunit ChlI; I	91.6
PF13245	76	AAA_19: Part of AAA domain	91.58
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	91.57
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	91.55
KOG2170	344	consensus ATPase of the AAA+ superfamily [General	91.54
PRK15453	290	phosphoribulokinase; Provisional	91.54
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	91.5
PRK06793	432	fliI flagellum-specific ATP synthase; Validated	91.44
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	91.42
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	91.41
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	91.39
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	91.38
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	91.37
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	91.36
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	91.34
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	91.29
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	91.28
) proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor" target="_blank" href="http://www.ncbi.nlm.nih.gov/Structure/cdd/cddsrv.cgi?uid=PF06309">PF06309	127	Torsin: Torsin; InterPro: IPR010448 This family co	91.25
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	91.24
COG4181	228	Predicted ABC-type transport system involved in ly	91.24
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	91.23
COG4240	300	Predicted kinase [General function prediction only	91.2
cd03285	222	ABC_MSH2_euk MutS2 homolog in eukaryotes. The MutS	91.13
PRK09099	441	type III secretion system ATPase; Provisional	91.1
PRK03846	198	adenylylsulfate kinase; Provisional	91.05
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	91.04
PRK06217	183	hypothetical protein; Validated	91.0
PRK13949	169	shikimate kinase; Provisional	90.95
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	90.94
TIGR01818	463	ntrC nitrogen regulation protein NR(I). This model	90.92
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	90.9
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	90.9
PRK05922	434	type III secretion system ATPase; Validated	90.86
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	90.85
PRK10875	615	recD exonuclease V subunit alpha; Provisional	90.83

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.8e-83  Score=793.32  Aligned_cols=642  Identities=30%  Similarity=0.478  Sum_probs=508.2

Q ss_pred             hHHHhhhchHHHHHHHHHHHHHHHHHHHHhhhccCCChHHHHHHHHHHhHhhcchhhhhHHHHHHHHHHHhhcCcccCCC
Q 000471           26 ELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQ  105 (1472)
Q Consensus        26 ~~~~~~~~~~~~~~~l~~~l~~i~~~l~~a~~~~~~~~~~~~wl~~lr~~ayd~ed~lD~~~~~~~~~~~~~~~~~~~~~  105 (1472)
                      .++....++++.+..|++.|..++++++||++++.....++.|.+.+++++|++||.++.|......++..+.-      
T Consensus        18 ~~~~~~~~~~~~i~~Lk~~L~~l~~~l~d~~a~~~~~~~~~~~~e~~~~~~~~~e~~~~~~~v~~~~~~~~~~l------   91 (889)
T KOG4658|consen   18 RESECLDGKDNYILELKENLKALQSALEDLDAKRDDLERRVNWEEDVGDLVYLAEDIIWLFLVEEIERKANDLL------   91 (889)
T ss_pred             HHHHHHhchHHHHHHHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHh------
Confidence            34555567888999999999999999999999998888999999999999999999999999887765433210      


Q ss_pred             CCCCcccccccccccccccCCCCchhhHHHHHHHHHHHHHHHHHHHHHhcccccCccccccCCCc-ccccCCCCCcCCCc
Q 000471          106 PSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDGKS-RNIRQRLPTTSLVN  184 (1472)
Q Consensus       106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  184 (1472)
                          .......+..  |+.       .+.++.+..+..+..++..+ -+..+.++.......+.. ...+...++.+...
T Consensus        92 ----~~~~~~~~~~--c~~-------~~~~~~~~~~~~~~~rv~~~-l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~~  157 (889)
T KOG4658|consen   92 ----STRSVERQRL--CLC-------GFCSKNVSDSYKYGKRVSKV-LREVESLGSKGVFEVVGESLDPREKVETRPIQS  157 (889)
T ss_pred             ----hhhHHHHHHH--hhh-------hhHhHhhhhhHhHHHHHHHH-HHHHHHhccccceecccccccchhhcccCCCCc
Confidence                0000011111  111       23445555555566665555 222233332221111110 11112223444444


Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcc-hhccCcceEEEEecCCCCHHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR-VQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~-~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      ..+ ||.+..++++.+.|.+++      ..+++|+||||+||||||++++|+.. ++.+|+.++||.||+.++...++++
T Consensus       158 ~~~-VG~e~~~~kl~~~L~~d~------~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~  230 (889)
T KOG4658|consen  158 ESD-VGLETMLEKLWNRLMEDD------VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQT  230 (889)
T ss_pred             ccc-ccHHHHHHHHHHHhccCC------CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHH
Confidence            445 999999999999997753      38999999999999999999999987 9999999999999999999999999


Q ss_pred             HHHhhcCCCCC-CcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHh-hCC
Q 000471          264 ILNSVASDQCK-DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAER-MGA  341 (1472)
Q Consensus       264 i~~~l~~~~~~-~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~-~~~  341 (1472)
                      |++.++..... .....++++..+.+.|++|||+|||||||+.  .+|+.+..++|...+||||++|||++.|+.. +++
T Consensus       231 Il~~l~~~~~~~~~~~~~~~~~~i~~~L~~krfllvLDDIW~~--~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~  308 (889)
T KOG4658|consen  231 ILERLGLLDEEWEDKEEDELASKLLNLLEGKRFLLVLDDIWEE--VDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGV  308 (889)
T ss_pred             HHHHhccCCcccchhhHHHHHHHHHHHhccCceEEEEeccccc--ccHHhcCCCCCCccCCeEEEEEeccHhhhhccccC
Confidence            99999875432 2233478899999999999999999999998  6799999999999899999999999999998 888


Q ss_pred             CCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCChhhHHHHHhhcccccC
Q 000471          342 DPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLR  421 (1472)
Q Consensus       342 ~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~~~w~~~~~~~~~~~~  421 (1472)
                      ...++++.|+++|||+||.+.||.... ..++.++++|++|+++|+|+|||++++|+.|+.+....+|+++.+...+...
T Consensus       309 ~~~~~v~~L~~~eaW~LF~~~v~~~~~-~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~  387 (889)
T KOG4658|consen  309 DYPIEVECLTPEEAWDLFQKKVGPNTL-GSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLA  387 (889)
T ss_pred             CccccccccCccccHHHHHHhhccccc-cccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHcccccccc
Confidence            889999999999999999999987643 3445589999999999999999999999999999999999999987655422


Q ss_pred             ------CCCcccchhhcccCCChhhHhHhhhhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHhCC
Q 000471          422 ------DSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRS  495 (1472)
Q Consensus       422 ------~~~i~~~l~~sy~~L~~~~k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L~~~~  495 (1472)
                            .+.|.++|++||+.||++.|.||+|||+||+||.|+++.+|.+|+||||+.+...+.+++++|+.|+.+|++++
T Consensus       388 ~~~~~~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~  467 (889)
T KOG4658|consen  388 ADFSGMEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRAS  467 (889)
T ss_pred             CCCCchhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHH
Confidence                  23788999999999999999999999999999999999999999999999887778899999999999999999


Q ss_pred             CccccC--CCCCcEEEehhHHHHHHHhhc-----ccEEEeecc--ccccccccccccccEEEEEcCCCCCCcchhhhccC
Q 000471          496 LFQQSS--KDASRFVMHDLINDLARWAAG-----ELYFRMEGT--LKGENQQKFSESLRHFSYICGEYDGDTRLEFICDV  566 (1472)
Q Consensus       496 ll~~~~--~~~~~~~mHdlv~~~a~~~~~-----~~~~~~~~~--~~~~~~~~~~~~~r~ls~~~~~~~~~~~~~~~~~~  566 (1472)
                      |++...  .....|+|||+|||+|.++|+     ++...+...  .........+..+||+++++.....   ...-...
T Consensus       468 Ll~~~~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~---~~~~~~~  544 (889)
T KOG4658|consen  468 LLIEERDEGRKETVKMHDVVREMALWIASDFGKQEENQIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEH---IAGSSEN  544 (889)
T ss_pred             HHhhcccccceeEEEeeHHHHHHHHHHhccccccccceEEECCcCccccccccchhheeEEEEeccchhh---ccCCCCC
Confidence            999865  355789999999999999999     454444432  1112233345678999998765422   1223345


Q ss_pred             CccceeeecccCcccccchhhHHHHHHhccCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhccc
Q 000471          567 QHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYN  646 (1472)
Q Consensus       567 ~~lr~l~~~~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~  646 (1472)
                      +++++|+......     ........+|..++.||||||++|..+.++|++|++|.|||||+|+++.|..+|.++++|+.
T Consensus       545 ~~L~tLll~~n~~-----~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~  619 (889)
T KOG4658|consen  545 PKLRTLLLQRNSD-----WLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKK  619 (889)
T ss_pred             CccceEEEeecch-----hhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHh
Confidence            6799998876531     12344556799999999999999989999999999999999999999999999999999999


Q ss_pred             ccEEecCCCcchhhhhhhhcccCCCceeecCCCCCcccCCCcccccccccccCceEecCC
Q 000471          647 LHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKD  706 (1472)
Q Consensus       647 L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~  706 (1472)
                      |++||+..+..+..+|..+..|.+||+|.+.... ...-...++.+.+|++|..+.+...
T Consensus       620 L~~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~-~~~~~~~l~el~~Le~L~~ls~~~~  678 (889)
T KOG4658|consen  620 LIYLNLEVTGRLESIPGILLELQSLRVLRLPRSA-LSNDKLLLKELENLEHLENLSITIS  678 (889)
T ss_pred             hheeccccccccccccchhhhcccccEEEeeccc-cccchhhHHhhhcccchhhheeecc
Confidence            9999999988888888777789999999987654 2222233556666666665555433

>PLN03210 Resistant to P

Probab=100.00  E-value=1.5e-62  Score=652.41  Aligned_cols=693  Identities=21%  Similarity=0.325  Sum_probs=442.4

Q ss_pred             cCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEe---cCC------
Q 000471          184 NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCV---SED------  254 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~---~~~------  254 (1472)
                      +..++|||+++++++.++|...    .+++++|+||||||+||||||+++|+  ++..+|+..+|+..   ...      
T Consensus       182 ~~~~~vG~~~~l~~l~~lL~l~----~~~~~vvgI~G~gGiGKTTLA~~l~~--~l~~~F~g~vfv~~~~v~~~~~~~~~  255 (1153)
T PLN03210        182 DFEDFVGIEDHIAKMSSLLHLE----SEEVRMVGIWGSSGIGKTTIARALFS--RLSRQFQSSVFIDRAFISKSMEIYSS  255 (1153)
T ss_pred             ccccccchHHHHHHHHHHHccc----cCceEEEEEEcCCCCchHHHHHHHHH--HHhhcCCeEEEeeccccccchhhccc
Confidence            4557999999999999988542    34689999999999999999999998  57788988887742   111      


Q ss_pred             -----CC-HHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEE
Q 000471          255 -----FD-VFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV  328 (1472)
Q Consensus       255 -----~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv  328 (1472)
                           ++ ...++++++.++...........    ..+++.++++|+||||||||+.  ..|+.+.....+.+.||+|||
T Consensus       256 ~~~~~~~~~~~l~~~~l~~il~~~~~~~~~~----~~~~~~L~~krvLLVLDdv~~~--~~l~~L~~~~~~~~~GsrIIi  329 (1153)
T PLN03210        256 ANPDDYNMKLHLQRAFLSEILDKKDIKIYHL----GAMEERLKHRKVLIFIDDLDDQ--DVLDALAGQTQWFGSGSRIIV  329 (1153)
T ss_pred             ccccccchhHHHHHHHHHHHhCCCCcccCCH----HHHHHHHhCCeEEEEEeCCCCH--HHHHHHHhhCccCCCCcEEEE
Confidence                 01 12344555555543322111111    4567788999999999999986  668888876666788999999


Q ss_pred             EcCChHHHHhhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCChhh
Q 000471          329 TTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRD  408 (1472)
Q Consensus       329 TtR~~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~~~  408 (1472)
                      |||+++++..++..++|+++.+++++||++|+++||+...  +++++.+++++|+++|+|+|||++++|++|+++ +..+
T Consensus       330 TTrd~~vl~~~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~--~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k-~~~~  406 (1153)
T PLN03210        330 ITKDKHFLRAHGIDHIYEVCLPSNELALEMFCRSAFKKNS--PPDGFMELASEVALRAGNLPLGLNVLGSYLRGR-DKED  406 (1153)
T ss_pred             EeCcHHHHHhcCCCeEEEecCCCHHHHHHHHHHHhcCCCC--CcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCC-CHHH
Confidence            9999999988888889999999999999999999997643  345688999999999999999999999999987 6789


Q ss_pred             HHHHHhhcccccCCCCcccchhhcccCCCh-hhHhHhhhhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHH
Q 000471          409 WEFVLKTDIWNLRDSDILPALRVSYHFLPP-QLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREF  487 (1472)
Q Consensus       409 w~~~~~~~~~~~~~~~i~~~l~~sy~~L~~-~~k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~  487 (1472)
                      |+.++++.... .+..|.++|++||++|++ ..|.||+++|+||.++.++   .+..|+|.+...           ++..
T Consensus       407 W~~~l~~L~~~-~~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~-----------~~~~  471 (1153)
T PLN03210        407 WMDMLPRLRNG-LDGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLD-----------VNIG  471 (1153)
T ss_pred             HHHHHHHHHhC-ccHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCC-----------chhC
Confidence            99999875443 345899999999999987 5999999999999887553   477788876543           2234


Q ss_pred             HHHHHhCCCccccCCCCCcEEEehhHHHHHHHhhcccEE-------Eeecc-ccc-cccccccccccEEEEEcCCCCCCc
Q 000471          488 VRELHSRSLFQQSSKDASRFVMHDLINDLARWAAGELYF-------RMEGT-LKG-ENQQKFSESLRHFSYICGEYDGDT  558 (1472)
Q Consensus       488 ~~~L~~~~ll~~~~~~~~~~~mHdlv~~~a~~~~~~~~~-------~~~~~-~~~-~~~~~~~~~~r~ls~~~~~~~~~~  558 (1472)
                      ++.|++++|++...   .++.|||++|++|+++++++..       ..... ... -....-...++++++......   
T Consensus       472 l~~L~~ksLi~~~~---~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~---  545 (1153)
T PLN03210        472 LKNLVDKSLIHVRE---DIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEID---  545 (1153)
T ss_pred             hHHHHhcCCEEEcC---CeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccc---
Confidence            88999999998754   3699999999999999876531       00000 000 000000122333332211100   


Q ss_pred             chhhhccCCccceeeecccCcccccchhhHHHHHHhccCCcceEEEecCCC------CCccCCcccCCCC-cCcEEecCC
Q 000471          559 RLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCG------NIFNLPNEIGNLK-HLRCLNLSR  631 (1472)
Q Consensus       559 ~~~~~~~~~~lr~l~~~~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~------~~~~lp~~i~~L~-~Lr~L~L~~  631 (1472)
                                                 ...+....|..+++|+.|.+..+.      ....+|..+..++ +||+|++.+
T Consensus       546 ---------------------------~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~  598 (1153)
T PLN03210        546 ---------------------------ELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDK  598 (1153)
T ss_pred             ---------------------------eeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecC
Confidence                                       011223446677777777775441      1124566666654 577888877


Q ss_pred             ccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCceeecCCCCCcccCCCcccccccccccCceEecCCCCccc
Q 000471          632 TRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGL  711 (1472)
Q Consensus       632 ~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~~~~~~  711 (1472)
                      +.++.+|..+ .+.+|+.|++++| .+..+|.++..+++|+.|+++++..+..+|. ++.+++|++|             
T Consensus       599 ~~l~~lP~~f-~~~~L~~L~L~~s-~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~-ls~l~~Le~L-------------  662 (1153)
T PLN03210        599 YPLRCMPSNF-RPENLVKLQMQGS-KLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD-LSMATNLETL-------------  662 (1153)
T ss_pred             CCCCCCCCcC-CccCCcEEECcCc-cccccccccccCCCCCEEECCCCCCcCcCCc-cccCCcccEE-------------
Confidence            7777777776 4677778888774 4677777777777888888777654555542 3333333333             


Q ss_pred             ccccCccccCCceEEecccCCCCccccchhccCCCCCCCeEEEEecCCcccCccchhHHHHHhccCCCCCCCCeEEEEee
Q 000471          712 RELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGY  791 (1472)
Q Consensus       712 ~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~  791 (1472)
                                                                                                 +++++
T Consensus       663 ---------------------------------------------------------------------------~L~~c  667 (1153)
T PLN03210        663 ---------------------------------------------------------------------------KLSDC  667 (1153)
T ss_pred             ---------------------------------------------------------------------------EecCC
Confidence                                                                                       22111


Q ss_pred             C-CCCCCcccCCCCcccccEEEEcCCCC-CCCCCCCCCCCccceeecCCCCceEeCccccCCCCCCCCCCccEEeccCcc
Q 000471          792 G-GTKFPIWLGDSSFSKLARLELRRCTS-TSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMR  869 (1472)
Q Consensus       792 ~-~~~~p~~~~~~~l~~L~~L~L~~~~~-~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~fp~L~~L~l~~~~  869 (1472)
                      . ...+|..+.  .+++|+.|++++|.. ..+|....+++|+.|++++|..++.++.                       
T Consensus       668 ~~L~~lp~si~--~L~~L~~L~L~~c~~L~~Lp~~i~l~sL~~L~Lsgc~~L~~~p~-----------------------  722 (1153)
T PLN03210        668 SSLVELPSSIQ--YLNKLEDLDMSRCENLEILPTGINLKSLYRLNLSGCSRLKSFPD-----------------------  722 (1153)
T ss_pred             CCccccchhhh--ccCCCCEEeCCCCCCcCccCCcCCCCCCCEEeCCCCCCcccccc-----------------------
Confidence            1 112333332  244555555555443 4444433455555555555443322110                       


Q ss_pred             cccccccCCCCCcccccCCcccEeeecCCcCcccCCCCCCCCcceEEEcccCCchhccCCCCCccEEEEcCCCCeeecCC
Q 000471          870 EWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSP  949 (1472)
Q Consensus       870 ~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~lp~~l~~L~~L~i~~~~~l~~~~~~l~~L~~L~l~~n~~~~~~~~  949 (1472)
                                      ..++|+.|+++++. ++ .+|..+                   .+++|.+|.+.++....+.  
T Consensus       723 ----------------~~~nL~~L~L~~n~-i~-~lP~~~-------------------~l~~L~~L~l~~~~~~~l~--  763 (1153)
T PLN03210        723 ----------------ISTNISWLDLDETA-IE-EFPSNL-------------------RLENLDELILCEMKSEKLW--  763 (1153)
T ss_pred             ----------------ccCCcCeeecCCCc-cc-cccccc-------------------cccccccccccccchhhcc--
Confidence                            02345555555444 33 444210                   1233333433332211000  


Q ss_pred             cccceeeeccccccccccCCCcccccccceEEeccCCCccccccccccccCCCCCCCccceEEeccCCCCCccchhhcCC
Q 000471          950 HLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTL 1029 (1472)
Q Consensus       950 ~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~l~~L~~L~Ls~~~~~~~l~~~~~~l 1029 (1472)
                                            ..+..+..+                    ....+++|+.|++++|.....+|..+.++
T Consensus       764 ----------------------~~~~~l~~~--------------------~~~~~~sL~~L~Ls~n~~l~~lP~si~~L  801 (1153)
T PLN03210        764 ----------------------ERVQPLTPL--------------------MTMLSPSLTRLFLSDIPSLVELPSSIQNL  801 (1153)
T ss_pred             ----------------------ccccccchh--------------------hhhccccchheeCCCCCCccccChhhhCC
Confidence                                  000000000                    00113466777777776666677777777


Q ss_pred             CCccEEEeccCCCccccCCCCCCCCcceEEecCCCCCCCChhhhhccCCCCcceEEeecCCCCCcCCC-CCCCCCccEEE
Q 000471         1030 SSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPE-VALPSQLRTVK 1108 (1472)
Q Consensus      1030 ~~L~~L~l~~c~~l~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~-~~~~~~L~~L~ 1108 (1472)
                      ++|+.|++++|..++.+|....+++|+.|++++|..+..+|..     .++|+.|++++| .+..+|. ...+++|+.|+
T Consensus       802 ~~L~~L~Ls~C~~L~~LP~~~~L~sL~~L~Ls~c~~L~~~p~~-----~~nL~~L~Ls~n-~i~~iP~si~~l~~L~~L~  875 (1153)
T PLN03210        802 HKLEHLEIENCINLETLPTGINLESLESLDLSGCSRLRTFPDI-----STNISDLNLSRT-GIEEVPWWIEKFSNLSFLD  875 (1153)
T ss_pred             CCCCEEECCCCCCcCeeCCCCCccccCEEECCCCCcccccccc-----ccccCEeECCCC-CCccChHHHhcCCCCCEEE
Confidence            7777777777777777666555667777777777766665543     345777777666 3444542 34456677777


Q ss_pred             EecCCCcccCchhhhcCCCCccceEeecccCCcccc
Q 000471         1109 IEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYI 1144 (1472)
Q Consensus      1109 l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~~ 1144 (1472)
                      +++|+.+..+|...  ..+++|+.+++++|+.++.+
T Consensus       876 L~~C~~L~~l~~~~--~~L~~L~~L~l~~C~~L~~~  909 (1153)
T PLN03210        876 MNGCNNLQRVSLNI--SKLKHLETVDFSDCGALTEA  909 (1153)
T ss_pred             CCCCCCcCccCccc--ccccCCCeeecCCCcccccc
Confidence            77777776666543  34667777777777766543

syringae 6; Provisional

>PF00931 NB-ARC: NB-ARC domain; InterPro: IPR002182 This is the NB-ARC domain, a novel signalling motif found in bacteria and eukaryotes, shared by plant resistance gene products and regulators of cell death in animals []

Probab=100.00  E-value=5.9e-41  Score=383.44  Aligned_cols=277  Identities=37%  Similarity=0.643  Sum_probs=224.6

Q ss_pred             chhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcC
Q 000471          191 REKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       191 r~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  270 (1472)
                      ||.++++|.++|....    ++.++|+|+||||+||||||++++++..++.+|+.++||.+++..+...++..|+.++..
T Consensus         1 re~~~~~l~~~L~~~~----~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~   76 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNS----NEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGE   76 (287)
T ss_dssp             -HHHHHHHHHHHHTTT----TSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHhhCCC----CCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccc
Confidence            7899999999998742    568999999999999999999999977789999999999999999999999999999988


Q ss_pred             CCCC--CcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHhhCC-CCceeC
Q 000471          271 DQCK--DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGA-DPVYQL  347 (1472)
Q Consensus       271 ~~~~--~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~-~~~~~l  347 (1472)
                      ....  ...+.+.....+.+.++++++||||||||+.  ..|+.+...++....|++||||||+..++..++. ...|++
T Consensus        77 ~~~~~~~~~~~~~~~~~l~~~L~~~~~LlVlDdv~~~--~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l  154 (287)
T PF00931_consen   77 PDSSISDPKDIEELQDQLRELLKDKRCLLVLDDVWDE--EDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIEL  154 (287)
T ss_dssp             C-STSSCCSSHHHHHHHHHHHHCCTSEEEEEEEE-SH--HHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEEC
T ss_pred             cccccccccccccccccchhhhccccceeeeeeeccc--ccccccccccccccccccccccccccccccccccccccccc
Confidence            7432  4567778999999999999999999999987  5888888888877789999999999998876654 578999


Q ss_pred             CCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCChhhHHHHHhhcccccC-----C
Q 000471          348 KELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLR-----D  422 (1472)
Q Consensus       348 ~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~~~w~~~~~~~~~~~~-----~  422 (1472)
                      ++|+++||++||.+.++... ...++.+++.+++|+++|+|+||||+++|++|+.+....+|+.+++...+...     .
T Consensus       155 ~~L~~~ea~~L~~~~~~~~~-~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~  233 (287)
T PF00931_consen  155 EPLSEEEALELFKKRAGRKE-SESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYD  233 (287)
T ss_dssp             SS--HHHHHHHHHHHHTSHS-----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSC
T ss_pred             cccccccccccccccccccc-ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            99999999999999997654 22334456789999999999999999999999766677899998876444332     2


Q ss_pred             CCcccchhhcccCCChhhHhHhhhhccCCCCCccChHHHHHHHHHcCCcccc
Q 000471          423 SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQE  474 (1472)
Q Consensus       423 ~~i~~~l~~sy~~L~~~~k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~  474 (1472)
                      ..+..++.+||+.||++.|+||+|||+||+++.|+++.++++|+|+|+|...
T Consensus       234 ~~~~~~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  234 RSVFSALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             ccccccceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            3788999999999999999999999999999999999999999999999653

This domain has been structurally characterised in the human protein apoptotic protease-activating factor 1 (Apaf-1) []. It contains the three-layered alpha-beta fold and subsequent short alpha-helical region characteristic of the AAA+ ATPase domain superfamily. While this domain is thought to bind and hyrolyse ATP, only ADP binding has been experimentally verified. It is proposed that binding and hydrolysis of ATP by this domain induces conformational changes the the overall protein, leading to formation of the apoptosome.; GO: 0043531 ADP binding; PDB: 3IZA_E 1Z6T_D 3SFZ_A 3SHF_A 1VT4_M 3IZ8_G 3LQR_A 2A5Y_C 3LQQ_A.

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=100.00  E-value=7.8e-38  Score=420.09  Aligned_cols=180  Identities=15%  Similarity=0.152  Sum_probs=125.4

Q ss_pred             CCcchhhhccccccccCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeee
Q 000471         1241 TSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEI 1320 (1472)
Q Consensus      1241 ~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L 1320 (1472)
                      ++|+.|++++|...+.++..+..+++|+.|++++|...+.+|..+ ..++|+.|++++|...+.+|..+..+++|++|++
T Consensus       428 ~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~~-~~~~L~~L~ls~n~l~~~~~~~~~~l~~L~~L~L  506 (968)
T PLN00113        428 PLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSF-GSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKL  506 (968)
T ss_pred             CCCCEEECcCCcccCccChhhccCCCCcEEECcCceeeeecCccc-ccccceEEECcCCccCCccChhhhhhhccCEEEC
Confidence            344444555555555555666677888888888887777776544 3467888888888877777777778888888888


Q ss_pred             cCCCCCccCCCC-CCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCCCCccccceeccCCCCcCcc
Q 000471         1321 RGCPSVVSFPED-GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESI 1399 (1472)
Q Consensus      1321 ~~n~~l~~~p~~-~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~~~~~L~~L~l~~~~~l~~i 1399 (1472)
                      ++|...+.+|.. ..+++|++|++++|.+.+.+|. .+.++++|+.|+|++                      |...+.+
T Consensus       507 s~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~-~~~~l~~L~~L~Ls~----------------------N~l~~~~  563 (968)
T PLN00113        507 SENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPA-SFSEMPVLSQLDLSQ----------------------NQLSGEI  563 (968)
T ss_pred             cCCcceeeCChHHcCccCCCEEECCCCcccccCCh-hHhCcccCCEEECCC----------------------CcccccC
Confidence            888666666655 6677788888888888777776 566666666665554                      4444566


Q ss_pred             cccCCCCCcCceeeccCCCCCCCCCCCCCccccceecccCCcchH
Q 000471         1400 SSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIE 1444 (1472)
Q Consensus      1400 ~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~sL~~L~l~~c~~l~ 1444 (1472)
                      |..+..+++|++|++++|+..+.+|..+...++....+.+||.+|
T Consensus       564 p~~l~~l~~L~~l~ls~N~l~~~~p~~~~~~~~~~~~~~~n~~lc  608 (968)
T PLN00113        564 PKNLGNVESLVQVNISHNHLHGSLPSTGAFLAINASAVAGNIDLC  608 (968)
T ss_pred             ChhHhcCcccCEEeccCCcceeeCCCcchhcccChhhhcCCcccc
Confidence            666667777888888887777777766555556666667777665

>PLN00113 leucine-rich repeat receptor-like protein kinase; Provisional

Probab=100.00  E-value=5.2e-37  Score=412.16  Aligned_cols=510  Identities=18%  Similarity=0.185  Sum_probs=305.9

Q ss_pred             HHhccCCcceEEEecCCCCCc-cCCcccC-CCCcCcEEecCCcccc-ccchhhhhcccccEEecCCCcchhhhhhhhccc
Q 000471          592 RLLNHLPRLRVFSLRGCGNIF-NLPNEIG-NLKHLRCLNLSRTRIQ-ILPESINSLYNLHTILLEDCHQLKKLCKDMGNL  668 (1472)
Q Consensus       592 ~~~~~l~~Lr~L~L~~~~~~~-~lp~~i~-~L~~Lr~L~L~~~~i~-~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L  668 (1472)
                      ..|..+++|++|+|++| .+. .+|..+. .+.+||+|+|++|++. .+|.  +.+.+|++|+|++|.....+|..++++
T Consensus        87 ~~~~~l~~L~~L~Ls~n-~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~~~l  163 (968)
T PLN00113         87 SAIFRLPYIQTINLSNN-QLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSF  163 (968)
T ss_pred             hHHhCCCCCCEEECCCC-ccCCcCChHHhccCCCCCEEECcCCccccccCc--cccCCCCEEECcCCcccccCChHHhcC
Confidence            34667888888888888 553 6776654 7888888888888876 4554  567888888888876666788888888


Q ss_pred             CCCceeecCCCCCcccCCCcccccccccccCceEecCCCCcccccccCccccCCceEEecccCCCCccccchhccCCCCC
Q 000471          669 RKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVN  748 (1472)
Q Consensus       669 ~~L~~L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~  748 (1472)
                      ++|++|++++|.....+|..++++++|++|.....                                             
T Consensus       164 ~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n---------------------------------------------  198 (968)
T PLN00113        164 SSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASN---------------------------------------------  198 (968)
T ss_pred             CCCCEEECccCcccccCChhhhhCcCCCeeeccCC---------------------------------------------
Confidence            88888888888755677777777777777631100                                             


Q ss_pred             CCeEEEEecCCcccCccchhHHHHHhccCCCCCCCCeEEEEeeCCC-CCCcccCCCCcccccEEEEcCCCC-CCCC-CCC
Q 000471          749 LEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGT-KFPIWLGDSSFSKLARLELRRCTS-TSLP-SVG  825 (1472)
Q Consensus       749 L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~-~~p~~~~~~~l~~L~~L~L~~~~~-~~l~-~l~  825 (1472)
                                         .+....+..+..+++|+.|++++|... .+|.++.  .+++|++|++++|.+ ..+| .++
T Consensus       199 -------------------~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~--~l~~L~~L~L~~n~l~~~~p~~l~  257 (968)
T PLN00113        199 -------------------QLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIG--GLTSLNHLDLVYNNLTGPIPSSLG  257 (968)
T ss_pred             -------------------CCcCcCChHHcCcCCccEEECcCCccCCcCChhHh--cCCCCCEEECcCceeccccChhHh
Confidence                               000112223344555666666666554 4555554  266677777766666 3444 366


Q ss_pred             CCCCccceeecCCCCceEeCccccCCCCCCCCCCccEEeccCcccccccccCCCCCcccccCCcccEeeecCCcCcccCC
Q 000471          826 QLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTL  905 (1472)
Q Consensus       826 ~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~fp~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~l  905 (1472)
                      .+++|++|++++|.....++..+                                    ..+++|++|++++|. +.+.+
T Consensus       258 ~l~~L~~L~L~~n~l~~~~p~~l------------------------------------~~l~~L~~L~Ls~n~-l~~~~  300 (968)
T PLN00113        258 NLKNLQYLFLYQNKLSGPIPPSI------------------------------------FSLQKLISLDLSDNS-LSGEI  300 (968)
T ss_pred             CCCCCCEEECcCCeeeccCchhH------------------------------------hhccCcCEEECcCCe-eccCC
Confidence            66666666666653322222111                                    124566666666665 44455


Q ss_pred             CCCCCCcceEEEcccCCchhccCCCCCccEEEEcCCCCeeecCCcccceeeeccccccccccCCCcccccccceEEeccC
Q 000471          906 PKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRC  985 (1472)
Q Consensus       906 p~~l~~L~~L~i~~~~~l~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~c  985 (1472)
                      |.                  .+..+++|+.|++++|.+...                       +|..            
T Consensus       301 p~------------------~~~~l~~L~~L~l~~n~~~~~-----------------------~~~~------------  327 (968)
T PLN00113        301 PE------------------LVIQLQNLEILHLFSNNFTGK-----------------------IPVA------------  327 (968)
T ss_pred             Ch------------------hHcCCCCCcEEECCCCccCCc-----------------------CChh------------
Confidence            53                  334455666666666553210                       0100            


Q ss_pred             CCccccccccccccCCCCCCCccceEEeccCCCCCccchhhcCCCCccEEEeccCCCccccCCC-CCCCCcceEEecCCC
Q 000471          986 PQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQA-ALPSHLRTVKIEDCN 1064 (1472)
Q Consensus       986 ~~l~~~~~~~~~~~~~~~~l~~L~~L~Ls~~~~~~~l~~~~~~l~~L~~L~l~~c~~l~~~~~~-~~~~~L~~L~l~~~~ 1064 (1472)
                                      +..+++|+.|++++|...+.+|..+..+++|+.|++++|.....+|.. ...++|+.|++++|+
T Consensus       328 ----------------~~~l~~L~~L~L~~n~l~~~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~  391 (968)
T PLN00113        328 ----------------LTSLPRLQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNS  391 (968)
T ss_pred             ----------------HhcCCCCCEEECcCCCCcCcCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCE
Confidence                            112445566666666555556666666666666666666444334332 223556666666655


Q ss_pred             CCCCChhhhhccCCCCcceEEeecCCCCCcCCC-CCCCCCccEEEEecCCCcccCchhhhcCCCCccceEeecccCCccc
Q 000471         1065 ALESLPEAWMHNSNSSLESLKIRNCNSLVSFPE-VALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKY 1143 (1472)
Q Consensus      1065 ~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~-~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~ 1143 (1472)
                      ....+|..+..  +++|+.|++++|.....+|. +..+++|+.|++++|.....++..+  ..+++|+.|++++|.....
T Consensus       392 l~~~~p~~~~~--~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~~~~~--~~l~~L~~L~L~~n~~~~~  467 (968)
T PLN00113        392 LEGEIPKSLGA--CRSLRRVRLQDNSFSGELPSEFTKLPLVYFLDISNNNLQGRINSRK--WDMPSLQMLSLARNKFFGG  467 (968)
T ss_pred             ecccCCHHHhC--CCCCCEEECcCCEeeeECChhHhcCCCCCEEECcCCcccCccChhh--ccCCCCcEEECcCceeeee
Confidence            55555544332  56666666666644434332 3344556666666655333333322  2345566666655543322


Q ss_pred             cccccCCCccceEEeccccccccccccccccccCCCCCccccccCCCCccccccccccccccccccccCCCCCCcccceE
Q 000471         1144 IARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYL 1223 (1472)
Q Consensus      1144 ~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L 1223 (1472)
                      ++.....                                                                   ++|+.|
T Consensus       468 ~p~~~~~-------------------------------------------------------------------~~L~~L  480 (968)
T PLN00113        468 LPDSFGS-------------------------------------------------------------------KRLENL  480 (968)
T ss_pred             cCccccc-------------------------------------------------------------------ccceEE
Confidence            2111111                                                                   234555


Q ss_pred             Eeccccccccccchh-ccCCcchhhhccccccccCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEeccccccc
Q 000471         1224 RVEDCSKLESLAERL-DNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENL 1302 (1472)
Q Consensus      1224 ~l~~c~~l~~l~~~~-~~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l 1302 (1472)
                      ++++|......|..+ .+++|+.|++++|...+.+|..+.++++|++|+|++|...+.+|..+..+++|++|++++|+..
T Consensus       481 ~ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~  560 (968)
T PLN00113        481 DLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLS  560 (968)
T ss_pred             ECcCCccCCccChhhhhhhccCEEECcCCcceeeCChHHcCccCCCEEECCCCcccccCChhHhCcccCCEEECCCCccc
Confidence            555544433333332 2356677777777777777777778888888888888777777777777888888888888887


Q ss_pred             ccccccCCCCCcccEeeecCCCCCccCCCCCCCCCcceeEecccc
Q 000471         1303 KALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLK 1347 (1472)
Q Consensus      1303 ~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l~~n~ 1347 (1472)
                      +.+|..+.++++|++|++++|+..+.+|..+.+.++....+.+|+
T Consensus       561 ~~~p~~l~~l~~L~~l~ls~N~l~~~~p~~~~~~~~~~~~~~~n~  605 (968)
T PLN00113        561 GEIPKNLGNVESLVQVNISHNHLHGSLPSTGAFLAINASAVAGNI  605 (968)
T ss_pred             ccCChhHhcCcccCEEeccCCcceeeCCCcchhcccChhhhcCCc
Confidence            788888888888888888888777777766555566666666665

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=99.92  E-value=1.7e-28  Score=258.87  Aligned_cols=149  Identities=20%  Similarity=0.247  Sum_probs=117.1

Q ss_pred             cceEEeccccccccccchhc-cCCcchhhhccccccccCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEeccc
Q 000471         1220 LKYLRVEDCSKLESLAERLD-NTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYD 1298 (1472)
Q Consensus      1220 L~~L~l~~c~~l~~l~~~~~-~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~ 1298 (1472)
                      ....+++++. +..+|.... ...+++.-+..++..+-+|..++.+++|..|++++| .+..+|.+++.+..|++|+++.
T Consensus       390 Vt~VnfskNq-L~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN-~Ln~LP~e~~~lv~Lq~LnlS~  467 (565)
T KOG0472|consen  390 VTSVNFSKNQ-LCELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNN-LLNDLPEEMGSLVRLQTLNLSF  467 (565)
T ss_pred             eEEEecccch-HhhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccc-hhhhcchhhhhhhhhheecccc
Confidence            5567777743 445554332 355666556666777778888999999999999984 5788999999998999999999


Q ss_pred             ccccccccccCCCCCcccEeeecCCCCCccCCCC--CCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCC
Q 000471         1299 CENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPD 1374 (1472)
Q Consensus      1299 c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~--~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~ 1374 (1472)
                      | ....+|.++..+..|+.+-.++| .++.++.+  ..+.+|.+||+.+|.+..+.|  .++++++|++|.|+||...
T Consensus       468 N-rFr~lP~~~y~lq~lEtllas~n-qi~~vd~~~l~nm~nL~tLDL~nNdlq~IPp--~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  468 N-RFRMLPECLYELQTLETLLASNN-QIGSVDPSGLKNMRNLTTLDLQNNDLQQIPP--ILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             c-ccccchHHHhhHHHHHHHHhccc-cccccChHHhhhhhhcceeccCCCchhhCCh--hhccccceeEEEecCCccC
Confidence            7 45677888888777877776666 67888776  778999999999999988777  5999999999999887554

>KOG0472 consensus Leucine-rich repeat protein [Function unknown]

Probab=99.92  E-value=3.2e-28  Score=256.84  Aligned_cols=105  Identities=23%  Similarity=0.320  Sum_probs=75.3

Q ss_pred             CcchhhhccccccccCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeec
Q 000471         1242 SLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIR 1321 (1472)
Q Consensus      1242 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~ 1321 (1472)
                      .|..|++++ +.+..+|..+..+..|+.|+++.| ....+|...-.+..|+++-.++|..-..-|..+.++.+|..||+.
T Consensus       436 kLt~L~L~N-N~Ln~LP~e~~~lv~Lq~LnlS~N-rFr~lP~~~y~lq~lEtllas~nqi~~vd~~~l~nm~nL~tLDL~  513 (565)
T KOG0472|consen  436 KLTFLDLSN-NLLNDLPEEMGSLVRLQTLNLSFN-RFRMLPECLYELQTLETLLASNNQIGSVDPSGLKNMRNLTTLDLQ  513 (565)
T ss_pred             cceeeeccc-chhhhcchhhhhhhhhheeccccc-ccccchHHHhhHHHHHHHHhccccccccChHHhhhhhhcceeccC
Confidence            333344432 445667788888888999999986 566677665555566666555554444444558899999999998


Q ss_pred             CCCCCccCCCC-CCCCCcceeEeccccCC
Q 000471         1322 GCPSVVSFPED-GFPTNLQSLEVRGLKIS 1349 (1472)
Q Consensus      1322 ~n~~l~~~p~~-~~~~~L~~L~l~~n~~~ 1349 (1472)
                      +| .+..+|+. +.+++|++|+++||++.
T Consensus       514 nN-dlq~IPp~LgnmtnL~hLeL~gNpfr  541 (565)
T KOG0472|consen  514 NN-DLQQIPPILGNMTNLRHLELDGNPFR  541 (565)
T ss_pred             CC-chhhCChhhccccceeEEEecCCccC
Confidence            88 46667766 89999999999999986

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=99.92  E-value=2.8e-26  Score=252.96  Aligned_cols=375  Identities=17%  Similarity=0.171  Sum_probs=223.8

Q ss_pred             CccceEEeccCCCCCccchhhcCCCCccEEEeccCCCccccCCCCCC-CCcceEEecCCCCCCCChhhhhccCCCCcceE
Q 000471         1006 CRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALP-SHLRTVKIEDCNALESLPEAWMHNSNSSLESL 1084 (1472)
Q Consensus      1006 ~~L~~L~Ls~~~~~~~l~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~-~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L 1084 (1472)
                      +.-+.|++++|.....-+..|.++++|+++++.+| .++.+|..+-. .+|+.|+|.+|. +.++...-... ++.|+.|
T Consensus        78 ~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N-~Lt~IP~f~~~sghl~~L~L~~N~-I~sv~se~L~~-l~alrsl  154 (873)
T KOG4194|consen   78 SQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKN-ELTRIPRFGHESGHLEKLDLRHNL-ISSVTSEELSA-LPALRSL  154 (873)
T ss_pred             cceeeeeccccccccCcHHHHhcCCcceeeeeccc-hhhhcccccccccceeEEeeeccc-cccccHHHHHh-Hhhhhhh
Confidence            34577999998776666778889999999999887 78888877554 569999999865 44444333322 7889999


Q ss_pred             EeecCCCCCcCCCCCCC--CCccEEEEecCCCcccCchhhhcCCCCccceEeecccCCcccc-ccccCCCccceEEeccc
Q 000471         1085 KIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYI-ARIQLPPSLKRLIVSRC 1161 (1472)
Q Consensus      1085 ~l~~~~~l~~~~~~~~~--~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~~-~~~~~~~~L~~L~l~~c 1161 (1472)
                      |++.| .+..++...++  .++++|++++|. ++.+....+ ..+.+|..|.++.|...+-. ..|..++.|+.|++..+
T Consensus       155 DLSrN-~is~i~~~sfp~~~ni~~L~La~N~-It~l~~~~F-~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN  231 (873)
T KOG4194|consen  155 DLSRN-LISEIPKPSFPAKVNIKKLNLASNR-ITTLETGHF-DSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRN  231 (873)
T ss_pred             hhhhc-hhhcccCCCCCCCCCceEEeecccc-ccccccccc-cccchheeeecccCcccccCHHHhhhcchhhhhhcccc
Confidence            99988 66666654444  589999999998 666655544 34668888888887543321 22344455555554332


Q ss_pred             cccccccccccccccCCCCCccccccCCCCccccccccccccccccccccCCCCCCcccceEEeccccccccccchhccC
Q 000471         1162 WNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNT 1241 (1472)
Q Consensus      1162 ~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~~~ 1241 (1472)
                       .++.                             .+.+             .+.                       +++
T Consensus       232 -~iri-----------------------------ve~l-------------tFq-----------------------gL~  245 (873)
T KOG4194|consen  232 -RIRI-----------------------------VEGL-------------TFQ-----------------------GLP  245 (873)
T ss_pred             -ceee-----------------------------ehhh-------------hhc-----------------------Cch
Confidence             0000                             0000             111                       223


Q ss_pred             CcchhhhccccccccCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeec
Q 000471         1242 SLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIR 1321 (1472)
Q Consensus      1242 ~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~ 1321 (1472)
                      +|+.|.+..|.+...--+.|..+.++++|+|+.|.....-...+.++++|+.|++|+|.+...-+.++...++|+.|+|+
T Consensus       246 Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs  325 (873)
T KOG4194|consen  246 SLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLS  325 (873)
T ss_pred             hhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEecc
Confidence            34444444444433333445555555555555543322222333445555555555544444444444555555555555


Q ss_pred             CCCCCccCCCC--CCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCC----CC-CCCccccceeccCCC
Q 000471         1322 GCPSVVSFPED--GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVS----PP-PFPASLTNLWISDMP 1394 (1472)
Q Consensus      1322 ~n~~l~~~p~~--~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~----~~-~~~~~L~~L~l~~~~ 1394 (1472)
                      +| .++.+++.  ..+.+|++|++++|.+...-. ..|..+.+|++|||++|.+....    .+ .-+++|+.|++.+| 
T Consensus       326 ~N-~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e-~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gN-  402 (873)
T KOG4194|consen  326 SN-RITRLDEGSFRVLSQLEELNLSHNSIDHLAE-GAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGN-  402 (873)
T ss_pred             cc-ccccCChhHHHHHHHhhhhcccccchHHHHh-hHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCc-
Confidence            55 34444443  334555555555555433222 24555555555555554322110    00 01455666666666 


Q ss_pred             CcCccccc-CCCCCcCceeeccCCCCCCCCCCCCCccccceecccCCcchHHhhccCCCCCCC
Q 000471         1395 DLESISSI-GENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYWP 1456 (1472)
Q Consensus      1395 ~l~~i~~~-~~~l~~L~~L~l~~~~~l~~lp~~~~~~sL~~L~l~~c~~l~~~~~~~~~~~w~ 1456 (1472)
                      ++++||.- +..+++|++|+|.+|...+.-|...-+-.|++|-+..-..+|+ |+..|...|-
T Consensus       403 qlk~I~krAfsgl~~LE~LdL~~NaiaSIq~nAFe~m~Lk~Lv~nSssflCD-Cql~Wl~qWl  464 (873)
T KOG4194|consen  403 QLKSIPKRAFSGLEALEHLDLGDNAIASIQPNAFEPMELKELVMNSSSFLCD-CQLKWLAQWL  464 (873)
T ss_pred             eeeecchhhhccCcccceecCCCCcceeecccccccchhhhhhhcccceEEe-ccHHHHHHHH
Confidence            68888874 4889999999999987665555543344899999999999999 9999988774

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=99.90  E-value=5.9e-26  Score=265.06  Aligned_cols=131  Identities=24%  Similarity=0.311  Sum_probs=106.0

Q ss_pred             ccCCcchhhhccccccccCccccCCCCCccEEeeccCCCccccCCC-CCCCCCccEEecccccccccccccCCCCCcccE
Q 000471         1239 DNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEE-GLPSTKLTELTIYDCENLKALPNCMHNLTSLLI 1317 (1472)
Q Consensus      1239 ~~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~-~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~ 1317 (1472)
                      .+..|+.|.+.+|.........+.++.+|+.|+|++| .++++|.. +.+++.|++|+|||| .++.+|..+..+..|++
T Consensus       357 ~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyN-rL~~fpas~~~kle~LeeL~LSGN-kL~~Lp~tva~~~~L~t  434 (1081)
T KOG0618|consen  357 NHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYN-RLNSFPASKLRKLEELEELNLSGN-KLTTLPDTVANLGRLHT  434 (1081)
T ss_pred             hhHHHHHHHHhcCcccccchhhhccccceeeeeeccc-ccccCCHHHHhchHHhHHHhcccc-hhhhhhHHHHhhhhhHH
Confidence            3467888888888888888788999999999999995 57777764 567789999999995 56788899999999999


Q ss_pred             eeecCCCCCccCCCCCCCCCcceeEeccccCCCCCCccccccccccceeeeccCCC
Q 000471         1318 LEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCP 1373 (1472)
Q Consensus      1318 L~L~~n~~l~~~p~~~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~ 1373 (1472)
                      |...+| .+..+|....+++|+.+|++.|++........ ..-++|++||++||..
T Consensus       435 L~ahsN-~l~~fPe~~~l~qL~~lDlS~N~L~~~~l~~~-~p~p~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  435 LRAHSN-QLLSFPELAQLPQLKVLDLSCNNLSEVTLPEA-LPSPNLKYLDLSGNTR  488 (1081)
T ss_pred             HhhcCC-ceeechhhhhcCcceEEecccchhhhhhhhhh-CCCcccceeeccCCcc
Confidence            999998 67888977889999999999999886443211 1227888888888754

>PLN03210 Resistant to P

Probab=99.89  E-value=1.6e-22  Score=270.17  Aligned_cols=309  Identities=25%  Similarity=0.438  Sum_probs=203.2

Q ss_pred             CCCccceEEeccCC------CCCccchhhcCCC-CccEEEeccCCCccccCCCCCCCCcceEEecCCCCCCCChhhhhcc
Q 000471         1004 SPCRLQFLKLSKCE------GLTRLPQALLTLS-SLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHN 1076 (1472)
Q Consensus      1004 ~l~~L~~L~Ls~~~------~~~~l~~~~~~l~-~L~~L~l~~c~~l~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~ 1076 (1472)
                      .+++|+.|.+..+.      ....+|..+..++ +|+.|++.++ .+..+|....+.+|+.|++.+|. +..++....  
T Consensus       556 ~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~-~l~~lP~~f~~~~L~~L~L~~s~-l~~L~~~~~--  631 (1153)
T PLN03210        556 GMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKY-PLRCMPSNFRPENLVKLQMQGSK-LEKLWDGVH--  631 (1153)
T ss_pred             cCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCC-CCCCCCCcCCccCCcEEECcCcc-ccccccccc--
Confidence            35566666664432      1123455555553 5788888776 45666766666788888888754 556665543  


Q ss_pred             CCCCcceEEeecCCCCCcCCCCCCCCCccEEEEecCCCcccCchhhhcCCCCccceEeecccCCccccccccCCCccceE
Q 000471         1077 SNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRL 1156 (1472)
Q Consensus      1077 ~~~~L~~L~l~~~~~l~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~L~~L 1156 (1472)
                      .+++|+.|++++|..+..+|.+..+++|++|++++|..+..+|..+  ..+++|+.|++++|..++.++....+++|+.|
T Consensus       632 ~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si--~~L~~L~~L~L~~c~~L~~Lp~~i~l~sL~~L  709 (1153)
T PLN03210        632 SLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSI--QYLNKLEDLDMSRCENLEILPTGINLKSLYRL  709 (1153)
T ss_pred             cCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhh--hccCCCCEEeCCCCCCcCccCCcCCCCCCCEE
Confidence            2778888888888777888877778888888888888887777665  45788888888888877776554455666666


Q ss_pred             EeccccccccccccccccccCCCCCccccccCCCCccccccccccccccccccccCCCCCCcccceEEeccccccccccc
Q 000471         1157 IVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAE 1236 (1472)
Q Consensus      1157 ~l~~c~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~l~~ 1236 (1472)
                      ++++|..++.++                                              ..+.+|+.|+++++. ++.+|.
T Consensus       710 ~Lsgc~~L~~~p----------------------------------------------~~~~nL~~L~L~~n~-i~~lP~  742 (1153)
T PLN03210        710 NLSGCSRLKSFP----------------------------------------------DISTNISWLDLDETA-IEEFPS  742 (1153)
T ss_pred             eCCCCCCccccc----------------------------------------------cccCCcCeeecCCCc-cccccc
Confidence            666664433221                                              112345555555543 344444


Q ss_pred             hhccCCcchhhhccccccc-------cCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccC
Q 000471         1237 RLDNTSLEEITISVLENLK-------SLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCM 1309 (1472)
Q Consensus      1237 ~~~~~~L~~L~l~~~~~~~-------~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l 1309 (1472)
                      .+.+++|+.|++.++....       ..+..+...++|+.|++++|+.+..+|..+.++++|+.|++++|+.++.+|..+
T Consensus       743 ~~~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~LP~~~  822 (1153)
T PLN03210        743 NLRLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGI  822 (1153)
T ss_pred             cccccccccccccccchhhccccccccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCeeCCCC
Confidence            4445555555555433211       011122335678888888888888888888888888888888888888887765


Q ss_pred             CCCCcccEeeecCCCCCccCCCCCCCCCcceeEeccccCCCCCCccccccccccceeeecc
Q 000471         1310 HNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICG 1370 (1472)
Q Consensus      1310 ~~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~ 1370 (1472)
                       .+++|++|++++|..+..+|.  .+++|++|++++|.+.. +|. .+.++++|+.|+|++
T Consensus       823 -~L~sL~~L~Ls~c~~L~~~p~--~~~nL~~L~Ls~n~i~~-iP~-si~~l~~L~~L~L~~  878 (1153)
T PLN03210        823 -NLESLESLDLSGCSRLRTFPD--ISTNISDLNLSRTGIEE-VPW-WIEKFSNLSFLDMNG  878 (1153)
T ss_pred             -CccccCEEECCCCCccccccc--cccccCEeECCCCCCcc-ChH-HHhcCCCCCEEECCC
Confidence             678888888888887777765  45678888888887754 444 466666666666544

syringae 6; Provisional

>KOG4194 consensus Membrane glycoprotein LIG-1 [Signal transduction mechanisms]

Probab=99.88  E-value=3.8e-23  Score=228.48  Aligned_cols=343  Identities=16%  Similarity=0.153  Sum_probs=256.2

Q ss_pred             CCCCcceEEecCCCCCCCChhhhhccCCCCcceEEeecCCCCCcCCCCCCCC-CccEEEEecCCCcccCchhhhcCCCCc
Q 000471         1051 LPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPS-QLRTVKIEYCNALISLPEAWMQNSNTS 1129 (1472)
Q Consensus      1051 ~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~-~L~~L~l~~~~~l~~~~~~~~~~~l~~ 1129 (1472)
                      .++.-+.|++++| .+..+...++.+ +++|+++.+.+| .+..+|.++... +|+.|++.+|. +.++..... ..++.
T Consensus        76 lp~~t~~LdlsnN-kl~~id~~~f~n-l~nLq~v~l~~N-~Lt~IP~f~~~sghl~~L~L~~N~-I~sv~se~L-~~l~a  150 (873)
T KOG4194|consen   76 LPSQTQTLDLSNN-KLSHIDFEFFYN-LPNLQEVNLNKN-ELTRIPRFGHESGHLEKLDLRHNL-ISSVTSEEL-SALPA  150 (873)
T ss_pred             Cccceeeeecccc-ccccCcHHHHhc-CCcceeeeeccc-hhhhcccccccccceeEEeeeccc-cccccHHHH-HhHhh
Confidence            3566778888884 466665555555 899999999888 788899877665 49999999987 555544332 34788


Q ss_pred             cceEeecccCCccc-cccccCCCccceEEeccccccccccccccccccCCCCCccccccCCCCccccccccccccccccc
Q 000471         1130 LESLRIKGCDSLKY-IARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLA 1208 (1472)
Q Consensus      1130 L~~L~l~~c~~l~~-~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~ 1208 (1472)
                      |+.||++.|..-+. .+.+..-.++++|++.++                                           ....
T Consensus       151 lrslDLSrN~is~i~~~sfp~~~ni~~L~La~N-------------------------------------------~It~  187 (873)
T KOG4194|consen  151 LRSLDLSRNLISEIPKPSFPAKVNIKKLNLASN-------------------------------------------RITT  187 (873)
T ss_pred             hhhhhhhhchhhcccCCCCCCCCCceEEeeccc-------------------------------------------cccc
Confidence            99999988643322 122333356666666554                                           1111


Q ss_pred             cccCCCCCCcccceEEeccccccccccchhc-cCCcchhhhccccccccCccccCCCCCccEEeeccCCCccccCCCCCC
Q 000471         1209 FLSRNGNLPQALKYLRVEDCSKLESLAERLD-NTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLP 1287 (1472)
Q Consensus      1209 ~~~~~~~~~~~L~~L~l~~c~~l~~l~~~~~-~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~ 1287 (1472)
                      .-...+..+.+|..|.|+.|...+-.+..|. ++.|+.|++..|.+...-...|.++++|+.|.+..|....--...|..
T Consensus       188 l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~  267 (873)
T KOG4194|consen  188 LETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYG  267 (873)
T ss_pred             cccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceee
Confidence            1111122234688888888554433345566 699999999998877665678999999999999998766655667888


Q ss_pred             CCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCC--CCCCCcceeEeccccCCCCCCccccccccccce
Q 000471         1288 STKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRR 1365 (1472)
Q Consensus      1288 l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~--~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~ 1365 (1472)
                      +.++++|+|+.|+....-..++.++++|+.|+++.| .+..+..+  .+.++|++|++++|.+....+. .|..+..|++
T Consensus       268 l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~N-aI~rih~d~WsftqkL~~LdLs~N~i~~l~~~-sf~~L~~Le~  345 (873)
T KOG4194|consen  268 LEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYN-AIQRIHIDSWSFTQKLKELDLSSNRITRLDEG-SFRVLSQLEE  345 (873)
T ss_pred             ecccceeecccchhhhhhcccccccchhhhhccchh-hhheeecchhhhcccceeEeccccccccCChh-HHHHHHHhhh
Confidence            999999999999887777788999999999999999 46666544  8899999999999999775554 8999999999


Q ss_pred             eeeccCCCCCCCCCC--CCccccceeccCCCCcCcc---cccCCCCCcCceeeccCCCCCCCCCCCCC--ccccceeccc
Q 000471         1366 FTICGGCPDLVSPPP--FPASLTNLWISDMPDLESI---SSIGENLTSLETLRLFNCPKLKYFPEQGL--PKSLSRLSIH 1438 (1472)
Q Consensus      1366 L~Ls~n~~~~~~~~~--~~~~L~~L~l~~~~~l~~i---~~~~~~l~~L~~L~l~~~~~l~~lp~~~~--~~sL~~L~l~ 1438 (1472)
                      |.|++|.+.-..-..  ...+|+.|||.+|...-.|   ...+..+++|+.|++.+| .++.+|...+  +.+|++||+.
T Consensus       346 LnLs~Nsi~~l~e~af~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~gN-qlk~I~krAfsgl~~LE~LdL~  424 (873)
T KOG4194|consen  346 LNLSHNSIDHLAEGAFVGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTGN-QLKSIPKRAFSGLEALEHLDLG  424 (873)
T ss_pred             hcccccchHHHHhhHHHHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecCc-eeeecchhhhccCcccceecCC
Confidence            999998776433333  4789999999999754333   334477999999999988 7899988744  6799999999


Q ss_pred             CCcchH
Q 000471         1439 NCPLIE 1444 (1472)
Q Consensus      1439 ~c~~l~ 1444 (1472)
                      +|+...
T Consensus       425 ~NaiaS  430 (873)
T KOG4194|consen  425 DNAIAS  430 (873)
T ss_pred             CCccee
Confidence            999753

>KOG0618 consensus Serine/threonine phosphatase 2C containing leucine-rich repeats, similar to SCN circadian oscillatory protein (SCOP) [Signal transduction mechanisms]

Probab=99.88  E-value=1.9e-24  Score=252.65  Aligned_cols=368  Identities=24%  Similarity=0.286  Sum_probs=220.2

Q ss_pred             hccCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCce
Q 000471          594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH  673 (1472)
Q Consensus       594 ~~~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~  673 (1472)
                      ..+.-+|++||+++| .+..+|..|+.+.+|+.|+++.|.|.++|.+++++.+|++|+|.+ +.+..+|.++..+++|+.
T Consensus        41 ~~~~v~L~~l~lsnn-~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~-n~l~~lP~~~~~lknl~~  118 (1081)
T KOG0618|consen   41 VEKRVKLKSLDLSNN-QISSFPIQITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKN-NRLQSLPASISELKNLQY  118 (1081)
T ss_pred             hhheeeeEEeecccc-ccccCCchhhhHHHHhhcccchhhHhhCchhhhhhhcchhheecc-chhhcCchhHHhhhcccc
Confidence            333445999999999 999999999999999999999999999999999999999999997 789999999999999999


Q ss_pred             eecCCCCCcccCCCcccccccccccCceEecCCCCcccccccCccccCCceEEecccCCCCccccchhccCCCCCCCeEE
Q 000471          674 LRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALL  753 (1472)
Q Consensus       674 L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L~  753 (1472)
                      |+++.|. ...+|.-+..++.+.++.....-     .+..++..                                    
T Consensus       119 LdlS~N~-f~~~Pl~i~~lt~~~~~~~s~N~-----~~~~lg~~------------------------------------  156 (1081)
T KOG0618|consen  119 LDLSFNH-FGPIPLVIEVLTAEEELAASNNE-----KIQRLGQT------------------------------------  156 (1081)
T ss_pred             cccchhc-cCCCchhHHhhhHHHHHhhhcch-----hhhhhccc------------------------------------
Confidence            9999998 88889888888877665211000     00000000                                    


Q ss_pred             EEecCCcccCccchhHHHHHhccCCCCCCCCeEEEEeeCC-CCCCcccCCCCccccc-EEEEcCCCCCCCCCCCCCCCcc
Q 000471          754 LKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGG-TKFPIWLGDSSFSKLA-RLELRRCTSTSLPSVGQLPFLK  831 (1472)
Q Consensus       754 l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~-~~~p~~~~~~~l~~L~-~L~L~~~~~~~l~~l~~l~~L~  831 (1472)
                                                  .++.+++..+.. ..++..+     .+++ .|+|++|.+. .-.+..+++|+
T Consensus       157 ----------------------------~ik~~~l~~n~l~~~~~~~i-----~~l~~~ldLr~N~~~-~~dls~~~~l~  202 (1081)
T KOG0618|consen  157 ----------------------------SIKKLDLRLNVLGGSFLIDI-----YNLTHQLDLRYNEME-VLDLSNLANLE  202 (1081)
T ss_pred             ----------------------------cchhhhhhhhhcccchhcch-----hhhheeeecccchhh-hhhhhhccchh
Confidence                                        011111211111 1122111     1222 3566665554 22344555555


Q ss_pred             ceeecCCCCceEeCccccCCCCCCCCCCccEEeccCcccccccccCCCCCcccccCCcccEeeecCCcCcccCCC-CCCC
Q 000471          832 ELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLP-KRLL  910 (1472)
Q Consensus       832 ~L~L~~~~~l~~i~~~~~~~~~~~~fp~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~lp-~~l~  910 (1472)
                      .|....+.. ..+                   .+                    .-++|+.|+..+|+..+ ..+ ....
T Consensus       203 ~l~c~rn~l-s~l-------------------~~--------------------~g~~l~~L~a~~n~l~~-~~~~p~p~  241 (1081)
T KOG0618|consen  203 VLHCERNQL-SEL-------------------EI--------------------SGPSLTALYADHNPLTT-LDVHPVPL  241 (1081)
T ss_pred             hhhhhhccc-ceE-------------------Ee--------------------cCcchheeeeccCccee-eccccccc
Confidence            555544221 111                   10                    02344444444444211 222 1122


Q ss_pred             CcceEEEccc--CCchhccCCCCCccEEEEcCCCCeeecCCcccceeeeccccccccccCCCcccccccceEEeccCCCc
Q 000471          911 LLETLVIKSC--QQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQL  988 (1472)
Q Consensus       911 ~L~~L~i~~~--~~l~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l  988 (1472)
                      +|+.++++..  ..++.++..+.+|+.+.+.+|.+..+                        |..+..            
T Consensus       242 nl~~~dis~n~l~~lp~wi~~~~nle~l~~n~N~l~~l------------------------p~ri~~------------  285 (1081)
T KOG0618|consen  242 NLQYLDISHNNLSNLPEWIGACANLEALNANHNRLVAL------------------------PLRISR------------  285 (1081)
T ss_pred             cceeeecchhhhhcchHHHHhcccceEecccchhHHhh------------------------HHHHhh------------
Confidence            3444444332  13334677778888888877764321                        111100            


Q ss_pred             cccccccccccCCCCCCCccceEEeccCCCCCccchhhcCCCCccEEEeccCCCccccCCCCC---CCCcceEEecCCCC
Q 000471          989 LSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAAL---PSHLRTVKIEDCNA 1065 (1472)
Q Consensus       989 ~~~~~~~~~~~~~~~~l~~L~~L~Ls~~~~~~~l~~~~~~l~~L~~L~l~~c~~l~~~~~~~~---~~~L~~L~l~~~~~ 1065 (1472)
                                      ..+|++|.+..|. +..+|+....+++|++|++..| .+.++|...+   ..+|+.|..+.+ .
T Consensus       286 ----------------~~~L~~l~~~~ne-l~yip~~le~~~sL~tLdL~~N-~L~~lp~~~l~v~~~~l~~ln~s~n-~  346 (1081)
T KOG0618|consen  286 ----------------ITSLVSLSAAYNE-LEYIPPFLEGLKSLRTLDLQSN-NLPSLPDNFLAVLNASLNTLNVSSN-K  346 (1081)
T ss_pred             ----------------hhhHHHHHhhhhh-hhhCCCcccccceeeeeeehhc-cccccchHHHhhhhHHHHHHhhhhc-c
Confidence                            2345566666553 4566666667777778877776 5555555322   123555555543 3


Q ss_pred             CCCChhhhhccCCCCcceEEeecCCCCC-cCCCCCCCCCccEEEEecCCCcccCchhhhcCCCCccceEeeccc
Q 000471         1066 LESLPEAWMHNSNSSLESLKIRNCNSLV-SFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGC 1138 (1472)
Q Consensus      1066 l~~~~~~~~~~~~~~L~~L~l~~~~~l~-~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c 1138 (1472)
                      +...| .+.+..++.|+.|.+.+|..-. ++|.+..+.+|+.|++++|. +..+|.... .++..|++|+++||
T Consensus       347 l~~lp-~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNr-L~~fpas~~-~kle~LeeL~LSGN  417 (1081)
T KOG0618|consen  347 LSTLP-SYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNR-LNSFPASKL-RKLEELEELNLSGN  417 (1081)
T ss_pred             ccccc-cccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccc-cccCCHHHH-hchHHhHHHhcccc
Confidence            44444 2233346778888888884432 36777777888888888887 677777654 34555666666654

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=99.85  E-value=2.3e-23  Score=230.87  Aligned_cols=335  Identities=21%  Similarity=0.290  Sum_probs=190.7

Q ss_pred             CCccceEEeccCCCCCccchhhcCCCCccEEEeccCCCccccCCCCCCCCcceEEecCCCCC-CCChhhhhccCCCCcce
Q 000471         1005 PCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNAL-ESLPEAWMHNSNSSLES 1083 (1472)
Q Consensus      1005 l~~L~~L~Ls~~~~~~~l~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~L~~L~l~~~~~l-~~~~~~~~~~~~~~L~~ 1083 (1472)
                      |..++.|.|... .+..+|..++.+.+|++|.+++|...+-.....-++.|+.+.+.+|+.- ..+|..++.  +..|..
T Consensus        31 Mt~~~WLkLnrt-~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF~--l~dLt~  107 (1255)
T KOG0444|consen   31 MTQMTWLKLNRT-KLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIFR--LKDLTI  107 (1255)
T ss_pred             hhheeEEEechh-hhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhcc--ccccee
Confidence            445666666654 4567888888889999999998866655555566788888888886533 346777766  778889


Q ss_pred             EEeecCCCCCcCC-CCCCCCCccEEEEecCCCcccCchhhhcCCCCccceEeecccCCccccccccCCCccceEEecccc
Q 000471         1084 LKIRNCNSLVSFP-EVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCW 1162 (1472)
Q Consensus      1084 L~l~~~~~l~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~~~~~~~~~~L~~L~l~~c~ 1162 (1472)
                      |++++| .+...| ......++-.|++++|+ +.++|...+. +++-|-.|++++|..-.-.+....+.           
T Consensus       108 lDLShN-qL~EvP~~LE~AKn~iVLNLS~N~-IetIPn~lfi-nLtDLLfLDLS~NrLe~LPPQ~RRL~-----------  173 (1255)
T KOG0444|consen  108 LDLSHN-QLREVPTNLEYAKNSIVLNLSYNN-IETIPNSLFI-NLTDLLFLDLSNNRLEMLPPQIRRLS-----------  173 (1255)
T ss_pred             eecchh-hhhhcchhhhhhcCcEEEEcccCc-cccCCchHHH-hhHhHhhhccccchhhhcCHHHHHHh-----------
Confidence            999988 566666 35566788888898887 7888876653 46666677777653211111111111           


Q ss_pred             ccccccccccccccCCCCCccccccCCCCccccccccccccccccccccCCCCCCcccceEEeccccc----cccccchh
Q 000471         1163 NLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSK----LESLAERL 1238 (1472)
Q Consensus      1163 ~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~L~~L~l~~c~~----l~~l~~~~ 1238 (1472)
                                                                              .|+.|.|++++.    +..+|   
T Consensus       174 --------------------------------------------------------~LqtL~Ls~NPL~hfQLrQLP---  194 (1255)
T KOG0444|consen  174 --------------------------------------------------------MLQTLKLSNNPLNHFQLRQLP---  194 (1255)
T ss_pred             --------------------------------------------------------hhhhhhcCCChhhHHHHhcCc---
Confidence                                                                    233333333321    11111   


Q ss_pred             ccCCcchhhhccccc-cccCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccE
Q 000471         1239 DNTSLEEITISVLEN-LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLI 1317 (1472)
Q Consensus      1239 ~~~~L~~L~l~~~~~-~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~ 1317 (1472)
                      .+++|+.|++++.+- +..+|..+..+.+|..+++|.| .+..+|.....+.+|+.|+||+|.+ +.+........+|++
T Consensus       195 smtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N-~Lp~vPecly~l~~LrrLNLS~N~i-teL~~~~~~W~~lEt  272 (1255)
T KOG0444|consen  195 SMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSEN-NLPIVPECLYKLRNLRRLNLSGNKI-TELNMTEGEWENLET  272 (1255)
T ss_pred             cchhhhhhhcccccchhhcCCCchhhhhhhhhcccccc-CCCcchHHHhhhhhhheeccCcCce-eeeeccHHHHhhhhh
Confidence            234555556555432 2245555555666666666553 3444555555555555555555433 223233344445555


Q ss_pred             eeecCCCCCccCCCC-CCCCCcceeEeccccCC-CCCCccccccccccceeeeccCCCCCCCCCCCCccccceeccCCCC
Q 000471         1318 LEIRGCPSVVSFPED-GFPTNLQSLEVRGLKIS-KPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPD 1395 (1472)
Q Consensus      1318 L~L~~n~~l~~~p~~-~~~~~L~~L~l~~n~~~-~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~~~~~L~~L~l~~~~~ 1395 (1472)
                      |+++.| .++.+|.. ..++.|+.|++.+|++. +.+|. +++.+.+|+.+..++|                       +
T Consensus       273 LNlSrN-QLt~LP~avcKL~kL~kLy~n~NkL~FeGiPS-GIGKL~~Levf~aanN-----------------------~  327 (1255)
T KOG0444|consen  273 LNLSRN-QLTVLPDAVCKLTKLTKLYANNNKLTFEGIPS-GIGKLIQLEVFHAANN-----------------------K  327 (1255)
T ss_pred             hccccc-hhccchHHHhhhHHHHHHHhccCcccccCCcc-chhhhhhhHHHHhhcc-----------------------c
Confidence            555555 34555544 44555555555555554 23333 4555555555555443                       4


Q ss_pred             cCcccccCCCCCcCceeeccCCCCCCCCCCC-CCccccceecccCCcch
Q 000471         1396 LESISSIGENLTSLETLRLFNCPKLKYFPEQ-GLPKSLSRLSIHNCPLI 1443 (1472)
Q Consensus      1396 l~~i~~~~~~l~~L~~L~l~~~~~l~~lp~~-~~~~sL~~L~l~~c~~l 1443 (1472)
                      ++-+|.++..|..|+.|.|+.| .+-.+|+. .+++-|+.||+..||.|
T Consensus       328 LElVPEglcRC~kL~kL~L~~N-rLiTLPeaIHlL~~l~vLDlreNpnL  375 (1255)
T KOG0444|consen  328 LELVPEGLCRCVKLQKLKLDHN-RLITLPEAIHLLPDLKVLDLRENPNL  375 (1255)
T ss_pred             cccCchhhhhhHHHHHhccccc-ceeechhhhhhcCCcceeeccCCcCc
Confidence            5555555555555666655533 44445544 45555566666655554

>KOG0444 consensus Cytoskeletal regulator Flightless-I (contains leucine-rich and gelsolin repeats) [Cytoskeleton]

Probab=99.85  E-value=2.8e-23  Score=230.29  Aligned_cols=368  Identities=21%  Similarity=0.310  Sum_probs=254.4

Q ss_pred             cCCcceEEEecCCCCC--ccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCce
Q 000471          596 HLPRLRVFSLRGCGNI--FNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH  673 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~~--~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~  673 (1472)
                      -++..|-.|+++| .+  ..+|.+...+..+++|.|..+.+..+|+.++.|.+|++|.+.+ +.+..+-..++.|+.||.
T Consensus         5 VLpFVrGvDfsgN-DFsg~~FP~~v~qMt~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~H-N~L~~vhGELs~Lp~LRs   82 (1255)
T KOG0444|consen    5 VLPFVRGVDFSGN-DFSGDRFPHDVEQMTQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAH-NQLISVHGELSDLPRLRS   82 (1255)
T ss_pred             ccceeecccccCC-cCCCCcCchhHHHhhheeEEEechhhhhhChHHHHHHhhhhhhhhhh-hhhHhhhhhhccchhhHH
Confidence            4566788999999 54  4689999999999999999999999999999999999999999 567778888999999999


Q ss_pred             eecCCCCC-cccCCCcccccccccccCceEecCCCCcccccccCccccCCceEEecccCCCCccccchhccCCCCCCCeE
Q 000471          674 LRNSTANS-LKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEAL  752 (1472)
Q Consensus       674 L~l~~~~~-~~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L  752 (1472)
                      +.+..|+. -..+|..|-+|..|.+|+.                                                    
T Consensus        83 v~~R~N~LKnsGiP~diF~l~dLt~lDL----------------------------------------------------  110 (1255)
T KOG0444|consen   83 VIVRDNNLKNSGIPTDIFRLKDLTILDL----------------------------------------------------  110 (1255)
T ss_pred             HhhhccccccCCCCchhcccccceeeec----------------------------------------------------
Confidence            99998872 2367888777776666521                                                    


Q ss_pred             EEEecCCcccCccchhHHHHHhccCCCCCCCCeEEEEeeCCCCCCcccCCCCcccccEEEEcCCCCCCCCC-CCCCCCcc
Q 000471          753 LLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPS-VGQLPFLK  831 (1472)
Q Consensus       753 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~l~~-l~~l~~L~  831 (1472)
                                  +.|+. ..++..+..-+++-.|++++|++..+|..++- .+..|-.|+|++|.++.+|+ ...+..|+
T Consensus       111 ------------ShNqL-~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfi-nLtDLLfLDLS~NrLe~LPPQ~RRL~~Lq  176 (1255)
T KOG0444|consen  111 ------------SHNQL-REVPTNLEYAKNSIVLNLSYNNIETIPNSLFI-NLTDLLFLDLSNNRLEMLPPQIRRLSMLQ  176 (1255)
T ss_pred             ------------chhhh-hhcchhhhhhcCcEEEEcccCccccCCchHHH-hhHhHhhhccccchhhhcCHHHHHHhhhh
Confidence                        11111 13455566667888999999999999987653 57888899999999988876 88999999


Q ss_pred             ceeecCCCCceEeCccccCCCCCCCCCCccEEeccCcccccccccCCCCCcccccCCcccEeeecCCcCcccCCCCCCCC
Q 000471          832 ELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLL  911 (1472)
Q Consensus       832 ~L~L~~~~~l~~i~~~~~~~~~~~~fp~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~lp~~l~~  911 (1472)
                      +|+|++|+....--.      ...++.+|+.|++++...--.-++..     ...+.+|..++++.++ |. .+|.    
T Consensus       177 tL~Ls~NPL~hfQLr------QLPsmtsL~vLhms~TqRTl~N~Pts-----ld~l~NL~dvDlS~N~-Lp-~vPe----  239 (1255)
T KOG0444|consen  177 TLKLSNNPLNHFQLR------QLPSMTSLSVLHMSNTQRTLDNIPTS-----LDDLHNLRDVDLSENN-LP-IVPE----  239 (1255)
T ss_pred             hhhcCCChhhHHHHh------cCccchhhhhhhcccccchhhcCCCc-----hhhhhhhhhccccccC-CC-cchH----
Confidence            999999764321100      00113444444444432211111111     2235667777776554 54 5553    


Q ss_pred             cceEEEcccCCchhccCCCCCccEEEEcCCCCeeecCCcccceeeeccccccccccCCCcccccccceEEeccCCCcccc
Q 000471          912 LETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSL  991 (1472)
Q Consensus       912 L~~L~i~~~~~l~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~L~l~~c~~l~~~  991 (1472)
                                    .+..+++|+.|++++|.+..+...                                          
T Consensus       240 --------------cly~l~~LrrLNLS~N~iteL~~~------------------------------------------  263 (1255)
T KOG0444|consen  240 --------------CLYKLRNLRRLNLSGNKITELNMT------------------------------------------  263 (1255)
T ss_pred             --------------HHhhhhhhheeccCcCceeeeecc------------------------------------------
Confidence                          566778888888888875442111                                          


Q ss_pred             ccccccccCCCCCCCccceEEeccCCCCCccchhhcCCCCccEEEeccCCC-ccccCCC-CCCCCcceEEecCCCCCCCC
Q 000471          992 VTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCAS-LVSFPQA-ALPSHLRTVKIEDCNALESL 1069 (1472)
Q Consensus       992 ~~~~~~~~~~~~~l~~L~~L~Ls~~~~~~~l~~~~~~l~~L~~L~l~~c~~-l~~~~~~-~~~~~L~~L~l~~~~~l~~~ 1069 (1472)
                                .....+|++|++|.|+ ++.+|+.+..++.|+.|.+.+|.. ...+|.. +.+.+|+.+..++ ++++-+
T Consensus       264 ----------~~~W~~lEtLNlSrNQ-Lt~LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aan-N~LElV  331 (1255)
T KOG0444|consen  264 ----------EGEWENLETLNLSRNQ-LTVLPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAAN-NKLELV  331 (1255)
T ss_pred             ----------HHHHhhhhhhccccch-hccchHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhc-cccccC
Confidence                      0002367888888875 467888888888888888877743 2334443 4456777777666 557777


Q ss_pred             hhhhhccCCCCcceEEeecCCCCCcCC-CCCCCCCccEEEEecCCCcccCc
Q 000471         1070 PEAWMHNSNSSLESLKIRNCNSLVSFP-EVALPSQLRTVKIEYCNALISLP 1119 (1472)
Q Consensus      1070 ~~~~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~L~~L~l~~~~~l~~~~ 1119 (1472)
                      |+++..  +..|+.|.++.| .+..+| ...+++.|+.|++..|+.+.--|
T Consensus       332 PEglcR--C~kL~kL~L~~N-rLiTLPeaIHlL~~l~vLDlreNpnLVMPP  379 (1255)
T KOG0444|consen  332 PEGLCR--CVKLQKLKLDHN-RLITLPEAIHLLPDLKVLDLRENPNLVMPP  379 (1255)
T ss_pred             chhhhh--hHHHHHhccccc-ceeechhhhhhcCCcceeeccCCcCccCCC
Confidence            877654  777888888766 444445 35566778888888887665443

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.59  E-value=1.4e-14  Score=178.15  Aligned_cols=98  Identities=24%  Similarity=0.312  Sum_probs=55.2

Q ss_pred             cccEeeecCCCCCccCCCCCCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCCCCccccceeccCC
Q 000471         1314 SLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDM 1393 (1472)
Q Consensus      1314 ~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~~~~~L~~L~l~~~ 1393 (1472)
                      +|+.|++++| .+..+|.  .+.+|+.|++++|.+.+ +|. .   .++|+.|++++|.+.  ++|..+.+|+.|++++|
T Consensus       363 ~L~~L~Ls~N-~L~~LP~--l~~~L~~LdLs~N~Lt~-LP~-l---~s~L~~LdLS~N~Ls--sIP~l~~~L~~L~Ls~N  432 (788)
T PRK15387        363 ELYKLWAYNN-RLTSLPA--LPSGLKELIVSGNRLTS-LPV-L---PSELKELMVSGNRLT--SLPMLPSGLLSLSVYRN  432 (788)
T ss_pred             ccceehhhcc-ccccCcc--cccccceEEecCCcccC-CCC-c---ccCCCEEEccCCcCC--CCCcchhhhhhhhhccC
Confidence            3444444444 2333443  23445555555555543 221 1   234555666554432  34445556777777776


Q ss_pred             CCcCcccccCCCCCcCceeeccCCCCCCC
Q 000471         1394 PDLESISSIGENLTSLETLRLFNCPKLKY 1422 (1472)
Q Consensus      1394 ~~l~~i~~~~~~l~~L~~L~l~~~~~l~~ 1422 (1472)
                       .++.+|..+.++++|+.|+|++|+.-+.
T Consensus       433 -qLt~LP~sl~~L~~L~~LdLs~N~Ls~~  460 (788)
T PRK15387        433 -QLTRLPESLIHLSSETTVNLEGNPLSER  460 (788)
T ss_pred             -cccccChHHhhccCCCeEECCCCCCCch
Confidence             4667887777788888888888865444

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.55  E-value=4.9e-14  Score=173.41  Aligned_cols=157  Identities=24%  Similarity=0.361  Sum_probs=118.9

Q ss_pred             CCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCCCCCCCcceeEe
Q 000471         1264 LHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEV 1343 (1472)
Q Consensus      1264 l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l 1343 (1472)
                      .++|++|++++|. +..+|..   ..+|+.|++++|.. +.+|..   ..+|++|+|++| .++.+|.  .+++|+.|++
T Consensus       301 p~~L~~LdLS~N~-L~~Lp~l---p~~L~~L~Ls~N~L-~~LP~l---p~~Lq~LdLS~N-~Ls~LP~--lp~~L~~L~L  369 (788)
T PRK15387        301 PPGLQELSVSDNQ-LASLPAL---PSELCKLWAYNNQL-TSLPTL---PSGLQELSVSDN-QLASLPT--LPSELYKLWA  369 (788)
T ss_pred             ccccceeECCCCc-cccCCCC---cccccccccccCcc-cccccc---ccccceEecCCC-ccCCCCC--CCcccceehh
Confidence            3678888888864 4455542   23688888888665 445531   248999999998 5667876  5678999999


Q ss_pred             ccccCCCCCCccccccccccceeeeccCCCCCCCCCCCCccccceeccCCCCcCcccccCCCCCcCceeeccCCCCCCCC
Q 000471         1344 RGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYF 1423 (1472)
Q Consensus      1344 ~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~l~~L~~L~l~~~~~l~~l 1423 (1472)
                      ++|.+.. +|. .   .++|+.|++++|.+.  .++..+.+|+.|++++| .+..+|..   ..+|+.|++++| .++.+
T Consensus       370 s~N~L~~-LP~-l---~~~L~~LdLs~N~Lt--~LP~l~s~L~~LdLS~N-~LssIP~l---~~~L~~L~Ls~N-qLt~L  437 (788)
T PRK15387        370 YNNRLTS-LPA-L---PSGLKELIVSGNRLT--SLPVLPSELKELMVSGN-RLTSLPML---PSGLLSLSVYRN-QLTRL  437 (788)
T ss_pred             hcccccc-Ccc-c---ccccceEEecCCccc--CCCCcccCCCEEEccCC-cCCCCCcc---hhhhhhhhhccC-ccccc
Confidence            9999875 443 2   357999999997654  56667889999999999 57778853   457899999987 57788


Q ss_pred             CCC-CCccccceecccCCcch
Q 000471         1424 PEQ-GLPKSLSRLSIHNCPLI 1443 (1472)
Q Consensus      1424 p~~-~~~~sL~~L~l~~c~~l 1443 (1472)
                      |.. ..+++|+.|++++||+-
T Consensus       438 P~sl~~L~~L~~LdLs~N~Ls  458 (788)
T PRK15387        438 PESLIHLSSETTVNLEGNPLS  458 (788)
T ss_pred             ChHHhhccCCCeEECCCCCCC
Confidence            876 45789999999999874

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.39  E-value=9.7e-13  Score=163.61  Aligned_cols=99  Identities=18%  Similarity=0.237  Sum_probs=46.9

Q ss_pred             CCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCCCCCCCcceeEec
Q 000471         1265 HHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVR 1344 (1472)
Q Consensus      1265 ~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l~ 1344 (1472)
                      ++|+.|++++|. ++.+|..+.  ++|+.|++++|+. ..+|..+.  ++|++|++++|. ++.+|.. .+.+|+.|+++
T Consensus       325 ~sL~~L~Ls~N~-Lt~LP~~l~--~sL~~L~Ls~N~L-~~LP~~lp--~~L~~LdLs~N~-Lt~LP~~-l~~sL~~LdLs  396 (754)
T PRK15370        325 PGLKTLEAGENA-LTSLPASLP--PELQVLDVSKNQI-TVLPETLP--PTITTLDVSRNA-LTNLPEN-LPAALQIMQAS  396 (754)
T ss_pred             ccceeccccCCc-cccCChhhc--CcccEEECCCCCC-CcCChhhc--CCcCEEECCCCc-CCCCCHh-HHHHHHHHhhc
Confidence            455556665553 333444332  3566666666543 23444332  456666666653 3444442 23356666666


Q ss_pred             cccCCCCCCcc---ccccccccceeeeccCC
Q 000471         1345 GLKISKPLPEW---GFNRFTSLRRFTICGGC 1372 (1472)
Q Consensus      1345 ~n~~~~~~~~~---~l~~l~~L~~L~Ls~n~ 1372 (1472)
                      +|.+.. +|..   .+..++++..|+|.+|.
T Consensus       397 ~N~L~~-LP~sl~~~~~~~~~l~~L~L~~Np  426 (754)
T PRK15370        397 RNNLVR-LPESLPHFRGEGPQPTRIIVEYNP  426 (754)
T ss_pred             cCCccc-CchhHHHHhhcCCCccEEEeeCCC
Confidence            665542 2220   12223445555555543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.38  E-value=1.4e-12  Score=162.28  Aligned_cols=82  Identities=18%  Similarity=0.325  Sum_probs=66.4

Q ss_pred             CcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCceeecC
Q 000471          598 PRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNS  677 (1472)
Q Consensus       598 ~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~  677 (1472)
                      .+..+|+++++ .++.+|..+.  .+|+.|+|++|+|+.+|..+.  .+|++|++++| .+..+|..+.  .+|+.|+++
T Consensus       178 ~~~~~L~L~~~-~LtsLP~~Ip--~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N-~LtsLP~~l~--~~L~~L~Ls  249 (754)
T PRK15370        178 NNKTELRLKIL-GLTTIPACIP--EQITTLILDNNELKSLPENLQ--GNIKTLYANSN-QLTSIPATLP--DTIQEMELS  249 (754)
T ss_pred             cCceEEEeCCC-CcCcCCcccc--cCCcEEEecCCCCCcCChhhc--cCCCEEECCCC-ccccCChhhh--ccccEEECc
Confidence            45789999998 8999998775  589999999999999998775  58999999985 5778887654  478899998


Q ss_pred             CCCCcccCCCc
Q 000471          678 TANSLKEMPKG  688 (1472)
Q Consensus       678 ~~~~~~~~p~~  688 (1472)
                      +|. +..+|..
T Consensus       250 ~N~-L~~LP~~  259 (754)
T PRK15370        250 INR-ITELPER  259 (754)
T ss_pred             CCc-cCcCChh
Confidence            887 5566643

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.36  E-value=2.9e-11  Score=162.57  Aligned_cols=294  Identities=16%  Similarity=0.186  Sum_probs=182.2

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEec-CCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVS-EDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-~~~~~~~~~~~i  264 (1472)
                      ..+|-|..-.+.+.+    .     ...+++.|+|++|.||||++.++...      ++.++|+++. .+.++..+...+
T Consensus        14 ~~~~~R~rl~~~l~~----~-----~~~~~~~v~apaG~GKTtl~~~~~~~------~~~~~w~~l~~~d~~~~~f~~~l   78 (903)
T PRK04841         14 HNTVVRERLLAKLSG----A-----NNYRLVLVTSPAGYGKTTLISQWAAG------KNNLGWYSLDESDNQPERFASYL   78 (903)
T ss_pred             cccCcchHHHHHHhc----c-----cCCCeEEEECCCCCCHHHHHHHHHHh------CCCeEEEecCcccCCHHHHHHHH
Confidence            346677655554432    1     24689999999999999999998752      2368999996 445667777777


Q ss_pred             HHhhcCCCCC------------CcccHHHHHHHHHhhhC--CCeEEEEEeCCCCCCHhhHHhhccc-ccCCCCCcEEEEE
Q 000471          265 LNSVASDQCK------------DKDDLNLLQEKLKKQLS--GNKFLLVLDDVWNENYIRWSELRCP-FVAGAAGSKIVVT  329 (1472)
Q Consensus       265 ~~~l~~~~~~------------~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~l~~~-l~~~~~~s~iivT  329 (1472)
                      +..+......            ...+...+...+...+.  +.+++|||||+...+......+... +.....+.++|||
T Consensus        79 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~  158 (903)
T PRK04841         79 IAALQQATNGHCSKSEALAQKRQYASLSSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVL  158 (903)
T ss_pred             HHHHHHhcCcccchhhhhhccCCcCCHHHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEE
Confidence            7777422110            00122223333333332  6789999999977643333323222 2233456788899


Q ss_pred             cCChH---HHHhhCCCCceeCC----CCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcC
Q 000471          330 TRNLV---VAERMGADPVYQLK----ELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRG  402 (1472)
Q Consensus       330 tR~~~---v~~~~~~~~~~~l~----~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~  402 (1472)
                      ||...   .....-.....++.    +|+.+|+.++|........       -.+.+.+|.+.|+|.|+++..++..+..
T Consensus       159 sR~~~~~~~~~l~~~~~~~~l~~~~l~f~~~e~~~ll~~~~~~~~-------~~~~~~~l~~~t~Gwp~~l~l~~~~~~~  231 (903)
T PRK04841        159 SRNLPPLGIANLRVRDQLLEIGSQQLAFDHQEAQQFFDQRLSSPI-------EAAESSRLCDDVEGWATALQLIALSARQ  231 (903)
T ss_pred             eCCCCCCchHhHHhcCcceecCHHhCCCCHHHHHHHHHhccCCCC-------CHHHHHHHHHHhCChHHHHHHHHHHHhh
Confidence            99742   11111122344555    9999999999987642211       1466789999999999999999987755


Q ss_pred             CCChhhHHHHHhhcccccCCCCcccchhh-cccCCChhhHhHhhhhccCCCCCccChHHHHHHHHHcCCcccccCCccHH
Q 000471          403 RDDPRDWEFVLKTDIWNLRDSDILPALRV-SYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKME  481 (1472)
Q Consensus       403 ~~~~~~w~~~~~~~~~~~~~~~i~~~l~~-sy~~L~~~~k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~  481 (1472)
                      ......  ..... ........+...+.- .|+.||++.+..+...|+++   .|+.+ +..     .+...        
T Consensus       232 ~~~~~~--~~~~~-~~~~~~~~~~~~l~~~v~~~l~~~~~~~l~~~a~~~---~~~~~-l~~-----~l~~~--------  291 (903)
T PRK04841        232 NNSSLH--DSARR-LAGINASHLSDYLVEEVLDNVDLETRHFLLRCSVLR---SMNDA-LIV-----RVTGE--------  291 (903)
T ss_pred             CCCchh--hhhHh-hcCCCchhHHHHHHHHHHhcCCHHHHHHHHHhcccc---cCCHH-HHH-----HHcCC--------
Confidence            432100  00100 000111234444333 37899999999999999996   33432 222     11111        


Q ss_pred             HHHHHHHHHHHhCCCccc-cCCCCCcEEEehhHHHHHHHhh
Q 000471          482 DLGREFVRELHSRSLFQQ-SSKDASRFVMHDLINDLARWAA  521 (1472)
Q Consensus       482 ~~~~~~~~~L~~~~ll~~-~~~~~~~~~mHdlv~~~a~~~~  521 (1472)
                      +.+...+++|.+++++.. .+.+..+|+.|++++++.+...
T Consensus       292 ~~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        292 ENGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             CcHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHH
Confidence            224678999999999754 3444457999999999998765

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.35  E-value=2.6e-14  Score=134.21  Aligned_cols=100  Identities=29%  Similarity=0.408  Sum_probs=60.1

Q ss_pred             CCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCceeec
Q 000471          597 LPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRN  676 (1472)
Q Consensus       597 l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l  676 (1472)
                      +.++..|.|++| .+..+|..|..|.+|++|++++|+|+++|.+|+.|++|++|++.- +.+..+|.+|+.++.|+.||+
T Consensus        32 ~s~ITrLtLSHN-Kl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgm-nrl~~lprgfgs~p~levldl  109 (264)
T KOG0617|consen   32 MSNITRLTLSHN-KLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGM-NRLNILPRGFGSFPALEVLDL  109 (264)
T ss_pred             hhhhhhhhcccC-ceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecch-hhhhcCccccCCCchhhhhhc
Confidence            344555666666 666666666666666666666666666666666666666666665 456666666666666666666


Q ss_pred             CCCCCc-ccCCCccccccccccc
Q 000471          677 STANSL-KEMPKGFGKLTSLLTL  698 (1472)
Q Consensus       677 ~~~~~~-~~~p~~i~~L~~L~~L  698 (1472)
                      ..|+.- ..+|..|-.|+.|+.|
T Consensus       110 tynnl~e~~lpgnff~m~tlral  132 (264)
T KOG0617|consen  110 TYNNLNENSLPGNFFYMTTLRAL  132 (264)
T ss_pred             cccccccccCCcchhHHHHHHHH
Confidence            655522 2345445444444443

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=99.32  E-value=1.1e-13  Score=147.91  Aligned_cols=113  Identities=18%  Similarity=0.241  Sum_probs=78.5

Q ss_pred             CCCCCeEEEEeeCCCCCCcccCCCCcccccEEEEcCCCCCCCC--CCCCCCCccceeecCCCCceEeCccccCCCCCCCC
Q 000471          780 HRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLP--SVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPF  857 (1472)
Q Consensus       780 ~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~l~--~l~~l~~L~~L~L~~~~~l~~i~~~~~~~~~~~~f  857 (1472)
                      ++....+++..|.+..+|+..+. .+++|++|+|++|.+..+.  .|..+++|..|.+.+++.+++++...++.     +
T Consensus        66 P~~tveirLdqN~I~~iP~~aF~-~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~g-----L  139 (498)
T KOG4237|consen   66 PPETVEIRLDQNQISSIPPGAFK-TLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGG-----L  139 (498)
T ss_pred             CCcceEEEeccCCcccCChhhcc-chhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhh-----H
Confidence            34678899999999999987664 6899999999999995444  38899999999999989999988766553     4


Q ss_pred             CCccEEeccCcccccccccCCCCCcccccCCcccEeeecCCcCcccCCC
Q 000471          858 PSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLP  906 (1472)
Q Consensus       858 p~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~L~~~lp  906 (1472)
                      .+|+.|.+.-+. +..+     -+.....+++|..|.+.++. +. .++
T Consensus       140 ~slqrLllNan~-i~Ci-----r~~al~dL~~l~lLslyDn~-~q-~i~  180 (498)
T KOG4237|consen  140 SSLQRLLLNANH-INCI-----RQDALRDLPSLSLLSLYDNK-IQ-SIC  180 (498)
T ss_pred             HHHHHHhcChhh-hcch-----hHHHHHHhhhcchhcccchh-hh-hhc
Confidence            555554443221 1111     01122346778888887775 54 555

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=99.29  E-value=8.7e-14  Score=148.60  Aligned_cols=252  Identities=20%  Similarity=0.262  Sum_probs=167.1

Q ss_pred             ccccccccccCCCCCCcccceEEeccccccccccc-hhc-cCCcchhhhccccccccCccccCCCCCccEEeeccCCCcc
Q 000471         1202 RFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAE-RLD-NTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLE 1279 (1472)
Q Consensus      1202 ~~~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~l~~-~~~-~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~ 1279 (1472)
                      ..|..-.......++|+....++|..|. ++.+|. .|. +++|+.||++.|++...-|..|.++++|.+|-+-+++.++
T Consensus        51 VdCr~~GL~eVP~~LP~~tveirLdqN~-I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~  129 (498)
T KOG4237|consen   51 VDCRGKGLTEVPANLPPETVEIRLDQNQ-ISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKIT  129 (498)
T ss_pred             EEccCCCcccCcccCCCcceEEEeccCC-cccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchh
Confidence            3444333333345667777778887743 455543 333 4778888888887777778888888888888887777777


Q ss_pred             ccCCC-CCCC------------------------CCccEEecccccccccccc-cCCCCCcccEeeecCCCCCcc--CCC
Q 000471         1280 SFPEE-GLPS------------------------TKLTELTIYDCENLKALPN-CMHNLTSLLILEIRGCPSVVS--FPE 1331 (1472)
Q Consensus      1280 ~l~~~-~~~l------------------------~~L~~L~Ls~c~~l~~lp~-~l~~l~~L~~L~L~~n~~l~~--~p~ 1331 (1472)
                      .+|.. |..+                        ++|..|.+.+|. ...++. .|..+.+++.+.+..|+.+..  +|.
T Consensus       130 ~l~k~~F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~-~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~w  208 (498)
T KOG4237|consen  130 DLPKGAFGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNK-IQSICKGTFQGLAAIKTLHLAQNPFICDCNLPW  208 (498)
T ss_pred             hhhhhHhhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchh-hhhhccccccchhccchHhhhcCccccccccch
Confidence            77753 3333                        444445555533 233333 566666777777766652110  110


Q ss_pred             ---------------------------------CCCCCCccee---EeccccCCCCCCccccccccccceeeeccCCCCC
Q 000471         1332 ---------------------------------DGFPTNLQSL---EVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDL 1375 (1472)
Q Consensus      1332 ---------------------------------~~~~~~L~~L---~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~ 1375 (1472)
                                                       ..+...++.+   -.+.|....+.|...|..+++|+.|+|++|.++.
T Consensus       209 la~~~a~~~ietsgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~  288 (498)
T KOG4237|consen  209 LADDLAMNPIETSGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITR  288 (498)
T ss_pred             hhhHHhhchhhcccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccch
Confidence                                             0011123333   2344445567777789999999999999987776


Q ss_pred             CCCCCC--CccccceeccCCCCcCcccccC-CCCCcCceeeccCCCCCCCCCCC-CCccccceecccCCcchHHhhccCC
Q 000471         1376 VSPPPF--PASLTNLWISDMPDLESISSIG-ENLTSLETLRLFNCPKLKYFPEQ-GLPKSLSRLSIHNCPLIEKRCRKDE 1451 (1472)
Q Consensus      1376 ~~~~~~--~~~L~~L~l~~~~~l~~i~~~~-~~l~~L~~L~l~~~~~l~~lp~~-~~~~sL~~L~l~~c~~l~~~~~~~~ 1451 (1472)
                      ..-..|  ...++.|.|..| .++.+.+.. .++..|++|+|++|+....-|.. ....+|..|++-.||..|+ |+..|
T Consensus       289 i~~~aFe~~a~l~eL~L~~N-~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~~Cn-C~l~w  366 (498)
T KOG4237|consen  289 IEDGAFEGAAELQELYLTRN-KLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPFNCN-CRLAW  366 (498)
T ss_pred             hhhhhhcchhhhhhhhcCcc-hHHHHHHHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCcccCc-cchHH
Confidence            655554  568999999999 677766543 88999999999999554444433 3367999999999999999 99999


Q ss_pred             CCCCCc
Q 000471         1452 GKYWPM 1457 (1472)
Q Consensus      1452 ~~~w~~ 1457 (1472)
                      ..+|-.
T Consensus       367 l~~Wlr  372 (498)
T KOG4237|consen  367 LGEWLR  372 (498)
T ss_pred             HHHHHh
Confidence            999954

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.27  E-value=3.5e-10  Score=135.59  Aligned_cols=301  Identities=15%  Similarity=0.084  Sum_probs=175.0

Q ss_pred             cCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          184 NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      .+..++||++++++|...+...-  .......+.|+|++|+|||++++.++++.......-..+++++....+...++..
T Consensus        28 ~P~~l~~Re~e~~~l~~~l~~~~--~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~  105 (394)
T PRK00411         28 VPENLPHREEQIEELAFALRPAL--RGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSE  105 (394)
T ss_pred             cCCCCCCHHHHHHHHHHHHHHHh--CCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHH
Confidence            34569999999999999985431  1123456789999999999999999985433222234567777777788889999


Q ss_pred             HHHhhcCC-CCCCcccHHHHHHHHHhhhC--CCeEEEEEeCCCCCC----HhhHHhhcccccCCCCCcE--EEEEcCChH
Q 000471          264 ILNSVASD-QCKDKDDLNLLQEKLKKQLS--GNKFLLVLDDVWNEN----YIRWSELRCPFVAGAAGSK--IVVTTRNLV  334 (1472)
Q Consensus       264 i~~~l~~~-~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~----~~~~~~l~~~l~~~~~~s~--iivTtR~~~  334 (1472)
                      ++.++... ......+.+++.+.+.+.+.  +++.+||||+++...    ...+..+...+.. ..+++  +|.++....
T Consensus       106 i~~~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~  184 (394)
T PRK00411        106 IARQLFGHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLT  184 (394)
T ss_pred             HHHHhcCCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcc
Confidence            99998762 22123345666667777664  457899999997642    1223333322221 12333  566666544


Q ss_pred             HHHhhC-------CCCceeCCCCChHhHHHHHHhhhcCCC--CCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh--c--
Q 000471          335 VAERMG-------ADPVYQLKELSDDDCLCVLTQISLGAR--DFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL--R--  401 (1472)
Q Consensus       335 v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~a~~~~--~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L--~--  401 (1472)
                      +.....       ....+.+.+++.++..+++..++....  ....+..++.+++......|..+.|+.++-.+.  .  
T Consensus       185 ~~~~l~~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~  264 (394)
T PRK00411        185 FLYILDPRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAER  264 (394)
T ss_pred             hhhhcCHHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            332221       124578999999999999988763221  111222223333333333455777777765432  1  


Q ss_pred             -CCC--ChhhHHHHHhhcccccCCCCcccchhhcccCCChhhHhHhhhhccCCC--CCccChHHHHHH--HHHcCCcccc
Q 000471          402 -GRD--DPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPK--DYEFQEEEIILL--WTAEGLLDQE  474 (1472)
Q Consensus       402 -~~~--~~~~w~~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~~fl~~s~fp~--~~~i~~~~li~~--w~a~g~i~~~  474 (1472)
                       +..  +.+..+.+.+..        -.....-.+..||.+.|..+..++..-+  ...+....+...  .+++.+-..+
T Consensus       265 ~~~~~I~~~~v~~a~~~~--------~~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~  336 (394)
T PRK00411        265 EGSRKVTEEDVRKAYEKS--------EIVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEP  336 (394)
T ss_pred             cCCCCcCHHHHHHHHHHH--------HHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCc
Confidence             111  244454444332        0123445678999998887766653321  123445444432  2232211110


Q ss_pred             cCCccHHHHHHHHHHHHHhCCCccc
Q 000471          475 YNGRKMEDLGREFVRELHSRSLFQQ  499 (1472)
Q Consensus       475 ~~~~~~~~~~~~~~~~L~~~~ll~~  499 (1472)
                         . -......|+.+|...|+++.
T Consensus       337 ---~-~~~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        337 ---R-THTRFYEYINKLDMLGIINT  357 (394)
T ss_pred             ---C-cHHHHHHHHHHHHhcCCeEE
Confidence               0 12335668999999999875

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.25  E-value=2.5e-13  Score=127.65  Aligned_cols=86  Identities=29%  Similarity=0.520  Sum_probs=77.7

Q ss_pred             CccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCceeecCCCCCcccCCCccc
Q 000471          611 IFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFG  690 (1472)
Q Consensus       611 ~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~  690 (1472)
                      +..+| .+.++.+...|.||+|.++.+|+.|..|.+|+.|++.+ +.++++|..|+.|++||+|+++-|. +..+|.+||
T Consensus        23 f~~~~-gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~n-nqie~lp~~issl~klr~lnvgmnr-l~~lprgfg   99 (264)
T KOG0617|consen   23 FEELP-GLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSN-NQIEELPTSISSLPKLRILNVGMNR-LNILPRGFG   99 (264)
T ss_pred             Hhhcc-cccchhhhhhhhcccCceeecCCcHHHhhhhhhhhccc-chhhhcChhhhhchhhhheecchhh-hhcCccccC
Confidence            34444 45578889999999999999999999999999999998 7899999999999999999999887 889999999


Q ss_pred             ccccccccC
Q 000471          691 KLTSLLTLG  699 (1472)
Q Consensus       691 ~L~~L~~L~  699 (1472)
                      .++.|+.|+
T Consensus       100 s~p~levld  108 (264)
T KOG0617|consen  100 SFPALEVLD  108 (264)
T ss_pred             CCchhhhhh
Confidence            999999884

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.25  E-value=3.2e-12  Score=161.48  Aligned_cols=286  Identities=25%  Similarity=0.319  Sum_probs=178.7

Q ss_pred             cCCcceEEEecCCCC-CccCCc-ccCCCCcCcEEecCCc-cccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCc
Q 000471          596 HLPRLRVFSLRGCGN-IFNLPN-EIGNLKHLRCLNLSRT-RIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLH  672 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~-~~~lp~-~i~~L~~Lr~L~L~~~-~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~  672 (1472)
                      ..+.|++|-+.+|.. +..++. .|..+++||+|||++| .+.++|++|++|.+||+|+|++ +.+..+|.++++|++|.
T Consensus       543 ~~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~-t~I~~LP~~l~~Lk~L~  621 (889)
T KOG4658|consen  543 ENPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSD-TGISHLPSGLGNLKKLI  621 (889)
T ss_pred             CCCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccC-CCccccchHHHHHHhhh
Confidence            445799999999842 677764 4788999999999987 6789999999999999999999 77999999999999999


Q ss_pred             eeecCCCCCcccCCCcccccccccccCceEec-CCCCcccccccCccccCCceEEecccCCCCccccchhccCCCCCCCe
Q 000471          673 HLRNSTANSLKEMPKGFGKLTSLLTLGRFVVG-KDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEA  751 (1472)
Q Consensus       673 ~L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~-~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~  751 (1472)
                      +|++..+..+..+|..+..|.+|++|..+... ..+...+.++.+|.+|+ .+.+.....      .....+..+..|..
T Consensus       622 ~Lnl~~~~~l~~~~~i~~~L~~Lr~L~l~~s~~~~~~~~l~el~~Le~L~-~ls~~~~s~------~~~e~l~~~~~L~~  694 (889)
T KOG4658|consen  622 YLNLEVTGRLESIPGILLELQSLRVLRLPRSALSNDKLLLKELENLEHLE-NLSITISSV------LLLEDLLGMTRLRS  694 (889)
T ss_pred             eeccccccccccccchhhhcccccEEEeeccccccchhhHHhhhcccchh-hheeecchh------HhHhhhhhhHHHHH
Confidence            99999988777777777779999999877665 44455677777777776 444421110      00111222222222


Q ss_pred             EEEEecCCcccCccchhHHHHHhccCCCCCCCCeEEEEeeCCCCCCc-ccCC---CC-cccccEEEEcCCCC-CCCCCCC
Q 000471          752 LLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPI-WLGD---SS-FSKLARLELRRCTS-TSLPSVG  825 (1472)
Q Consensus       752 L~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~-~~~~---~~-l~~L~~L~L~~~~~-~~l~~l~  825 (1472)
                      +......      .. .........+..+.+|+.|.+.++.+..... |...   .. |+++..+...+|.. ..+.+..
T Consensus       695 ~~~~l~~------~~-~~~~~~~~~~~~l~~L~~L~i~~~~~~e~~~~~~~~~~~~~~f~~l~~~~~~~~~~~r~l~~~~  767 (889)
T KOG4658|consen  695 LLQSLSI------EG-CSKRTLISSLGSLGNLEELSILDCGISEIVIEWEESLIVLLCFPNLSKVSILNCHMLRDLTWLL  767 (889)
T ss_pred             HhHhhhh------cc-cccceeecccccccCcceEEEEcCCCchhhcccccccchhhhHHHHHHHHhhccccccccchhh
Confidence            2111000      00 0111234456667788888888887764322 3211   12 45666666667766 4444455


Q ss_pred             CCCCccceeecCCCCceEeCccccCCC----CCCCCCCccEE-eccCcccccccccCCCCCcccccCCcccEeeecCCcC
Q 000471          826 QLPFLKELRISGMDGVKSVGSEFYGNS----RSVPFPSLETL-SFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHK  900 (1472)
Q Consensus       826 ~l~~L~~L~L~~~~~l~~i~~~~~~~~----~~~~fp~L~~L-~l~~~~~l~~~~~~~~~~~~~~~~~~L~~L~l~~c~~  900 (1472)
                      -.|+|+.|.+..|..++.+....-...    ...+|++++.+ .+.+.+.+..+....      -.+++|+.+.+..|++
T Consensus       768 f~~~L~~l~l~~~~~~e~~i~~~k~~~~l~~~i~~f~~~~~l~~~~~l~~l~~i~~~~------l~~~~l~~~~ve~~p~  841 (889)
T KOG4658|consen  768 FAPHLTSLSLVSCRLLEDIIPKLKALLELKELILPFNKLEGLRMLCSLGGLPQLYWLP------LSFLKLEELIVEECPK  841 (889)
T ss_pred             ccCcccEEEEecccccccCCCHHHHhhhcccEEecccccccceeeecCCCCceeEecc------cCccchhheehhcCcc
Confidence            667888888888777766543322110    11335555555 344444444433222      1244455555555555


Q ss_pred             cc
Q 000471          901 LQ  902 (1472)
Q Consensus       901 L~  902 (1472)
                      +.
T Consensus       842 l~  843 (889)
T KOG4658|consen  842 LG  843 (889)
T ss_pred             cc
Confidence            43

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=99.17  E-value=4.5e-09  Score=124.65  Aligned_cols=301  Identities=14%  Similarity=0.095  Sum_probs=171.8

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh-ccC---cceEEEEecCCCCHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ-RHY---EIKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f---~~~~wv~~~~~~~~~~~~  261 (1472)
                      ..++||++++++|..++....  .......+.|+|++|+|||++++.++++.... ...   -..+|+++....+...++
T Consensus        15 ~~l~gRe~e~~~l~~~l~~~~--~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~   92 (365)
T TIGR02928        15 DRIVHRDEQIEELAKALRPIL--RGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVL   92 (365)
T ss_pred             CCCCCcHHHHHHHHHHHHHHH--cCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHH
Confidence            469999999999999986421  11234568999999999999999999743211 111   135778887777788899


Q ss_pred             HHHHHhhc---CCCCCCcccHHHHHHHHHhhhC--CCeEEEEEeCCCCCC---HhhHHhhcccc-cCCC--CCcEEEEEc
Q 000471          262 KSILNSVA---SDQCKDKDDLNLLQEKLKKQLS--GNKFLLVLDDVWNEN---YIRWSELRCPF-VAGA--AGSKIVVTT  330 (1472)
Q Consensus       262 ~~i~~~l~---~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~---~~~~~~l~~~l-~~~~--~~s~iivTt  330 (1472)
                      ..++.++.   ........+..+....+.+.+.  +++++||||+++...   ......+.... ....  ....+|.+|
T Consensus        93 ~~i~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~  172 (365)
T TIGR02928        93 VELANQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGIS  172 (365)
T ss_pred             HHHHHHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEE
Confidence            99999984   2222122234445555555553  568999999997752   11122222211 1111  233455555


Q ss_pred             CChHHHHhhC-------CCCceeCCCCChHhHHHHHHhhhcCC-CCCCCCccHHHHHHHHHHHhCCChhHH-HHHHhhh-
Q 000471          331 RNLVVAERMG-------ADPVYQLKELSDDDCLCVLTQISLGA-RDFTRHLSLKEVGEQIVIKCGGLPLAA-KTLGGLL-  400 (1472)
Q Consensus       331 R~~~v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~a~~~-~~~~~~~~~~~~~~~i~~~~~glPLal-~~~~~~L-  400 (1472)
                      ........+.       ....+.+.+.+.++..+++..++... ......++..+.+.+++....|.|..+ .++-.+. 
T Consensus       173 n~~~~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~  252 (365)
T TIGR02928       173 NDLKFRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGE  252 (365)
T ss_pred             CCcchHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            5443322111       12457899999999999998886311 111122333345566777778888544 3322211 


Q ss_pred             ---cC-C--CChhhHHHHHhhcccccCCCCcccchhhcccCCChhhHhHhhhhccCC--CCCccChHHHHHHHH--HcCC
Q 000471          401 ---RG-R--DDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFP--KDYEFQEEEIILLWT--AEGL  470 (1472)
Q Consensus       401 ---~~-~--~~~~~w~~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~~fl~~s~fp--~~~~i~~~~li~~w~--a~g~  470 (1472)
                         .. .  -+.+..+.+.+..        -.....-++..||.+.|..+..++..-  ++..+...++...+-  ++. 
T Consensus       253 ~a~~~~~~~it~~~v~~a~~~~--------~~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~~-  323 (365)
T TIGR02928       253 IAEREGAERVTEDHVEKAQEKI--------EKDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCED-  323 (365)
T ss_pred             HHHHcCCCCCCHHHHHHHHHHH--------HHHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHHh-
Confidence               11 1  1133333333221        012334466789999887776655221  333455666655331  221 


Q ss_pred             cccccCCccHHHHHHHHHHHHHhCCCcccc
Q 000471          471 LDQEYNGRKMEDLGREFVRELHSRSLFQQS  500 (1472)
Q Consensus       471 i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~  500 (1472)
                      +..   ....+.....++..|...|++...
T Consensus       324 ~~~---~~~~~~~~~~~l~~l~~~gli~~~  350 (365)
T TIGR02928       324 IGV---DPLTQRRISDLLNELDMLGLVEAE  350 (365)
T ss_pred             cCC---CCCcHHHHHHHHHHHHhcCCeEEE
Confidence            110   112245677889999999999864

Members of this protein family are found exclusively in the archaea. This set of DNA binding proteins shows homology to the origin recognition complex subunit 1/cell division control protein 6 family in eukaryotes. Several members may be found in genome and interact with each other.

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.09  E-value=5.7e-09  Score=117.95  Aligned_cols=182  Identities=20%  Similarity=0.135  Sum_probs=114.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHH----HHHHHHHh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLN----LLQEKLKK  288 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~----~~~~~l~~  288 (1472)
                      ..++.|+|++|+||||+++.+++..... .+ ..+|+ +....+..+++..++..++.+.. . .+..    .+...+..
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~-~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~-~-~~~~~~~~~l~~~l~~  117 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQE-RV-VAAKL-VNTRVDAEDLLRMVAADFGLETE-G-RDKAALLRELEDFLIE  117 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCC-Ce-EEeee-eCCCCCHHHHHHHHHHHcCCCCC-C-CCHHHHHHHHHHHHHH
Confidence            4588999999999999999999753321 11 12333 33345777888899888876532 1 2222    23333333


Q ss_pred             h-hCCCeEEEEEeCCCCCCHhhHHhhccccc---CCCCCcEEEEEcCChHHHHhhC----------CCCceeCCCCChHh
Q 000471          289 Q-LSGNKFLLVLDDVWNENYIRWSELRCPFV---AGAAGSKIVVTTRNLVVAERMG----------ADPVYQLKELSDDD  354 (1472)
Q Consensus       289 ~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~---~~~~~s~iivTtR~~~v~~~~~----------~~~~~~l~~L~~~~  354 (1472)
                      . ..+++.++|+||++......++.+.....   .......|++|... .....+.          ....+.+++++.+|
T Consensus       118 ~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~-~~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e  196 (269)
T TIGR03015       118 QFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQP-EFRETLQSPQLQQLRQRIIASCHLGPLDREE  196 (269)
T ss_pred             HHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCH-HHHHHHcCchhHHHHhheeeeeeCCCCCHHH
Confidence            2 26788999999999876666666543221   11222344555543 2222221          12357899999999


Q ss_pred             HHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          355 CLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       355 ~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      ..+++...+..........-..+..+.|++.++|.|..|..++..+
T Consensus       197 ~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       197 TREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            9999887764322111111225788999999999999999988765

Members of this protein are marked as probable ATPases by the nucleotide binding P-loop motif GXXGXGKTT, a motif DEAQ similar to the DEAD/H box of helicases, and extensive homology to ATPases of MSHA-type pilus systems and to GspA proteins associated with type II protein secretion systems.

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=99.02  E-value=7.9e-09  Score=118.91  Aligned_cols=276  Identities=15%  Similarity=0.110  Sum_probs=150.3

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+|||+++.++++..++..... .......+.++|++|+|||+||+.+++...  ..+   ..+......... .+...+
T Consensus         4 ~~~iG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~--~~~---~~~~~~~~~~~~-~l~~~l   76 (305)
T TIGR00635         4 AEFIGQEKVKEQLQLFIEAAKM-RQEALDHLLLYGPPGLGKTTLAHIIANEMG--VNL---KITSGPALEKPG-DLAAIL   76 (305)
T ss_pred             HHHcCHHHHHHHHHHHHHHHHh-cCCCCCeEEEECCCCCCHHHHHHHHHHHhC--CCE---EEeccchhcCch-hHHHHH
Confidence            3699999999999998864321 123355688999999999999999987432  111   112111111111 222223


Q ss_pred             HhhcCCCCCCcccH----HHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHhh--
Q 000471          266 NSVASDQCKDKDDL----NLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERM--  339 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~----~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~--  339 (1472)
                      ..+.....--.++.    ....+.+...+.+.+..+|+|+......  |   ...++   +.+-|..||+...+....  
T Consensus        77 ~~~~~~~vl~iDEi~~l~~~~~e~l~~~~~~~~~~~v~~~~~~~~~--~---~~~~~---~~~li~~t~~~~~l~~~l~s  148 (305)
T TIGR00635        77 TNLEEGDVLFIDEIHRLSPAVEELLYPAMEDFRLDIVIGKGPSARS--V---RLDLP---PFTLVGATTRAGMLTSPLRD  148 (305)
T ss_pred             HhcccCCEEEEehHhhhCHHHHHHhhHHHhhhheeeeeccCccccc--e---eecCC---CeEEEEecCCccccCHHHHh
Confidence            33322110000111    1123445555556666677776644321  1   11121   245556677764433221  


Q ss_pred             CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCChhhHHHHHhhcccc
Q 000471          340 GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN  419 (1472)
Q Consensus       340 ~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~~~w~~~~~~~~~~  419 (1472)
                      .....+++++++.++..+++.+.+..... ..   -.+.+..|++.|+|.|-.+..++..+        |..........
T Consensus       149 R~~~~~~l~~l~~~e~~~il~~~~~~~~~-~~---~~~al~~ia~~~~G~pR~~~~ll~~~--------~~~a~~~~~~~  216 (305)
T TIGR00635       149 RFGIILRLEFYTVEELAEIVSRSAGLLNV-EI---EPEAALEIARRSRGTPRIANRLLRRV--------RDFAQVRGQKI  216 (305)
T ss_pred             hcceEEEeCCCCHHHHHHHHHHHHHHhCC-Cc---CHHHHHHHHHHhCCCcchHHHHHHHH--------HHHHHHcCCCC
Confidence            11346789999999999999988743221 11   14677889999999997765555432        11110000000


Q ss_pred             cCCC---CcccchhhcccCCChhhHhHhh-hhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHHHH-HHHhC
Q 000471          420 LRDS---DILPALRVSYHFLPPQLKQCFA-YCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVR-ELHSR  494 (1472)
Q Consensus       420 ~~~~---~i~~~l~~sy~~L~~~~k~~fl-~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~-~L~~~  494 (1472)
                      ...+   .....+...|..++++.+..+. .++.++.+ .+..+.+....   |.         ....++..++ .|+++
T Consensus       217 it~~~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~-~~~~~~ia~~l---g~---------~~~~~~~~~e~~Li~~  283 (305)
T TIGR00635       217 INRDIALKALEMLMIDELGLDEIDRKLLSVLIEQFQGG-PVGLKTLAAAL---GE---------DADTIEDVYEPYLLQI  283 (305)
T ss_pred             cCHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCC-cccHHHHHHHh---CC---------CcchHHHhhhHHHHHc
Confidence            1100   1122256678899998887776 55666543 34443332221   11         1234666677 69999


Q ss_pred             CCccccC
Q 000471          495 SLFQQSS  501 (1472)
Q Consensus       495 ~ll~~~~  501 (1472)
                      +|++..+
T Consensus       284 ~li~~~~  290 (305)
T TIGR00635       284 GFLQRTP  290 (305)
T ss_pred             CCcccCC
Confidence            9997543

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=99.00  E-value=1.6e-08  Score=120.66  Aligned_cols=291  Identities=19%  Similarity=0.222  Sum_probs=185.1

Q ss_pred             HHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC-CCHHHHHHHHHHhhcCCCCC
Q 000471          196 EEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-FDVFRISKSILNSVASDQCK  274 (1472)
Q Consensus       196 ~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~  274 (1472)
                      .++++.|...     .+.|.+.|..|+|.||||++.+...   ....-..++|.+..+. .++..+...++..+..-.+.
T Consensus        25 ~rL~~~L~~~-----~~~RL~li~APAGfGKttl~aq~~~---~~~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~   96 (894)
T COG2909          25 PRLLDRLRRA-----NDYRLILISAPAGFGKTTLLAQWRE---LAADGAAVAWLSLDESDNDPARFLSYLIAALQQATPT   96 (894)
T ss_pred             HHHHHHHhcC-----CCceEEEEeCCCCCcHHHHHHHHHH---hcCcccceeEeecCCccCCHHHHHHHHHHHHHHhCcc
Confidence            4455555432     3579999999999999999999874   1122346899998765 67888888888888743321


Q ss_pred             ------------CcccHHHHHHHHHhhhC--CCeEEEEEeCCCCCCHhhH-HhhcccccCCCCCcEEEEEcCChHH---H
Q 000471          275 ------------DKDDLNLLQEKLKKQLS--GNKFLLVLDDVWNENYIRW-SELRCPFVAGAAGSKIVVTTRNLVV---A  336 (1472)
Q Consensus       275 ------------~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~-~~l~~~l~~~~~~s~iivTtR~~~v---~  336 (1472)
                                  ...+...+.+.+...+.  .++..+||||..-...... +.+...+.....+-.+|||||...-   +
T Consensus        97 ~~~~a~~l~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la  176 (894)
T COG2909          97 LGDEAQTLLQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLA  176 (894)
T ss_pred             ccHHHHHHHHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCccc
Confidence                        12233344444444443  5689999999865432222 2333333444567899999998642   2


Q ss_pred             HhhCCCCceeC----CCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCChhhHHHH
Q 000471          337 ERMGADPVYQL----KELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFV  412 (1472)
Q Consensus       337 ~~~~~~~~~~l----~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~~~w~~~  412 (1472)
                      +.--.+...++    -.++.+|+-++|.......   -+    +..++.+.+..+|-+-|+..++=.++.+.+.+.-...
T Consensus       177 ~lRlr~~llEi~~~~Lrf~~eE~~~fl~~~~~l~---Ld----~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~  249 (894)
T COG2909         177 RLRLRDELLEIGSEELRFDTEEAAAFLNDRGSLP---LD----AADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRG  249 (894)
T ss_pred             ceeehhhHHhcChHhhcCChHHHHHHHHHcCCCC---CC----hHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhh
Confidence            11111223333    3689999999998764111   11    4567889999999999999999888744332221111


Q ss_pred             HhhcccccCCCCccc-chhhcccCCChhhHhHhhhhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHHHHHH
Q 000471          413 LKTDIWNLRDSDILP-ALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVREL  491 (1472)
Q Consensus       413 ~~~~~~~~~~~~i~~-~l~~sy~~L~~~~k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L  491 (1472)
                      +.-.     ..-+.+ ...--++.||+++|..++-+|+++.-    -+.|+..-             +-++.+..++++|
T Consensus       250 LsG~-----~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~f----~~eL~~~L-------------tg~~ng~amLe~L  307 (894)
T COG2909         250 LSGA-----ASHLSDYLVEEVLDRLPPELRDFLLQTSVLSRF----NDELCNAL-------------TGEENGQAMLEEL  307 (894)
T ss_pred             ccch-----HHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh----hHHHHHHH-------------hcCCcHHHHHHHH
Confidence            1100     000111 11223688999999999999998541    12333321             1134477889999


Q ss_pred             HhCCCcc-ccCCCCCcEEEehhHHHHHHHhhcc
Q 000471          492 HSRSLFQ-QSSKDASRFVMHDLINDLARWAAGE  523 (1472)
Q Consensus       492 ~~~~ll~-~~~~~~~~~~mHdlv~~~a~~~~~~  523 (1472)
                      .+++++- +-++...+|+.|.+..||.+..-..
T Consensus       308 ~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r~~~  340 (894)
T COG2909         308 ERRGLFLQRLDDEGQWFRYHHLFAEFLRQRLQR  340 (894)
T ss_pred             HhCCCceeeecCCCceeehhHHHHHHHHhhhcc
Confidence            9999875 4456677999999999998865543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.99  E-value=1.6e-08  Score=116.78  Aligned_cols=276  Identities=16%  Similarity=0.131  Sum_probs=151.0

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+|+|+++.++.+..++..... .....+.+.|+|++|+||||+|+.+++...  ..+   .++.. ........+..++
T Consensus        25 ~~~vG~~~~~~~l~~~l~~~~~-~~~~~~~~ll~GppG~GKT~la~~ia~~l~--~~~---~~~~~-~~~~~~~~l~~~l   97 (328)
T PRK00080         25 DEFIGQEKVKENLKIFIEAAKK-RGEALDHVLLYGPPGLGKTTLANIIANEMG--VNI---RITSG-PALEKPGDLAAIL   97 (328)
T ss_pred             HHhcCcHHHHHHHHHHHHHHHh-cCCCCCcEEEECCCCccHHHHHHHHHHHhC--CCe---EEEec-ccccChHHHHHHH
Confidence            4699999999999888754211 123456788999999999999999997432  111   11211 1112222233333


Q ss_pred             HhhcCCCCCCcccHH----HHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHhh--
Q 000471          266 NSVASDQCKDKDDLN----LLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERM--  339 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~----~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~--  339 (1472)
                      ..+.....--.++.+    ...+.+...+.+.+..+|+|+..+.....     ..++   ..+-|..|+|...+....  
T Consensus        98 ~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e~~~~~~~l~~~~~~~~~~-----~~l~---~~~li~at~~~~~l~~~L~s  169 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLSPVVEEILYPAMEDFRLDIMIGKGPAARSIR-----LDLP---PFTLIGATTRAGLLTSPLRD  169 (328)
T ss_pred             HhcccCCEEEEecHhhcchHHHHHHHHHHHhcceeeeeccCcccccee-----ecCC---CceEEeecCCcccCCHHHHH
Confidence            333221100001111    12233444455555666666654432111     1111   234556677744332221  


Q ss_pred             CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCChhhHHHHHhhcccc
Q 000471          340 GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN  419 (1472)
Q Consensus       340 ~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~~~w~~~~~~~~~~  419 (1472)
                      .....+++++++.++..+++.+.+....- ..   -.+.+..|++.|+|.|-.+..+...+.      .|......  ..
T Consensus       170 Rf~~~~~l~~~~~~e~~~il~~~~~~~~~-~~---~~~~~~~ia~~~~G~pR~a~~~l~~~~------~~a~~~~~--~~  237 (328)
T PRK00080        170 RFGIVQRLEFYTVEELEKIVKRSARILGV-EI---DEEGALEIARRSRGTPRIANRLLRRVR------DFAQVKGD--GV  237 (328)
T ss_pred             hcCeeeecCCCCHHHHHHHHHHHHHHcCC-Cc---CHHHHHHHHHHcCCCchHHHHHHHHHH------HHHHHcCC--CC
Confidence            11346799999999999999988744321 11   146789999999999975555554321      22211100  01


Q ss_pred             cCCC---CcccchhhcccCCChhhHhHhh-hhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHHHH-HHHhC
Q 000471          420 LRDS---DILPALRVSYHFLPPQLKQCFA-YCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVR-ELHSR  494 (1472)
Q Consensus       420 ~~~~---~i~~~l~~sy~~L~~~~k~~fl-~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~-~L~~~  494 (1472)
                      ....   .....+...|..|++..+..+. ....|+.+ .+..+.+....      ..  .    .+.+++.++ .|++.
T Consensus       238 I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~-~~~~~~~a~~l------g~--~----~~~~~~~~e~~Li~~  304 (328)
T PRK00080        238 ITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGG-PVGLDTLAAAL------GE--E----RDTIEDVYEPYLIQQ  304 (328)
T ss_pred             CCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCC-ceeHHHHHHHH------CC--C----cchHHHHhhHHHHHc
Confidence            1111   2334466778899988888775 66677665 45555443321      11  1    123454555 89999


Q ss_pred             CCccccC
Q 000471          495 SLFQQSS  501 (1472)
Q Consensus       495 ~ll~~~~  501 (1472)
                      +|++...
T Consensus       305 ~li~~~~  311 (328)
T PRK00080        305 GFIQRTP  311 (328)
T ss_pred             CCcccCC
Confidence            9997544

>PF01637 Arch_ATPase: Archaeal ATPase; InterPro: IPR011579 This domain has been found in a number of bacterial and archaeal proteins, all of which contain a conserved P-loop motif that is involved in binding ATP

Probab=98.98  E-value=2e-09  Score=119.33  Aligned_cols=194  Identities=25%  Similarity=0.227  Sum_probs=100.8

Q ss_pred             eeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH---
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI---  264 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i---  264 (1472)
                      |+||++|+++|.+++..+      ..+.+.|+|+.|+|||+|++++.+..  +..-...+|+...+...... ...+   
T Consensus         1 F~gR~~el~~l~~~l~~~------~~~~~~l~G~rg~GKTsLl~~~~~~~--~~~~~~~~y~~~~~~~~~~~-~~~~~~~   71 (234)
T PF01637_consen    1 FFGREKELEKLKELLESG------PSQHILLYGPRGSGKTSLLKEFINEL--KEKGYKVVYIDFLEESNESS-LRSFIEE   71 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH--------SSEEEEEESTTSSHHHHHHHHHHHC--T--EECCCHHCCTTBSHHHH-HHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh------cCcEEEEEcCCcCCHHHHHHHHHHHh--hhcCCcEEEEecccchhhhH-HHHHHHH
Confidence            799999999999998653      24689999999999999999998732  22111344444433332211 1111   


Q ss_pred             -------HHhhc----CCCC-----C----CcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC------HhhHHhhccccc
Q 000471          265 -------LNSVA----SDQC-----K----DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN------YIRWSELRCPFV  318 (1472)
Q Consensus       265 -------~~~l~----~~~~-----~----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~------~~~~~~l~~~l~  318 (1472)
                             .+.+.    ....     .    .......+...+.+  .+++++||+||+....      ..-...+...+.
T Consensus        72 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~--~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~  149 (234)
T PF01637_consen   72 TSLADELSEALGISIPSITLEKISKDLSEDSFSALERLLEKLKK--KGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLD  149 (234)
T ss_dssp             HHHHCHCHHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHH--CHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHh--cCCcEEEEEecHHHHhhcccchHHHHHHHHHHHh
Confidence                   11121    1100     0    11222333333332  2445999999996653      111122222222


Q ss_pred             C--CCCCcEEEEEcCChHHHHh--------hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCC
Q 000471          319 A--GAAGSKIVVTTRNLVVAER--------MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGG  388 (1472)
Q Consensus       319 ~--~~~~s~iivTtR~~~v~~~--------~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~g  388 (1472)
                      .  ......+|+++....+...        .+....+.+++++.+++++++...+-...+  - +.-.+..++|++.+||
T Consensus       150 ~~~~~~~~~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~--~-~~~~~~~~~i~~~~gG  226 (234)
T PF01637_consen  150 SLLSQQNVSIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIK--L-PFSDEDIEEIYSLTGG  226 (234)
T ss_dssp             H----TTEEEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC---------HHHHHHHHHHHTT
T ss_pred             hccccCCceEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhc--c-cCCHHHHHHHHHHhCC
Confidence            2  1233345555554544433        122335899999999999999986533211  1 1124667999999999


Q ss_pred             ChhHHHH
Q 000471          389 LPLAAKT  395 (1472)
Q Consensus       389 lPLal~~  395 (1472)
                      +|..|..
T Consensus       227 ~P~~l~~  233 (234)
T PF01637_consen  227 NPRYLQE  233 (234)
T ss_dssp             -HHHHHH
T ss_pred             CHHHHhc
Confidence            9988764

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.94  E-value=4.2e-11  Score=139.92  Aligned_cols=180  Identities=16%  Similarity=0.041  Sum_probs=78.5

Q ss_pred             cccccccccccccc----ccccCCCCCCcccceEEeccccccc------cccchh-ccCCcchhhhccccccccCccccC
Q 000471         1194 TMLEHLQVRFCSNL----AFLSRNGNLPQALKYLRVEDCSKLE------SLAERL-DNTSLEEITISVLENLKSLPADLH 1262 (1472)
Q Consensus      1194 ~~L~~L~l~~~~~l----~~~~~~~~~~~~L~~L~l~~c~~l~------~l~~~~-~~~~L~~L~l~~~~~~~~~~~~l~ 1262 (1472)
                      .+|+.+.+.+|...    ..+.......++++.|+++++..-.      .++..+ ..++|+.|++++|......+..+.
T Consensus        23 ~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~  102 (319)
T cd00116          23 LCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGCGVLE  102 (319)
T ss_pred             hhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHHHHHH
Confidence            34666666665421    1112222233446666666543221      111111 234566666665555443333333


Q ss_pred             CCCC---ccEEeeccCCCcc----ccCCCCCCC-CCccEEecccccccc----cccccCCCCCcccEeeecCCCCCc---
Q 000471         1263 NLHH---LQKIWINYCPNLE----SFPEEGLPS-TKLTELTIYDCENLK----ALPNCMHNLTSLLILEIRGCPSVV--- 1327 (1472)
Q Consensus      1263 ~l~~---L~~L~Ls~~~~l~----~l~~~~~~l-~~L~~L~Ls~c~~l~----~lp~~l~~l~~L~~L~L~~n~~l~--- 1327 (1472)
                      .+.+   |++|++++|....    .+...+..+ ++|+.|++++|....    .++..+..+++|++|++++|....   
T Consensus       103 ~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~  182 (319)
T cd00116         103 SLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGI  182 (319)
T ss_pred             HHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHH
Confidence            3332   6666666654331    111122223 456666666655442    122334445556666666653221   


Q ss_pred             -cCCCC-CCCCCcceeEeccccCCCCCCc---cccccccccceeeeccCCC
Q 000471         1328 -SFPED-GFPTNLQSLEVRGLKISKPLPE---WGFNRFTSLRRFTICGGCP 1373 (1472)
Q Consensus      1328 -~~p~~-~~~~~L~~L~l~~n~~~~~~~~---~~l~~l~~L~~L~Ls~n~~ 1373 (1472)
                       .++.. ...++|+.|++++|.+.+....   ..+..+++|++|++++|..
T Consensus       183 ~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l  233 (319)
T cd00116         183 RALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNL  233 (319)
T ss_pred             HHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcC
Confidence             01110 1224566666666655422110   1234455566666655443

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=98.93  E-value=5.4e-11  Score=138.97  Aligned_cols=108  Identities=16%  Similarity=0.150  Sum_probs=62.8

Q ss_pred             cchhhhccccccc----cCccccCCC-CCccEEeeccCCCcc----ccCCCCCCCCCccEEecccccccc----cccccC
Q 000471         1243 LEEITISVLENLK----SLPADLHNL-HHLQKIWINYCPNLE----SFPEEGLPSTKLTELTIYDCENLK----ALPNCM 1309 (1472)
Q Consensus      1243 L~~L~l~~~~~~~----~~~~~l~~l-~~L~~L~Ls~~~~l~----~l~~~~~~l~~L~~L~Ls~c~~l~----~lp~~l 1309 (1472)
                      |+.|++++|....    .+...+..+ ++|++|++++|....    .++..+..+++|++|++++|...+    .++..+
T Consensus       110 L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l  189 (319)
T cd00116         110 LQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGIGDAGIRALAEGL  189 (319)
T ss_pred             ccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCCchHHHHHHHHHH
Confidence            5555555554331    112334455 778888888876552    223334445678888888876552    233345


Q ss_pred             CCCCcccEeeecCCCCCcc----CCCC-CCCCCcceeEeccccCCC
Q 000471         1310 HNLTSLLILEIRGCPSVVS----FPED-GFPTNLQSLEVRGLKISK 1350 (1472)
Q Consensus      1310 ~~l~~L~~L~L~~n~~l~~----~p~~-~~~~~L~~L~l~~n~~~~ 1350 (1472)
                      ..+++|++|++++|.....    +... ..+++|++|++++|.+.+
T Consensus       190 ~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~  235 (319)
T cd00116         190 KANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTD  235 (319)
T ss_pred             HhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCch
Confidence            5567888888888743211    1111 345778888888887764

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.89  E-value=7.6e-08  Score=115.54  Aligned_cols=302  Identities=14%  Similarity=0.113  Sum_probs=163.4

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcch---hccCc--ceEEEEecCCCCHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV---QRHYE--IKAWTCVSEDFDVFR  259 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~---~~~f~--~~~wv~~~~~~~~~~  259 (1472)
                      +..+.|||+|+++|...|...-. +.....++.|+|++|.|||+.++.|.+....   +....  .+++|.+..-.+...
T Consensus       754 PD~LPhREeEIeeLasfL~paIk-gsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~s  832 (1164)
T PTZ00112        754 PKYLPCREKEIKEVHGFLESGIK-QSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNA  832 (1164)
T ss_pred             CCcCCChHHHHHHHHHHHHHHHh-cCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHH
Confidence            35688999999999998865321 2233467889999999999999999864311   11112  356787777778888


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhh-C--CCeEEEEEeCCCCCCHhhHHhhccccc-CCCCCcEEEE--EcCCh
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQL-S--GNKFLLVLDDVWNENYIRWSELRCPFV-AGAAGSKIVV--TTRNL  333 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l-~--~k~~LlVlDdv~~~~~~~~~~l~~~l~-~~~~~s~iiv--TtR~~  333 (1472)
                      ++..|..++............+....+...+ .  ....+||||+++......-+.+...+. ....+++|+|  +|...
T Consensus       833 IYqvI~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~~s~SKLiLIGISNdl  912 (1164)
T PTZ00112        833 AYQVLYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPTKINSKLVLIAISNTM  912 (1164)
T ss_pred             HHHHHHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhhccCCeEEEEEecCch
Confidence            9999998885543322223333444444443 2  234699999996542111111211111 1123555554  33321


Q ss_pred             H--------HHHhhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCC
Q 000471          334 V--------VAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDD  405 (1472)
Q Consensus       334 ~--------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~  405 (1472)
                      +        +...++. ..+...|++.++-.+++..++-.......+..++-+|+.++...|..-.||.++-.+...+..
T Consensus       913 DLperLdPRLRSRLg~-eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikeg  991 (1164)
T PTZ00112        913 DLPERLIPRCRSRLAF-GRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRG  991 (1164)
T ss_pred             hcchhhhhhhhhcccc-ccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCC
Confidence            1        2222222 235679999999999999988543222233334444454554455566777766655543211


Q ss_pred             ----hhhHHHHHhhcccccCCCCcccchhhcccCCChhhHhHhhhhccCCC---CCccChHHHHHHH--HHc--C-Cccc
Q 000471          406 ----PRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPK---DYEFQEEEIILLW--TAE--G-LLDQ  473 (1472)
Q Consensus       406 ----~~~w~~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~~fl~~s~fp~---~~~i~~~~li~~w--~a~--g-~i~~  473 (1472)
                          .+.-+.+....    .    ...+.-....||.+.|..+..+...-+   ...++-..+....  +++  | .+..
T Consensus       992 skVT~eHVrkAleei----E----~srI~e~IktLPlHqKLVLlALIlLlk~tg~~~i~TGEVYerYk~Lce~~Gk~iGv 1063 (1164)
T PTZ00112        992 QKIVPRDITEATNQL----F----DSPLTNAINYLPWPFKMFLTCLIVELRMLNDFIIPYKKVLNRYKVLVETSGKYIGM 1063 (1164)
T ss_pred             CccCHHHHHHHHHHH----H----hhhHHHHHHcCCHHHHHHHHHHHHHHhhcCCCceeHHHHHHHHHHHHHhhhhhcCC
Confidence                11222222111    0    111233446789888776654442211   1134444443322  222  1 1110


Q ss_pred             ccCCccHHHHHHHHHHHHHhCCCcccc
Q 000471          474 EYNGRKMEDLGREFVRELHSRSLFQQS  500 (1472)
Q Consensus       474 ~~~~~~~~~~~~~~~~~L~~~~ll~~~  500 (1472)
                         ...-+ ...+|+.+|...|+|-..
T Consensus      1064 ---~plTq-RV~d~L~eL~~LGIIl~e 1086 (1164)
T PTZ00112       1064 ---CSNNE-LFKIMLDKLVKMGILLIR 1086 (1164)
T ss_pred             ---CCcHH-HHHHHHHHHHhcCeEEec
Confidence               11122 567788888888887653

>PF05729 NACHT: NACHT domain

Probab=98.85  E-value=1.1e-08  Score=106.22  Aligned_cols=144  Identities=18%  Similarity=0.264  Sum_probs=88.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhcc----CcceEEEEecCCCCHH---HHHHHHHHhhcCCCCCCcccHHHHHHHH
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRH----YEIKAWTCVSEDFDVF---RISKSILNSVASDQCKDKDDLNLLQEKL  286 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~~~wv~~~~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~~~l  286 (1472)
                      |++.|+|.+|+||||+++.++.+......    +...+|+.........   .+...+..+.....    .........+
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~----~~~~~~~~~~   76 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESI----APIEELLQEL   76 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccch----hhhHHHHHHH
Confidence            58999999999999999999875332222    3456677666554432   33333333332211    1111111111


Q ss_pred             HhhhCCCeEEEEEeCCCCCCHh-------hHHhhcccccC--CCCCcEEEEEcCChHH---HHhhCCCCceeCCCCChHh
Q 000471          287 KKQLSGNKFLLVLDDVWNENYI-------RWSELRCPFVA--GAAGSKIVVTTRNLVV---AERMGADPVYQLKELSDDD  354 (1472)
Q Consensus       287 ~~~l~~k~~LlVlDdv~~~~~~-------~~~~l~~~l~~--~~~~s~iivTtR~~~v---~~~~~~~~~~~l~~L~~~~  354 (1472)
                        .-+.++++||+|++++....       .+..+...+..  ...+.++|||+|....   .........+++.+|++++
T Consensus        77 --~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~  154 (166)
T PF05729_consen   77 --LEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEED  154 (166)
T ss_pred             --HHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHH
Confidence              12478999999999775421       12222222222  2468999999998765   3334444679999999999


Q ss_pred             HHHHHHhhh
Q 000471          355 CLCVLTQIS  363 (1472)
Q Consensus       355 ~~~lf~~~a  363 (1472)
                      ..+++.++.
T Consensus       155 ~~~~~~~~f  163 (166)
T PF05729_consen  155 IKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHh
Confidence            999987753

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=98.83  E-value=1.3e-10  Score=126.15  Aligned_cols=296  Identities=15%  Similarity=0.223  Sum_probs=174.9

Q ss_pred             CcceEEecCCCCCCCChhhhhccCCCCcceEEeecCCCCCcCC---CCCCCCCccEEEEecCCCcccCchhhhcCCCCcc
Q 000471         1054 HLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFP---EVALPSQLRTVKIEYCNALISLPEAWMQNSNTSL 1130 (1472)
Q Consensus      1054 ~L~~L~l~~~~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~---~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L 1130 (1472)
                      .|+.|.+.+|.....-+...+...++++++|.+.+|..+++..   ....+++|+++++..|..+++.........+++|
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL  218 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKL  218 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhH
Confidence            3555666666655555544444457777888777777665532   2345677888888888777777666555667888


Q ss_pred             ceEeecccCCcccc---ccccCCCccceEEeccccccccccccccccccCCCCCccccccCCCCcccccccccccccccc
Q 000471         1131 ESLRIKGCDSLKYI---ARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNL 1207 (1472)
Q Consensus      1131 ~~L~l~~c~~l~~~---~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~L~~L~l~~~~~l 1207 (1472)
                      ++|+++.|+.++.-   ........++++...                                           +|..+
T Consensus       219 ~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~k-------------------------------------------GC~e~  255 (483)
T KOG4341|consen  219 KYLNLSWCPQISGNGVQALQRGCKELEKLSLK-------------------------------------------GCLEL  255 (483)
T ss_pred             HHhhhccCchhhcCcchHHhccchhhhhhhhc-------------------------------------------ccccc
Confidence            88888888766541   011122223333333                                           33322


Q ss_pred             c--cccCCCCCCcccceEEeccccccccccch---hccCCcchhhhccccccccCc--cccCCCCCccEEeeccCCCccc
Q 000471         1208 A--FLSRNGNLPQALKYLRVEDCSKLESLAER---LDNTSLEEITISVLENLKSLP--ADLHNLHHLQKIWINYCPNLES 1280 (1472)
Q Consensus      1208 ~--~~~~~~~~~~~L~~L~l~~c~~l~~l~~~---~~~~~L~~L~l~~~~~~~~~~--~~l~~l~~L~~L~Ls~~~~l~~ 1280 (1472)
                      .  .+........-+..+++.+|..+++....   .....|+.|+.++|...+..+  .--.++++|+.|-+++|...+.
T Consensus       256 ~le~l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd  335 (483)
T KOG4341|consen  256 ELEALLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSD  335 (483)
T ss_pred             cHHHHHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhh
Confidence            2  11111222234566667777777665422   234677888888877765432  2235678899999999886653


Q ss_pred             cC--CCCCCCCCccEEeccccccccc--ccccCCCCCcccEeeecCCCCCccC-----CCC-CCCCCcceeEeccccCCC
Q 000471         1281 FP--EEGLPSTKLTELTIYDCENLKA--LPNCMHNLTSLLILEIRGCPSVVSF-----PED-GFPTNLQSLEVRGLKISK 1350 (1472)
Q Consensus      1281 l~--~~~~~l~~L~~L~Ls~c~~l~~--lp~~l~~l~~L~~L~L~~n~~l~~~-----p~~-~~~~~L~~L~l~~n~~~~ 1350 (1472)
                      ..  .-..+.+.|+.+++.+|.....  +-.--.+++.|++|.+++|..++..     ... .....|+.|.+++++...
T Consensus       336 ~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~  415 (483)
T KOG4341|consen  336 RGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLIT  415 (483)
T ss_pred             hhhhhhhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCch
Confidence            32  2234567889999888865432  2222357888999999988777655     111 345678888888887754


Q ss_pred             CCCccccccccccceeeeccCCCCCCCCCCCCccccceeccCCCCcCcccc--cCCCCCcCceeec
Q 000471         1351 PLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISS--IGENLTSLETLRL 1414 (1472)
Q Consensus      1351 ~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~--~~~~l~~L~~L~l 1414 (1472)
                      .-....+..++                      +|+.+++.+|....+-+.  ....+|+++..-+
T Consensus       416 d~~Le~l~~c~----------------------~Leri~l~~~q~vtk~~i~~~~~~lp~i~v~a~  459 (483)
T KOG4341|consen  416 DATLEHLSICR----------------------NLERIELIDCQDVTKEAISRFATHLPNIKVHAY  459 (483)
T ss_pred             HHHHHHHhhCc----------------------ccceeeeechhhhhhhhhHHHHhhCccceehhh
Confidence            33222333333                      455556666665544322  2256777666544

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=98.80  E-value=1.6e-10  Score=125.36  Aligned_cols=136  Identities=14%  Similarity=0.242  Sum_probs=77.5

Q ss_pred             cceEEeccCCCCCccc--hhhcCCCCccEEEeccCCCccccCC---CCCCCCcceEEecCCCCCCCChhhhhccCCCCcc
Q 000471         1008 LQFLKLSKCEGLTRLP--QALLTLSSLTEMRISGCASLVSFPQ---AALPSHLRTVKIEDCNALESLPEAWMHNSNSSLE 1082 (1472)
Q Consensus      1008 L~~L~Ls~~~~~~~l~--~~~~~l~~L~~L~l~~c~~l~~~~~---~~~~~~L~~L~l~~~~~l~~~~~~~~~~~~~~L~ 1082 (1472)
                      |+.|.+++|...+.-+  .....++++++|++.+|..+++...   ..+.+.|+.|++..|..++..........+++|+
T Consensus       140 lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~  219 (483)
T KOG4341|consen  140 LKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLK  219 (483)
T ss_pred             cccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHH
Confidence            4556666665444322  2445677777777777766554321   2345777778888777777665544444478888


Q ss_pred             eEEeecCCCCCcCC---CCCCCCCccEEEEecCCCcccCchhhhcCCCCccceEeecccCCccc
Q 000471         1083 SLKIRNCNSLVSFP---EVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKY 1143 (1472)
Q Consensus      1083 ~L~l~~~~~l~~~~---~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~ 1143 (1472)
                      +|+++.|+.+..-.   .......++.+...+|..++.-........++.+..+++..|..+++
T Consensus       220 ~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~le~l~~~~~~~~~i~~lnl~~c~~lTD  283 (483)
T KOG4341|consen  220 YLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELELEALLKAAAYCLEILKLNLQHCNQLTD  283 (483)
T ss_pred             HhhhccCchhhcCcchHHhccchhhhhhhhcccccccHHHHHHHhccChHhhccchhhhccccc
Confidence            88888887765521   12233445555555665444333333333444455555555555544

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.64  E-value=4.2e-07  Score=116.38  Aligned_cols=311  Identities=14%  Similarity=0.150  Sum_probs=177.8

Q ss_pred             eeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh-ccCcceEEEEecCCC---CHHHHHHH
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ-RHYEIKAWTCVSEDF---DVFRISKS  263 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~~---~~~~~~~~  263 (1472)
                      ++||+.+++.|...+...   ..+...++.|.|..|||||+++++|.....-+ +.|-...+-....+.   ...+.+++
T Consensus         2 l~GRe~ev~~Ll~~f~~v---~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~   78 (849)
T COG3899           2 LYGRETELAQLLAAFDRV---SKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRD   78 (849)
T ss_pred             CCchHhHHHHHHHHHHHH---hCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHH
Confidence            789999999999999765   34556799999999999999999998732111 122111111122221   12334444


Q ss_pred             HHHhhcCCCCC--------------------------------------C--cccHH-----HHHHHHHhhh-CCCeEEE
Q 000471          264 ILNSVASDQCK--------------------------------------D--KDDLN-----LLQEKLKKQL-SGNKFLL  297 (1472)
Q Consensus       264 i~~~l~~~~~~--------------------------------------~--~~~~~-----~~~~~l~~~l-~~k~~Ll  297 (1472)
                      ++.++......                                      +  ....+     ..+..+.... +.++.++
T Consensus        79 l~~~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi  158 (849)
T COG3899          79 LMGQLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVI  158 (849)
T ss_pred             HHHHHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEE
Confidence            44444221100                                      0  00000     1122223333 3569999


Q ss_pred             EEeCCCCCCHhhHHhhcccccCCC----CCcEEE--EEcCCh--HHHHhhCCCCceeCCCCChHhHHHHHHhhhcCCCCC
Q 000471          298 VLDDVWNENYIRWSELRCPFVAGA----AGSKIV--VTTRNL--VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDF  369 (1472)
Q Consensus       298 VlDdv~~~~~~~~~~l~~~l~~~~----~~s~ii--vTtR~~--~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~  369 (1472)
                      |+||+...+....+-+........    ....|.  .|.+..  .+.........+.+.||+..+...+.........  
T Consensus       159 ~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~~--  236 (849)
T COG3899         159 VLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCTK--  236 (849)
T ss_pred             EEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCcc--
Confidence            999996665444333322221111    111233  233322  2222223346799999999999999988763212  


Q ss_pred             CCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCC------CChhhHHHHHhhcccccCCCCcccchhhcccCCChhhHhH
Q 000471          370 TRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGR------DDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQC  443 (1472)
Q Consensus       370 ~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~------~~~~~w~~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~~  443 (1472)
                         ....+....|+++..|+|+.+.-+-..+...      .+...|..-..........+.+...+..-.+.||...|..
T Consensus       237 ---~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~~t~~V  313 (849)
T COG3899         237 ---LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPGTTREV  313 (849)
T ss_pred             ---cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCHHHHHH
Confidence               1225778999999999999999988887664      2333443322111100001134445788899999999999


Q ss_pred             hhhhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHhCCCcccc-----CCCCCc--E-EEehhHHH
Q 000471          444 FAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQS-----SKDASR--F-VMHDLIND  515 (1472)
Q Consensus       444 fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~-----~~~~~~--~-~mHdlv~~  515 (1472)
                      ....|++-  -.|+.+.|...|-.           ...+.+....+.|....++...     ......  | ..||.|++
T Consensus       314 l~~AA~iG--~~F~l~~La~l~~~-----------~~~~~a~~l~~al~e~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqq  380 (849)
T COG3899         314 LKAAACIG--NRFDLDTLAALAED-----------SPALEAAALLDALQEGLILPLSETYRFGSNVDIATYKFLHDRVQQ  380 (849)
T ss_pred             HHHHHHhC--ccCCHHHHHHHHhh-----------chHHHHHHHHHHhHhhceeccccccccccccchhhHHhhHHHHHH
Confidence            99999994  45666666665532           2245566666666655555422     111111  2 46888887


Q ss_pred             HHHH
Q 000471          516 LARW  519 (1472)
Q Consensus       516 ~a~~  519 (1472)
                      .|-.
T Consensus       381 aaY~  384 (849)
T COG3899         381 AAYN  384 (849)
T ss_pred             HHhc
Confidence            7653

>PRK06893 DNA replication initiation factor; Validated

Probab=98.62  E-value=5.7e-07  Score=97.59  Aligned_cols=156  Identities=19%  Similarity=0.177  Sum_probs=97.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      .+.+.|+|++|+|||+||+++++.  .......+.|+.+....   ...                      ..+.+.+. 
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~y~~~~~~~---~~~----------------------~~~~~~~~-   90 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNH--YLLNQRTAIYIPLSKSQ---YFS----------------------PAVLENLE-   90 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHcCCCeEEeeHHHhh---hhh----------------------HHHHhhcc-
Confidence            357899999999999999999984  22233345666653110   000                      01111121 


Q ss_pred             CeEEEEEeCCCCCC-HhhHHh-hcccccCC-CCCcEEE-EEcCC---------hHHHHhhCCCCceeCCCCChHhHHHHH
Q 000471          293 NKFLLVLDDVWNEN-YIRWSE-LRCPFVAG-AAGSKIV-VTTRN---------LVVAERMGADPVYQLKELSDDDCLCVL  359 (1472)
Q Consensus       293 k~~LlVlDdv~~~~-~~~~~~-l~~~l~~~-~~~s~ii-vTtR~---------~~v~~~~~~~~~~~l~~L~~~~~~~lf  359 (1472)
                      +.-+||+||+|... ...|+. +...+... ..|..+| +|++.         +++...+....+++++++++++.++++
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL  170 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVL  170 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHH
Confidence            23489999998742 234543 22222211 2355554 45544         466666666778999999999999999


Q ss_pred             HhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          360 TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       360 ~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      .+.++...- ..+   +++..-|++++.|..-++..+-..|
T Consensus       171 ~~~a~~~~l-~l~---~~v~~~L~~~~~~d~r~l~~~l~~l  207 (229)
T PRK06893        171 QRNAYQRGI-ELS---DEVANFLLKRLDRDMHTLFDALDLL  207 (229)
T ss_pred             HHHHHHcCC-CCC---HHHHHHHHHhccCCHHHHHHHHHHH
Confidence            998864331 111   5788899999998887766555444

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.59  E-value=2.8e-07  Score=101.00  Aligned_cols=172  Identities=24%  Similarity=0.281  Sum_probs=101.5

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      +.+++|-+..+.++++   .      +.+.-...||++|+||||||+.+..  .....|     ..++...+-.+-++++
T Consensus        29 Q~HLlg~~~~lrr~v~---~------~~l~SmIl~GPPG~GKTTlA~liA~--~~~~~f-----~~~sAv~~gvkdlr~i   92 (436)
T COG2256          29 QEHLLGEGKPLRRAVE---A------GHLHSMILWGPPGTGKTTLARLIAG--TTNAAF-----EALSAVTSGVKDLREI   92 (436)
T ss_pred             hHhhhCCCchHHHHHh---c------CCCceeEEECCCCCCHHHHHHHHHH--hhCCce-----EEeccccccHHHHHHH
Confidence            4456666555555443   2      2456677999999999999999987  333333     3333333222222222


Q ss_pred             HHhhcCCCCCCcccHHHHHHHH-HhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEE--EcCChHH---HHh
Q 000471          265 LNSVASDQCKDKDDLNLLQEKL-KKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV--TTRNLVV---AER  338 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~~l-~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv--TtR~~~v---~~~  338 (1472)
                                        .+.- +....+++.+|++|.|..-+..+-+.+.   |.-..|.-|+|  ||.++..   ...
T Consensus        93 ------------------~e~a~~~~~~gr~tiLflDEIHRfnK~QQD~lL---p~vE~G~iilIGATTENPsF~ln~AL  151 (436)
T COG2256          93 ------------------IEEARKNRLLGRRTILFLDEIHRFNKAQQDALL---PHVENGTIILIGATTENPSFELNPAL  151 (436)
T ss_pred             ------------------HHHHHHHHhcCCceEEEEehhhhcChhhhhhhh---hhhcCCeEEEEeccCCCCCeeecHHH
Confidence                              2222 2233489999999999765433333333   33346766666  6776632   122


Q ss_pred             hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCC--CccH-HHHHHHHHHHhCCChhHH
Q 000471          339 MGADPVYQLKELSDDDCLCVLTQISLGARDFTR--HLSL-KEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       339 ~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~--~~~~-~~~~~~i~~~~~glPLal  393 (1472)
                      .....++.+++|+.++-.+++.+.+......-.  ...+ ++....+++.++|--.++
T Consensus       152 lSR~~vf~lk~L~~~di~~~l~ra~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~R~a  209 (436)
T COG2256         152 LSRARVFELKPLSSEDIKKLLKRALLDEERGLGGQIIVLDEEALDYLVRLSNGDARRA  209 (436)
T ss_pred             hhhhheeeeecCCHHHHHHHHHHHHhhhhcCCCcccccCCHHHHHHHHHhcCchHHHH
Confidence            244578999999999999999884422111111  1111 346677888888876544

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.57  E-value=4.4e-08  Score=117.71  Aligned_cols=180  Identities=29%  Similarity=0.407  Sum_probs=133.8

Q ss_pred             hccCCcceEEEecCCCCCccCCcccCCCC-cCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCc
Q 000471          594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLK-HLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLH  672 (1472)
Q Consensus       594 ~~~l~~Lr~L~L~~~~~~~~lp~~i~~L~-~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~  672 (1472)
                      +..++.++.|++.++ .+.++|...+.+. +|++|++++|.+..+|..++.+++|+.|++++ +.+..+|...+.+++|+
T Consensus       112 ~~~~~~l~~L~l~~n-~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~-N~l~~l~~~~~~~~~L~  189 (394)
T COG4886         112 LLELTNLTSLDLDNN-NITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSF-NDLSDLPKLLSNLSNLN  189 (394)
T ss_pred             hhcccceeEEecCCc-ccccCccccccchhhcccccccccchhhhhhhhhccccccccccCC-chhhhhhhhhhhhhhhh
Confidence            345578999999999 9999998888885 99999999999999999999999999999999 57899998888999999


Q ss_pred             eeecCCCCCcccCCCcccccccccccCceEecCCCCcccccccCccccCCceEEecccCCCCccccchhccCCCCCCCeE
Q 000471          673 HLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEAL  752 (1472)
Q Consensus       673 ~L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L  752 (1472)
                      .|++++|. +..+|..++.+..|++|......     .+                                         
T Consensus       190 ~L~ls~N~-i~~l~~~~~~~~~L~~l~~~~N~-----~~-----------------------------------------  222 (394)
T COG4886         190 NLDLSGNK-ISDLPPEIELLSALEELDLSNNS-----II-----------------------------------------  222 (394)
T ss_pred             heeccCCc-cccCchhhhhhhhhhhhhhcCCc-----ce-----------------------------------------
Confidence            99999998 88999877677777776321110     00                                         


Q ss_pred             EEEecCCcccCccchhHHHHHhccCCCCCCCCeEEEEeeCCCCCCcccCCCCcccccEEEEcCCCCCCCCCCCCCCCccc
Q 000471          753 LLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKE  832 (1472)
Q Consensus       753 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~l~~l~~l~~L~~  832 (1472)
                                         ..+..+..+.++..+.+.++.+..+|.++..  +.+++.|++++|.+..++.++.+.+|+.
T Consensus       223 -------------------~~~~~~~~~~~l~~l~l~~n~~~~~~~~~~~--l~~l~~L~~s~n~i~~i~~~~~~~~l~~  281 (394)
T COG4886         223 -------------------ELLSSLSNLKNLSGLELSNNKLEDLPESIGN--LSNLETLDLSNNQISSISSLGSLTNLRE  281 (394)
T ss_pred             -------------------ecchhhhhcccccccccCCceeeeccchhcc--ccccceeccccccccccccccccCccCE
Confidence                               0111222233444444555555555555543  6668888888888876776778888888


Q ss_pred             eeecCCCCceE
Q 000471          833 LRISGMDGVKS  843 (1472)
Q Consensus       833 L~L~~~~~l~~  843 (1472)
                      |+++++.....
T Consensus       282 L~~s~n~~~~~  292 (394)
T COG4886         282 LDLSGNSLSNA  292 (394)
T ss_pred             EeccCcccccc
Confidence            88877654433

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.56  E-value=3e-09  Score=119.87  Aligned_cols=174  Identities=24%  Similarity=0.317  Sum_probs=131.2

Q ss_pred             HhccCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCc
Q 000471          593 LLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLH  672 (1472)
Q Consensus       593 ~~~~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~  672 (1472)
                      .+..|-.|..|.|+.| .+..+|..+++|..|.||||+.|++..+|..++.|+ |+.|-+++ +++..+|..|+.+..|.
T Consensus        93 ~~~~f~~Le~liLy~n-~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sN-Nkl~~lp~~ig~~~tl~  169 (722)
T KOG0532|consen   93 EACAFVSLESLILYHN-CIRTIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSN-NKLTSLPEEIGLLPTLA  169 (722)
T ss_pred             HHHHHHHHHHHHHHhc-cceecchhhhhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEec-CccccCCcccccchhHH
Confidence            3455566888889988 899999999999999999999999999999998774 89999998 67899999999999999


Q ss_pred             eeecCCCCCcccCCCcccccccccccCceEecCCCCcccccccCccccCCceEEecccCCCCccccchhccCCCCCCCeE
Q 000471          673 HLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEAL  752 (1472)
Q Consensus       673 ~L~l~~~~~~~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L  752 (1472)
                      +|+.+.|. +..+|..++.|++|+.|.....                                                 
T Consensus       170 ~ld~s~ne-i~slpsql~~l~slr~l~vrRn-------------------------------------------------  199 (722)
T KOG0532|consen  170 HLDVSKNE-IQSLPSQLGYLTSLRDLNVRRN-------------------------------------------------  199 (722)
T ss_pred             Hhhhhhhh-hhhchHHhhhHHHHHHHHHhhh-------------------------------------------------
Confidence            99999998 8889988999888887731100                                                 


Q ss_pred             EEEecCCcccCccchhHHHHHhccCCCCCCCCeEEEEeeCCCCCCcccCCCCcccccEEEEcCCCCCCCCC----CCCCC
Q 000471          753 LLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPS----VGQLP  828 (1472)
Q Consensus       753 ~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~l~~----l~~l~  828 (1472)
                                     .. ...++.+. .-.|..|++++|++..+|..+..  +..|++|.|.+|.++..|.    -|...
T Consensus       200 ---------------~l-~~lp~El~-~LpLi~lDfScNkis~iPv~fr~--m~~Lq~l~LenNPLqSPPAqIC~kGkVH  260 (722)
T KOG0532|consen  200 ---------------HL-EDLPEELC-SLPLIRLDFSCNKISYLPVDFRK--MRHLQVLQLENNPLQSPPAQICEKGKVH  260 (722)
T ss_pred             ---------------hh-hhCCHHHh-CCceeeeecccCceeecchhhhh--hhhheeeeeccCCCCCChHHHHhcccee
Confidence                           00 01122222 12366778888888888877653  7788888888888766653    24455


Q ss_pred             CccceeecCC
Q 000471          829 FLKELRISGM  838 (1472)
Q Consensus       829 ~L~~L~L~~~  838 (1472)
                      --++|+..-|
T Consensus       261 IFKyL~~qA~  270 (722)
T KOG0532|consen  261 IFKYLSTQAC  270 (722)
T ss_pred             eeeeecchhc
Confidence            5566666554

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.55  E-value=2.5e-07  Score=104.56  Aligned_cols=160  Identities=26%  Similarity=0.467  Sum_probs=95.0

Q ss_pred             CCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCCCCCCCccee
Q 000471         1262 HNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSL 1341 (1472)
Q Consensus      1262 ~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L 1341 (1472)
                      ..+.+++.|++++| .+..+|.   -.++|++|.+++|..+..+|..+.  ++|++|++++|..+..+|     ++|+.|
T Consensus        49 ~~~~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~LP--~nLe~L~Ls~Cs~L~sLP-----~sLe~L  117 (426)
T PRK15386         49 EEARASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGSIP--EGLEKLTVCHCPEISGLP-----ESVRSL  117 (426)
T ss_pred             HHhcCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCchhh--hhhhheEccCcccccccc-----cccceE
Confidence            34567778888877 5666662   123688888888777777776553  478888888876665444     467777


Q ss_pred             EeccccCC--CCCCccccccccccceeeeccCCCC-CCCCC-CCCccccceeccCCCCcCcccccCCCCCcCceeeccCC
Q 000471         1342 EVRGLKIS--KPLPEWGFNRFTSLRRFTICGGCPD-LVSPP-PFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNC 1417 (1472)
Q Consensus      1342 ~l~~n~~~--~~~~~~~l~~l~~L~~L~Ls~n~~~-~~~~~-~~~~~L~~L~l~~~~~l~~i~~~~~~l~~L~~L~l~~~ 1417 (1472)
                      +++++...  +.+|       ++|+.|.+.+++.. ....+ .+|.+|++|++++|..+. +|..+.  .+|++|+++.|
T Consensus       118 ~L~~n~~~~L~~LP-------ssLk~L~I~~~n~~~~~~lp~~LPsSLk~L~Is~c~~i~-LP~~LP--~SLk~L~ls~n  187 (426)
T PRK15386        118 EIKGSATDSIKNVP-------NGLTSLSINSYNPENQARIDNLISPSLKTLSLTGCSNII-LPEKLP--ESLQSITLHIE  187 (426)
T ss_pred             EeCCCCCcccccCc-------chHhheeccccccccccccccccCCcccEEEecCCCccc-Cccccc--ccCcEEEeccc
Confidence            77655432  2222       24666666443211 12222 366788888888876442 332222  57888887754


Q ss_pred             CCC-CCCCCCCCccccceecccCCcch
Q 000471         1418 PKL-KYFPEQGLPKSLSRLSIHNCPLI 1443 (1472)
Q Consensus      1418 ~~l-~~lp~~~~~~sL~~L~l~~c~~l 1443 (1472)
                      ... -.++...+++++ .|++.+|-.+
T Consensus       188 ~~~sLeI~~~sLP~nl-~L~f~n~lkL  213 (426)
T PRK15386        188 QKTTWNISFEGFPDGL-DIDLQNSVLL  213 (426)
T ss_pred             ccccccCccccccccc-Eechhhhccc
Confidence            311 123333456677 7777777543

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.54  E-value=1.6e-08  Score=104.55  Aligned_cols=132  Identities=20%  Similarity=0.198  Sum_probs=89.2

Q ss_pred             cCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCC-CCCCCcc
Q 000471         1261 LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED-GFPTNLQ 1339 (1472)
Q Consensus      1261 l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~-~~~~~L~ 1339 (1472)
                      +.....|++|+||+| .++.+.++..-.|.++.|++|+|.+...  ..++.+++|+.|+|++| .++.+..+ ..+-|.+
T Consensus       280 ~dTWq~LtelDLS~N-~I~~iDESvKL~Pkir~L~lS~N~i~~v--~nLa~L~~L~~LDLS~N-~Ls~~~Gwh~KLGNIK  355 (490)
T KOG1259|consen  280 ADTWQELTELDLSGN-LITQIDESVKLAPKLRRLILSQNRIRTV--QNLAELPQLQLLDLSGN-LLAECVGWHLKLGNIK  355 (490)
T ss_pred             cchHhhhhhcccccc-chhhhhhhhhhccceeEEeccccceeee--hhhhhcccceEeecccc-hhHhhhhhHhhhcCEe
Confidence            444567888888884 4556666666667888888888765543  34778888888888888 45555444 5677888


Q ss_pred             eeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCCCCccccceeccCCCCcCcccccCCCCCcCceeeccCCCC
Q 000471         1340 SLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPK 1419 (1472)
Q Consensus      1340 ~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~~~~~L~~L~l~~~~~l~~i~~~~~~l~~L~~L~l~~~~~ 1419 (1472)
                      .|.+++|.+....   +++.+.+|..||+++|++..                    +..+. .+.++|.|++|.+.+||.
T Consensus       356 tL~La~N~iE~LS---GL~KLYSLvnLDl~~N~Ie~--------------------ldeV~-~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  356 TLKLAQNKIETLS---GLRKLYSLVNLDLSSNQIEE--------------------LDEVN-HIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             eeehhhhhHhhhh---hhHhhhhheeccccccchhh--------------------HHHhc-ccccccHHHHHhhcCCCc
Confidence            8888888764322   56677777777776654421                    12222 447888999999998874


Q ss_pred             C
Q 000471         1420 L 1420 (1472)
Q Consensus      1420 l 1420 (1472)
                      -
T Consensus       412 ~  412 (490)
T KOG1259|consen  412 A  412 (490)
T ss_pred             c
Confidence            3

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.54  E-value=1.4e-08  Score=111.13  Aligned_cols=156  Identities=15%  Similarity=0.135  Sum_probs=94.6

Q ss_pred             cCCCCCccEEeeccCCCccccCCC-CCCCCCccEEecccccccc-cccccCCCCCcccEeeecCCCCCccCCC-CCCCCC
Q 000471         1261 LHNLHHLQKIWINYCPNLESFPEE-GLPSTKLTELTIYDCENLK-ALPNCMHNLTSLLILEIRGCPSVVSFPE-DGFPTN 1337 (1472)
Q Consensus      1261 l~~l~~L~~L~Ls~~~~l~~l~~~-~~~l~~L~~L~Ls~c~~l~-~lp~~l~~l~~L~~L~L~~n~~l~~~p~-~~~~~~ 1337 (1472)
                      ...+|+|+.|+|+.|....-.... -..++.|+.|.|+.|.... .+-.....+|+|+.|.+.+|..+..... ...+..
T Consensus       168 ~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~  247 (505)
T KOG3207|consen  168 AEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQT  247 (505)
T ss_pred             HHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhH
Confidence            345677777777775433221111 1234677788888877652 2334456778888888888853332222 256778


Q ss_pred             cceeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCC--------CCccccceeccCCCC--cCcccccCCCCC
Q 000471         1338 LQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP--------FPASLTNLWISDMPD--LESISSIGENLT 1407 (1472)
Q Consensus      1338 L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~--------~~~~L~~L~l~~~~~--l~~i~~~~~~l~ 1407 (1472)
                      |++|||++|++...--....+.++.|+.|+++.+.+.....++        .+++|++|++..|+.  ..++. .+..++
T Consensus       248 L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~-~l~~l~  326 (505)
T KOG3207|consen  248 LQELDLSNNNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLN-HLRTLE  326 (505)
T ss_pred             HhhccccCCcccccccccccccccchhhhhccccCcchhcCCCccchhhhcccccceeeecccCccccccccc-hhhccc
Confidence            8888888888765442224677888888888776655444443        256777888877743  22222 235666


Q ss_pred             cCceeeccCC
Q 000471         1408 SLETLRLFNC 1417 (1472)
Q Consensus      1408 ~L~~L~l~~~ 1417 (1472)
                      +|+.|.+-.|
T Consensus       327 nlk~l~~~~n  336 (505)
T KOG3207|consen  327 NLKHLRITLN  336 (505)
T ss_pred             hhhhhhcccc
Confidence            7777766544

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.54  E-value=1.5e-08  Score=111.04  Aligned_cols=198  Identities=13%  Similarity=0.039  Sum_probs=107.5

Q ss_pred             CCcchhhhccccccccCc-cccCCCCCccEEeeccCCCcc--ccCCCCCCCCCccEEecccccccccccccC-CCCCccc
Q 000471         1241 TSLEEITISVLENLKSLP-ADLHNLHHLQKIWINYCPNLE--SFPEEGLPSTKLTELTIYDCENLKALPNCM-HNLTSLL 1316 (1472)
Q Consensus      1241 ~~L~~L~l~~~~~~~~~~-~~l~~l~~L~~L~Ls~~~~l~--~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l-~~l~~L~ 1316 (1472)
                      ..|+++.+.++....... .....|++++.|+||+|-+..  .+.....++++|+.|+|+.|....-..... ..+++|+
T Consensus       121 kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK  200 (505)
T KOG3207|consen  121 KKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLK  200 (505)
T ss_pred             HhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhh
Confidence            455666665544322111 245567777888887753322  222334556777777777765432221111 3566777


Q ss_pred             EeeecCCCCCccCCCC---CCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCC-----CCccccce
Q 000471         1317 ILEIRGCPSVVSFPED---GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP-----FPASLTNL 1388 (1472)
Q Consensus      1317 ~L~L~~n~~l~~~p~~---~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~-----~~~~L~~L 1388 (1472)
                      .|.|++|... .-...   ...|+|+.|++.+|........ ....+..|++|+|++|.+.  +++.     .++.|..|
T Consensus       201 ~L~l~~CGls-~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~-~~~i~~~L~~LdLs~N~li--~~~~~~~~~~l~~L~~L  276 (505)
T KOG3207|consen  201 QLVLNSCGLS-WKDVQWILLTFPSLEVLYLEANEIILIKAT-STKILQTLQELDLSNNNLI--DFDQGYKVGTLPGLNQL  276 (505)
T ss_pred             eEEeccCCCC-HHHHHHHHHhCCcHHHhhhhcccccceecc-hhhhhhHHhhccccCCccc--ccccccccccccchhhh
Confidence            7777777432 11110   3457777777777753332222 3455667777777775442  2222     24566666


Q ss_pred             eccCCCCcCcc--ccc-----CCCCCcCceeeccCCCC--CCCCCCCCCccccceecccCCcch
Q 000471         1389 WISDMPDLESI--SSI-----GENLTSLETLRLFNCPK--LKYFPEQGLPKSLSRLSIHNCPLI 1443 (1472)
Q Consensus      1389 ~l~~~~~l~~i--~~~-----~~~l~~L~~L~l~~~~~--l~~lp~~~~~~sL~~L~l~~c~~l 1443 (1472)
                      .++.| .+.++  |+.     ...+++|++|++..|+.  -..+.+....++|+.|.+..|+.-
T Consensus       277 nls~t-gi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~ln  339 (505)
T KOG3207|consen  277 NLSST-GIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNYLN  339 (505)
T ss_pred             hcccc-CcchhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhccccccc
Confidence            66666 33332  222     14677777777777754  333333345667777777666653

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.51  E-value=1e-06  Score=104.95  Aligned_cols=177  Identities=19%  Similarity=0.203  Sum_probs=104.8

Q ss_pred             ceeechhHHHH---HHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          187 KVYGREKEKEE---IIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       187 ~~vGr~~~~~~---l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      ++||++..+..   +.+++...      ....+.++|++|+||||+|+.+++.  ....     |+.++.......-+++
T Consensus        13 d~vGq~~~v~~~~~L~~~i~~~------~~~~ilL~GppGtGKTtLA~~ia~~--~~~~-----~~~l~a~~~~~~~ir~   79 (413)
T PRK13342         13 EVVGQEHLLGPGKPLRRMIEAG------RLSSMILWGPPGTGKTTLARIIAGA--TDAP-----FEALSAVTSGVKDLRE   79 (413)
T ss_pred             HhcCcHHHhCcchHHHHHHHcC------CCceEEEECCCCCCHHHHHHHHHHH--hCCC-----EEEEecccccHHHHHH
Confidence            58888877665   77777443      3456788999999999999999873  2222     2222222111111111


Q ss_pred             HHHhhcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEE--EcCChHHH---H
Q 000471          264 ILNSVASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV--TTRNLVVA---E  337 (1472)
Q Consensus       264 i~~~l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv--TtR~~~v~---~  337 (1472)
                      +                  .+..... ..+++.+|++|+++.......+.+...+.   .|..++|  ||.+....   .
T Consensus        80 i------------------i~~~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~a  138 (413)
T PRK13342         80 V------------------IEEARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPA  138 (413)
T ss_pred             H------------------HHHHHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHH
Confidence            2                  1122111 24578899999998876555555555443   2444444  34443211   1


Q ss_pred             hhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHh
Q 000471          338 RMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGG  398 (1472)
Q Consensus       338 ~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~  398 (1472)
                      ......++.+.+++.++.++++.+.+....... ..--.+..+.|++.|+|.+..+..+..
T Consensus       139 L~SR~~~~~~~~ls~e~i~~lL~~~l~~~~~~~-i~i~~~al~~l~~~s~Gd~R~aln~Le  198 (413)
T PRK13342        139 LLSRAQVFELKPLSEEDIEQLLKRALEDKERGL-VELDDEALDALARLANGDARRALNLLE  198 (413)
T ss_pred             HhccceeeEeCCCCHHHHHHHHHHHHHHhhcCC-CCCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence            112236789999999999999988653211100 011246678899999999977654443

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.47  E-value=4.6e-06  Score=97.43  Aligned_cols=194  Identities=16%  Similarity=0.143  Sum_probs=111.3

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|.+..++.+...+..+.     -...+.++|+.|+||||+|+.+++.......+.       ...+..-...+++.
T Consensus        16 ~~iiGq~~~~~~l~~~~~~~~-----~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~~-------~~pc~~c~~c~~~~   83 (363)
T PRK14961         16 RDIIGQKHIVTAISNGLSLGR-----IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGIT-------SNPCRKCIICKEIE   83 (363)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCCCHHHHHHh
Confidence            358999999999999886532     245678999999999999999986422111100       00000000111111


Q ss_pred             Hhhc-------CCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHH
Q 000471          266 NSVA-------SDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVA  336 (1472)
Q Consensus       266 ~~l~-------~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~  336 (1472)
                      ....       .......++..++.+.+... ..+++-++|+|+++......++.+...+.......++|++|.+. .+.
T Consensus        84 ~~~~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~  163 (363)
T PRK14961         84 KGLCLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIP  163 (363)
T ss_pred             cCCCCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhh
Confidence            1000       00000111122222222111 12456699999998876656777766666555566777766543 333


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      ... +....+++.+++.++..+.+...+...+...    -.+.++.|++.++|.|..+..
T Consensus       164 ~tI~SRc~~~~~~~l~~~el~~~L~~~~~~~g~~i----~~~al~~ia~~s~G~~R~al~  219 (363)
T PRK14961        164 KTILSRCLQFKLKIISEEKIFNFLKYILIKESIDT----DEYALKLIAYHAHGSMRDALN  219 (363)
T ss_pred             HHHHhhceEEeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHH
Confidence            222 2235789999999999988887653322111    146678899999998864433

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.47  E-value=2e-06  Score=94.23  Aligned_cols=171  Identities=18%  Similarity=0.164  Sum_probs=101.3

Q ss_pred             chhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcC
Q 000471          191 REKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       191 r~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  270 (1472)
                      .+..++.+.+++..      ...+.+.|+|++|+|||++|+.+++..  .......++++++.-.+..   ..       
T Consensus        22 ~~~~~~~l~~~~~~------~~~~~lll~G~~G~GKT~la~~~~~~~--~~~~~~~~~i~~~~~~~~~---~~-------   83 (226)
T TIGR03420        22 NAELLAALRQLAAG------KGDRFLYLWGESGSGKSHLLQAACAAA--EERGKSAIYLPLAELAQAD---PE-------   83 (226)
T ss_pred             cHHHHHHHHHHHhc------CCCCeEEEECCCCCCHHHHHHHHHHHH--HhcCCcEEEEeHHHHHHhH---HH-------
Confidence            44566777776532      234678999999999999999998742  2233345566543321100   00       


Q ss_pred             CCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHh-hH-HhhcccccC-CCCCcEEEEEcCChH---------HHHh
Q 000471          271 DQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYI-RW-SELRCPFVA-GAAGSKIVVTTRNLV---------VAER  338 (1472)
Q Consensus       271 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~-~~-~~l~~~l~~-~~~~s~iivTtR~~~---------v~~~  338 (1472)
                                     +...+.+ .-+||+||++..... .| +.+...+.. ...+.++|+||+...         +...
T Consensus        84 ---------------~~~~~~~-~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r  147 (226)
T TIGR03420        84 ---------------VLEGLEQ-ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTR  147 (226)
T ss_pred             ---------------HHhhccc-CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHH
Confidence                           1111222 238999999765322 22 233332221 123457889887532         2223


Q ss_pred             hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhh
Q 000471          339 MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGL  399 (1472)
Q Consensus       339 ~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~  399 (1472)
                      +.....+++.++++++...++...+....- ..   -.+..+.+++.++|.|..+.-+...
T Consensus       148 ~~~~~~i~l~~l~~~e~~~~l~~~~~~~~~-~~---~~~~l~~L~~~~~gn~r~L~~~l~~  204 (226)
T TIGR03420       148 LAWGLVFQLPPLSDEEKIAALQSRAARRGL-QL---PDEVADYLLRHGSRDMGSLMALLDA  204 (226)
T ss_pred             HhcCeeEecCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHhccCCHHHHHHHHHH
Confidence            333457899999999999998876532211 11   1466788888999999887766543

Members of this protein family are Hda (Homologous to DnaA). These proteins are about half the length of DnaA and homologous over length of Hda. In the model species Escherichia coli, the initiation of DNA replication requires DnaA bound to ATP rather than ADP; Hda helps facilitate the conversion of DnaA-ATP to DnaA-ADP.

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.45  E-value=4.6e-06  Score=95.69  Aligned_cols=179  Identities=16%  Similarity=0.203  Sum_probs=116.7

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCc----chhccCcceEEEEe-cCCCCHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDD----RVQRHYEIKAWTCV-SEDFDVFRIS  261 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~----~~~~~f~~~~wv~~-~~~~~~~~~~  261 (1472)
                      +++|-+..++.+..++..+.     -.....++|+.|+||||+|+.++...    ....|.|...|... +....+.+ .
T Consensus         5 ~i~g~~~~~~~l~~~~~~~~-----~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-i   78 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIKNR-----FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-I   78 (313)
T ss_pred             hccCcHHHHHHHHHHHHcCC-----CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-H
Confidence            57899999999999986542     24577899999999999999998631    12345555555432 22222222 2


Q ss_pred             HHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHH-Hh-h
Q 000471          262 KSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVA-ER-M  339 (1472)
Q Consensus       262 ~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~-~~-~  339 (1472)
                      +++.+.+...                 -..+++-++|+|+++......+..+...+.....++.+|++|.+.+.. .. .
T Consensus        79 r~~~~~~~~~-----------------p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~  141 (313)
T PRK05564         79 RNIIEEVNKK-----------------PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIK  141 (313)
T ss_pred             HHHHHHHhcC-----------------cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHH
Confidence            2222222211                 123566678888887776677888888887777788999888765422 11 1


Q ss_pred             CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          340 GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       340 ~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      ....++.+.++++++....+.+...+ .   .    .+.++.++..++|.|..+...
T Consensus       142 SRc~~~~~~~~~~~~~~~~l~~~~~~-~---~----~~~~~~l~~~~~g~~~~a~~~  190 (313)
T PRK05564        142 SRCQIYKLNRLSKEEIEKFISYKYND-I---K----EEEKKSAIAFSDGIPGKVEKF  190 (313)
T ss_pred             hhceeeeCCCcCHHHHHHHHHHHhcC-C---C----HHHHHHHHHHcCCCHHHHHHH
Confidence            22357899999999998877654311 1   1    344778899999998755433

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.44  E-value=4.1e-06  Score=100.05  Aligned_cols=194  Identities=16%  Similarity=0.131  Sum_probs=113.1

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||.+..++.|..++..+.     -...+.++|+.|+||||+|+.+++.....      -|+.. ..+..-..-+.+.
T Consensus        15 ddVIGQe~vv~~L~~aI~~gr-----l~HAyLF~GPpGvGKTTlAriLAK~LnC~------~~~~~-~pCg~C~sC~~I~   82 (702)
T PRK14960         15 NELVGQNHVSRALSSALERGR-----LHHAYLFTGTRGVGKTTIARILAKCLNCE------TGVTS-TPCEVCATCKAVN   82 (702)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCC------cCCCC-CCCccCHHHHHHh
Confidence            369999999999999996542     24677899999999999999987632111      01110 0001101111111


Q ss_pred             HhhcC-----CCCCCcccHHHHHHHHHh----hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-H
Q 000471          266 NSVAS-----DQCKDKDDLNLLQEKLKK----QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-V  335 (1472)
Q Consensus       266 ~~l~~-----~~~~~~~~~~~~~~~l~~----~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v  335 (1472)
                      ..-..     ... .....+.+.+.+..    -..+++-++|+|++..........+...+.....+.++|++|.+.. +
T Consensus        83 ~g~hpDviEIDAA-s~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kI  161 (702)
T PRK14960         83 EGRFIDLIEIDAA-SRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKL  161 (702)
T ss_pred             cCCCCceEEeccc-ccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhh
Confidence            00000     000 01122222222211    1235667999999988766666666666655445667887776542 2


Q ss_pred             HHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          336 AER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       336 ~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      ... ......+++++++.++..+.+.+.+...+-...    .+....|++.++|.+..+..+
T Consensus       162 p~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI~id----~eAL~~IA~~S~GdLRdALnL  219 (702)
T PRK14960        162 PITVISRCLQFTLRPLAVDEITKHLGAILEKEQIAAD----QDAIWQIAESAQGSLRDALSL  219 (702)
T ss_pred             hHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            211 233367899999999999888877643221111    466788999999987554433

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.44  E-value=4.1e-06  Score=101.11  Aligned_cols=196  Identities=15%  Similarity=0.152  Sum_probs=114.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||.+..++.|..++..+.     -...+.++|..|+||||+|+.+.+.......+.       +..+..-...+.|.
T Consensus        16 dEVIGQe~Vv~~L~~aL~~gR-----L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~-------~~PCG~C~sCr~I~   83 (830)
T PRK07003         16 ASLVGQEHVVRALTHALDGGR-----LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVT-------SQPCGVCRACREID   83 (830)
T ss_pred             HHHcCcHHHHHHHHHHHhcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCC-------CCCCcccHHHHHHh
Confidence            369999999999999986542     245667999999999999998876321111110       00011111111111


Q ss_pred             Hh-----hcCCCCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-H
Q 000471          266 NS-----VASDQCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-V  335 (1472)
Q Consensus       266 ~~-----l~~~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v  335 (1472)
                      ..     +..+.. .....+++.+.+...    ..++.-++|||+++......|..+...+.......++|+||++.. +
T Consensus        84 ~G~h~DviEIDAa-s~rgVDdIReLIe~a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KI  162 (830)
T PRK07003         84 EGRFVDYVEMDAA-SNRGVDEMAALLERAVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKI  162 (830)
T ss_pred             cCCCceEEEeccc-ccccHHHHHHHHHHHHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhc
Confidence            10     000000 111222222222221    134556899999988877778887776665556778888777653 2


Q ss_pred             HHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh-HHHHHHh
Q 000471          336 AERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKTLGG  398 (1472)
Q Consensus       336 ~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL-al~~~~~  398 (1472)
                      ...+ .....+.++.++.++..+.+.+.+....- ..   -.+..+.|++.++|..- |+..+-.
T Consensus       163 p~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI-~i---d~eAL~lIA~~A~GsmRdALsLLdQ  223 (830)
T PRK07003        163 PVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI-AF---EPQALRLLARAAQGSMRDALSLTDQ  223 (830)
T ss_pred             cchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            2111 22357899999999999998887633221 11   14677889999998664 5554333

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.43  E-value=3.3e-06  Score=99.13  Aligned_cols=197  Identities=16%  Similarity=0.130  Sum_probs=108.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCc-ceEEEEecCCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYE-IKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      .+++|++..++.+..++..+      ..+.+.++|++|+||||+|+.+++... ...+. ..+.+++++-.+.  ....+
T Consensus        15 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~GtGKT~la~~~~~~l~-~~~~~~~~~~i~~~~~~~~--~~~~~   85 (337)
T PRK12402         15 EDILGQDEVVERLSRAVDSP------NLPHLLVQGPPGSGKTAAVRALARELY-GDPWENNFTEFNVADFFDQ--GKKYL   85 (337)
T ss_pred             HHhcCCHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHHHhc-CcccccceEEechhhhhhc--chhhh
Confidence            46899999999999988543      234678999999999999999987321 11122 1234443321100  00000


Q ss_pred             H------HhhcCCCCCCcccHHHHHHHHHh---hh--CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh
Q 000471          265 L------NSVASDQCKDKDDLNLLQEKLKK---QL--SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       265 ~------~~l~~~~~~~~~~~~~~~~~l~~---~l--~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~  333 (1472)
                      .      ..+...........+.....++.   ..  .+.+-+||+||+..........+...+......+++|+||...
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~  165 (337)
T PRK12402         86 VEDPRFAHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQP  165 (337)
T ss_pred             hcCcchhhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCCh
Confidence            0      00000000000111222222221   11  2345589999997665444444554443334457788877543


Q ss_pred             H-HHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          334 V-VAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       334 ~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      . +.... .....+++.+++.++...++.+.+....- ..   -.+.++.+++.++|.+-.+..
T Consensus       166 ~~~~~~L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~~-~~---~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        166 SKLIPPIRSRCLPLFFRAPTDDELVDVLESIAEAEGV-DY---DDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             hhCchhhcCCceEEEecCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHHH
Confidence            2 22222 22346788999999998888887643221 11   156788899999988765543

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=5.1e-06  Score=102.48  Aligned_cols=195  Identities=17%  Similarity=0.166  Sum_probs=114.2

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||.+..++.|.+++..+.     -...+.++|+.|+||||+|+.+++...........       .+..-..-..+.
T Consensus        16 ddIIGQe~Iv~~LknaI~~~r-----l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~-------pCg~C~sC~~i~   83 (944)
T PRK14949         16 EQMVGQSHVLHALTNALTQQR-----LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTAT-------PCGVCSSCVEIA   83 (944)
T ss_pred             HHhcCcHHHHHHHHHHHHhCC-----CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCC-------CCCCchHHHHHh
Confidence            369999999999999986542     23456899999999999999998743211110000       000000000010


Q ss_pred             Hh-------hcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHH
Q 000471          266 NS-------VASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVA  336 (1472)
Q Consensus       266 ~~-------l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~  336 (1472)
                      ..       +........+++.++.+.+.. ...+++-++|||++.......+..+...+.......++|++|.+. .+.
T Consensus        84 ~g~~~DviEidAas~~kVDdIReLie~v~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl  163 (944)
T PRK14949         84 QGRFVDLIEVDAASRTKVDDTRELLDNVQYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (944)
T ss_pred             cCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhch
Confidence            00       000000011222333322221 124677899999998887677777777665544566776665543 333


Q ss_pred             Hh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          337 ER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       337 ~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      .. ......|++++++.++..+.+.+.+-... ..   .-.+.+..|++.++|.|.-+..+
T Consensus       164 ~TIlSRCq~f~fkpLs~eEI~~~L~~il~~Eg-I~---~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        164 VTVLSRCLQFNLKSLTQDEIGTQLNHILTQEQ-LP---FEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             HHHHHhheEEeCCCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            22 12236799999999999998887653221 11   11467888999999988654444

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.41  E-value=1.5e-06  Score=104.39  Aligned_cols=198  Identities=17%  Similarity=0.155  Sum_probs=114.7

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|-+..++.|..++....     -...+.++|++|+||||+|+.+++.....+.+...+|.+.+... +.......+
T Consensus        14 ~dvvGq~~v~~~L~~~i~~~~-----l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~dv   87 (504)
T PRK14963         14 DEVVGQEHVKEVLLAALRQGR-----LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPDV   87 (504)
T ss_pred             HHhcChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCce
Confidence            358999999999999886542     24567899999999999999998743222222223333221100 000000000


Q ss_pred             HhhcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHHHHhh-CCC
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVVAERM-GAD  342 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v~~~~-~~~  342 (1472)
                      ..+........+.+.++.+.+.. -..+++-++|+|+++......+..+...+........+|++|.. ..+.... ...
T Consensus        88 ~el~~~~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~SRc  167 (504)
T PRK14963         88 LEIDAASNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILSRT  167 (504)
T ss_pred             EEecccccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhcce
Confidence            00011001011222222222222 12356679999999877666677777766655455566665543 3332222 223


Q ss_pred             CceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          343 PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       343 ~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      ..+++.+++.++..+.+.+.+...+-..    -.+.+..|++.++|.+--+
T Consensus       168 ~~~~f~~ls~~el~~~L~~i~~~egi~i----~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        168 QHFRFRRLTEEEIAGKLRRLLEAEGREA----EPEALQLVARLADGAMRDA  214 (504)
T ss_pred             EEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHH
Confidence            5789999999999999988764332111    1467888999999988644

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.41  E-value=5.1e-08  Score=100.87  Aligned_cols=127  Identities=17%  Similarity=0.197  Sum_probs=96.0

Q ss_pred             CCCCCcccEeeecCCCCCccCCCC-CCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCC-CCcccc
Q 000471         1309 MHNLTSLLILEIRGCPSVVSFPED-GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP-FPASLT 1386 (1472)
Q Consensus      1309 l~~l~~L~~L~L~~n~~l~~~p~~-~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~-~~~~L~ 1386 (1472)
                      +....-|++|+|++| .++.+... ...|.++.|++++|.+...-   .++.+++|++||||+|......-.. -+.+.+
T Consensus       280 ~dTWq~LtelDLS~N-~I~~iDESvKL~Pkir~L~lS~N~i~~v~---nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIK  355 (490)
T KOG1259|consen  280 ADTWQELTELDLSGN-LITQIDESVKLAPKLRRLILSQNRIRTVQ---NLAELPQLQLLDLSGNLLAECVGWHLKLGNIK  355 (490)
T ss_pred             cchHhhhhhcccccc-chhhhhhhhhhccceeEEeccccceeeeh---hhhhcccceEeecccchhHhhhhhHhhhcCEe
Confidence            344567889999998 56777666 67789999999999886543   4788999999999987543222221 367889


Q ss_pred             ceeccCCCCcCcccccCCCCCcCceeeccCCCCCCCC---CCCCCccccceecccCCcc
Q 000471         1387 NLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYF---PEQGLPKSLSRLSIHNCPL 1442 (1472)
Q Consensus      1387 ~L~l~~~~~l~~i~~~~~~l~~L~~L~l~~~~~l~~l---p~~~~~~sL~~L~l~~c~~ 1442 (1472)
                      +|.|+.| .++++. ++..+.+|..||+++|+ +..+   ...+.++.|+++.+.+||.
T Consensus       356 tL~La~N-~iE~LS-GL~KLYSLvnLDl~~N~-Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  356 TLKLAQN-KIETLS-GLRKLYSLVNLDLSSNQ-IEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             eeehhhh-hHhhhh-hhHhhhhheeccccccc-hhhHHHhcccccccHHHHHhhcCCCc
Confidence            9999998 566665 55889999999999985 3333   3336788999999999996

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.40  E-value=5.9e-07  Score=88.80  Aligned_cols=117  Identities=18%  Similarity=0.165  Sum_probs=80.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchh---ccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQ---RHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQ  289 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~  289 (1472)
                      .+++.|+|.+|+|||++++.+.++....   ..-..++|+.+....+...+...++.+++..... ..+.+.+.+.+.+.
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~l~~~~~~~   82 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKS-RQTSDELRSLLIDA   82 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSS-TS-HHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccc-cCCHHHHHHHHHHH
Confidence            4689999999999999999998742111   0134567999988889999999999999987652 34566666777777


Q ss_pred             hCCC-eEEEEEeCCCCC-CHhhHHhhcccccCCCCCcEEEEEcCC
Q 000471          290 LSGN-KFLLVLDDVWNE-NYIRWSELRCPFVAGAAGSKIVVTTRN  332 (1472)
Q Consensus       290 l~~k-~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtR~  332 (1472)
                      +... ..+||+|+++.. ....++.+.....  ..+.+||++.+.
T Consensus        83 l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   83 LDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            7644 469999999775 5444555544333  566778777664

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.36  E-value=2.2e-08  Score=113.11  Aligned_cols=170  Identities=24%  Similarity=0.261  Sum_probs=132.3

Q ss_pred             cceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCceeecCC
Q 000471          599 RLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNST  678 (1472)
Q Consensus       599 ~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~  678 (1472)
                      .-...||+.| .+..+|..++.+..|..|.|..|.|..+|..+++|..|.+|||+. +.+..+|..+..|+ |+.|-+++
T Consensus        76 dt~~aDlsrN-R~~elp~~~~~f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~-NqlS~lp~~lC~lp-Lkvli~sN  152 (722)
T KOG0532|consen   76 DTVFADLSRN-RFSELPEEACAFVSLESLILYHNCIRTIPEAICNLEALTFLDLSS-NQLSHLPDGLCDLP-LKVLIVSN  152 (722)
T ss_pred             chhhhhcccc-ccccCchHHHHHHHHHHHHHHhccceecchhhhhhhHHHHhhhcc-chhhcCChhhhcCc-ceeEEEec
Confidence            3456788888 888899888888899999999999999999999999999999988 56888888888775 78888887


Q ss_pred             CCCcccCCCcccccccccccCceEecCCCCcccccccCccccCCceEEecccCCCCccccchhccCCCCCCCeEEEEecC
Q 000471          679 ANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSA  758 (1472)
Q Consensus       679 ~~~~~~~p~~i~~L~~L~~L~~~~~~~~~~~~~~~L~~L~~L~~~l~i~~l~~~~~~~~~~~~~l~~~~~L~~L~l~~~~  758 (1472)
                      |+ ++.+|..|+.+..|..|...                                                         
T Consensus       153 Nk-l~~lp~~ig~~~tl~~ld~s---------------------------------------------------------  174 (722)
T KOG0532|consen  153 NK-LTSLPEEIGLLPTLAHLDVS---------------------------------------------------------  174 (722)
T ss_pred             Cc-cccCCcccccchhHHHhhhh---------------------------------------------------------
Confidence            76 88888888865555555210                                                         


Q ss_pred             CcccCccchhHHHHHhccCCCCCCCCeEEEEeeCCCCCCcccCCCCcccccEEEEcCCCCCCCCC-CCCCCCccceeecC
Q 000471          759 RDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPS-VGQLPFLKELRISG  837 (1472)
Q Consensus       759 ~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~~~l~~-l~~l~~L~~L~L~~  837 (1472)
                             .|++ ...+..+..+.+|+.|.+..|....+|..+..   -.|.+|+++.|++..+|. |.+|..|++|.|.+
T Consensus       175 -------~nei-~slpsql~~l~slr~l~vrRn~l~~lp~El~~---LpLi~lDfScNkis~iPv~fr~m~~Lq~l~Len  243 (722)
T KOG0532|consen  175 -------KNEI-QSLPSQLGYLTSLRDLNVRRNHLEDLPEELCS---LPLIRLDFSCNKISYLPVDFRKMRHLQVLQLEN  243 (722)
T ss_pred             -------hhhh-hhchHHhhhHHHHHHHHHhhhhhhhCCHHHhC---CceeeeecccCceeecchhhhhhhhheeeeecc
Confidence                   0111 12333455566788888999999999988753   358999999999988886 99999999999998


Q ss_pred             CCC
Q 000471          838 MDG  840 (1472)
Q Consensus       838 ~~~  840 (1472)
                      |+.
T Consensus       244 NPL  246 (722)
T KOG0532|consen  244 NPL  246 (722)
T ss_pred             CCC
Confidence            763

>PRK04195 replication factor C large subunit; Provisional

Probab=98.35  E-value=1.5e-05  Score=97.07  Aligned_cols=247  Identities=19%  Similarity=0.156  Sum_probs=136.6

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|.++.++++.+|+.....  ....+.+.|+|++|+||||+|++++++..    |+ .+-++.+...+. .....++
T Consensus        14 ~dlvg~~~~~~~l~~~l~~~~~--g~~~~~lLL~GppG~GKTtla~ala~el~----~~-~ielnasd~r~~-~~i~~~i   85 (482)
T PRK04195         14 SDVVGNEKAKEQLREWIESWLK--GKPKKALLLYGPPGVGKTSLAHALANDYG----WE-VIELNASDQRTA-DVIERVA   85 (482)
T ss_pred             HHhcCCHHHHHHHHHHHHHHhc--CCCCCeEEEECCCCCCHHHHHHHHHHHcC----CC-EEEEcccccccH-HHHHHHH
Confidence            4699999999999999865321  12267899999999999999999998431    22 222333332222 2222222


Q ss_pred             HhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH----hhHHhhcccccCCCCCcEEEEEcCChH-HHH-hh
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY----IRWSELRCPFVAGAAGSKIVVTTRNLV-VAE-RM  339 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~-~~  339 (1472)
                      .......               .....++-+||+|+++....    ..+..+...+..  .+..||+|+.+.. ... ..
T Consensus        86 ~~~~~~~---------------sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~~--~~~~iIli~n~~~~~~~k~L  148 (482)
T PRK04195         86 GEAATSG---------------SLFGARRKLILLDEVDGIHGNEDRGGARAILELIKK--AKQPIILTANDPYDPSLREL  148 (482)
T ss_pred             HHhhccC---------------cccCCCCeEEEEecCcccccccchhHHHHHHHHHHc--CCCCEEEeccCccccchhhH
Confidence            2211110               00113678999999977532    224444443332  3345666664421 111 11


Q ss_pred             -CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCC-C--hhhHHHHHhh
Q 000471          340 -GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRD-D--PRDWEFVLKT  415 (1472)
Q Consensus       340 -~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~-~--~~~w~~~~~~  415 (1472)
                       .....+.+.+++.++....+...+....- ..+   .+....|++.++|..-.+......+.... .  .+....+.. 
T Consensus       149 rsr~~~I~f~~~~~~~i~~~L~~i~~~egi-~i~---~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~-  223 (482)
T PRK04195        149 RNACLMIEFKRLSTRSIVPVLKRICRKEGI-ECD---DEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGR-  223 (482)
T ss_pred             hccceEEEecCCCHHHHHHHHHHHHHHcCC-CCC---HHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhc-
Confidence             22356889999999998888877643321 111   46788999999998776654444343321 1  222222221 


Q ss_pred             cccccCCCCcccchhhccc-CCChhhHhHhhhhccCCCCCccChHHHHHHHHHcCCccc
Q 000471          416 DIWNLRDSDILPALRVSYH-FLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQ  473 (1472)
Q Consensus       416 ~~~~~~~~~i~~~l~~sy~-~L~~~~k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~  473 (1472)
                         ......++.++..-+. .-+......+..       ..++. ..+-.|+.+.+...
T Consensus       224 ---~d~~~~if~~l~~i~~~k~~~~a~~~~~~-------~~~~~-~~i~~~l~en~~~~  271 (482)
T PRK04195        224 ---RDREESIFDALDAVFKARNADQALEASYD-------VDEDP-DDLIEWIDENIPKE  271 (482)
T ss_pred             ---CCCCCCHHHHHHHHHCCCCHHHHHHHHHc-------ccCCH-HHHHHHHHhccccc
Confidence               1122355666554443 222333332222       12333 35778999998753

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.33  E-value=9.9e-06  Score=96.61  Aligned_cols=199  Identities=14%  Similarity=0.137  Sum_probs=112.8

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||-+..++.|.+++..+.     -...+.++|+.|+||||+|+.+.+.......-.... + .+..+..-...+.|.
T Consensus        16 ddVIGQe~vv~~L~~al~~gR-----LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g-~-~~~PCG~C~sC~~I~   88 (700)
T PRK12323         16 TTLVGQEHVVRALTHALEQQR-----LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGG-I-TAQPCGQCRACTEID   88 (700)
T ss_pred             HHHcCcHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCcccccc-C-CCCCCcccHHHHHHH
Confidence            369999999999999996543     245678999999999999999876321100000000 0 000000001111111


Q ss_pred             Hh-----hcCCCCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHH
Q 000471          266 NS-----VASDQCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVV  335 (1472)
Q Consensus       266 ~~-----l~~~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v  335 (1472)
                      ..     +..+.. .....+++.+.+...    ..++.-++|||+++......+..+...+.....+.++|++|.+ ..+
T Consensus        89 aG~hpDviEIdAa-s~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kL  167 (700)
T PRK12323         89 AGRFVDYIEMDAA-SNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKI  167 (700)
T ss_pred             cCCCCcceEeccc-ccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhh
Confidence            00     000000 111223222222221    2356679999999888777777777776654456666655554 444


Q ss_pred             HHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          336 AERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       336 ~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      .... .....+.++.++.++..+.+.+.+....- ..   -.+..+.|++.++|.|.....+
T Consensus       168 lpTIrSRCq~f~f~~ls~eei~~~L~~Il~~Egi-~~---d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        168 PVTVLSRCLQFNLKQMPPGHIVSHLDAILGEEGI-AH---EVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             hhHHHHHHHhcccCCCChHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHHHH
Confidence            3222 22257899999999999988876532211 11   1355688999999999654443

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.31  E-value=7.4e-07  Score=90.12  Aligned_cols=106  Identities=28%  Similarity=0.354  Sum_probs=50.9

Q ss_pred             cCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhh-hhcccccEEecCCCcchhhhh--hhhcccCCCc
Q 000471          596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQLKKLC--KDMGNLRKLH  672 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i-~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~  672 (1472)
                      .+.+|++|+|++| .++.++ .+..+.+|++|++++|.|+.+++.+ ..+++|+.|+|++| .+..+-  ..+..+++|+
T Consensus        40 ~l~~L~~L~Ls~N-~I~~l~-~l~~L~~L~~L~L~~N~I~~i~~~l~~~lp~L~~L~L~~N-~I~~l~~l~~L~~l~~L~  116 (175)
T PF14580_consen   40 TLDKLEVLDLSNN-QITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLSNN-KISDLNELEPLSSLPKLR  116 (175)
T ss_dssp             T-TT--EEE-TTS---S--T-T----TT--EEE--SS---S-CHHHHHH-TT--EEE-TTS----SCCCCGGGGG-TT--
T ss_pred             hhcCCCEEECCCC-CCcccc-CccChhhhhhcccCCCCCCccccchHHhCCcCCEEECcCC-cCCChHHhHHHHcCCCcc
Confidence            4677888999988 888885 6888889999999999998887666 46888999999884 444432  3466788888


Q ss_pred             eeecCCCCCcccCCC----cccccccccccCceEecC
Q 000471          673 HLRNSTANSLKEMPK----GFGKLTSLLTLGRFVVGK  705 (1472)
Q Consensus       673 ~L~l~~~~~~~~~p~----~i~~L~~L~~L~~~~~~~  705 (1472)
                      +|++.+|. +...+.    -+..+++|+.|+...+..
T Consensus       117 ~L~L~~NP-v~~~~~YR~~vi~~lP~Lk~LD~~~V~~  152 (175)
T PF14580_consen  117 VLSLEGNP-VCEKKNYRLFVIYKLPSLKVLDGQDVTE  152 (175)
T ss_dssp             EEE-TT-G-GGGSTTHHHHHHHH-TT-SEETTEETTS
T ss_pred             eeeccCCc-ccchhhHHHHHHHHcChhheeCCEEccH
Confidence            99988887 544442    267778888886655544

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=98.30  E-value=1.4e-06  Score=92.29  Aligned_cols=48  Identities=27%  Similarity=0.374  Sum_probs=32.8

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCc
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~  237 (1472)
                      +||||+++++++...+...   .....+++.|+|++|+|||+|+++++...
T Consensus         1 ~fvgR~~e~~~l~~~l~~~---~~~~~~~~ll~G~~G~GKT~ll~~~~~~~   48 (185)
T PF13191_consen    1 QFVGREEEIERLRDLLDAA---QSGSPRNLLLTGESGSGKTSLLRALLDRL   48 (185)
T ss_dssp             --TT-HHHHHHHHHTTGGT---SS-----EEE-B-TTSSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHH---HcCCCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            4899999999999999522   33456899999999999999999998743

>PLN03025 replication factor C subunit; Provisional

Probab=98.30  E-value=1.1e-05  Score=92.66  Aligned_cols=183  Identities=15%  Similarity=0.156  Sum_probs=105.1

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcc-eEEEEecCCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEI-KAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i  264 (1472)
                      .+++|.++.++.|.+++...      ..+.+.++|++|+||||+|+.+++.. ....|.. ++-+..+...... ..+++
T Consensus        13 ~~~~g~~~~~~~L~~~~~~~------~~~~lll~Gp~G~GKTtla~~la~~l-~~~~~~~~~~eln~sd~~~~~-~vr~~   84 (319)
T PLN03025         13 DDIVGNEDAVSRLQVIARDG------NMPNLILSGPPGTGKTTSILALAHEL-LGPNYKEAVLELNASDDRGID-VVRNK   84 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHHH-hcccCccceeeecccccccHH-HHHHH
Confidence            35889999888888877543      23457799999999999999998732 1112221 1112222211111 12222


Q ss_pred             HHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHHHhh-CCC
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVAERM-GAD  342 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~~~~-~~~  342 (1472)
                      +..+.....              ..-.++.-++|+|+++.........+...+......+++|+++... .+.... ...
T Consensus        85 i~~~~~~~~--------------~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc  150 (319)
T PLN03025         85 IKMFAQKKV--------------TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRC  150 (319)
T ss_pred             HHHHHhccc--------------cCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhh
Confidence            211110000              0002456799999998876544455554444334567777776542 221111 122


Q ss_pred             CceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHH
Q 000471          343 PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAK  394 (1472)
Q Consensus       343 ~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~  394 (1472)
                      ..++++++++++....+...+-..+-...    .+....|++.++|..-.+.
T Consensus       151 ~~i~f~~l~~~~l~~~L~~i~~~egi~i~----~~~l~~i~~~~~gDlR~al  198 (319)
T PLN03025        151 AIVRFSRLSDQEILGRLMKVVEAEKVPYV----PEGLEAIIFTADGDMRQAL  198 (319)
T ss_pred             hcccCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHH
Confidence            46899999999999888877643221111    4667889999998774443

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

Probab=98.29  E-value=4.2e-06  Score=85.10  Aligned_cols=125  Identities=16%  Similarity=0.089  Sum_probs=72.2

Q ss_pred             eechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhh
Q 000471          189 YGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSV  268 (1472)
Q Consensus       189 vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  268 (1472)
                      +||+..++.+...+...      ..+.+.|+|++|+||||+|+++++...  ..-..++++..............+... 
T Consensus         1 ~~~~~~~~~i~~~~~~~------~~~~v~i~G~~G~GKT~l~~~i~~~~~--~~~~~v~~~~~~~~~~~~~~~~~~~~~-   71 (151)
T cd00009           1 VGQEEAIEALREALELP------PPKNLLLYGPPGTGKTTLARAIANELF--RPGAPFLYLNASDLLEGLVVAELFGHF-   71 (151)
T ss_pred             CchHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHhh--cCCCCeEEEehhhhhhhhHHHHHhhhh-
Confidence            47889999999988542      346888999999999999999997432  222345666654443322211111000 


Q ss_pred             cCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhh---HHhhcccccCC---CCCcEEEEEcCChH
Q 000471          269 ASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIR---WSELRCPFVAG---AAGSKIVVTTRNLV  334 (1472)
Q Consensus       269 ~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~---~~~l~~~l~~~---~~~s~iivTtR~~~  334 (1472)
                                  ............++.++|+||++......   +......+...   ..+.+||+||....
T Consensus        72 ------------~~~~~~~~~~~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 ------------LVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             ------------hHhHHHHhhccCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence                        01111122234567899999998642222   22222222221   35778888888643

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.29  E-value=4.5e-06  Score=97.18  Aligned_cols=192  Identities=15%  Similarity=0.069  Sum_probs=112.4

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||-+..+..|..++..+.     -...+.++|+.|+||||+|+.+++..... +...  ...+....+    -+.+.
T Consensus        18 ~dvVGQe~iv~~L~~~i~~~r-----i~ha~Lf~GP~GtGKTTlAriLAk~Lnce-~~~~--~~pCg~C~s----C~~i~   85 (484)
T PRK14956         18 RDVIHQDLAIGALQNALKSGK-----IGHAYIFFGPRGVGKTTIARILAKRLNCE-NPIG--NEPCNECTS----CLEIT   85 (484)
T ss_pred             HHHhChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhcCcc-cccC--ccccCCCcH----HHHHH
Confidence            368999999999999986542     13467899999999999999998732111 0000  000111111    11111


Q ss_pred             HhhcCC-------CCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHHH
Q 000471          266 NSVASD-------QCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVVA  336 (1472)
Q Consensus       266 ~~l~~~-------~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v~  336 (1472)
                      ......       .....+++.++.+.+... ..++.-++|+|++.......+..+...+........+|++|.. ..+.
T Consensus        86 ~g~~~dviEIdaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~  165 (484)
T PRK14956         86 KGISSDVLEIDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIP  165 (484)
T ss_pred             ccCCccceeechhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhcc
Confidence            111100       000112233333333221 2456679999999888777788877766544445555545543 3333


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      ... .....|.+.+++.++..+.+.+.+...+- .-   -.+....|++.++|.+.-+
T Consensus       166 ~TI~SRCq~~~f~~ls~~~i~~~L~~i~~~Egi-~~---e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        166 ETILSRCQDFIFKKVPLSVLQDYSEKLCKIENV-QY---DQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             HHHHhhhheeeecCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCChHHHH
Confidence            222 22357899999999998888877643221 11   1467788999999998543

>PF13173 AAA_14: AAA domain

Probab=98.29  E-value=1.4e-06  Score=85.14  Aligned_cols=119  Identities=22%  Similarity=0.207  Sum_probs=78.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      +++.|.|+.|+||||++++++.+..   ....+++++..+.......                 ..+ ..+.+.+....+
T Consensus         3 ~~~~l~G~R~vGKTtll~~~~~~~~---~~~~~~yi~~~~~~~~~~~-----------------~~~-~~~~~~~~~~~~   61 (128)
T PF13173_consen    3 KIIILTGPRGVGKTTLLKQLAKDLL---PPENILYINFDDPRDRRLA-----------------DPD-LLEYFLELIKPG   61 (128)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhc---ccccceeeccCCHHHHHHh-----------------hhh-hHHHHHHhhccC
Confidence            6899999999999999999987432   2345566665444221000                 000 223334434447


Q ss_pred             eEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHhh------CCCCceeCCCCChHhH
Q 000471          294 KFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERM------GADPVYQLKELSDDDC  355 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~------~~~~~~~l~~L~~~~~  355 (1472)
                      +.+|+||++...  .+|......+.+.....+|++|+........-      +....+++.||+-.|.
T Consensus        62 ~~~i~iDEiq~~--~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   62 KKYIFIDEIQYL--PDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             CcEEEEehhhhh--ccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            889999999776  56777766666655678999999987665331      1223578899988764

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.29  E-value=1.9e-05  Score=94.44  Aligned_cols=195  Identities=19%  Similarity=0.172  Sum_probs=113.2

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcc-eEEEEecCCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEI-KAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i  264 (1472)
                      .+++|-+..+..+...+..+.     -...+.++|+.|+||||+|+.+++.......... ..+..+...    .....+
T Consensus        21 ~dliGq~~vv~~L~~ai~~~r-----i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C----~~C~~i   91 (507)
T PRK06645         21 AELQGQEVLVKVLSYTILNDR-----LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC----TNCISF   91 (507)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC----hHHHHH
Confidence            368999999999988775532     2356889999999999999999864221111000 000000000    000111


Q ss_pred             HHh-------hcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEE-EcCChHH
Q 000471          265 LNS-------VASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV-TTRNLVV  335 (1472)
Q Consensus       265 ~~~-------l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv-TtR~~~v  335 (1472)
                      ...       +........+++.++.+.... -..+++-++|+|+++......|..+...+......+++|+ ||+...+
T Consensus        92 ~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI  171 (507)
T PRK06645         92 NNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKI  171 (507)
T ss_pred             hcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHh
Confidence            100       000000011222222222211 1346677999999988776778888776665555666654 5555555


Q ss_pred             HHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          336 AERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       336 ~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      .... .....+++.+++.++....+.+.+...+....    .+....|++.++|.+.-+
T Consensus       172 ~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~egi~ie----~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        172 PATIISRCQRYDLRRLSFEEIFKLLEYITKQENLKTD----IEALRIIAYKSEGSARDA  226 (507)
T ss_pred             hHHHHhcceEEEccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            4433 23357899999999999999888743321111    456778999999987544

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.27  E-value=1.7e-05  Score=92.35  Aligned_cols=181  Identities=14%  Similarity=0.123  Sum_probs=105.1

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEe--cCCCCHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCV--SEDFDVFRISKS  263 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~--~~~~~~~~~~~~  263 (1472)
                      .+++|+++.++.+..++...      ..+.+.|+|++|+||||+|+.+++... ...+. ..++.+  +...... ...+
T Consensus        17 ~~~~g~~~~~~~l~~~i~~~------~~~~~ll~G~~G~GKt~~~~~l~~~l~-~~~~~-~~~i~~~~~~~~~~~-~~~~   87 (319)
T PRK00440         17 DEIVGQEEIVERLKSYVKEK------NMPHLLFAGPPGTGKTTAALALARELY-GEDWR-ENFLELNASDERGID-VIRN   87 (319)
T ss_pred             HHhcCcHHHHHHHHHHHhCC------CCCeEEEECCCCCCHHHHHHHHHHHHc-CCccc-cceEEeccccccchH-HHHH
Confidence            35899999999999998543      234579999999999999999987421 11121 122222  1111111 1111


Q ss_pred             HHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHHHhh-CC
Q 000471          264 ILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVAERM-GA  341 (1472)
Q Consensus       264 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~~~~-~~  341 (1472)
                      .+..+.....               .....+-++|+|+++.........+...+......+++|+++... .+.... ..
T Consensus        88 ~i~~~~~~~~---------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr  152 (319)
T PRK00440         88 KIKEFARTAP---------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSR  152 (319)
T ss_pred             HHHHHHhcCC---------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHH
Confidence            1111110000               001345689999997665444555555544444556777776432 111111 12


Q ss_pred             CCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHH
Q 000471          342 DPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAK  394 (1472)
Q Consensus       342 ~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~  394 (1472)
                      ...+++.++++++....+...+....-...    .+.+..+++.++|.+.-+.
T Consensus       153 ~~~~~~~~l~~~ei~~~l~~~~~~~~~~i~----~~al~~l~~~~~gd~r~~~  201 (319)
T PRK00440        153 CAVFRFSPLKKEAVAERLRYIAENEGIEIT----DDALEAIYYVSEGDMRKAI  201 (319)
T ss_pred             hheeeeCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHH
Confidence            246789999999998888877643221111    4678889999999876543

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.27  E-value=1.4e-05  Score=99.25  Aligned_cols=203  Identities=18%  Similarity=0.169  Sum_probs=119.8

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC---cceEEEEecCC---CCHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY---EIKAWTCVSED---FDVFRI  260 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f---~~~~wv~~~~~---~~~~~~  260 (1472)
                      +++|++..+..+.+.+...      ....+.|+|++|+||||+|+.+++..+....+   ...-|+.+...   .+...+
T Consensus       155 ~iiGqs~~~~~l~~~ia~~------~~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i  228 (615)
T TIGR02903       155 EIVGQERAIKALLAKVASP------FPQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREV  228 (615)
T ss_pred             hceeCcHHHHHHHHHHhcC------CCCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHH
Confidence            5899999999988877432      24579999999999999999998754333322   12345544321   122222


Q ss_pred             HHHH---------------HHhhcCCCC---------------CCccc-HHHHHHHHHhhhCCCeEEEEEeCCCCCCHhh
Q 000471          261 SKSI---------------LNSVASDQC---------------KDKDD-LNLLQEKLKKQLSGNKFLLVLDDVWNENYIR  309 (1472)
Q Consensus       261 ~~~i---------------~~~l~~~~~---------------~~~~~-~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~  309 (1472)
                      ...+               +...+....               ++... ....+..+.+.+.++++.++-|+.|..+...
T Consensus       229 ~~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le~~~v~~~~~~~~~~~~~~  308 (615)
T TIGR02903       229 TNPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLEDKRVEFSSSYYDPDDPNV  308 (615)
T ss_pred             hHHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHhhCeEEeecceeccCCccc
Confidence            1111               111111000               00111 1235677888888899999988887776667


Q ss_pred             HHhhcccccCCCCCcEEEE--EcCChHH-HHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHH
Q 000471          310 WSELRCPFVAGAAGSKIVV--TTRNLVV-AERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIK  385 (1472)
Q Consensus       310 ~~~l~~~l~~~~~~s~iiv--TtR~~~v-~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~  385 (1472)
                      |+.+...+........|+|  ||++... ...+ .....+.+.+++.+|.++++.+.+-... ....   .++.+.|++.
T Consensus       309 ~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~-v~ls---~eal~~L~~y  384 (615)
T TIGR02903       309 PKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKIN-VHLA---AGVEELIARY  384 (615)
T ss_pred             chhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcC-CCCC---HHHHHHHHHC
Confidence            8877766665555544555  5664431 1111 1223578899999999999998764321 1111   3455566666


Q ss_pred             hCCChhHHHHHHhh
Q 000471          386 CGGLPLAAKTLGGL  399 (1472)
Q Consensus       386 ~~glPLal~~~~~~  399 (1472)
                      +..-+-|+..++..
T Consensus       385 s~~gRraln~L~~~  398 (615)
T TIGR02903       385 TIEGRKAVNILADV  398 (615)
T ss_pred             CCcHHHHHHHHHHH
Confidence            65556666666544

Members of this protein family resemble the widely distributed ATP-dependent protease La, also called Lon and LonA. It resembles even more closely LonB, which is a LonA paralog found in genomes if and only if the species is capable of endospore formation (as in Bacillus subtilis, Clostridium tetani, and select other members of the Firmicutes) and expressed specifically in the forespore compartment. Members of this family are restricted to a subset of spore-forming species, and are very likely to participate in the program of endospore formation. We propose the designation LonC.

>PTZ00202 tuzin; Provisional

Probab=98.26  E-value=2.5e-05  Score=87.65  Aligned_cols=171  Identities=15%  Similarity=0.162  Sum_probs=104.8

Q ss_pred             CCCcCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHH
Q 000471          181 SLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRI  260 (1472)
Q Consensus       181 ~~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  260 (1472)
                      .+.+..+|+||+++...+...|...+.   ...+++.|+|++|+|||||++.+.....      ..+++....  +..++
T Consensus       257 lPa~~~~FVGReaEla~Lr~VL~~~d~---~~privvLtG~~G~GKTTLlR~~~~~l~------~~qL~vNpr--g~eEl  325 (550)
T PTZ00202        257 APAVIRQFVSREAEESWVRQVLRRLDT---AHPRIVVFTGFRGCGKSSLCRSAVRKEG------MPAVFVDVR--GTEDT  325 (550)
T ss_pred             CCCCccCCCCcHHHHHHHHHHHhccCC---CCceEEEEECCCCCCHHHHHHHHHhcCC------ceEEEECCC--CHHHH
Confidence            345567899999999999999965432   3456999999999999999999986432      123333333  67999


Q ss_pred             HHHHHHhhcCCCCCCc-ccHHHHHHHHHhhh-C-CCeEEEEEeCCCCCCHhh-HHhhcccccCCCCCcEEEEEcCChHHH
Q 000471          261 SKSILNSVASDQCKDK-DDLNLLQEKLKKQL-S-GNKFLLVLDDVWNENYIR-WSELRCPFVAGAAGSKIVVTTRNLVVA  336 (1472)
Q Consensus       261 ~~~i~~~l~~~~~~~~-~~~~~~~~~l~~~l-~-~k~~LlVlDdv~~~~~~~-~~~l~~~l~~~~~~s~iivTtR~~~v~  336 (1472)
                      ++.++.+++.+..... +-.+.+.+.+.+.- . +++.+||+-==.-.+... +.+.. .+.....-|.|++---.+.+.
T Consensus       326 Lr~LL~ALGV~p~~~k~dLLrqIqeaLl~~~~e~GrtPVLII~lreg~~l~rvyne~v-~la~drr~ch~v~evpleslt  404 (550)
T PTZ00202        326 LRSVVKALGVPNVEACGDLLDFISEACRRAKKMNGETPLLVLKLREGSSLQRVYNEVV-ALACDRRLCHVVIEVPLESLT  404 (550)
T ss_pred             HHHHHHHcCCCCcccHHHHHHHHHHHHHHHHHhCCCCEEEEEEecCCCcHHHHHHHHH-HHHccchhheeeeeehHhhcc
Confidence            9999999997433221 22344555544432 2 677777764322211111 11111 233334557777654433322


Q ss_pred             Hhh---CCCCceeCCCCChHhHHHHHHhhh
Q 000471          337 ERM---GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       337 ~~~---~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      -..   ..-..|.+.+++.++|.+...+..
T Consensus       405 ~~~~~lprldf~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        405 IANTLLPRLDFYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             hhcccCccceeEecCCCCHHHHHHHHhhcc
Confidence            111   112458899999999988876543

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.26  E-value=1.9e-05  Score=94.84  Aligned_cols=185  Identities=17%  Similarity=0.136  Sum_probs=111.8

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc-------------------cCcce
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-------------------HYEIK  246 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~  246 (1472)
                      .+++|-+..++.+..++..+.     ....+.++|+.|+||||+|+.+++......                   .|...
T Consensus        16 ~diiGq~~~v~~L~~~i~~~r-----l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         16 AEVAGQQHALNSLVHALETQK-----VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            358999999999999986532     245678999999999999999986221100                   11112


Q ss_pred             EEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcE
Q 000471          247 AWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSK  325 (1472)
Q Consensus       247 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  325 (1472)
                      +++.......                   .++...+.+.+... ..+++-++|+|++.......++.+...+......++
T Consensus        91 ieidaas~~g-------------------vd~ir~ii~~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~  151 (546)
T PRK14957         91 IEIDAASRTG-------------------VEETKEILDNIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVK  151 (546)
T ss_pred             EEeecccccC-------------------HHHHHHHHHHHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCce
Confidence            2222111111                   11222233322221 235677999999987766667777776665545666


Q ss_pred             EEE-EcCChHHHHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh-HHHHHHh
Q 000471          326 IVV-TTRNLVVAER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKTLGG  398 (1472)
Q Consensus       326 iiv-TtR~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL-al~~~~~  398 (1472)
                      +|+ ||....+... .....++++++++.++....+.+.+-..+ ..   --.+....|++.++|.+- |+..+-.
T Consensus       152 fIL~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg-i~---~e~~Al~~Ia~~s~GdlR~alnlLek  223 (546)
T PRK14957        152 FILATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN-IN---SDEQSLEYIAYHAKGSLRDALSLLDQ  223 (546)
T ss_pred             EEEEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC-CC---CCHHHHHHHHHHcCCCHHHHHHHHHH
Confidence            665 4443333322 22346789999999998887777543221 11   114567889999999764 4444433

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=98.24  E-value=1e-06  Score=72.78  Aligned_cols=58  Identities=26%  Similarity=0.509  Sum_probs=44.5

Q ss_pred             CcceEEEecCCCCCccCC-cccCCCCcCcEEecCCccccccc-hhhhhcccccEEecCCCc
Q 000471          598 PRLRVFSLRGCGNIFNLP-NEIGNLKHLRCLNLSRTRIQILP-ESINSLYNLHTILLEDCH  656 (1472)
Q Consensus       598 ~~Lr~L~L~~~~~~~~lp-~~i~~L~~Lr~L~L~~~~i~~lP-~~i~~L~~L~~L~L~~~~  656 (1472)
                      ++|++|++++| .+..+| ..|.++++|++|++++|.|+.+| ..|..+++|++|++++|.
T Consensus         1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSS-TESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            46778888888 788887 56777888888888888888775 467788888888887753

...

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.24  E-value=7.8e-07  Score=89.99  Aligned_cols=86  Identities=28%  Similarity=0.481  Sum_probs=30.7

Q ss_pred             ccCCcceEEEecCCCCCccCCcccC-CCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhh-cccCCCc
Q 000471          595 NHLPRLRVFSLRGCGNIFNLPNEIG-NLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDM-GNLRKLH  672 (1472)
Q Consensus       595 ~~l~~Lr~L~L~~~~~~~~lp~~i~-~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i-~~L~~L~  672 (1472)
                      .+...+|.|+|++| .|..+. .++ .+.+|+.|+|++|.|+.++ .+..|.+|++|++++ +.+..++..+ ..+++|+
T Consensus        16 ~n~~~~~~L~L~~n-~I~~Ie-~L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~-N~I~~i~~~l~~~lp~L~   91 (175)
T PF14580_consen   16 NNPVKLRELNLRGN-QISTIE-NLGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSN-NRISSISEGLDKNLPNLQ   91 (175)
T ss_dssp             ----------------------S--TT-TT--EEE-TTS--S--T-T----TT--EEE--S-S---S-CHHHHHH-TT--
T ss_pred             cccccccccccccc-cccccc-chhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCC-CCCCccccchHHhCCcCC
Confidence            34557899999999 888884 676 5899999999999999995 688999999999999 5677776666 4699999


Q ss_pred             eeecCCCCCcccC
Q 000471          673 HLRNSTANSLKEM  685 (1472)
Q Consensus       673 ~L~l~~~~~~~~~  685 (1472)
                      +|++++|. +..+
T Consensus        92 ~L~L~~N~-I~~l  103 (175)
T PF14580_consen   92 ELYLSNNK-ISDL  103 (175)
T ss_dssp             EEE-TTS----SC
T ss_pred             EEECcCCc-CCCh
Confidence            99999997 5544

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=98.24  E-value=1.7e-05  Score=95.11  Aligned_cols=197  Identities=13%  Similarity=0.147  Sum_probs=110.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|++..++.+.+++..+.     ....+.++|+.|+||||+|+.+++...      |.-|... ..+..-...+.+.
T Consensus        16 ~dIIGQe~iv~~L~~aI~~~r-----l~hA~Lf~GP~GvGKTTlA~~lAk~L~------C~~~~~~-~~Cg~C~sCr~i~   83 (605)
T PRK05896         16 KQIIGQELIKKILVNAILNNK-----LTHAYIFSGPRGIGKTSIAKIFAKAIN------CLNPKDG-DCCNSCSVCESIN   83 (605)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHhc------CCCCCCC-CCCcccHHHHHHH
Confidence            368999999999999986542     235688999999999999999986321      1112111 0111111111111


Q ss_pred             Hhhc-------CCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChHHH
Q 000471          266 NSVA-------SDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLVVA  336 (1472)
Q Consensus       266 ~~l~-------~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~v~  336 (1472)
                      ....       .......++++.+.+.+... ..+++-++|+|+++......+..+...+........+|++| ....+.
T Consensus        84 ~~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl  163 (605)
T PRK05896         84 TNQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIP  163 (605)
T ss_pred             cCCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhh
Confidence            1110       00000111122222222211 12344469999998766566667766665444456666555 433343


Q ss_pred             Hh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh-HHHHHHh
Q 000471          337 ER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKTLGG  398 (1472)
Q Consensus       337 ~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL-al~~~~~  398 (1472)
                      .. ......+++.++++++....+...+...+....    .+.+..+++.++|.+. |+..+-.
T Consensus       164 ~TI~SRcq~ieF~~Ls~~eL~~~L~~il~kegi~Is----~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        164 LTIISRCQRYNFKKLNNSELQELLKSIAKKEKIKIE----DNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             HHHHhhhhhcccCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCcHHHHHHHHHH
Confidence            22 223457899999999999888876633221111    4567889999999664 4444443

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.23  E-value=1.6e-05  Score=85.26  Aligned_cols=157  Identities=19%  Similarity=0.216  Sum_probs=97.4

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhC
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLS  291 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~  291 (1472)
                      ...-+.+||++|+||||||+.+....+...    ..||..|....-..-.+.|.++...                ...+.
T Consensus       161 ~ipSmIlWGppG~GKTtlArlia~tsk~~S----yrfvelSAt~a~t~dvR~ife~aq~----------------~~~l~  220 (554)
T KOG2028|consen  161 RIPSMILWGPPGTGKTTLARLIASTSKKHS----YRFVELSATNAKTNDVRDIFEQAQN----------------EKSLT  220 (554)
T ss_pred             CCCceEEecCCCCchHHHHHHHHhhcCCCc----eEEEEEeccccchHHHHHHHHHHHH----------------HHhhh
Confidence            466788999999999999999997543322    4567777665544445555544321                12345


Q ss_pred             CCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEE--EcCChHH---HHhhCCCCceeCCCCChHhHHHHHHhhhc--
Q 000471          292 GNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV--TTRNLVV---AERMGADPVYQLKELSDDDCLCVLTQISL--  364 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv--TtR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf~~~a~--  364 (1472)
                      ++|.+|.+|.|..-...+-+.   .+|...+|.-++|  ||.++..   +.....-.++.+++|..++-..++.+...  
T Consensus       221 krkTilFiDEiHRFNksQQD~---fLP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~raia~l  297 (554)
T KOG2028|consen  221 KRKTILFIDEIHRFNKSQQDT---FLPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRAIASL  297 (554)
T ss_pred             cceeEEEeHHhhhhhhhhhhc---ccceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHHHHhh
Confidence            789999999996543222222   2444456776665  7777642   22234446889999999999998887432  


Q ss_pred             C-CC---CCCCCcc---HHHHHHHHHHHhCCChh
Q 000471          365 G-AR---DFTRHLS---LKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       365 ~-~~---~~~~~~~---~~~~~~~i~~~~~glPL  391 (1472)
                      + ..   ++.+++.   ...+.+-++..|+|-..
T Consensus       298 ~dser~~~~l~n~s~~ve~siidyla~lsdGDaR  331 (554)
T KOG2028|consen  298 GDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDAR  331 (554)
T ss_pred             ccccccCCCCCCcchhhhHHHHHHHHHhcCchHH
Confidence            1 11   1222211   13456667777888664

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.23  E-value=1.8e-06  Score=93.49  Aligned_cols=91  Identities=21%  Similarity=0.220  Sum_probs=62.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC--CCHHHHHHHHHHhhcCCCCCCccc-----HHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED--FDVFRISKSILNSVASDQCKDKDD-----LNLLQEK  285 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~-----~~~~~~~  285 (1472)
                      ...++|+|++|+|||||+++++++.... +|+..+|+.+.+.  .++.++++.+...+-.........     .......
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~-~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~   94 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKN-HPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEK   94 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccc-cCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHH
Confidence            4578999999999999999999975444 8999999997777  789999999844333222211111     1112222


Q ss_pred             HHhh-hCCCeEEEEEeCCCC
Q 000471          286 LKKQ-LSGNKFLLVLDDVWN  304 (1472)
Q Consensus       286 l~~~-l~~k~~LlVlDdv~~  304 (1472)
                      .... -.++++++++|++..
T Consensus        95 a~~~~~~G~~vll~iDei~r  114 (249)
T cd01128          95 AKRLVEHGKDVVILLDSITR  114 (249)
T ss_pred             HHHHHHCCCCEEEEEECHHH
Confidence            2222 248999999999954

It is a homohexamer. Each monomer consists of an N-terminal domain of the OB fold, which is responsible for binding to cysteine rich nucleotides. This alignment is of the C-terminal ATP binding domain.

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.23  E-value=6.1e-05  Score=86.69  Aligned_cols=207  Identities=16%  Similarity=0.118  Sum_probs=127.6

Q ss_pred             eeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHh
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNS  267 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~  267 (1472)
                      +.+||++++++...|...-.  ...+.-+.|+|.+|+|||+.++.|.+..+....=..+++|++....+..+++..|+.+
T Consensus        19 l~~Re~ei~~l~~~l~~~~~--~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~   96 (366)
T COG1474          19 LPHREEEINQLASFLAPALR--GERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNK   96 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhc--CCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHH
Confidence            89999999999988865321  2223348899999999999999999843222111127899999999999999999999


Q ss_pred             hcCCCCCCcccHHHHHHHHHhhhC--CCeEEEEEeCCCCCCHhhHHhhcccccCCC-CCcEE--EEEcCChHHHHhh---
Q 000471          268 VASDQCKDKDDLNLLQEKLKKQLS--GNKFLLVLDDVWNENYIRWSELRCPFVAGA-AGSKI--VVTTRNLVVAERM---  339 (1472)
Q Consensus       268 l~~~~~~~~~~~~~~~~~l~~~l~--~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-~~s~i--ivTtR~~~v~~~~---  339 (1472)
                      ++.... ......+....+.+.+.  ++.+++|||+++......-+.+...+.... ..++|  |..+-+......+   
T Consensus        97 ~~~~p~-~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~~~~v~vi~i~n~~~~~~~ld~r  175 (366)
T COG1474          97 LGKVPL-TGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGENKVKVSIIAVSNDDKFLDYLDPR  175 (366)
T ss_pred             cCCCCC-CCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccccceeEEEEEEeccHHHHHHhhhh
Confidence            974333 34555566666666664  679999999996642111012211122111 14444  3344444333322   


Q ss_pred             -----CCCCceeCCCCChHhHHHHHHhhhcCCC-CCCCCccHHHHHHHHHHHhCC-ChhHHHHHHh
Q 000471          340 -----GADPVYQLKELSDDDCLCVLTQISLGAR-DFTRHLSLKEVGEQIVIKCGG-LPLAAKTLGG  398 (1472)
Q Consensus       340 -----~~~~~~~l~~L~~~~~~~lf~~~a~~~~-~~~~~~~~~~~~~~i~~~~~g-lPLal~~~~~  398 (1472)
                           +.. .+...|-+.+|-..++..++-... +....++.-+.+..++..-+| --.|+..+.+
T Consensus       176 v~s~l~~~-~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~  240 (366)
T COG1474         176 VKSSLGPS-EIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRR  240 (366)
T ss_pred             hhhccCcc-eeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHH
Confidence                 222 367889999999999988874321 112233334444445555554 4455555443

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=98.23  E-value=3.7e-05  Score=90.91  Aligned_cols=182  Identities=16%  Similarity=0.141  Sum_probs=110.0

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh--------------------ccCcce
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ--------------------RHYEIK  246 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~--------------------~~f~~~  246 (1472)
                      +++|.+..++.+.+++....     -...+.++|++|+||||+|+.+.......                    .+++ .
T Consensus        15 ~iig~~~~~~~l~~~~~~~~-----~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~-~   88 (355)
T TIGR02397        15 DVIGQEHIVQTLKNAIKNGR-----IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLD-V   88 (355)
T ss_pred             hccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCC-E
Confidence            58999999999999986542     24578899999999999998887532110                    0111 1


Q ss_pred             EEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcE
Q 000471          247 AWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSK  325 (1472)
Q Consensus       247 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  325 (1472)
                      .+++......                   ..+...+.+.+... ..+++-++|+|+++.........+...+......+.
T Consensus        89 ~~~~~~~~~~-------------------~~~~~~l~~~~~~~p~~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~  149 (355)
T TIGR02397        89 IEIDAASNNG-------------------VDDIREILDNVKYAPSSGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVV  149 (355)
T ss_pred             EEeeccccCC-------------------HHHHHHHHHHHhcCcccCCceEEEEeChhhcCHHHHHHHHHHHhCCcccee
Confidence            1221111101                   11122222222211 234566899999977655556666665544445667


Q ss_pred             EEEEcCChH-HHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          326 IVVTTRNLV-VAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       326 iivTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      +|++|.+.. +.... .....+++.++++++..+.+...+-..+-..+    .+.+..+++.++|.|..+....
T Consensus       150 lIl~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g~~i~----~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       150 FILATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEGIKIE----DEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             EEEEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCChHHHHHHH
Confidence            777765543 22222 22356788999999998888876643221111    4678889999999987665443

This model represents the well-conserved first ~ 365 amino acids of the translation of the dnaX gene. The full-length product of the dnaX gene in the model bacterium E. coli is the DNA polymerase III tau subunit. A translational frameshift leads to early termination and a truncated protein subunit gamma, about 1/3 shorter than tau and present in roughly equal amounts. This frameshift mechanism is not necessarily universal for species with DNA polymerase III but appears conserved in the exterme thermophile Thermus thermophilis.

>PF05496 RuvB_N: Holliday junction DNA helicase ruvB N-terminus; InterPro: IPR008824 The RuvB protein makes up part of the RuvABC revolvasome which catalyses the resolution of Holliday junctions that arise during genetic recombination and DNA repair

Probab=98.22  E-value=2e-05  Score=81.26  Aligned_cols=182  Identities=19%  Similarity=0.206  Sum_probs=92.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+|||.+.-++.+.-++..... ..+...-+..||++|+||||||+.+++.  ....|.   +.+.. ...-..-+..++
T Consensus        24 ~efiGQ~~l~~~l~i~i~aa~~-r~~~l~h~lf~GPPG~GKTTLA~IIA~e--~~~~~~---~~sg~-~i~k~~dl~~il   96 (233)
T PF05496_consen   24 DEFIGQEHLKGNLKILIRAAKK-RGEALDHMLFYGPPGLGKTTLARIIANE--LGVNFK---ITSGP-AIEKAGDLAAIL   96 (233)
T ss_dssp             CCS-S-HHHHHHHHHHHHHHHC-TTS---EEEEESSTTSSHHHHHHHHHHH--CT--EE---EEECC-C--SCHHHHHHH
T ss_pred             HHccCcHHHHhhhHHHHHHHHh-cCCCcceEEEECCCccchhHHHHHHHhc--cCCCeE---eccch-hhhhHHHHHHHH
Confidence            4699999888876555432211 2345677889999999999999999983  333332   22211 111001111111


Q ss_pred             HhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccC--------CCCC-----------cEE
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVA--------GAAG-----------SKI  326 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~--------~~~~-----------s~i  326 (1472)
                      ..                      + +++-+|.+|.+..-....-+.+..++.+        .+.+           +-|
T Consensus        97 ~~----------------------l-~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTli  153 (233)
T PF05496_consen   97 TN----------------------L-KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLI  153 (233)
T ss_dssp             HT-------------------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEE
T ss_pred             Hh----------------------c-CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEe
Confidence            11                      1 2344666677766543322222222211        1111           223


Q ss_pred             EEEcCChHHHHhhCCC--CceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhc
Q 000471          327 VVTTRNLVVAERMGAD--PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLR  401 (1472)
Q Consensus       327 ivTtR~~~v~~~~~~~--~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~  401 (1472)
                      =-|||...+...+..-  -+.+++..+.+|-.++..+.+..-.-    +--++.+.+|++++.|-|--+.-+-+..+
T Consensus       154 gATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~l~i----~i~~~~~~~Ia~rsrGtPRiAnrll~rvr  226 (233)
T PF05496_consen  154 GATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARILNI----EIDEDAAEEIARRSRGTPRIANRLLRRVR  226 (233)
T ss_dssp             EEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHCTT-----EE-HHHHHHHHHCTTTSHHHHHHHHHHHC
T ss_pred             eeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHHhCC----CcCHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            4578765444333322  23579999999999999887633221    12257899999999999976665555443

Branch migration is catalysed by the RuvB protein that is targeted to the Holliday junction by the structure specific RuvA protein []. This group of sequences contain this signature which is located in the N-terminal region of the proteins.; GO: 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1IQP_B 3PFI_B 1IXR_C 1HQC_B 1IXS_B.

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=98.21  E-value=2.1e-05  Score=95.28  Aligned_cols=194  Identities=14%  Similarity=0.135  Sum_probs=109.1

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||.+..++.|..++..+.     -...+.++|+.|+||||+|+.+.+........   -+..+..    -...+.+.
T Consensus        16 ddIIGQe~vv~~L~~ai~~~r-----l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~---~~~pCg~----C~sCr~i~   83 (709)
T PRK08691         16 ADLVGQEHVVKALQNALDEGR-----LHHAYLLTGTRGVGKTTIARILAKSLNCENAQ---HGEPCGV----CQSCTQID   83 (709)
T ss_pred             HHHcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccCCC---CCCCCcc----cHHHHHHh
Confidence            469999999999999986542     24578899999999999999887632111100   0000000    00000000


Q ss_pred             Hh-----hcCCCCCCcccHHHHHHHHHh----hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-H
Q 000471          266 NS-----VASDQCKDKDDLNLLQEKLKK----QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-V  335 (1472)
Q Consensus       266 ~~-----l~~~~~~~~~~~~~~~~~l~~----~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v  335 (1472)
                      ..     +..... .....+.+.+.+..    -..+++-++|+|++..........+...+.......++|++|.+.. +
T Consensus        84 ~g~~~DvlEidaA-s~~gVd~IRelle~a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL  162 (709)
T PRK08691         84 AGRYVDLLEIDAA-SNTGIDNIREVLENAQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKV  162 (709)
T ss_pred             ccCccceEEEecc-ccCCHHHHHHHHHHHHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCcccc
Confidence            00     000000 11122222222221    1235667999999987665455556555544344567777765432 2


Q ss_pred             HHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          336 AER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       336 ~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      ... .+....+.+.+++.++....+.+.+-..+-..    -.+....|++.++|.+.-+..+
T Consensus       163 ~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi~i----d~eAL~~Ia~~A~GslRdAlnL  220 (709)
T PRK08691        163 PVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEKIAY----EPPALQLLGRAAAGSMRDALSL  220 (709)
T ss_pred             chHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcCCCc----CHHHHHHHHHHhCCCHHHHHHH
Confidence            211 12224578899999999988887764322111    1467788999999988544433

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=98.21  E-value=2.1e-05  Score=96.06  Aligned_cols=195  Identities=16%  Similarity=0.133  Sum_probs=113.4

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||-+..++.|...+..+.     -...+.++|+.|+||||+|+.+++.......+.       ...+..-...+.|.
T Consensus        16 ~divGQe~vv~~L~~~l~~~r-----l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~~~-------~~pCg~C~~C~~i~   83 (647)
T PRK07994         16 AEVVGQEHVLTALANALDLGR-----LHHAYLFSGTRGVGKTTIARLLAKGLNCETGIT-------ATPCGECDNCREIE   83 (647)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhhhccCCC-------CCCCCCCHHHHHHH
Confidence            369999999999999986542     234578999999999999999986321111000       00111111111211


Q ss_pred             Hh-------hcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHH
Q 000471          266 NS-------VASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVA  336 (1472)
Q Consensus       266 ~~-------l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~  336 (1472)
                      ..       +........+++.++.+.+... ..+++-++|+|+++.........+...+.......++|++|.+. .+.
T Consensus        84 ~g~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl  163 (647)
T PRK07994         84 QGRFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  163 (647)
T ss_pred             cCCCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccc
Confidence            10       0000000112222333222211 24677799999998877667777766665544566666655543 333


Q ss_pred             Hh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          337 ER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       337 ~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      .. ......|.+++++.++..+.+.+.+-...- .   .-.+....|++.++|.+-.+..+
T Consensus       164 ~TI~SRC~~~~f~~Ls~~ei~~~L~~il~~e~i-~---~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        164 VTILSRCLQFHLKALDVEQIRQQLEHILQAEQI-P---FEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             hHHHhhheEeeCCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHH
Confidence            22 122367899999999999888876522211 1   11456778999999988754444

>PRK08727 hypothetical protein; Validated

Probab=98.20  E-value=2.4e-05  Score=85.19  Aligned_cols=148  Identities=17%  Similarity=0.136  Sum_probs=89.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      ..+.|+|..|+|||+||+++++..  ......+.++++.+      ....+                  .+.+.. + .+
T Consensus        42 ~~l~l~G~~G~GKThL~~a~~~~~--~~~~~~~~y~~~~~------~~~~~------------------~~~~~~-l-~~   93 (233)
T PRK08727         42 DWLYLSGPAGTGKTHLALALCAAA--EQAGRSSAYLPLQA------AAGRL------------------RDALEA-L-EG   93 (233)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH--HHcCCcEEEEeHHH------hhhhH------------------HHHHHH-H-hc
Confidence            469999999999999999998742  23333455665322      11111                  011111 1 12


Q ss_pred             eEEEEEeCCCCCC-HhhHHhhcccccC--CCCCcEEEEEcCCh---------HHHHhhCCCCceeCCCCChHhHHHHHHh
Q 000471          294 KFLLVLDDVWNEN-YIRWSELRCPFVA--GAAGSKIVVTTRNL---------VVAERMGADPVYQLKELSDDDCLCVLTQ  361 (1472)
Q Consensus       294 ~~LlVlDdv~~~~-~~~~~~l~~~l~~--~~~~s~iivTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~  361 (1472)
                      .-+||+||+.... ...|......+..  ...|..||+|++..         ++...+....++++++++.++-.+++.+
T Consensus        94 ~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~  173 (233)
T PRK08727         94 RSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRE  173 (233)
T ss_pred             CCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHH
Confidence            3589999996542 1223322222221  12466799999853         2333344456789999999999999998


Q ss_pred             hhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          362 ISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       362 ~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      ++.... ...   -+++..-|++.++|..-++
T Consensus       174 ~a~~~~-l~l---~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        174 RAQRRG-LAL---DEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHcC-CCC---CHHHHHHHHHhCCCCHHHH
Confidence            775422 111   1577888999998776655

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.20  E-value=4.7e-06  Score=94.50  Aligned_cols=136  Identities=30%  Similarity=0.476  Sum_probs=99.6

Q ss_pred             CCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCCCCCCCcceeEeccccCCCCCCcccccccccccee
Q 000471         1287 PSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRF 1366 (1472)
Q Consensus      1287 ~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L 1366 (1472)
                      .+.+++.|++++| .+..+|. +  -++|++|++++|..++.+|. ..+++|+.|++++|.....+|.       +|+.|
T Consensus        50 ~~~~l~~L~Is~c-~L~sLP~-L--P~sLtsL~Lsnc~nLtsLP~-~LP~nLe~L~Ls~Cs~L~sLP~-------sLe~L  117 (426)
T PRK15386         50 EARASGRLYIKDC-DIESLPV-L--PNELTEITIENCNNLTTLPG-SIPEGLEKLTVCHCPEISGLPE-------SVRSL  117 (426)
T ss_pred             HhcCCCEEEeCCC-CCcccCC-C--CCCCcEEEccCCCCcccCCc-hhhhhhhheEccCccccccccc-------ccceE
Confidence            3568999999999 5677772 2  24799999999999988885 4578999999999955455554       58888


Q ss_pred             eeccCCCCCCCCCCCCccccceeccCCCCc--CcccccCCCC-CcCceeeccCCCCCCCCCCCCCccccceecccCCc
Q 000471         1367 TICGGCPDLVSPPPFPASLTNLWISDMPDL--ESISSIGENL-TSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCP 1441 (1472)
Q Consensus      1367 ~Ls~n~~~~~~~~~~~~~L~~L~l~~~~~l--~~i~~~~~~l-~~L~~L~l~~~~~l~~lp~~~~~~sL~~L~l~~c~ 1441 (1472)
                      +++++  ....+..+|.+|+.|.+.++...  ..+|   ..+ ++|++|++++|..+. +|. .+|.+|++|+++.|.
T Consensus       118 ~L~~n--~~~~L~~LPssLk~L~I~~~n~~~~~~lp---~~LPsSLk~L~Is~c~~i~-LP~-~LP~SLk~L~ls~n~  188 (426)
T PRK15386        118 EIKGS--ATDSIKNVPNGLTSLSINSYNPENQARID---NLISPSLKTLSLTGCSNII-LPE-KLPESLQSITLHIEQ  188 (426)
T ss_pred             EeCCC--CCcccccCcchHhheeccccccccccccc---cccCCcccEEEecCCCccc-Ccc-cccccCcEEEecccc
Confidence            88653  33456778899999998654321  1122   223 689999999997553 443 378899999998764

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.20  E-value=3.4e-05  Score=94.12  Aligned_cols=197  Identities=16%  Similarity=0.155  Sum_probs=111.5

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC--cceEEEEecCCCCHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY--EIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      .++||-+..++.|..++..+.     -...+.++|+.|+||||+|+.+.+........  ...-+    ..+..-..-+.
T Consensus        16 ~dviGQe~vv~~L~~~l~~~r-----l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~   86 (618)
T PRK14951         16 SEMVGQEHVVQALTNALTQQR-----LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRD   86 (618)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHH
Confidence            358999999999999986542     24567899999999999999986532110000  00000    00111111111


Q ss_pred             HHHhh-----cCCCCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-h
Q 000471          264 ILNSV-----ASDQCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-L  333 (1472)
Q Consensus       264 i~~~l-----~~~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~  333 (1472)
                      |...-     ..... .....+++.+.+...    ..++.-++|||+|+......+..+...+.......++|++|.+ .
T Consensus        87 i~~g~h~D~~eldaa-s~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~  165 (618)
T PRK14951         87 IDSGRFVDYTELDAA-SNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQ  165 (618)
T ss_pred             HHcCCCCceeecCcc-cccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCch
Confidence            10000     00000 111222222222211    1245568999999988777777777766654456666655543 3


Q ss_pred             HHHHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          334 VVAER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       334 ~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      .+... ......+++++++.++..+.+.+.+...+-..    -.+....|++.++|.+.-+..+
T Consensus       166 kil~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~egi~i----e~~AL~~La~~s~GslR~al~l  225 (618)
T PRK14951        166 KVPVTVLSRCLQFNLRPMAPETVLEHLTQVLAAENVPA----EPQALRLLARAARGSMRDALSL  225 (618)
T ss_pred             hhhHHHHHhceeeecCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHH
Confidence            33322 23346789999999999888887663322111    1466788999999987554433

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.19  E-value=3.6e-05  Score=91.85  Aligned_cols=186  Identities=17%  Similarity=0.171  Sum_probs=107.0

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhcc--C-----------------cce
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRH--Y-----------------EIK  246 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~--f-----------------~~~  246 (1472)
                      .++||.+...+.+...+..+.     -...+.++|++|+||||+|+.+++.......  +                 ...
T Consensus        14 ~divGq~~i~~~L~~~i~~~~-----l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         14 SEVVGQDHVKKLIINALKKNS-----ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            359999988888888875432     2356789999999999999999763211100  0                 011


Q ss_pred             EEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcE
Q 000471          247 AWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSK  325 (1472)
Q Consensus       247 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  325 (1472)
                      ..++.+.....                   ++...+.+.+.. ...+++-++|+|+++.........+...+........
T Consensus        89 ~el~aa~~~gi-------------------d~iR~i~~~~~~~p~~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv  149 (472)
T PRK14962         89 IELDAASNRGI-------------------DEIRKIRDAVGYRPMEGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVV  149 (472)
T ss_pred             EEEeCcccCCH-------------------HHHHHHHHHHhhChhcCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEE
Confidence            11111111111                   111222222211 1235677999999976544445555555544333455


Q ss_pred             EEEEcCC-hHHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCC-hhHHHHHHhh
Q 000471          326 IVVTTRN-LVVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGL-PLAAKTLGGL  399 (1472)
Q Consensus       326 iivTtR~-~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~gl-PLal~~~~~~  399 (1472)
                      +|++|.+ ..+.... .....+++.+++.++....+.+.+....-...    .+....|++.++|. +.|+..+-.+
T Consensus       150 ~Ilattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~egi~i~----~eal~~Ia~~s~GdlR~aln~Le~l  222 (472)
T PRK14962        150 FVLATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEGIEID----REALSFIAKRASGGLRDALTMLEQV  222 (472)
T ss_pred             EEEEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            5544443 3343332 23357899999999998888887643221111    46678888888654 6666666553

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=4e-05  Score=90.72  Aligned_cols=180  Identities=16%  Similarity=0.099  Sum_probs=110.5

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh-------------------ccCcce
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ-------------------RHYEIK  246 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~-------------------~~f~~~  246 (1472)
                      .++||-+..++.+..++..+.     -...+.++|+.|+||||+|+.++......                   ..+..+
T Consensus        13 ~dliGQe~vv~~L~~a~~~~r-----i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964         13 KDLVGQDVLVRILRNAFTLNK-----IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            368999999999988885542     23478899999999999999887521000                   011112


Q ss_pred             EEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcE
Q 000471          247 AWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSK  325 (1472)
Q Consensus       247 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  325 (1472)
                      +.++.+....+.                   ++.++.+..... ..+++-++|+|++........+.+...+......++
T Consensus        88 ~eidaas~~~vd-------------------dIR~Iie~~~~~P~~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~  148 (491)
T PRK14964         88 IEIDAASNTSVD-------------------DIKVILENSCYLPISSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVK  148 (491)
T ss_pred             EEEecccCCCHH-------------------HHHHHHHHHHhccccCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeE
Confidence            223322222211                   122222221111 235667899999977766666677666665555667


Q ss_pred             EEEEc-CChHHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          326 IVVTT-RNLVVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       326 iivTt-R~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      +|++| ....+.... .....+++.+++.++..+.+.+.+...+...+    .+.+..|++.++|.+..+
T Consensus       149 fIlatte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Egi~i~----~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        149 FILATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKENIEHD----EESLKLIAENSSGSMRNA  214 (491)
T ss_pred             EEEEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHH
Confidence            66655 434444332 23467899999999999988887643321111    466788999999987544

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.18  E-value=1.3e-06  Score=105.03  Aligned_cols=175  Identities=20%  Similarity=0.251  Sum_probs=91.9

Q ss_pred             CCcchhhhccccccccCccccCCCC-CccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEee
Q 000471         1241 TSLEEITISVLENLKSLPADLHNLH-HLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILE 1319 (1472)
Q Consensus      1241 ~~L~~L~l~~~~~~~~~~~~l~~l~-~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~ 1319 (1472)
                      +.++.|++.+++.. .++.....+. +|+.|++++| .+..+|.....+++|+.|++++|+. ..+|......+.|+.|+
T Consensus       116 ~~l~~L~l~~n~i~-~i~~~~~~~~~nL~~L~l~~N-~i~~l~~~~~~l~~L~~L~l~~N~l-~~l~~~~~~~~~L~~L~  192 (394)
T COG4886         116 TNLTSLDLDNNNIT-DIPPLIGLLKSNLKELDLSDN-KIESLPSPLRNLPNLKNLDLSFNDL-SDLPKLLSNLSNLNNLD  192 (394)
T ss_pred             cceeEEecCCcccc-cCccccccchhhccccccccc-chhhhhhhhhccccccccccCCchh-hhhhhhhhhhhhhhhee
Confidence            44455554443332 2333333332 5666666663 3444444455566666666666443 33444344556666666


Q ss_pred             ecCCCCCccCCCC-CCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCC-CCCCCCCccccceeccCCCCcC
Q 000471         1320 IRGCPSVVSFPED-GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDL-VSPPPFPASLTNLWISDMPDLE 1397 (1472)
Q Consensus      1320 L~~n~~l~~~p~~-~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~-~~~~~~~~~L~~L~l~~~~~l~ 1397 (1472)
                      +++| .+..+|.. ..+..|++|.+++|.....+.  .+.++.++..+.+.+|.... ......+.+++.|++++| .+.
T Consensus       193 ls~N-~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~--~~~~~~~l~~l~l~~n~~~~~~~~~~~l~~l~~L~~s~n-~i~  268 (394)
T COG4886         193 LSGN-KISDLPPEIELLSALEELDLSNNSIIELLS--SLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLDLSNN-QIS  268 (394)
T ss_pred             ccCC-ccccCchhhhhhhhhhhhhhcCCcceecch--hhhhcccccccccCCceeeeccchhccccccceeccccc-ccc
Confidence            6666 45555554 344556666666664333332  35556666666655544333 233334455666666666 455


Q ss_pred             cccccCCCCCcCceeeccCCCCCCCC
Q 000471         1398 SISSIGENLTSLETLRLFNCPKLKYF 1423 (1472)
Q Consensus      1398 ~i~~~~~~l~~L~~L~l~~~~~l~~l 1423 (1472)
                      .++. +..+.+|+.|+++++.....+
T Consensus       269 ~i~~-~~~~~~l~~L~~s~n~~~~~~  293 (394)
T COG4886         269 SISS-LGSLTNLRELDLSGNSLSNAL  293 (394)
T ss_pred             cccc-ccccCccCEEeccCccccccc
Confidence            5554 556666666666666544433

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.17  E-value=5.1e-05  Score=80.05  Aligned_cols=91  Identities=18%  Similarity=0.204  Sum_probs=64.1

Q ss_pred             CCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCC
Q 000471          292 GNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDF  369 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~  369 (1472)
                      +.+-++|+||++......++.+...+......+.+|++|++. .+.... ....++++.+++.++..+.+.+.  + -  
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~sr~~~~~~~~~~~~~~~~~l~~~--g-i--  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIRSRCQVLPFPPLSEEALLQWLIRQ--G-I--  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHHhhcEEeeCCCCCHHHHHHHHHHc--C-C--
Confidence            567789999998776566677776666555567777777654 222221 22357899999999998888776  2 1  


Q ss_pred             CCCccHHHHHHHHHHHhCCChhH
Q 000471          370 TRHLSLKEVGEQIVIKCGGLPLA  392 (1472)
Q Consensus       370 ~~~~~~~~~~~~i~~~~~glPLa  392 (1472)
                       .    .+.+..|++.++|.|..
T Consensus       170 -~----~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       170 -S----EEAAELLLALAGGSPGA  187 (188)
T ss_pred             -C----HHHHHHHHHHcCCCccc
Confidence             1    46788999999999853

At position 126-127 of the seed alignment, this family lacks the HM motif of gamma/tau; at 132 it has a near-invariant A vs. an invariant F in gamma/tau.

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.17  E-value=3.3e-05  Score=84.18  Aligned_cols=156  Identities=15%  Similarity=0.124  Sum_probs=93.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      .+.+.|+|+.|+|||+||+++++..  ...-..+.++.+.....                     ...+..+.+.+    
T Consensus        45 ~~~l~l~Gp~G~GKThLl~a~~~~~--~~~~~~v~y~~~~~~~~---------------------~~~~~~~~~~~----   97 (235)
T PRK08084         45 SGYIYLWSREGAGRSHLLHAACAEL--SQRGRAVGYVPLDKRAW---------------------FVPEVLEGMEQ----   97 (235)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCeEEEEEHHHHhh---------------------hhHHHHHHhhh----
Confidence            3578999999999999999998742  22223345555532100                     00111111111    


Q ss_pred             CeEEEEEeCCCCCCH-hhHHhhc-ccccCC-CCC-cEEEEEcCCh---------HHHHhhCCCCceeCCCCChHhHHHHH
Q 000471          293 NKFLLVLDDVWNENY-IRWSELR-CPFVAG-AAG-SKIVVTTRNL---------VVAERMGADPVYQLKELSDDDCLCVL  359 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~-~~~~~l~-~~l~~~-~~~-s~iivTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf  359 (1472)
                       --+|++||+..... ..|+... ..+... ..| .++|+||+..         ++...+....+++++++++++-.+++
T Consensus        98 -~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~~l~~~~~~~~~~~l  176 (235)
T PRK08084         98 -LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIYKLQPLSDEEKLQAL  176 (235)
T ss_pred             -CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCceeeecCCCHHHHHHHH
Confidence             23789999965421 2343322 122111 123 4799999754         34455566678999999999999998


Q ss_pred             HhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          360 TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       360 ~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      .+++.... ..-   -+++..-|++.+.|..-++..+-..+
T Consensus       177 ~~~a~~~~-~~l---~~~v~~~L~~~~~~d~r~l~~~l~~l  213 (235)
T PRK08084        177 QLRARLRG-FEL---PEDVGRFLLKRLDREMRTLFMTLDQL  213 (235)
T ss_pred             HHHHHHcC-CCC---CHHHHHHHHHhhcCCHHHHHHHHHHH
Confidence            88664321 111   15788889999998877665554443

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=3.3e-05  Score=93.20  Aligned_cols=182  Identities=13%  Similarity=0.090  Sum_probs=108.3

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc-------------------cCcce
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-------------------HYEIK  246 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~  246 (1472)
                      .++||-+..++.|..++....     -...+.++|+.|+||||+|+.+++......                   .|..+
T Consensus        16 ~divGq~~v~~~L~~~~~~~~-----l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d~   90 (509)
T PRK14958         16 QEVIGQAPVVRALSNALDQQY-----LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPDL   90 (509)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCceE
Confidence            369999999999999996542     234678999999999999999886321111                   11111


Q ss_pred             EEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcE
Q 000471          247 AWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSK  325 (1472)
Q Consensus       247 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  325 (1472)
                      +.++.+....+                   +++.++.+.+.. -..++.-++|+|+|+.........+...+......++
T Consensus        91 ~eidaas~~~v-------------------~~iR~l~~~~~~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~  151 (509)
T PRK14958         91 FEVDAASRTKV-------------------EDTRELLDNIPYAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVK  151 (509)
T ss_pred             EEEcccccCCH-------------------HHHHHHHHHHhhccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeE
Confidence            22221111111                   112222222111 1235666899999988776667766666655445677


Q ss_pred             EEEEcCCh-HHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          326 IVVTTRNL-VVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       326 iivTtR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      +|++|.+. .+.... .....+++++++.++....+.+.+-..+- ..   -.+....|++.++|.+.-+..
T Consensus       152 fIlattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~egi-~~---~~~al~~ia~~s~GslR~al~  219 (509)
T PRK14958        152 FILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEENV-EF---ENAALDLLARAANGSVRDALS  219 (509)
T ss_pred             EEEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCcHHHHHH
Confidence            77665443 332221 22356789999999887776665532221 11   135567889999998864443

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.16  E-value=2.5e-05  Score=97.69  Aligned_cols=171  Identities=23%  Similarity=0.290  Sum_probs=98.0

Q ss_pred             CceeechhHHH---HHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKE---EIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~---~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      .+|+|.+..+.   .+.+++...      ....+.++|++|+||||+|+.+++.  ...+|.   .++... ...     
T Consensus        28 dd~vGQe~ii~~~~~L~~~i~~~------~~~slLL~GPpGtGKTTLA~aIA~~--~~~~f~---~lna~~-~~i-----   90 (725)
T PRK13341         28 EEFVGQDHILGEGRLLRRAIKAD------RVGSLILYGPPGVGKTTLARIIANH--TRAHFS---SLNAVL-AGV-----   90 (725)
T ss_pred             HHhcCcHHHhhhhHHHHHHHhcC------CCceEEEECCCCCCHHHHHHHHHHH--hcCcce---eehhhh-hhh-----
Confidence            35889888774   455665432      3456789999999999999999973  333331   111110 000     


Q ss_pred             HHHHhhcCCCCCCcccHHHHHHHHHhhh--CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEE--EcCChH--HH
Q 000471          263 SILNSVASDQCKDKDDLNLLQEKLKKQL--SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV--TTRNLV--VA  336 (1472)
Q Consensus       263 ~i~~~l~~~~~~~~~~~~~~~~~l~~~l--~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv--TtR~~~--v~  336 (1472)
                                    .+.........+.+  .+++.++||||++......++.+...+.   .|..++|  ||.+..  +.
T Consensus        91 --------------~dir~~i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~lE---~g~IiLI~aTTenp~~~l~  153 (725)
T PRK13341         91 --------------KDLRAEVDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWVE---NGTITLIGATTENPYFEVN  153 (725)
T ss_pred             --------------HHHHHHHHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHhc---CceEEEEEecCCChHhhhh
Confidence                          01111111121111  2467899999998765555555554332   3555555  344431  21


Q ss_pred             Hh-hCCCCceeCCCCChHhHHHHHHhhhcC------CCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          337 ER-MGADPVYQLKELSDDDCLCVLTQISLG------ARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       337 ~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~------~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      .. .....++.+++++.++...++.+.+-.      .....   --.+....|++.+.|..-.+
T Consensus       154 ~aL~SR~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~---I~deaL~~La~~s~GD~R~l  214 (725)
T PRK13341        154 KALVSRSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVD---LEPEAEKHLVDVANGDARSL  214 (725)
T ss_pred             hHhhccccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccC---CCHHHHHHHHHhCCCCHHHH
Confidence            11 122357899999999999998876531      11111   11456778888888875433

>PLN03150 hypothetical protein; Provisional

Probab=98.16  E-value=2.2e-06  Score=107.53  Aligned_cols=107  Identities=21%  Similarity=0.183  Sum_probs=74.4

Q ss_pred             cchhhhccccccccCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeecC
Q 000471         1243 LEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRG 1322 (1472)
Q Consensus      1243 L~~L~l~~~~~~~~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~ 1322 (1472)
                      ++.|++++|...+.+|..+..+++|+.|+|++|...+.+|..+..+++|+.|+|++|...+.+|..+.++++|++|+|++
T Consensus       420 v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls~  499 (623)
T PLN03150        420 IDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLNG  499 (623)
T ss_pred             EEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECcC
Confidence            44555566666666677777777777777777776667777777777777777777777777777777777777777777


Q ss_pred             CCCCccCCCC--CCCCCcceeEeccccCC
Q 000471         1323 CPSVVSFPED--GFPTNLQSLEVRGLKIS 1349 (1472)
Q Consensus      1323 n~~l~~~p~~--~~~~~L~~L~l~~n~~~ 1349 (1472)
                      |...+.+|..  ..+.++..+++.+|...
T Consensus       500 N~l~g~iP~~l~~~~~~~~~l~~~~N~~l  528 (623)
T PLN03150        500 NSLSGRVPAALGGRLLHRASFNFTDNAGL  528 (623)
T ss_pred             CcccccCChHHhhccccCceEEecCCccc
Confidence            7666666654  22345566677666543

>PRK09087 hypothetical protein; Validated

Probab=98.15  E-value=5.4e-05  Score=81.46  Aligned_cols=143  Identities=19%  Similarity=0.157  Sum_probs=88.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      .+.+.|||+.|+|||+|++.++....       ..+++..      .+..+++..                      +.+
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~~-------~~~i~~~------~~~~~~~~~----------------------~~~   88 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKSD-------ALLIHPN------EIGSDAANA----------------------AAE   88 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhcC-------CEEecHH------HcchHHHHh----------------------hhc
Confidence            35689999999999999998886321       1133221      111111111                      111


Q ss_pred             CeEEEEEeCCCCCC--HhhHHhhcccccCCCCCcEEEEEcCC---------hHHHHhhCCCCceeCCCCChHhHHHHHHh
Q 000471          293 NKFLLVLDDVWNEN--YIRWSELRCPFVAGAAGSKIVVTTRN---------LVVAERMGADPVYQLKELSDDDCLCVLTQ  361 (1472)
Q Consensus       293 k~~LlVlDdv~~~~--~~~~~~l~~~l~~~~~~s~iivTtR~---------~~v~~~~~~~~~~~l~~L~~~~~~~lf~~  361 (1472)
                        -+|++||+....  +..+-.+...+.  ..|..||+|++.         ++....+....++++++++.++-.+++.+
T Consensus        89 --~~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~  164 (226)
T PRK09087         89 --GPVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFK  164 (226)
T ss_pred             --CeEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHH
Confidence              278889996532  222222222222  246779998873         34555556667899999999999999998


Q ss_pred             hhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHh
Q 000471          362 ISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGG  398 (1472)
Q Consensus       362 ~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~  398 (1472)
                      .+.... ..-+   +++..-|++++.|..-++..+-.
T Consensus       165 ~~~~~~-~~l~---~ev~~~La~~~~r~~~~l~~~l~  197 (226)
T PRK09087        165 LFADRQ-LYVD---PHVVYYLVSRMERSLFAAQTIVD  197 (226)
T ss_pred             HHHHcC-CCCC---HHHHHHHHHHhhhhHHHHHHHHH
Confidence            874321 1111   57888899999988877765433

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.15  E-value=7e-05  Score=86.43  Aligned_cols=196  Identities=13%  Similarity=0.107  Sum_probs=113.3

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceE------EEEecCCCCHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKA------WTCVSEDFDVF  258 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~------wv~~~~~~~~~  258 (1472)
                      -.+++|.++.++.+.+.+..+.     -...+.++|+.|+||+|+|..+.+..-.........      =..+....   
T Consensus        18 ~~~iiGq~~~~~~L~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c---   89 (365)
T PRK07471         18 TTALFGHAAAEAALLDAYRSGR-----LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDH---   89 (365)
T ss_pred             hhhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCC---
Confidence            3569999999999999986542     245688999999999999988875321111000000      00000000   


Q ss_pred             HHHHHHHHhh-------cCC--CC----CCcccHHHHHHHHHhhhC-----CCeEEEEEeCCCCCCHhhHHhhcccccCC
Q 000471          259 RISKSILNSV-------ASD--QC----KDKDDLNLLQEKLKKQLS-----GNKFLLVLDDVWNENYIRWSELRCPFVAG  320 (1472)
Q Consensus       259 ~~~~~i~~~l-------~~~--~~----~~~~~~~~~~~~l~~~l~-----~k~~LlVlDdv~~~~~~~~~~l~~~l~~~  320 (1472)
                      ..-+.+...-       ...  ..    .....++++. .+.+.+.     +.+.++|+||++..+......+...+...
T Consensus        90 ~~c~~i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR-~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEep  168 (365)
T PRK07471         90 PVARRIAAGAHGGLLTLERSWNEKGKRLRTVITVDEVR-ELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEP  168 (365)
T ss_pred             hHHHHHHccCCCCeEEEecccccccccccccccHHHHH-HHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcC
Confidence            0111111000       000  00    0111233322 2333332     55779999999888777777777666555


Q ss_pred             CCCcEEEEEcCChH-HHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          321 AAGSKIVVTTRNLV-VAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       321 ~~~s~iivTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      ..++.+|++|.... +.... .....+.+.+++.++..+++......     ..   .+....+++.++|.|..+..+.
T Consensus       169 p~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~-----~~---~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        169 PARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPD-----LP---DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             CCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhccc-----CC---HHHHHHHHHHcCCCHHHHHHHh
Confidence            45667777777653 32222 23357899999999999999875411     11   1223678999999998665554

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.14  E-value=3e-06  Score=94.04  Aligned_cols=287  Identities=17%  Similarity=0.187  Sum_probs=176.6

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcc-eEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEI-KAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      ..|.+.++|.|||||||++-.+..   ...-|.. ++++....-.+...+.-.....++......    +.....+..+.
T Consensus        13 ~~RlvtL~g~ggvgkttl~~~~a~---~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g----~~~~~~~~~~~   85 (414)
T COG3903          13 ALRLVTLTGAGGVGKTTLALQAAH---AASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPG----DSAVDTLVRRI   85 (414)
T ss_pred             hhheeeeeccCccceehhhhhhHh---HhhhcccceeeeeccccCchhHhHHHHHhhcccccccc----hHHHHHHHHHH
Confidence            357899999999999999988875   4455654 555666666666666666666566543311    22334455666


Q ss_pred             CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHhhCCCCceeCCCCChH-hHHHHHHhhhcCCC-C
Q 000471          291 SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDD-DCLCVLTQISLGAR-D  368 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~~~~~~l~~L~~~-~~~~lf~~~a~~~~-~  368 (1472)
                      .++|.++|+||-...- ..-..+...+..+...-.|+.|+|..-.   +..+..+.+.+|+.. ++.++|...+.... .
T Consensus        86 ~~rr~llvldncehl~-~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~  161 (414)
T COG3903          86 GDRRALLVLDNCEHLL-DACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALS  161 (414)
T ss_pred             hhhhHHHHhcCcHHHH-HHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccc
Confidence            7889999999984431 1222233334445556678889886532   234456778888775 78889877763221 1


Q ss_pred             CCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCC-------hhhHHHHHhhc-ccccCCCCcccchhhcccCCChhh
Q 000471          369 FTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDD-------PRDWEFVLKTD-IWNLRDSDILPALRVSYHFLPPQL  440 (1472)
Q Consensus       369 ~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~-------~~~w~~~~~~~-~~~~~~~~i~~~l~~sy~~L~~~~  440 (1472)
                      ..-...-...+.+|.++.+|.|++|...++..++-..       .+.|.....-. .-...+......+.+||.-|....
T Consensus       162 f~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe  241 (414)
T COG3903         162 FWLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWE  241 (414)
T ss_pred             eeecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHH
Confidence            2222233577899999999999999999988876522       12233222110 001112367789999999999999


Q ss_pred             HhHhhhhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHhCCCccccC-CCCCcEEEehhHHHHHH
Q 000471          441 KQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSS-KDASRFVMHDLINDLAR  518 (1472)
Q Consensus       441 k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L~~~~ll~~~~-~~~~~~~mHdlv~~~a~  518 (1472)
                      +-.|.-++.|...+.-.    ...|.+.|-....     ..-.....+..+++.+++...+ .....|+.-+-++.|+.
T Consensus       242 ~~~~~rLa~~~g~f~~~----l~~~~a~g~~~~~-----~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~Yal  311 (414)
T COG3903         242 RALFGRLAVFVGGFDLG----LALAVAAGADVDV-----PRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYAL  311 (414)
T ss_pred             HHHhcchhhhhhhhccc----HHHHHhcCCcccc-----chHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHH
Confidence            99999999998776543    3345554432100     1122344566777887775432 11223444444444443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=98.13  E-value=6.3e-05  Score=87.51  Aligned_cols=194  Identities=13%  Similarity=0.073  Sum_probs=108.0

Q ss_pred             ceeechhHHHHHHHHHhcCCCC----CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLR----GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~----~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      +++|-+..++.+.+++..+...    +..-..-+.++|+.|+|||++|+.++........-    +..+    ..-..-+
T Consensus         6 ~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~----~~~C----g~C~~C~   77 (394)
T PRK07940          6 DLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPD----EPGC----GECRACR   77 (394)
T ss_pred             hccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCC----CCCC----CCCHHHH
Confidence            5889999999999999764210    00124568899999999999999987521110000    0000    0000000


Q ss_pred             HHHHhhc-------CC-CCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh
Q 000471          263 SILNSVA-------SD-QCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       263 ~i~~~l~-------~~-~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~  333 (1472)
                      .+...-.       .. .....+++..+.+.+.. -..+++-++|+|+++.........+...+.....+..+|++|.+.
T Consensus        78 ~~~~~~hpD~~~i~~~~~~i~i~~iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~  157 (394)
T PRK07940         78 TVLAGTHPDVRVVAPEGLSIGVDEVRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSP  157 (394)
T ss_pred             HHhcCCCCCEEEeccccccCCHHHHHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECCh
Confidence            0000000       00 00011112222222211 113455688889998876555566666555545566676666654


Q ss_pred             -HHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          334 -VVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       334 -~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                       .+.... .....+.+.+++.++..+.+.... +    ..    .+.+..+++.++|.|.....+.
T Consensus       158 ~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~-~----~~----~~~a~~la~~s~G~~~~A~~l~  214 (394)
T PRK07940        158 EDVLPTIRSRCRHVALRTPSVEAVAEVLVRRD-G----VD----PETARRAARASQGHIGRARRLA  214 (394)
T ss_pred             HHChHHHHhhCeEEECCCCCHHHHHHHHHHhc-C----CC----HHHHHHHHHHcCCCHHHHHHHh
Confidence             333222 223678999999999998887432 1    11    3557889999999997654443

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.13  E-value=3.3e-05  Score=84.41  Aligned_cols=152  Identities=20%  Similarity=0.155  Sum_probs=88.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      .+.+.|+|..|+|||+||+++++... ... ....+++......      .    +                   ... .
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~-~~~-~~~~~i~~~~~~~------~----~-------------------~~~-~   89 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADAS-YGG-RNARYLDAASPLL------A----F-------------------DFD-P   89 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHH-hCC-CcEEEEehHHhHH------H----H-------------------hhc-c
Confidence            45788999999999999999987421 111 1334444322110      0    0                   011 2


Q ss_pred             CeEEEEEeCCCCCCHhhHHhhcccccCC-CCCc-EEEEEcCChHHH--------HhhCCCCceeCCCCChHhHHHHHHhh
Q 000471          293 NKFLLVLDDVWNENYIRWSELRCPFVAG-AAGS-KIVVTTRNLVVA--------ERMGADPVYQLKELSDDDCLCVLTQI  362 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~~~~~~l~~~l~~~-~~~s-~iivTtR~~~v~--------~~~~~~~~~~l~~L~~~~~~~lf~~~  362 (1472)
                      ..-+||+||+.......-..+...+... ..+. .||+|++.....        ..+.....+++.++++++-..++.+.
T Consensus        90 ~~~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~  169 (227)
T PRK08903         90 EAELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAA  169 (227)
T ss_pred             cCCEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHH
Confidence            2347889999654322222333333211 1333 467777653322        12233457899999998877777665


Q ss_pred             hcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          363 SLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       363 a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      +-... ...   -++..+.+++...|.+..+..+...+
T Consensus       170 ~~~~~-v~l---~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        170 AAERG-LQL---ADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHcC-CCC---CHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            42211 111   15678889999999999887777655

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.12  E-value=4.1e-05  Score=90.56  Aligned_cols=201  Identities=13%  Similarity=0.105  Sum_probs=111.4

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEE-ecCCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC-VSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~i  264 (1472)
                      .+++|.+..++.|..++..+.     -...+.++|+.|+||||+|+.+++.......+....|.. ....+..-..-+.+
T Consensus        16 ~eiiGq~~~~~~L~~~~~~~~-----~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~   90 (397)
T PRK14955         16 ADITAQEHITRTIQNSLRMGR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDF   90 (397)
T ss_pred             hhccChHHHHHHHHHHHHhCC-----cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHH
Confidence            368999999999999886532     234577999999999999999876322111111111110 00111111111111


Q ss_pred             HHhhcCC----CCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChHH
Q 000471          265 LNSVASD----QCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLVV  335 (1472)
Q Consensus       265 ~~~l~~~----~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~v  335 (1472)
                      .......    ........+++.+.....    ..+++-++|+|++.......+..+...+......+.+|++| +...+
T Consensus        91 ~~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl  170 (397)
T PRK14955         91 DAGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (397)
T ss_pred             hcCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHh
Confidence            1110000    000111123333221111    23566789999998776666777777666555566666555 44444


Q ss_pred             HHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          336 AERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       336 ~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      .... ....++++.++++++..+.+...+-.......    .+.+..|++.++|.+--+..
T Consensus       171 ~~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~g~~i~----~~al~~l~~~s~g~lr~a~~  227 (397)
T PRK14955        171 PATIASRCQRFNFKRIPLEEIQQQLQGICEAEGISVD----ADALQLIGRKAQGSMRDAQS  227 (397)
T ss_pred             HHHHHHHHHHhhcCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHH
Confidence            3322 12246889999999988888776532211111    56788999999998754433

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.12  E-value=5e-06  Score=93.09  Aligned_cols=91  Identities=20%  Similarity=0.231  Sum_probs=61.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC--CHHHHHHHHHHhhcCCCCCCcccHH-----HHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF--DVFRISKSILNSVASDQCKDKDDLN-----LLQEK  285 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~-----~~~~~  285 (1472)
                      -.-..|+|++|+||||||++||++.... +|+..+||.+.+..  .+.++++.+...+-....+......     ...+.
T Consensus       169 GQR~lIvgppGvGKTTLaK~Ian~I~~n-hFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~  247 (416)
T PRK09376        169 GQRGLIVAPPKAGKTVLLQNIANSITTN-HPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEK  247 (416)
T ss_pred             CceEEEeCCCCCChhHHHHHHHHHHHhh-cCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHH
Confidence            3567899999999999999999975444 89999999999887  7778888876433322221111111     11111


Q ss_pred             HHhh-hCCCeEEEEEeCCCC
Q 000471          286 LKKQ-LSGNKFLLVLDDVWN  304 (1472)
Q Consensus       286 l~~~-l~~k~~LlVlDdv~~  304 (1472)
                      -+.. -.+++++|++|++..
T Consensus       248 Ae~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        248 AKRLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHHHcCCCEEEEEEChHH
Confidence            1111 358999999999944

>PRK05642 DNA replication initiation factor; Validated

Probab=98.11  E-value=4.8e-05  Score=82.78  Aligned_cols=156  Identities=24%  Similarity=0.245  Sum_probs=93.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      ...+.|+|..|+|||.||+++++..  ...-..++|++..+      +...               ..    .+.+.+.+
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~--~~~~~~v~y~~~~~------~~~~---------------~~----~~~~~~~~   97 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRF--EQRGEPAVYLPLAE------LLDR---------------GP----ELLDNLEQ   97 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH--HhCCCcEEEeeHHH------HHhh---------------hH----HHHHhhhh
Confidence            3678999999999999999998732  22223456665432      1110               01    12222222


Q ss_pred             CeEEEEEeCCCCCC-HhhHHh-hcccccC-CCCCcEEEEEcCChH---------HHHhhCCCCceeCCCCChHhHHHHHH
Q 000471          293 NKFLLVLDDVWNEN-YIRWSE-LRCPFVA-GAAGSKIVVTTRNLV---------VAERMGADPVYQLKELSDDDCLCVLT  360 (1472)
Q Consensus       293 k~~LlVlDdv~~~~-~~~~~~-l~~~l~~-~~~~s~iivTtR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~  360 (1472)
                      -. ++|+||+.... ...|.. +...+.. ...|.+||+|++...         +...+....++++++++.++-.+++.
T Consensus        98 ~d-~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~  176 (234)
T PRK05642         98 YE-LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQ  176 (234)
T ss_pred             CC-EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHH
Confidence            22 68899996432 124433 3222221 134667899887532         22333444678999999999999998


Q ss_pred             hhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          361 QISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       361 ~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      .++.... ..-+   +++..-|++++.|..-++..+-..|
T Consensus       177 ~ka~~~~-~~l~---~ev~~~L~~~~~~d~r~l~~~l~~l  212 (234)
T PRK05642        177 LRASRRG-LHLT---DEVGHFILTRGTRSMSALFDLLERL  212 (234)
T ss_pred             HHHHHcC-CCCC---HHHHHHHHHhcCCCHHHHHHHHHHH
Confidence            7664332 1111   5788889999998877665555444

>PLN03150 hypothetical protein; Provisional

Probab=98.11  E-value=3.2e-06  Score=105.98  Aligned_cols=94  Identities=24%  Similarity=0.330  Sum_probs=83.5

Q ss_pred             cceEEEecCCCCCccCCcccCCCCcCcEEecCCcccc-ccchhhhhcccccEEecCCCcchhhhhhhhcccCCCceeecC
Q 000471          599 RLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQ-ILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNS  677 (1472)
Q Consensus       599 ~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~-~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~  677 (1472)
                      .++.|+|++|..-..+|..|++|.+|++|+|++|.+. .+|..++.+.+|++|+|++|.....+|..+++|++|++|+++
T Consensus       419 ~v~~L~L~~n~L~g~ip~~i~~L~~L~~L~Ls~N~l~g~iP~~~~~l~~L~~LdLs~N~lsg~iP~~l~~L~~L~~L~Ls  498 (623)
T PLN03150        419 FIDGLGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLRILNLN  498 (623)
T ss_pred             EEEEEECCCCCccccCCHHHhCCCCCCEEECCCCcccCcCChHHhCCCCCCEEECCCCCCCCCCchHHhcCCCCCEEECc
Confidence            4788999999444578999999999999999999998 899999999999999999988778999999999999999999


Q ss_pred             CCCCcccCCCccccc
Q 000471          678 TANSLKEMPKGFGKL  692 (1472)
Q Consensus       678 ~~~~~~~~p~~i~~L  692 (1472)
                      +|.....+|..++.+
T Consensus       499 ~N~l~g~iP~~l~~~  513 (623)
T PLN03150        499 GNSLSGRVPAALGGR  513 (623)
T ss_pred             CCcccccCChHHhhc
Confidence            998777888877653

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=98.10  E-value=0.00011  Score=84.22  Aligned_cols=198  Identities=15%  Similarity=0.158  Sum_probs=114.9

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc--cCcceEEEEecCCCCHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR--HYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~--~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      -..++|-++..+.+...+..+.     ....+.|+|+.|+||||+|+.+.+..-...  .+....   ....+......+
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~gr-----l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~---~~~~~~~c~~c~   93 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGK-----LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPET---LADPDPASPVWR   93 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCC-----CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccc---cCCCCCCCHHHH
Confidence            4569999999999999996542     245688999999999999998876321100  011110   000111111223


Q ss_pred             HHHHh-------hcCCC-C-----CCcccHHHHHHHHHhhh-----CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCc
Q 000471          263 SILNS-------VASDQ-C-----KDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGS  324 (1472)
Q Consensus       263 ~i~~~-------l~~~~-~-----~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s  324 (1472)
                      .+...       +..+. .     .....++++. .+.+.+     .+++-++|+|+++..+....+.+...+.....+.
T Consensus        94 ~i~~~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR-~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~  172 (351)
T PRK09112         94 QIAQGAHPNLLHITRPFDEKTGKFKTAITVDEIR-RVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARA  172 (351)
T ss_pred             HHHcCCCCCEEEeecccccccccccccCCHHHHH-HHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCc
Confidence            33222       11100 0     0111233332 333333     3567799999998877666666666665444455


Q ss_pred             EEEEEcCCh-HHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          325 KIVVTTRNL-VVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       325 ~iivTtR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      .+|++|... .+.... .....+.+.+++.++..+++.+..... +     --.+.+..|++.++|.|..+..+.
T Consensus       173 ~fiLit~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~-~-----~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        173 LFILISHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQ-G-----SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             eEEEEECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhccc-C-----CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            555555433 332222 223578999999999999998743211 1     113557889999999998665544

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.10  E-value=7.8e-05  Score=90.77  Aligned_cols=183  Identities=14%  Similarity=0.124  Sum_probs=107.3

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc-------------------cCcce
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-------------------HYEIK  246 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~  246 (1472)
                      .++||-+..++.+..++..+.     -...+.++|+.|+||||+|+.+.+......                   .|...
T Consensus        16 ~divGq~~v~~~L~~~i~~~~-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~   90 (527)
T PRK14969         16 SELVGQEHVVRALTNALEQQR-----LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDL   90 (527)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCce
Confidence            368999999999999986542     235668999999999999999976321110                   01111


Q ss_pred             EEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcE
Q 000471          247 AWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSK  325 (1472)
Q Consensus       247 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  325 (1472)
                      +++..+....                   .+++.++.+.... -..+++-++|+|+++.........+...+......+.
T Consensus        91 ~ei~~~~~~~-------------------vd~ir~l~~~~~~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~  151 (527)
T PRK14969         91 IEVDAASNTQ-------------------VDAMRELLDNAQYAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVK  151 (527)
T ss_pred             eEeeccccCC-------------------HHHHHHHHHHHhhCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEE
Confidence            1221111111                   1111112111111 1235677999999987765556666666655445666


Q ss_pred             EEEEcCCh-HHHHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh-HHHHH
Q 000471          326 IVVTTRNL-VVAER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKTL  396 (1472)
Q Consensus       326 iivTtR~~-~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL-al~~~  396 (1472)
                      +|++|.+. .+... ......+++++++.++..+.+.+.+...+- .   .-.+..+.|++.++|.+- |+..+
T Consensus       152 fIL~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~egi-~---~~~~al~~la~~s~Gslr~al~ll  221 (527)
T PRK14969        152 FILATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQENI-P---FDATALQLLARAAAGSMRDALSLL  221 (527)
T ss_pred             EEEEeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcCC-C---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            66665443 22211 111256899999999998888776532211 1   114567889999999875 44443

>PF00308 Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013317 This entry represents the central domain of bacterial DnaA proteins [, , ] that play an important role in initiating and regulating chromosomal replication

Probab=98.07  E-value=4.2e-05  Score=82.03  Aligned_cols=187  Identities=16%  Similarity=0.161  Sum_probs=105.6

Q ss_pred             ceeec-hhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCc--ceEEEEecCCCCHHHHHHH
Q 000471          187 KVYGR-EKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYE--IKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       187 ~~vGr-~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~--~~~wv~~~~~~~~~~~~~~  263 (1472)
                      .++|- .+..-...+.+.+..   +.....+.|+|..|+|||.|.+++++.  ..+...  .++++      +..+....
T Consensus        10 fv~g~~N~~a~~~~~~ia~~~---~~~~~~l~l~G~~G~GKTHLL~Ai~~~--~~~~~~~~~v~y~------~~~~f~~~   78 (219)
T PF00308_consen   10 FVVGESNELAYAAAKAIAENP---GERYNPLFLYGPSGLGKTHLLQAIANE--AQKQHPGKRVVYL------SAEEFIRE   78 (219)
T ss_dssp             S--TTTTHHHHHHHHHHHHST---TTSSSEEEEEESTTSSHHHHHHHHHHH--HHHHCTTS-EEEE------EHHHHHHH
T ss_pred             CCcCCcHHHHHHHHHHHHhcC---CCCCCceEEECCCCCCHHHHHHHHHHH--HHhccccccceee------cHHHHHHH
Confidence            34565 333344445554432   123456889999999999999999984  332222  24454      34455566


Q ss_pred             HHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHh-hHHhhcccccC--CCCCcEEEEEcCCh-------
Q 000471          264 ILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYI-RWSELRCPFVA--GAAGSKIVVTTRNL-------  333 (1472)
Q Consensus       264 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~-~~~~l~~~l~~--~~~~s~iivTtR~~-------  333 (1472)
                      +...+...      ..+    .+++.++ .-=+|++||++..... .|.+....+..  ...|.+||+|++..       
T Consensus        79 ~~~~~~~~------~~~----~~~~~~~-~~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~  147 (219)
T PF00308_consen   79 FADALRDG------EIE----EFKDRLR-SADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGL  147 (219)
T ss_dssp             HHHHHHTT------SHH----HHHHHHC-TSSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS
T ss_pred             HHHHHHcc------cch----hhhhhhh-cCCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCcccccc
Confidence            66555442      122    2333343 2347899999765322 23322211111  13466899999643       


Q ss_pred             --HHHHhhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhh
Q 000471          334 --VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGL  399 (1472)
Q Consensus       334 --~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~  399 (1472)
                        ++...+....++++++.++++-.+++.+.+....-. -   -+++++-|++.+.+..-.+..+-..
T Consensus       148 ~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~~a~~~~~~-l---~~~v~~~l~~~~~~~~r~L~~~l~~  211 (219)
T PF00308_consen  148 LPDLRSRLSWGLVVELQPPDDEDRRRILQKKAKERGIE-L---PEEVIEYLARRFRRDVRELEGALNR  211 (219)
T ss_dssp             -HHHHHHHHCSEEEEE----HHHHHHHHHHHHHHTT---S----HHHHHHHHHHTTSSHHHHHHHHHH
T ss_pred             ChhhhhhHhhcchhhcCCCCHHHHHHHHHHHHHHhCCC-C---cHHHHHHHHHhhcCCHHHHHHHHHH
Confidence              344445566689999999999999999888543221 1   1577888888888777666555443

DnaA is an ATP- and DNA-binding protein. It binds specifically to 9 bp nucleotide repeats known as dnaA boxes which are found in the chromosome origin of replication (oriC). DnaA is a protein of about 50 kDa that contains two conserved regions: the first is located in the N-terminal half and corresponds to the ATP-binding domain, the second is located in the C-terminal half and could be involved in DNA-binding. The protein may also bind the RNA polymerase beta subunit, the dnaB and dnaZ proteins, and the groE gene products (chaperonins) [].; PDB: 2KJQ_A 2Z4S_A 2Z4R_C 2HCB_B 3R8F_C 1L8Q_A 3SC3_B 3BOS_A.

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=98.05  E-value=7.1e-05  Score=78.42  Aligned_cols=279  Identities=16%  Similarity=0.151  Sum_probs=134.3

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+|||.++-++++.=.+..... ....+--|.++|++|.||||||.-+++.  ....+    -++.+....-..-+..++
T Consensus        26 ~efiGQ~~vk~~L~ifI~AAk~-r~e~lDHvLl~GPPGlGKTTLA~IIA~E--mgvn~----k~tsGp~leK~gDlaaiL   98 (332)
T COG2255          26 DEFIGQEKVKEQLQIFIKAAKK-RGEALDHVLLFGPPGLGKTTLAHIIANE--LGVNL----KITSGPALEKPGDLAAIL   98 (332)
T ss_pred             HHhcChHHHHHHHHHHHHHHHh-cCCCcCeEEeeCCCCCcHHHHHHHHHHH--hcCCe----EecccccccChhhHHHHH
Confidence            4699999998888777655433 4456778999999999999999999984  22222    111111111111122222


Q ss_pred             HhhcCCCCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHhhC-
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMG-  340 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~-  340 (1472)
                      ..+....---.+++..+...+.+.    +.+-+.=|++.--...     ..+...++++   +-|=-|||.-.+...+. 
T Consensus        99 t~Le~~DVLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~A-----rsv~ldLppF---TLIGATTr~G~lt~PLrd  170 (332)
T COG2255          99 TNLEEGDVLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAA-----RSIRLDLPPF---TLIGATTRAGMLTNPLRD  170 (332)
T ss_pred             hcCCcCCeEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCcc-----ceEeccCCCe---eEeeeccccccccchhHH
Confidence            222221110011122111111111    1222222222211110     1111122221   12335888654433322 


Q ss_pred             -CCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCChhhHHHHHhhcccc
Q 000471          341 -ADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWN  419 (1472)
Q Consensus       341 -~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~~~w~~~~~~~~~~  419 (1472)
                       -.-+.+++..+.+|-.++..+.|..-. ...   -++.+.+|+++..|-|.-+.-+-+..+      ++..+....  .
T Consensus       171 RFGi~~rlefY~~~eL~~Iv~r~a~~l~-i~i---~~~~a~eIA~rSRGTPRIAnRLLrRVR------Dfa~V~~~~--~  238 (332)
T COG2255         171 RFGIIQRLEFYTVEELEEIVKRSAKILG-IEI---DEEAALEIARRSRGTPRIANRLLRRVR------DFAQVKGDG--D  238 (332)
T ss_pred             hcCCeeeeecCCHHHHHHHHHHHHHHhC-CCC---ChHHHHHHHHhccCCcHHHHHHHHHHH------HHHHHhcCC--c
Confidence             123568889999999999988873211 111   146789999999999965544444332      222222110  0


Q ss_pred             cCC---CCcccchhhcccCCChhhHhHhhhhccCCCCCccChHHHHHHHHHcCCcccccCCccHHHHHHHHHHHHHhCCC
Q 000471          420 LRD---SDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSL  496 (1472)
Q Consensus       420 ~~~---~~i~~~l~~sy~~L~~~~k~~fl~~s~fp~~~~i~~~~li~~w~a~g~i~~~~~~~~~~~~~~~~~~~L~~~~l  496 (1472)
                      ...   +.....|.+-=.+|+...++.+..+.-...+-.+--+.+..   +-|     ....+.||+-|-|   |++.||
T Consensus       239 I~~~ia~~aL~~L~Vd~~GLd~~D~k~L~~li~~f~GgPVGl~tia~---~lg-----e~~~TiEdv~EPy---Liq~gf  307 (332)
T COG2255         239 IDRDIADKALKMLDVDELGLDEIDRKYLRALIEQFGGGPVGLDTIAA---ALG-----EDRDTIEDVIEPY---LIQQGF  307 (332)
T ss_pred             ccHHHHHHHHHHhCcccccccHHHHHHHHHHHHHhCCCCccHHHHHH---Hhc-----CchhHHHHHHhHH---HHHhch
Confidence            000   01223334434556665555554444322222333333221   111     1234556555544   788888


Q ss_pred             ccccCC
Q 000471          497 FQQSSK  502 (1472)
Q Consensus       497 l~~~~~  502 (1472)
                      ++....
T Consensus       308 i~RTpR  313 (332)
T COG2255         308 IQRTPR  313 (332)
T ss_pred             hhhCCC
Confidence            887553

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=98.04  E-value=0.0001  Score=90.35  Aligned_cols=199  Identities=15%  Similarity=0.124  Sum_probs=113.6

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCc--ceEEEEecCCCCHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYE--IKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~--~~~wv~~~~~~~~~~~~~~  263 (1472)
                      .+++|.+..++.|..++..+.     -...+.++|+.|+||||+|+.+++.........  ...+-.+    ..-.--+.
T Consensus        24 ~dliGq~~~v~~L~~~~~~gr-----i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~~c----g~c~~C~~   94 (598)
T PRK09111         24 DDLIGQEAMVRTLTNAFETGR-----IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTIDLC----GVGEHCQA   94 (598)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccccC----cccHHHHH
Confidence            469999999999999996542     244688999999999999999986322111110  0000000    00011111


Q ss_pred             HHHhhcC-------CCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChH
Q 000471          264 ILNSVAS-------DQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLV  334 (1472)
Q Consensus       264 i~~~l~~-------~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~  334 (1472)
                      |...-..       ......+++.++.+.++.. ..+++-++|+|++........+.+...+......+++|++| ....
T Consensus        95 i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~k  174 (598)
T PRK09111         95 IMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRK  174 (598)
T ss_pred             HhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhh
Confidence            2111100       0000112222333222211 23456689999998776556666666665544566666554 4444


Q ss_pred             HHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          335 VAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       335 v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      +...+ .....+++.+++.++....+.+.+-.......    .+.+..|++.++|.+.-+....
T Consensus       175 ll~tI~SRcq~~~f~~l~~~el~~~L~~i~~kegi~i~----~eAl~lIa~~a~Gdlr~al~~L  234 (598)
T PRK09111        175 VPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKEGVEVE----DEALALIARAAEGSVRDGLSLL  234 (598)
T ss_pred             hhHHHHhheeEEEecCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            33222 23357899999999999888887633221111    4677889999999886554433

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=98.02  E-value=0.00015  Score=89.03  Aligned_cols=193  Identities=14%  Similarity=0.166  Sum_probs=109.2

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhcc-C---cceEE-EEecCCCCHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRH-Y---EIKAW-TCVSEDFDVFRI  260 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~-f---~~~~w-v~~~~~~~~~~~  260 (1472)
                      .+++|.+..++.+..++..+.     -...+.++|+.|+||||+|+.++...-.... .   .|..- .+....++... 
T Consensus        18 ~dIiGQe~~v~~L~~aI~~~r-----l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dvie-   91 (725)
T PRK07133         18 DDIVGQDHIVQTLKNIIKSNK-----ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIE-   91 (725)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEE-
Confidence            358999999999999996542     2456789999999999999999763111000 0   00000 00000001000 


Q ss_pred             HHHHHHhhcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEE-EcCChHHHHh
Q 000471          261 SKSILNSVASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVV-TTRNLVVAER  338 (1472)
Q Consensus       261 ~~~i~~~l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iiv-TtR~~~v~~~  338 (1472)
                             +........++++++.+.+... ..+++-++|+|++.......+..+...+........+|+ |++...+...
T Consensus        92 -------idaasn~~vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~T  164 (725)
T PRK07133         92 -------MDAASNNGVDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLT  164 (725)
T ss_pred             -------EeccccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHH
Confidence                   0000000112233333333221 235667999999987766667777666654444555554 4444444432


Q ss_pred             -hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          339 -MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       339 -~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                       ......+++.+++.++..+.+...+-..+-...    .+.++.|++.++|.+.-+..
T Consensus       165 I~SRcq~ieF~~L~~eeI~~~L~~il~kegI~id----~eAl~~LA~lS~GslR~Als  218 (725)
T PRK07133        165 ILSRVQRFNFRRISEDEIVSRLEFILEKENISYE----KNALKLIAKLSSGSLRDALS  218 (725)
T ss_pred             HHhhceeEEccCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHH
Confidence             233367899999999998888776532221111    35678899999997754333

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.01  E-value=0.00013  Score=88.32  Aligned_cols=199  Identities=17%  Similarity=0.156  Sum_probs=113.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|-+..++.|..++....     -...+.++|+.|+||||+|+.+++..........       ..++.-..-+.+.
T Consensus        16 ~dIiGQe~v~~~L~~ai~~~r-----i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~-------~pCg~C~sC~~i~   83 (624)
T PRK14959         16 AEVAGQETVKAILSRAAQENR-----VAPAYLFSGTRGVGKTTIARIFAKALNCETAPTG-------EPCNTCEQCRKVT   83 (624)
T ss_pred             HHhcCCHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHhccccCCCCC-------CCCcccHHHHHHh
Confidence            358899988888888886532     2356778999999999999999864321110000       0011111111111


Q ss_pred             Hhhc-------CCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHHH
Q 000471          266 NSVA-------SDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVVA  336 (1472)
Q Consensus       266 ~~l~-------~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v~  336 (1472)
                      ....       .......++...+.+.+.. -..+++-+||+|+++......+..+...+........+|++|.. ..+.
T Consensus        84 ~g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll  163 (624)
T PRK14959         84 QGMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFP  163 (624)
T ss_pred             cCCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhh
Confidence            1100       0000011112222222221 12356679999999887666667777666543345566665554 3443


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh-hHHHHHHhhh
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP-LAAKTLGGLL  400 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP-Lal~~~~~~L  400 (1472)
                      ..+ .....+++++++.++....+...+........    .+.++.|++.++|.+ .|+..+...+
T Consensus       164 ~TI~SRcq~i~F~pLs~~eL~~~L~~il~~egi~id----~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        164 VTIVSRCQHFTFTRLSEAGLEAHLTKVLGREGVDYD----PAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHHHhhhhccccCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            222 22357899999999999888876643221111    467888999999965 6777766544

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.98  E-value=0.00019  Score=84.87  Aligned_cols=181  Identities=15%  Similarity=0.185  Sum_probs=103.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh------ccCcceEEEEecCCCCHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ------RHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~------~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .+++|.+..++.+..++..+.     -.+.+.++|++|+||||+|+.+.+.....      ..|...+ +......    
T Consensus        17 ~~iig~~~~~~~l~~~i~~~~-----~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~-~~l~~~~----   86 (367)
T PRK14970         17 DDVVGQSHITNTLLNAIENNH-----LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNI-FELDAAS----   86 (367)
T ss_pred             HhcCCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcce-EEecccc----
Confidence            358999999999999996532     24688899999999999999997632110      1111111 1110000    


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChHHHH
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLVVAE  337 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~v~~  337 (1472)
                                   .....+...+.+.+.. -..+++-++|+|+++......+..+...+......+.+|++| +...+..
T Consensus        87 -------------~~~~~~i~~l~~~~~~~p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~  153 (367)
T PRK14970         87 -------------NNSVDDIRNLIDQVRIPPQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIP  153 (367)
T ss_pred             -------------CCCHHHHHHHHHHHhhccccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCH
Confidence                         0001111111211111 122455689999997665455666655444333445566555 3322222


Q ss_pred             h-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          338 R-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       338 ~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      . ......++..++++++....+...+...+-..+    .+.+..+++.++|.+-.+
T Consensus       154 ~l~sr~~~v~~~~~~~~~l~~~l~~~~~~~g~~i~----~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        154 TILSRCQIFDFKRITIKDIKEHLAGIAVKEGIKFE----DDALHIIAQKADGALRDA  206 (367)
T ss_pred             HHHhcceeEecCCccHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHhCCCCHHHH
Confidence            2 122356899999999998888876643221111    467888999999876533

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=97.98  E-value=6e-08  Score=100.59  Aligned_cols=130  Identities=13%  Similarity=0.119  Sum_probs=89.4

Q ss_pred             CCcchhhhccccccc-cCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccc--cCCCCCcccE
Q 000471         1241 TSLEEITISVLENLK-SLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPN--CMHNLTSLLI 1317 (1472)
Q Consensus      1241 ~~L~~L~l~~~~~~~-~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~--~l~~l~~L~~ 1317 (1472)
                      +.|+.+|++...+.. .+-..+..|.+|+.|.|.++..-..+...+..-.+|+.|+|+.|+.++....  -+.+++.|..
T Consensus       185 sRlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~  264 (419)
T KOG2120|consen  185 SRLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDE  264 (419)
T ss_pred             hhhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhh
Confidence            568999998866554 3345567889999999999877777776666677999999999987765432  3578999999


Q ss_pred             eeecCCCCCccCCC---CCCCCCcceeEeccccCC--CCCCccccccccccceeeecc
Q 000471         1318 LEIRGCPSVVSFPE---DGFPTNLQSLEVRGLKIS--KPLPEWGFNRFTSLRRFTICG 1370 (1472)
Q Consensus      1318 L~L~~n~~l~~~p~---~~~~~~L~~L~l~~n~~~--~~~~~~~l~~l~~L~~L~Ls~ 1370 (1472)
                      |+++.|...+..-.   ...-++|+.|+++|+.-.  ..........+++|.+||||.
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD  322 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSD  322 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeecccc
Confidence            99999965544311   134577888888887532  111111234566666666655

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.97  E-value=0.0002  Score=87.14  Aligned_cols=199  Identities=15%  Similarity=0.129  Sum_probs=114.0

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||.+..++.|..++..+.     -...+.++|+.|+||||+|+.+++........+   +    ..++.-..-+.+.
T Consensus        13 ~eivGq~~i~~~L~~~i~~~r-----~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---~----~pCg~C~~C~~i~   80 (584)
T PRK14952         13 AEVVGQEHVTEPLSSALDAGR-----INHAYLFSGPRGCGKTSSARILARSLNCAQGPT---A----TPCGVCESCVALA   80 (584)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---C----CcccccHHHHHhh
Confidence            368999999999999986532     245678999999999999999986321111000   0    0000001111111


Q ss_pred             Hh---------hcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChH
Q 000471          266 NS---------VASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLV  334 (1472)
Q Consensus       266 ~~---------l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~  334 (1472)
                      ..         +........++..++.+.+... ..+++-++|+|++..........+...+........+|++| ....
T Consensus        81 ~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~k  160 (584)
T PRK14952         81 PNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEK  160 (584)
T ss_pred             cccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHh
Confidence            00         0000000112222333332221 23556689999998877667777776666555566666555 4444


Q ss_pred             HHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh-HHHHHHhhh
Q 000471          335 VAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKTLGGLL  400 (1472)
Q Consensus       335 v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL-al~~~~~~L  400 (1472)
                      +.... .....+++.+++.++..+.+.+.+...+...+    .+.+..|++.++|.+- |+..+-.++
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~egi~i~----~~al~~Ia~~s~GdlR~aln~Ldql~  224 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRTMRALIARICEQEGVVVD----DAVYPLVIRAGGGSPRDTLSVLDQLL  224 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            44332 33467899999999998888776543221111    4567788999999775 444444433

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.97  E-value=0.00013  Score=90.80  Aligned_cols=197  Identities=15%  Similarity=0.140  Sum_probs=112.6

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||.+..++.|..++..+.     -...+.++|+.|+||||+|+.+++.........      ....++.....+.+.
T Consensus        16 ~eiiGq~~~~~~L~~~i~~~~-----i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~~------~~~~c~~c~~c~~i~   84 (585)
T PRK14950         16 AELVGQEHVVQTLRNAIAEGR-----VAHAYLFTGPRGVGKTSTARILAKAVNCTTNDP------KGRPCGTCEMCRAIA   84 (585)
T ss_pred             HHhcCCHHHHHHHHHHHHhCC-----CceEEEEECCCCCCHHHHHHHHHHHhcCCCCCC------CCCCCccCHHHHHHh
Confidence            369999999999999886532     235678999999999999999986321110000      001111122223332


Q ss_pred             HhhcCC-------CCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHHH
Q 000471          266 NSVASD-------QCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVVA  336 (1472)
Q Consensus       266 ~~l~~~-------~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v~  336 (1472)
                      .....+       .....+++.++.+.+... ..+++-++|+|++........+.+...+......+.+|++|.. ..+.
T Consensus        85 ~~~~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll  164 (585)
T PRK14950         85 EGSAVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVP  164 (585)
T ss_pred             cCCCCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhh
Confidence            221110       000111222222222211 2255779999999776555566666555544455666665543 3333


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      ... .....+++.+++.++....+...+...+....    .+.+..|++.++|.+..+...-
T Consensus       165 ~tI~SR~~~i~f~~l~~~el~~~L~~~a~~egl~i~----~eal~~La~~s~Gdlr~al~~L  222 (585)
T PRK14950        165 ATILSRCQRFDFHRHSVADMAAHLRKIAAAEGINLE----PGALEAIARAATGSMRDAENLL  222 (585)
T ss_pred             HHHHhccceeeCCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            222 22356789999999988888877643221111    4678899999999886554443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.95  E-value=0.00026  Score=84.81  Aligned_cols=194  Identities=14%  Similarity=0.141  Sum_probs=110.7

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|-+..++.+..++..+.     -..+..++|+.|+||||+|+.+++..-....-+.       ..+..-..-+.+.
T Consensus        14 deiiGqe~v~~~L~~~I~~gr-----l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~-------~pC~~C~~C~~~~   81 (535)
T PRK08451         14 DELIGQESVSKTLSLALDNNR-----LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSS-------TPCDTCIQCQSAL   81 (535)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCC-------CCCcccHHHHHHh
Confidence            358999999999999986542     2456789999999999999988753110000000       0000000000000


Q ss_pred             HhhcC-----CCCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-H
Q 000471          266 NSVAS-----DQCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-V  335 (1472)
Q Consensus       266 ~~l~~-----~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v  335 (1472)
                      .....     ... .....+.+.+.+...    ..+++-++|+|++..........+...+......+++|++|.+.. +
T Consensus        82 ~~~h~dv~eldaa-s~~gId~IRelie~~~~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL  160 (535)
T PRK08451         82 ENRHIDIIEMDAA-SNRGIDDIRELIEQTKYKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKL  160 (535)
T ss_pred             hcCCCeEEEeccc-cccCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhC
Confidence            00000     000 011123333332221    125567899999988776666667666655455677777776532 2


Q ss_pred             HHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          336 AER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       336 ~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      ... ......+++.+++.++..+.+.+.+-..+-..    -.+.++.|++.++|.+.-+..+
T Consensus       161 ~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi~i----~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        161 PATILSRTQHFRFKQIPQNSIISHLKTILEKEGVSY----EPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             chHHHhhceeEEcCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCcHHHHHHH
Confidence            111 12235789999999999888877653322111    1467889999999998655444

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.95  E-value=0.00029  Score=86.49  Aligned_cols=197  Identities=14%  Similarity=0.120  Sum_probs=109.0

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEE-ecCCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC-VSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~i  264 (1472)
                      .++||-+..++.+..++..+.     -...+.++|+.|+||||+|+.+++.......++...|.. +...+..-..-+.+
T Consensus        16 ~eivGQe~i~~~L~~~i~~~r-----i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         16 ADITAQEHITHTIQNSLRMDR-----VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            368999999999999886532     234578999999999999998876322111111011110 00111111111111


Q ss_pred             HHhhcCC----CCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChHH
Q 000471          265 LNSVASD----QCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLVV  335 (1472)
Q Consensus       265 ~~~l~~~----~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~v  335 (1472)
                      ...-...    ........+++.+.+...    ..+++-++|+|+++.......+.+...+......+.+|++| +...+
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kL  170 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            1100000    000111133333222221    23556688999998776556666766665544455655444 44444


Q ss_pred             HHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh
Q 000471          336 AER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       336 ~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL  391 (1472)
                      ... .....++++.+++.++....+.+.+...+...+    .+.++.|++.++|..-
T Consensus       171 l~TI~SRc~~vef~~l~~~ei~~~L~~i~~~egi~I~----~eal~~La~~s~Gdlr  223 (620)
T PRK14954        171 PATIASRCQRFNFKRIPLDEIQSQLQMICRAEGIQID----ADALQLIARKAQGSMR  223 (620)
T ss_pred             hHHHHhhceEEecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHhCCCHH
Confidence            433 234467899999999988877765532221111    4678889999999654

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=97.94  E-value=4.9e-05  Score=89.30  Aligned_cols=181  Identities=15%  Similarity=0.110  Sum_probs=100.2

Q ss_pred             cCCceeechhHHHHHHHHHhcCCCC-------CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC
Q 000471          184 NEAKVYGREKEKEEIIELLLNDDLR-------GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD  256 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  256 (1472)
                      ...++.|+++.++++.+.+...-..       +-...+-+.++|++|+|||++|+++++.  ....|     +.+..   
T Consensus       120 ~~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~--l~~~~-----~~v~~---  189 (364)
T TIGR01242       120 SYEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE--TNATF-----IRVVG---  189 (364)
T ss_pred             CHHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHh--CCCCE-----Eecch---
Confidence            3457999999999999887432110       1123456889999999999999999973  22232     22211   


Q ss_pred             HHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC-----------H---hhHHhhcccccC--C
Q 000471          257 VFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN-----------Y---IRWSELRCPFVA--G  320 (1472)
Q Consensus       257 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----------~---~~~~~l~~~l~~--~  320 (1472)
                       ..+.    ....+      .....+...+...-...+.+|++||++...           .   ..+..+...+..  .
T Consensus       190 -~~l~----~~~~g------~~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~  258 (364)
T TIGR01242       190 -SELV----RKYIG------EGARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDP  258 (364)
T ss_pred             -HHHH----HHhhh------HHHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCC
Confidence             1111    11100      111112222222223467899999986531           0   112222221211  1


Q ss_pred             CCCcEEEEEcCChHHH-----HhhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh
Q 000471          321 AAGSKIVVTTRNLVVA-----ERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       321 ~~~s~iivTtR~~~v~-----~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      ..+.+||.||...+..     +....+..+.+...+.++..++|..++.+..- ....+    ...+++.+.|..
T Consensus       259 ~~~v~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l-~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       259 RGNVKVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKL-AEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CCCEEEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCC-CccCC----HHHHHHHcCCCC
Confidence            2467788888764322     11122456889999999999999988744321 11112    355667777654

Many proteins may score above the trusted cutoff because an internal

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.93  E-value=0.00021  Score=85.36  Aligned_cols=171  Identities=13%  Similarity=0.102  Sum_probs=102.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      ..-+.|+|..|+|||+|++++++.......-..+++++      ..++...+...+....       +. ...+++.++ 
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~~-------~~-~~~~~~~~~-  205 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKTH-------KE-IEQFKNEIC-  205 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHhh-------hH-HHHHHHHhc-
Confidence            35688999999999999999987322111112233443      3456666666654311       11 223333333 


Q ss_pred             CeEEEEEeCCCCCCH-hhH-HhhcccccC-CCCCcEEEEEcCCh---------HHHHhhCCCCceeCCCCChHhHHHHHH
Q 000471          293 NKFLLVLDDVWNENY-IRW-SELRCPFVA-GAAGSKIVVTTRNL---------VVAERMGADPVYQLKELSDDDCLCVLT  360 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~-~~~-~~l~~~l~~-~~~~s~iivTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~  360 (1472)
                      +.-+||+||+..... ..+ +.+...+.. ...|..||+|+...         .+...+...-++.+++++.++-.+++.
T Consensus       206 ~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~  285 (450)
T PRK14087        206 QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIK  285 (450)
T ss_pred             cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHH
Confidence            334888999965431 112 223222221 12345788887643         233334455678899999999999999


Q ss_pred             hhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          361 QISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       361 ~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      +++-... .. ..--+++..-|++.++|.|-.+..+...+
T Consensus       286 ~~~~~~g-l~-~~l~~evl~~Ia~~~~gd~R~L~gaL~~l  323 (450)
T PRK14087        286 KEIKNQN-IK-QEVTEEAINFISNYYSDDVRKIKGSVSRL  323 (450)
T ss_pred             HHHHhcC-CC-CCCCHHHHHHHHHccCCCHHHHHHHHHHH
Confidence            8874322 10 01126788999999999998876665433

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.91  E-value=0.00042  Score=83.30  Aligned_cols=184  Identities=12%  Similarity=0.090  Sum_probs=107.8

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcch--hc-----------------cCcce
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV--QR-----------------HYEIK  246 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~--~~-----------------~f~~~  246 (1472)
                      .+++|-+..++.+..++..+.     -...+.++|+.|+||||+|+.++.....  ..                 .|...
T Consensus        16 ~diiGq~~i~~~L~~~i~~~~-----i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~   90 (486)
T PRK14953         16 KEVIGQEIVVRILKNAVKLQR-----VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDL   90 (486)
T ss_pred             HHccChHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcE
Confidence            358999999999999996542     2356678999999999999998763210  00                 00011


Q ss_pred             EEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcE
Q 000471          247 AWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSK  325 (1472)
Q Consensus       247 ~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~  325 (1472)
                      .+++.+..                   ...++...+.+.+... ..+++-++|+|+++.......+.+...+........
T Consensus        91 ~eidaas~-------------------~gvd~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v  151 (486)
T PRK14953         91 IEIDAASN-------------------RGIDDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTI  151 (486)
T ss_pred             EEEeCccC-------------------CCHHHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeE
Confidence            11111100                   0111222332222211 235677999999977655555666555554444555


Q ss_pred             EEEEc-CChHHHHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          326 IVVTT-RNLVVAER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       326 iivTt-R~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      +|++| +...+... ......+.+.+++.++....+.+.+-..+-..    -.+.+..|++.++|.+..+....
T Consensus       152 ~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~egi~i----d~~al~~La~~s~G~lr~al~~L  221 (486)
T PRK14953        152 FILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEKIEY----EEKALDLLAQASEGGMRDAASLL  221 (486)
T ss_pred             EEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            55544 43333322 22335789999999998888877653322111    14667888999999776554443

>PF13855 LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RFS_A 3G39_A 3VQ2_A 3VQ1_B 2Z64_A 2Z66_C 3FXI_A 2Z63_A

Probab=97.91  E-value=1.5e-05  Score=65.80  Aligned_cols=59  Identities=17%  Similarity=0.241  Sum_probs=36.1

Q ss_pred             CCccEEeeccCCCccccC-CCCCCCCCccEEecccccccccccccCCCCCcccEeeecCCC
Q 000471         1265 HHLQKIWINYCPNLESFP-EEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCP 1324 (1472)
Q Consensus      1265 ~~L~~L~Ls~~~~l~~l~-~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~ 1324 (1472)
                      |+|++|++++| .++.+| ..+..+++|++|++++|.....-|..|.++++|++|++++|+
T Consensus         1 p~L~~L~l~~n-~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~   60 (61)
T PF13855_consen    1 PNLESLDLSNN-KLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSS-TESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCC-CCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45666777665 344444 345556667777776666555555566666777777766663

...

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.90  E-value=0.00028  Score=84.37  Aligned_cols=185  Identities=15%  Similarity=0.121  Sum_probs=106.0

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhcc----Ccc--------------eE
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRH----YEI--------------KA  247 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~----f~~--------------~~  247 (1472)
                      .+++|.+..++.+..++..+.     -...+.++|+.|+||||+|+.+++.......    -.|              .-
T Consensus        17 ~diiGq~~~v~~L~~~i~~~~-----i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d   91 (451)
T PRK06305         17 SEILGQDAVVAVLKNALRFNR-----AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLD   91 (451)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCc
Confidence            368999999999999986532     2356789999999999999988763211000    000              00


Q ss_pred             EEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEE
Q 000471          248 WTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKI  326 (1472)
Q Consensus       248 wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~i  326 (1472)
                      |+.+...                 .....+++.++.+.+.. ...+++-++|+|+++.........+...+........+
T Consensus        92 ~~~i~g~-----------------~~~gid~ir~i~~~l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~  154 (451)
T PRK06305         92 VLEIDGA-----------------SHRGIEDIRQINETVLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKF  154 (451)
T ss_pred             eEEeecc-----------------ccCCHHHHHHHHHHHHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceE
Confidence            1111100                 00011122222222111 12356678999999766544455555555544446666


Q ss_pred             EEEcCC-hHHHHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh-HHHHH
Q 000471          327 VVTTRN-LVVAER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKTL  396 (1472)
Q Consensus       327 ivTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL-al~~~  396 (1472)
                      |++|.. ..+... ......+++.++++++....+...+-..+-..    -.+.++.|++.++|.+- |+..+
T Consensus       155 Il~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~eg~~i----~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        155 FLATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQEGIET----SREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             EEEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHHH
Confidence            666643 333222 12235789999999999888877653222111    14678889999999764 44433

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.89  E-value=0.00026  Score=89.88  Aligned_cols=191  Identities=14%  Similarity=0.079  Sum_probs=110.0

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  266 (1472)
                      ++||.+..++.|..++..+.     -...+.++|+.|+||||+|+.+.+..........       ..+..-..-+.|..
T Consensus        16 eiiGqe~v~~~L~~~i~~~r-----i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~-------~pCg~C~sC~~~~~   83 (824)
T PRK07764         16 EVIGQEHVTEPLSTALDSGR-----INHAYLFSGPRGCGKTSSARILARSLNCVEGPTS-------TPCGECDSCVALAP   83 (824)
T ss_pred             HhcCcHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCC-------CCCcccHHHHHHHc
Confidence            68999999999999986542     2356789999999999999999764321111000       00000000111100


Q ss_pred             h---------hcCCCCCCcccHHHHHHHHH-hhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHH
Q 000471          267 S---------VASDQCKDKDDLNLLQEKLK-KQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVV  335 (1472)
Q Consensus       267 ~---------l~~~~~~~~~~~~~~~~~l~-~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v  335 (1472)
                      .         +........+++.++.+.+. .-..+++-++|||+++......++.|...+......+.+|++|.+ ..+
T Consensus        84 g~~~~~dv~eidaas~~~Vd~iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kL  163 (824)
T PRK07764         84 GGPGSLDVTEIDAASHGGVDDARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKV  163 (824)
T ss_pred             CCCCCCcEEEecccccCCHHHHHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            0         00000001122222222211 112355668999999888777777777777665556666655543 344


Q ss_pred             HHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          336 AERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       336 ~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      ...+ ....+|++..++.++..+.+.+.+-...- ..   -.+....|++.++|.+..+
T Consensus       164 l~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EGv-~i---d~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        164 IGTIRSRTHHYPFRLVPPEVMRGYLERICAQEGV-PV---EPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             hHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHH
Confidence            4332 23467899999999988888776522211 11   1456678899999988543

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=97.87  E-value=4.4e-07  Score=94.33  Aligned_cols=89  Identities=15%  Similarity=0.217  Sum_probs=57.3

Q ss_pred             CCcceEEecCCCCCCCCh-hhhhccCCCCcceEEeecCCCCCcCC-CCCCCCCccEEEEecCCCcccCchhhhcCCCCcc
Q 000471         1053 SHLRTVKIEDCNALESLP-EAWMHNSNSSLESLKIRNCNSLVSFP-EVALPSQLRTVKIEYCNALISLPEAWMQNSNTSL 1130 (1472)
Q Consensus      1053 ~~L~~L~l~~~~~l~~~~-~~~~~~~~~~L~~L~l~~~~~l~~~~-~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L 1130 (1472)
                      +.|+.|++++.. ++.-. ..+.. .+..|+.|.|.++..-..+. ..+...+|+.|+++.|.+++.........+++.|
T Consensus       185 sRlq~lDLS~s~-it~stl~~iLs-~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L  262 (419)
T KOG2120|consen  185 SRLQHLDLSNSV-ITVSTLHGILS-QCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRL  262 (419)
T ss_pred             hhhHHhhcchhh-eeHHHHHHHHH-HHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhH
Confidence            346666666532 22111 11222 26778888888774433332 3445568889999999888888777776788888


Q ss_pred             ceEeecccCCccc
Q 000471         1131 ESLRIKGCDSLKY 1143 (1472)
Q Consensus      1131 ~~L~l~~c~~l~~ 1143 (1472)
                      ..|+|+.|...+.
T Consensus       263 ~~LNlsWc~l~~~  275 (419)
T KOG2120|consen  263 DELNLSWCFLFTE  275 (419)
T ss_pred             hhcCchHhhccch
Confidence            8888888865543

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=97.86  E-value=0.00027  Score=79.47  Aligned_cols=214  Identities=17%  Similarity=0.135  Sum_probs=129.9

Q ss_pred             cCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          184 NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      .+..++||+.|+..+.+|+...-  .....+-+.|.|-+|.|||.+...++.+......=.+++.+.+..-.....++..
T Consensus       148 ~p~~l~gRe~e~~~v~~F~~~hl--e~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~k  225 (529)
T KOG2227|consen  148 PPGTLKGRELEMDIVREFFSLHL--ELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKK  225 (529)
T ss_pred             CCCCccchHHHHHHHHHHHHhhh--hcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHH
Confidence            35569999999999999987643  2345677899999999999999999986432222234577777766677888888


Q ss_pred             HHHhhcCCCCCCcccHHHHHHHHHhhhCCC--eEEEEEeCCCCCCHhhHHhhcccccC-CCCCcEEEEEcCCh--H----
Q 000471          264 ILNSVASDQCKDKDDLNLLQEKLKKQLSGN--KFLLVLDDVWNENYIRWSELRCPFVA-GAAGSKIVVTTRNL--V----  334 (1472)
Q Consensus       264 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k--~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~~s~iivTtR~~--~----  334 (1472)
                      |...+.........+ .+.++.+.++....  .+|+|+|.++.-....-..+...|.+ .-.++|+|+.---.  +    
T Consensus       226 I~~~~~q~~~s~~~~-~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR  304 (529)
T KOG2227|consen  226 IFSSLLQDLVSPGTG-MQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDR  304 (529)
T ss_pred             HHHHHHHHhcCCchh-HHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHH
Confidence            888773322212222 34455555555433  68999999865321112222222322 23566666543211  1    


Q ss_pred             HHHhh-----CCCCceeCCCCChHhHHHHHHhhhcCCCC-CCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          335 VAERM-----GADPVYQLKELSDDDCLCVLTQISLGARD-FTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       335 v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~-~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      ....+     .....+..+|.+.++-.++|..+.-.... ...+..++-.|++++...|.+--|+.+.-+++
T Consensus       305 ~LprL~~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~SGDlRkaLdv~R~ai  376 (529)
T KOG2227|consen  305 FLPRLNLDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAPSGDLRKALDVCRRAI  376 (529)
T ss_pred             HhhhhhhccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccCchhHHHHHHHHHHHH
Confidence            11111     12346788999999999999988743322 12223444455555555566666666666554

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.86  E-value=0.00039  Score=86.11  Aligned_cols=177  Identities=15%  Similarity=0.149  Sum_probs=109.7

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh---------------------ccCc
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ---------------------RHYE  244 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---------------------~~f~  244 (1472)
                      .+++|.+..++.+..++..+.     -...+.++|+.|+||||+|+.+.......                     .+|+
T Consensus        17 ~~viGq~~~~~~L~~~i~~~~-----l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n   91 (614)
T PRK14971         17 ESVVGQEALTTTLKNAIATNK-----LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYN   91 (614)
T ss_pred             HHhcCcHHHHHHHHHHHHcCC-----CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCc
Confidence            368999999999999996542     24568899999999999998887632110                     1121


Q ss_pred             ceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCC
Q 000471          245 IKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAG  320 (1472)
Q Consensus       245 ~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~  320 (1472)
                       +..++.+..                      ...+.+...+.+.    ..+++-++|+|++.......+..+...+...
T Consensus        92 -~~~ld~~~~----------------------~~vd~Ir~li~~~~~~P~~~~~KVvIIdea~~Ls~~a~naLLK~LEep  148 (614)
T PRK14971         92 -IHELDAASN----------------------NSVDDIRNLIEQVRIPPQIGKYKIYIIDEVHMLSQAAFNAFLKTLEEP  148 (614)
T ss_pred             -eEEeccccc----------------------CCHHHHHHHHHHHhhCcccCCcEEEEEECcccCCHHHHHHHHHHHhCC
Confidence             111111111                      1122222222111    2245668899999887766777777766655


Q ss_pred             CCCcEEEEEc-CChHHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHH
Q 000471          321 AAGSKIVVTT-RNLVVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAK  394 (1472)
Q Consensus       321 ~~~s~iivTt-R~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~  394 (1472)
                      ...+.+|++| +...+.... ....++++.++++++....+.+.+-..+- ..   -.+.+..|++.++|..--+.
T Consensus       149 p~~tifIL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~egi-~i---~~~al~~La~~s~gdlr~al  220 (614)
T PRK14971        149 PSYAIFILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEGI-TA---EPEALNVIAQKADGGMRDAL  220 (614)
T ss_pred             CCCeEEEEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcCC-CC---CHHHHHHHHHHcCCCHHHHH
Confidence            4566666544 444444332 33467899999999999888876633221 11   13567889999999775443

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.86  E-value=1.4e-05  Score=60.00  Aligned_cols=39  Identities=36%  Similarity=0.511  Sum_probs=22.1

Q ss_pred             cceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccc
Q 000471          599 RLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILP  638 (1472)
Q Consensus       599 ~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP  638 (1472)
                      +|++|++++| .+..+|..|++|++|++|++++|.|+.+|
T Consensus         2 ~L~~L~l~~N-~i~~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNN-QITDLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSS-S-SSHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCC-CCcccCchHhCCCCCCEEEecCCCCCCCc
Confidence            4566666666 56666555666666666666666655443

...

>PRK06620 hypothetical protein; Validated

Probab=97.85  E-value=0.00035  Score=74.55  Aligned_cols=139  Identities=12%  Similarity=0.022  Sum_probs=82.7

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      +.+.|||++|+|||+|++.+++...  .     .++.  ..+.                .      +       +.. ..
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~--~-----~~~~--~~~~----------------~------~-------~~~-~~   85 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSN--A-----YIIK--DIFF----------------N------E-------EIL-EK   85 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccC--C-----EEcc--hhhh----------------c------h-------hHH-hc
Confidence            5689999999999999999876421  1     1111  0000                0      0       001 12


Q ss_pred             eEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-------HHHHhhCCCCceeCCCCChHhHHHHHHhhhcCC
Q 000471          294 KFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-------VVAERMGADPVYQLKELSDDDCLCVLTQISLGA  366 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~  366 (1472)
                      .-++++||+........-.+...+.  ..|..||+|++..       +....+....+++++++++++-..++.+.+...
T Consensus        86 ~d~lliDdi~~~~~~~lf~l~N~~~--e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~  163 (214)
T PRK06620         86 YNAFIIEDIENWQEPALLHIFNIIN--EKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS  163 (214)
T ss_pred             CCEEEEeccccchHHHHHHHHHHHH--hcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc
Confidence            3478899996432111111211111  3466899998743       233444555689999999999888887776422


Q ss_pred             CCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          367 RDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       367 ~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                       ...-+   +++..-|++.+.|.--.+.-+-
T Consensus       164 -~l~l~---~ev~~~L~~~~~~d~r~l~~~l  190 (214)
T PRK06620        164 -SVTIS---RQIIDFLLVNLPREYSKIIEIL  190 (214)
T ss_pred             -CCCCC---HHHHHHHHHHccCCHHHHHHHH
Confidence             11111   5788889998888765554433

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.85  E-value=0.00043  Score=85.65  Aligned_cols=197  Identities=13%  Similarity=0.149  Sum_probs=110.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|.+..++.|..++....     -...+.++|+.|+||||+|+.+++..-... .+...    ...+..-...+.+.
T Consensus        16 ~~liGq~~i~~~L~~~l~~~r-----l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~-~~~~~----~~~Cg~C~~C~~i~   85 (620)
T PRK14948         16 DELVGQEAIATTLKNALISNR-----IAPAYLFTGPRGTGKTSSARILAKSLNCLN-SDKPT----PEPCGKCELCRAIA   85 (620)
T ss_pred             hhccChHHHHHHHHHHHHcCC-----CCceEEEECCCCCChHHHHHHHHHHhcCCC-cCCCC----CCCCcccHHHHHHh
Confidence            358999999999999986542     134678999999999999999987421111 00000    01111112222222


Q ss_pred             HhhcCC----CCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHH
Q 000471          266 NSVASD----QCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVA  336 (1472)
Q Consensus       266 ~~l~~~----~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~  336 (1472)
                      .....+    ........+.+.+.+...    ..+++-++|+|+++......+..+...+........+|++|.+. .+.
T Consensus        86 ~g~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~ll  165 (620)
T PRK14948         86 AGNALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVL  165 (620)
T ss_pred             cCCCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhh
Confidence            211110    000112233333222211    12556689999998876666777766665544455555555443 333


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      ... .....+++..++.++....+.+.+........    .+.+..|++.++|.+..+...
T Consensus       166 pTIrSRc~~~~f~~l~~~ei~~~L~~ia~kegi~is----~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        166 PTIISRCQRFDFRRIPLEAMVQHLSEIAEKESIEIE----PEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             HHHHhheeEEEecCCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHHHHHHH
Confidence            222 23356788899999888877766533211111    356788999999988655443

>TIGR00767 rho transcription termination factor Rho

Probab=97.84  E-value=2.9e-05  Score=87.80  Aligned_cols=91  Identities=18%  Similarity=0.173  Sum_probs=63.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC--CCHHHHHHHHHHhhcCCCCCCcccH-----HHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED--FDVFRISKSILNSVASDQCKDKDDL-----NLLQEK  285 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~-----~~~~~~  285 (1472)
                      -..++|+|++|+|||||++.+++.... .+|+..+||.+.+.  .++.++++.++..+-....+.....     ....+.
T Consensus       168 Gq~~~IvG~~g~GKTtL~~~i~~~I~~-nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~  246 (415)
T TIGR00767       168 GQRGLIVAPPKAGKTVLLQKIAQAITR-NHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEK  246 (415)
T ss_pred             CCEEEEECCCCCChhHHHHHHHHhhcc-cCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHH
Confidence            457899999999999999999986433 37999999999866  7899999998655443332221111     111112


Q ss_pred             HHhh-hCCCeEEEEEeCCCC
Q 000471          286 LKKQ-LSGNKFLLVLDDVWN  304 (1472)
Q Consensus       286 l~~~-l~~k~~LlVlDdv~~  304 (1472)
                      .+.. -.+++++|++|++..
T Consensus       247 Ae~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       247 AKRLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHHHcCCCeEEEEEChhH
Confidence            2222 358999999999954

Members of this family differ in the specificity of RNA binding.

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.81  E-value=0.00071  Score=74.19  Aligned_cols=170  Identities=20%  Similarity=0.200  Sum_probs=105.2

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      ++.|.+|+.+...+..++...+   ..-+..|.|+|-.|.|||.+.+++.+..     =...+|+++-+.++..-++..|
T Consensus         5 ~~~v~~Re~qi~~L~~Llg~~~---~~~PS~~~iyG~sgTGKT~~~r~~l~~~-----n~~~vw~n~~ecft~~~lle~I   76 (438)
T KOG2543|consen    5 EPNVPCRESQIRRLKSLLGNNS---CTIPSIVHIYGHSGTGKTYLVRQLLRKL-----NLENVWLNCVECFTYAILLEKI   76 (438)
T ss_pred             ccCccchHHHHHHHHHHhCCCC---cccceeEEEeccCCCchhHHHHHHHhhc-----CCcceeeehHHhccHHHHHHHH
Confidence            4568899999999999886542   1245677999999999999999999853     1246899999999999999999


Q ss_pred             HHhhc-CCCCCCc-----ccHHHHHHHHHhh--h--CCCeEEEEEeCCCCCCHhh---HHhhcccccCCCCCcEEEEEcC
Q 000471          265 LNSVA-SDQCKDK-----DDLNLLQEKLKKQ--L--SGNKFLLVLDDVWNENYIR---WSELRCPFVAGAAGSKIVVTTR  331 (1472)
Q Consensus       265 ~~~l~-~~~~~~~-----~~~~~~~~~l~~~--l--~~k~~LlVlDdv~~~~~~~---~~~l~~~l~~~~~~s~iivTtR  331 (1472)
                      +.+.. .+.....     .........++++  .  +++.++||||+++.....+   +..+.....-.....-+|+++-
T Consensus        77 L~~~~~~d~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~  156 (438)
T KOG2543|consen   77 LNKSQLADKDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSA  156 (438)
T ss_pred             HHHhccCCCchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEec
Confidence            99985 2222111     1122222333331  1  1568999999996642111   1111110000111233444444


Q ss_pred             ChHHHHh---hCCCC--ceeCCCCChHhHHHHHHhh
Q 000471          332 NLVVAER---MGADP--VYQLKELSDDDCLCVLTQI  362 (1472)
Q Consensus       332 ~~~v~~~---~~~~~--~~~l~~L~~~~~~~lf~~~  362 (1472)
                      ...-...   +|...  ++....-+.+|..+++.+.
T Consensus       157 ~~~e~~y~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  157 PSCEKQYLINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             cccHHHhhcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            3222222   34433  4567888999999988654

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.80  E-value=6.4e-05  Score=79.71  Aligned_cols=184  Identities=15%  Similarity=0.140  Sum_probs=114.4

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEE-EEecCCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAW-TCVSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~w-v~~~~~~~~~~~~~~i  264 (1472)
                      .+++|-+..+..+...+...      ...+...+|++|.|||+-|.+++...--..-|.+++- .++|..-... +.++ 
T Consensus        36 de~~gQe~vV~~L~~a~~~~------~lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGis-vvr~-  107 (346)
T KOG0989|consen   36 DELAGQEHVVQVLKNALLRR------ILPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGIS-VVRE-  107 (346)
T ss_pred             HhhcchHHHHHHHHHHHhhc------CCceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhccccccccc-chhh-
Confidence            46899999999999998652      4678899999999999999988874333345555443 2333322111 1110 


Q ss_pred             HHhhcCCCCCCcccHHHHHHHHHhhh--CCCe-EEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHhh-
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQL--SGNK-FLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM-  339 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~~l~~~l--~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~~-  339 (1472)
                                ...+.+.+.....+..  ..++ -.+|||+++....+.|..++..+......+|.|+.+.... +.... 
T Consensus       108 ----------Kik~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~  177 (346)
T KOG0989|consen  108 ----------KIKNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLV  177 (346)
T ss_pred             ----------hhcCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHH
Confidence                      0011111111110000  0123 4889999999988999999988877666777665554432 22111 


Q ss_pred             CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh
Q 000471          340 GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       340 ~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL  391 (1472)
                      ..-.-|..++|.+++...-++..+-..+-..+    .+..+.|++.++|.=.
T Consensus       178 SRC~KfrFk~L~d~~iv~rL~~Ia~~E~v~~d----~~al~~I~~~S~GdLR  225 (346)
T KOG0989|consen  178 SRCQKFRFKKLKDEDIVDRLEKIASKEGVDID----DDALKLIAKISDGDLR  225 (346)
T ss_pred             hhHHHhcCCCcchHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCcHH
Confidence            11235789999999999888888754332222    4667889999988543

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.80  E-value=0.00042  Score=72.78  Aligned_cols=126  Identities=24%  Similarity=0.258  Sum_probs=72.3

Q ss_pred             CcCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          183 VNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       183 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      +.-.+++|.|.+++.|++=...--  ......-|.+||..|.|||++++++.+...-++    .--|.+.+.        
T Consensus        24 ~~l~~L~Gie~Qk~~l~~Nt~~Fl--~G~pannvLL~G~rGtGKSSlVkall~~y~~~G----LRlIev~k~--------   89 (249)
T PF05673_consen   24 IRLDDLIGIERQKEALIENTEQFL--QGLPANNVLLWGARGTGKSSLVKALLNEYADQG----LRLIEVSKE--------   89 (249)
T ss_pred             CCHHHhcCHHHHHHHHHHHHHHHH--cCCCCcceEEecCCCCCHHHHHHHHHHHHhhcC----ceEEEECHH--------
Confidence            345679999999888875432211  112345677899999999999999987322111    111222211        


Q ss_pred             HHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC-HhhHHhhcccccCC----CCCcEEEEEcCChHHH
Q 000471          263 SILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN-YIRWSELRCPFVAG----AAGSKIVVTTRNLVVA  336 (1472)
Q Consensus       263 ~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-~~~~~~l~~~l~~~----~~~s~iivTtR~~~v~  336 (1472)
                                  +..++..+.+.++.  +..||+|.+||+.-+. ...+..++..+..+    ..+..|..||..++..
T Consensus        90 ------------~L~~l~~l~~~l~~--~~~kFIlf~DDLsFe~~d~~yk~LKs~LeGgle~~P~NvliyATSNRRHLv  154 (249)
T PF05673_consen   90 ------------DLGDLPELLDLLRD--RPYKFILFCDDLSFEEGDTEYKALKSVLEGGLEARPDNVLIYATSNRRHLV  154 (249)
T ss_pred             ------------HhccHHHHHHHHhc--CCCCEEEEecCCCCCCCcHHHHHHHHHhcCccccCCCcEEEEEecchhhcc
Confidence                        22344445555553  3579999999984432 24455565554432    2334445565555543

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.80  E-value=0.00017  Score=83.60  Aligned_cols=148  Identities=16%  Similarity=0.143  Sum_probs=83.4

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|.+...+.+..++..+.     -..++.++|++|+||||+|+.+++..  ..   ....++.+. ... ...++.+
T Consensus        21 ~~~~~~~~~~~~l~~~~~~~~-----~~~~lll~G~~G~GKT~la~~l~~~~--~~---~~~~i~~~~-~~~-~~i~~~l   88 (316)
T PHA02544         21 DECILPAADKETFKSIVKKGR-----IPNMLLHSPSPGTGKTTVAKALCNEV--GA---EVLFVNGSD-CRI-DFVRNRL   88 (316)
T ss_pred             HHhcCcHHHHHHHHHHHhcCC-----CCeEEEeeCcCCCCHHHHHHHHHHHh--Cc---cceEeccCc-ccH-HHHHHHH
Confidence            468999999999999986432     35678889999999999999998732  11   123344333 111 1111111


Q ss_pred             HhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCCCCCcEEEEEcCChHH-HHhh-CCC
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAGAAGSKIVVTTRNLVV-AERM-GAD  342 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtR~~~v-~~~~-~~~  342 (1472)
                      ......                ..+.+.+-++|+||++.. .......+...+.....++++|+||..... .... ...
T Consensus        89 ~~~~~~----------------~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~  152 (316)
T PHA02544         89 TRFAST----------------VSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRC  152 (316)
T ss_pred             HHHHHh----------------hcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhc
Confidence            111000                001234568899999765 222223333334334467789988875431 1111 122


Q ss_pred             CceeCCCCChHhHHHHHHh
Q 000471          343 PVYQLKELSDDDCLCVLTQ  361 (1472)
Q Consensus       343 ~~~~l~~L~~~~~~~lf~~  361 (1472)
                      ..+.+...+.++..+++..
T Consensus       153 ~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        153 RVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             eEEEeCCCCHHHHHHHHHH
Confidence            3566767777777665543

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.79  E-value=0.00075  Score=82.52  Aligned_cols=195  Identities=16%  Similarity=0.098  Sum_probs=112.0

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|-+..++.+..++..+.     -...+.++|+.|+||||+|+.+++..-......   ...+....+    -+.+.
T Consensus        16 ~diiGqe~iv~~L~~~i~~~~-----i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~---~~pC~~C~~----C~~i~   83 (563)
T PRK06647         16 NSLEGQDFVVETLKHSIESNK-----IANAYIFSGPRGVGKTSSARAFARCLNCVNGPT---PMPCGECSS----CKSID   83 (563)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhccccCCC---CCCCccchH----HHHHH
Confidence            368999999999999996542     245788999999999999999987421111000   000000000    01111


Q ss_pred             Hh-------hcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHHH
Q 000471          266 NS-------VASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVVA  336 (1472)
Q Consensus       266 ~~-------l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v~  336 (1472)
                      ..       +.+......+++.++.+.+.. -..+++-++|+|++.......+..+...+........+|++|.. ..+.
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~  163 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLP  163 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhH
Confidence            10       000000011122222222221 12356668999999887666677777766654456666665543 3333


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      ... .....++..+++.++..+.+.+.+....-..    -.+.+..|++.++|.+..+...
T Consensus       164 ~tI~SRc~~~~f~~l~~~el~~~L~~i~~~egi~i----d~eAl~lLa~~s~GdlR~alsl  220 (563)
T PRK06647        164 ATIKSRCQHFNFRLLSLEKIYNMLKKVCLEDQIKY----EDEALKWIAYKSTGSVRDAYTL  220 (563)
T ss_pred             HHHHHhceEEEecCCCHHHHHHHHHHHHHHcCCCC----CHHHHHHHHHHcCCCHHHHHHH
Confidence            222 2335689999999999888887764322111    1467788999999988544433

>CHL00181 cbbX CbbX; Provisional

Probab=97.78  E-value=0.00088  Score=74.99  Aligned_cols=135  Identities=13%  Similarity=0.051  Sum_probs=73.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      ..+.++|++|+||||+|+.++......+.-...-|+.++..        .+.....+..      .......+.+.   .
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~--------~l~~~~~g~~------~~~~~~~l~~a---~  122 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRD--------DLVGQYIGHT------APKTKEVLKKA---M  122 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHH--------HHHHHHhccc------hHHHHHHHHHc---c
Confidence            45788999999999999999763211111111224544421        2222222111      11122233332   2


Q ss_pred             eEEEEEeCCCCC---------CHhhHHhhcccccCCCCCcEEEEEcCChHHHHhh--------CCCCceeCCCCChHhHH
Q 000471          294 KFLLVLDDVWNE---------NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERM--------GADPVYQLKELSDDDCL  356 (1472)
Q Consensus       294 ~~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~--------~~~~~~~l~~L~~~~~~  356 (1472)
                      .-+|++|++...         .......+...+.....+.+||.++....+....        .....+.+++++.+|..
T Consensus       123 ggVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~  202 (287)
T CHL00181        123 GGVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELL  202 (287)
T ss_pred             CCEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHH
Confidence            248999999642         1111223333343444556777777644432211        12346889999999999


Q ss_pred             HHHHhhhcC
Q 000471          357 CVLTQISLG  365 (1472)
Q Consensus       357 ~lf~~~a~~  365 (1472)
                      +++...+-.
T Consensus       203 ~I~~~~l~~  211 (287)
T CHL00181        203 QIAKIMLEE  211 (287)
T ss_pred             HHHHHHHHH
Confidence            998887643

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.77  E-value=0.00057  Score=74.34  Aligned_cols=196  Identities=17%  Similarity=0.118  Sum_probs=114.7

Q ss_pred             hHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc----cCcceEEEEecCCCCHHHHHHHHHHhh
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR----HYEIKAWTCVSEDFDVFRISKSILNSV  268 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l  268 (1472)
                      +.++++.+++..+   ......-+.|||..|+|||++++++....-...    .--.++.|.....++...+...|+.++
T Consensus        44 ~~L~~L~~Ll~~P---~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~Y~~IL~~l  120 (302)
T PF05621_consen   44 EALDRLEELLEYP---KRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRFYSAILEAL  120 (302)
T ss_pred             HHHHHHHHHHhCC---cccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHHHHHHHHHh
Confidence            3456666666544   345667799999999999999999986321111    111466788888899999999999999


Q ss_pred             cCCCCCCcccHHHHHHHHHhhhCC-CeEEEEEeCCCCC------CHhhHHhhcccccCCCCCcEEEEEcCChHHHHhh--
Q 000471          269 ASDQCKDKDDLNLLQEKLKKQLSG-NKFLLVLDDVWNE------NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERM--  339 (1472)
Q Consensus       269 ~~~~~~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~~~------~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~--  339 (1472)
                      +.+.. ...........+...++. +--+||+|.+.+.      .+.+.-.....+...-.=+-|.+-|+...-+-..  
T Consensus       121 gaP~~-~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~  199 (302)
T PF05621_consen  121 GAPYR-PRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDP  199 (302)
T ss_pred             CcccC-CCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCH
Confidence            98765 344555555555555543 3458899999663      1111111222222222334455555532221111  


Q ss_pred             ---CCCCceeCCCCChHhH-HHHHHhhhc--CCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          340 ---GADPVYQLKELSDDDC-LCVLTQISL--GARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       340 ---~~~~~~~l~~L~~~~~-~~lf~~~a~--~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                         +-..++.+.....++- ..|+.....  .-..+ .+-...++++.|...++|+.=-+
T Consensus       200 QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~-S~l~~~~la~~i~~~s~G~iG~l  258 (302)
T PF05621_consen  200 QLASRFEPFELPRWELDEEFRRLLASFERALPLRKP-SNLASPELARRIHERSEGLIGEL  258 (302)
T ss_pred             HHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCC-CCCCCHHHHHHHHHHcCCchHHH
Confidence               1123456666666544 445433321  11111 12234789999999999987443

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.74  E-value=6.5e-06  Score=98.79  Aligned_cols=100  Identities=25%  Similarity=0.358  Sum_probs=75.0

Q ss_pred             hccCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCce
Q 000471          594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH  673 (1472)
Q Consensus       594 ~~~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~  673 (1472)
                      +..++.|..|++.+| .+..+...+..+.+|++|+|++|.|+.+ ..+..|..|+.|++++| .+..++ ++..+++|+.
T Consensus        91 l~~~~~l~~l~l~~n-~i~~i~~~l~~~~~L~~L~ls~N~I~~i-~~l~~l~~L~~L~l~~N-~i~~~~-~~~~l~~L~~  166 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDN-KIEKIENLLSSLVNLQVLDLSFNKITKL-EGLSTLTLLKELNLSGN-LISDIS-GLESLKSLKL  166 (414)
T ss_pred             cccccceeeeecccc-chhhcccchhhhhcchheeccccccccc-cchhhccchhhheeccC-cchhcc-CCccchhhhc
Confidence            567788899999888 8888865588889999999999988888 45778888999999884 455554 3666888888


Q ss_pred             eecCCCCCcccCCCc-cccccccccc
Q 000471          674 LRNSTANSLKEMPKG-FGKLTSLLTL  698 (1472)
Q Consensus       674 L~l~~~~~~~~~p~~-i~~L~~L~~L  698 (1472)
                      +++++|. +..+... ...+.+|+.+
T Consensus       167 l~l~~n~-i~~ie~~~~~~~~~l~~l  191 (414)
T KOG0531|consen  167 LDLSYNR-IVDIENDELSELISLEEL  191 (414)
T ss_pred             ccCCcch-hhhhhhhhhhhccchHHH
Confidence            8888887 5555432 3555555554

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.74  E-value=0.00058  Score=81.72  Aligned_cols=160  Identities=18%  Similarity=0.160  Sum_probs=92.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccC--cceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHY--EIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      ...+.|+|+.|+|||+||+++++..  ....  ..++++++      .++..++...+...      ..+...    +.+
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l--~~~~~~~~v~yi~~------~~~~~~~~~~~~~~------~~~~~~----~~~  197 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEI--LENNPNAKVVYVSS------EKFTNDFVNALRNN------KMEEFK----EKY  197 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH--HHhCCCCcEEEEEH------HHHHHHHHHHHHcC------CHHHHH----HHH
Confidence            4568899999999999999999843  2222  23455543      33344455444321      122222    223


Q ss_pred             CCCeEEEEEeCCCCCCHhh-H-HhhcccccC-CCCCcEEEEEcCCh-H--------HHHhhCCCCceeCCCCChHhHHHH
Q 000471          291 SGNKFLLVLDDVWNENYIR-W-SELRCPFVA-GAAGSKIVVTTRNL-V--------VAERMGADPVYQLKELSDDDCLCV  358 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~~~~~~-~-~~l~~~l~~-~~~~s~iivTtR~~-~--------v~~~~~~~~~~~l~~L~~~~~~~l  358 (1472)
                      ++ .-+|||||++.....+ + +.+...+.. ...|..||+|+... .        +...+....++.+++.+.++-.++
T Consensus       198 ~~-~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~i  276 (405)
T TIGR00362       198 RS-VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAI  276 (405)
T ss_pred             Hh-CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHH
Confidence            22 2388999997542111 1 222222211 12345678877642 2        222223334688999999999999


Q ss_pred             HHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          359 LTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       359 f~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      +.+.+....- .-   -+++...|++.+.|..-.+.-
T Consensus       277 l~~~~~~~~~-~l---~~e~l~~ia~~~~~~~r~l~~  309 (405)
T TIGR00362       277 LQKKAEEEGL-EL---PDEVLEFIAKNIRSNVRELEG  309 (405)
T ss_pred             HHHHHHHcCC-CC---CHHHHHHHHHhcCCCHHHHHH
Confidence            9988744221 11   157788899999988765443

DnaA is involved in DNA biosynthesis; initiation of chromosome replication and can also be transcription regulator. The C-terminal of the family hits the pfam bacterial DnaA (bac_dnaA) domain family. For a review, see Kaguni (2006).

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.73  E-value=0.00042  Score=77.27  Aligned_cols=161  Identities=12%  Similarity=0.097  Sum_probs=81.2

Q ss_pred             ceeechhHHHHHHHHHhc---------CCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCH
Q 000471          187 KVYGREKEKEEIIELLLN---------DDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDV  257 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~---------~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  257 (1472)
                      .++|.+..+++|.+....         ......+...-+.++|++|+||||+|+.+++.......-....++.+...   
T Consensus         7 ~~~Gl~~vk~~i~~~~~~~~~~~~~~~~g~~~~~~~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~---   83 (261)
T TIGR02881         7 RMVGLDEVKALIKEIYAWIQINEKRKEEGLKTSKQVLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA---   83 (261)
T ss_pred             HhcChHHHHHHHHHHHHHHHHHHHHHHcCCCCCCCcceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH---
Confidence            478988877766543211         10011234556789999999999999999863211111111123333221   


Q ss_pred             HHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC--------HhhHHhhcccccCCCCCcEEEEE
Q 000471          258 FRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN--------YIRWSELRCPFVAGAAGSKIVVT  329 (1472)
Q Consensus       258 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~~s~iivT  329 (1472)
                       .+    .....+      .........+.+. .  .-+|++|++....        ......+...+........+|++
T Consensus        84 -~l----~~~~~g------~~~~~~~~~~~~a-~--~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila  149 (261)
T TIGR02881        84 -DL----VGEYIG------HTAQKTREVIKKA-L--GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILA  149 (261)
T ss_pred             -Hh----hhhhcc------chHHHHHHHHHhc-c--CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEec
Confidence             11    111111      1112222333322 1  2488999996521        11223343333333333455666


Q ss_pred             cCChHHHH------hh--CCCCceeCCCCChHhHHHHHHhhhc
Q 000471          330 TRNLVVAE------RM--GADPVYQLKELSDDDCLCVLTQISL  364 (1472)
Q Consensus       330 tR~~~v~~------~~--~~~~~~~l~~L~~~~~~~lf~~~a~  364 (1472)
                      +...+...      ..  .....+.+++++.+|-.+++.+.+.
T Consensus       150 ~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~Il~~~~~  192 (261)
T TIGR02881       150 GYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELMEIAERMVK  192 (261)
T ss_pred             CCcchhHHHHhcChHHHhccceEEEECCCCHHHHHHHHHHHHH
Confidence            54433211      01  1124578899999999999887764

Members of this protein family are the stage V sporulation protein K (SpoVK), a close homolog of the Rubisco expression protein CbbX (TIGR02880) and a members of the ATPase family associated with various cellular activities (pfam00004). Members are strictly limited to bacterial endospore-forming species, but are not universal in this group and are missing from the Clostridium group.

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.71  E-value=0.00069  Score=83.80  Aligned_cols=195  Identities=15%  Similarity=0.135  Sum_probs=108.1

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++||.+..++.|..++..+.     -...+.++|+.|+||||+|+.+++..-.....+       ...+..-..-++|.
T Consensus        16 ~~iiGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~-------~~~c~~c~~c~~i~   83 (576)
T PRK14965         16 SDLTGQEHVSRTLQNAIDTGR-----VAHAFLFTGARGVGKTSTARILAKALNCEQGLT-------AEPCNVCPPCVEIT   83 (576)
T ss_pred             HHccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCC-------CCCCCccHHHHHHh
Confidence            369999999999999986542     245678999999999999998876321111000       00000001111110


Q ss_pred             Hh-------hcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChHHH
Q 000471          266 NS-------VASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLVVA  336 (1472)
Q Consensus       266 ~~-------l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~v~  336 (1472)
                      ..       +.+......+++.++.+.+... ..+++-++|+|+++.........+...+........+|++| ....+.
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~  163 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP  163 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence            00       0000000112222333222211 23456689999998776556666666665444456666544 444444


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh-hHHHHH
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP-LAAKTL  396 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP-Lal~~~  396 (1472)
                      ... .....+++.+++.++....+...+-..+-..+    .+.+..|++.++|.. .|+..+
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~egi~i~----~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        164 ITILSRCQRFDFRRIPLQKIVDRLRYIADQEGISIS----DAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhCCCCC----HHHHHHHHHHcCCCHHHHHHHH
Confidence            332 23356789999999988877765532211111    466788899999866 344444

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.68  E-value=0.00013  Score=84.12  Aligned_cols=111  Identities=14%  Similarity=0.154  Sum_probs=73.8

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .++++.+...+.+...|...        +.+.++|++|+|||++|+++++.......|+.+.||.+....+....+....
T Consensus       175 ~d~~i~e~~le~l~~~L~~~--------~~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~r  246 (459)
T PRK11331        175 NDLFIPETTIETILKRLTIK--------KNIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYR  246 (459)
T ss_pred             hcccCCHHHHHHHHHHHhcC--------CCEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccC
Confidence            35788999999999999653        3578899999999999999987544445678889999998888766654321


Q ss_pred             HhhcCCCCCCcccH-HHHHHHHHhhh--CCCeEEEEEeCCCCCCHhh
Q 000471          266 NSVASDQCKDKDDL-NLLQEKLKKQL--SGNKFLLVLDDVWNENYIR  309 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~-~~~~~~l~~~l--~~k~~LlVlDdv~~~~~~~  309 (1472)
                          .... ...-. ....+.+.+..  .++++++|+|++...+...
T Consensus       247 ----P~~v-gy~~~~G~f~~~~~~A~~~p~~~~vliIDEINRani~k  288 (459)
T PRK11331        247 ----PNGV-GFRRKDGIFYNFCQQAKEQPEKKYVFIIDEINRANLSK  288 (459)
T ss_pred             ----CCCC-CeEecCchHHHHHHHHHhcccCCcEEEEehhhccCHHH
Confidence                1100 00000 01112222222  2468999999998765443

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.68  E-value=0.0002  Score=84.32  Aligned_cols=179  Identities=15%  Similarity=0.135  Sum_probs=97.2

Q ss_pred             CCceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDV  257 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  257 (1472)
                      ..++.|+++.++++.+.+...-.       -+-..++-|.++|++|+|||++|+++++.  ....     |+.++.    
T Consensus       130 ~~di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~--~~~~-----~i~v~~----  198 (389)
T PRK03992        130 YEDIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHE--TNAT-----FIRVVG----  198 (389)
T ss_pred             HHHhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHH--hCCC-----EEEeeh----
Confidence            35799999999999887632100       01234567889999999999999999873  2222     232221    


Q ss_pred             HHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC-----------HhhHHhhcccc---cC--CC
Q 000471          258 FRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN-----------YIRWSELRCPF---VA--GA  321 (1472)
Q Consensus       258 ~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-----------~~~~~~l~~~l---~~--~~  321 (1472)
                      ..    +.....+      .....+...+...-...+.+|+|||++...           ......+...+   ..  ..
T Consensus       199 ~~----l~~~~~g------~~~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~  268 (389)
T PRK03992        199 SE----LVQKFIG------EGARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPR  268 (389)
T ss_pred             HH----HhHhhcc------chHHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCC
Confidence            11    1111111      111112222222223467899999996531           11111122111   11  12


Q ss_pred             CCcEEEEEcCChHHHHh-h----CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCC
Q 000471          322 AGSKIVVTTRNLVVAER-M----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGL  389 (1472)
Q Consensus       322 ~~s~iivTtR~~~v~~~-~----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~gl  389 (1472)
                      .+.+||.||...+.... +    .-+..+.+...+.++-.++|+.+..+.. .....+    ...+++.+.|.
T Consensus       269 ~~v~VI~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~-~~~~~~----~~~la~~t~g~  336 (389)
T PRK03992        269 GNVKIIAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMN-LADDVD----LEELAELTEGA  336 (389)
T ss_pred             CCEEEEEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCC-CCCcCC----HHHHHHHcCCC
Confidence            35678888876542221 1    1235688999999999999998764322 111122    34556666664

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.67  E-value=0.00042  Score=89.41  Aligned_cols=182  Identities=16%  Similarity=0.154  Sum_probs=95.2

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcch---hc-cCcceEE-EEecCCCCHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV---QR-HYEIKAW-TCVSEDFDVFRI  260 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~---~~-~f~~~~w-v~~~~~~~~~~~  260 (1472)
                      ..++||+.++.++++.|....      ..-+.++|++|+||||+|+.+++....   .. -.+..+| ++.+.       
T Consensus       187 d~~iGr~~ei~~~i~~l~r~~------~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~-------  253 (852)
T TIGR03345       187 DPVLGRDDEIRQMIDILLRRR------QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGL-------  253 (852)
T ss_pred             CcccCCHHHHHHHHHHHhcCC------cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhh-------
Confidence            358999999999999986542      234569999999999999999873210   10 1122233 22211       


Q ss_pred             HHHHHHhhcCCCCCCcccH-HHHHHHHHhhh-CCCeEEEEEeCCCCCC-------HhhHHhhcccccCCCCCcEEEEEcC
Q 000471          261 SKSILNSVASDQCKDKDDL-NLLQEKLKKQL-SGNKFLLVLDDVWNEN-------YIRWSELRCPFVAGAAGSKIVVTTR  331 (1472)
Q Consensus       261 ~~~i~~~l~~~~~~~~~~~-~~~~~~l~~~l-~~k~~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~~s~iivTtR  331 (1472)
                             +..... ...+. +.+...+.+.- .+++.+|++|++....       ..+-..+..+.... ..-++|-||.
T Consensus       254 -------l~ag~~-~~ge~e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l~~-G~l~~IgaTT  324 (852)
T TIGR03345       254 -------LQAGAS-VKGEFENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPALAR-GELRTIAATT  324 (852)
T ss_pred             -------hhcccc-cchHHHHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHhhC-CCeEEEEecC
Confidence                   000000 11111 22222232222 2468999999985531       11111222222222 2356666666


Q ss_pred             ChHHHHhh-------CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCC
Q 000471          332 NLVVAERM-------GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGL  389 (1472)
Q Consensus       332 ~~~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~gl  389 (1472)
                      ..+.....       ..-+++.+++++.++..++++...-.-.....-.--.+....+++.+.+.
T Consensus       325 ~~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~ry  389 (852)
T TIGR03345       325 WAEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHRY  389 (852)
T ss_pred             HHHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHcccc
Confidence            54332211       12257899999999999997554421111000001134556666666554

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.66  E-value=0.0016  Score=80.15  Aligned_cols=193  Identities=16%  Similarity=0.126  Sum_probs=108.2

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|.+..++.+..++....     -...+.++|+.|+||||+|+.+....-....-+       ...++.-..-+.+.
T Consensus        16 ~~viGq~~v~~~L~~~i~~~~-----~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~~-------~~pC~~C~~C~~i~   83 (559)
T PRK05563         16 EDVVGQEHITKTLKNAIKQGK-----ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPPD-------GEPCNECEICKAIT   83 (559)
T ss_pred             HhccCcHHHHHHHHHHHHcCC-----CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCC-------CCCCCccHHHHHHh
Confidence            369999999999999997642     245677899999999999998875311110000       00111111111111


Q ss_pred             Hhhc-------CCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEc-CChHHH
Q 000471          266 NSVA-------SDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTT-RNLVVA  336 (1472)
Q Consensus       266 ~~l~-------~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTt-R~~~v~  336 (1472)
                      ....       .......+.+.++.+.+... ..+++-++|+|++.......+..+...+........+|++| ....+.
T Consensus        84 ~g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~  163 (559)
T PRK05563         84 NGSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIP  163 (559)
T ss_pred             cCCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCc
Confidence            1100       00000111222222222211 23567788999998776666777766555444455555544 433333


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHH
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAK  394 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~  394 (1472)
                      ... .....++..+++.++....+...+-..+-..+    .+.+..|++.++|.+..+.
T Consensus       164 ~tI~SRc~~~~f~~~~~~ei~~~L~~i~~~egi~i~----~~al~~ia~~s~G~~R~al  218 (559)
T PRK05563        164 ATILSRCQRFDFKRISVEDIVERLKYILDKEGIEYE----DEALRLIARAAEGGMRDAL  218 (559)
T ss_pred             HHHHhHheEEecCCCCHHHHHHHHHHHHHHcCCCCC----HHHHHHHHHHcCCCHHHHH
Confidence            222 22356788999999988888776632221111    4667888999998776443

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.65  E-value=0.00035  Score=89.67  Aligned_cols=156  Identities=19%  Similarity=0.209  Sum_probs=83.8

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcc---hhccC-cceEEEEecCCCCHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR---VQRHY-EIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~f-~~~~wv~~~~~~~~~~~~~  262 (1472)
                      .++||+++++++++.|....      ..-+.++|++|+|||++|+.++....   +...+ +..+|. +    +...+  
T Consensus       183 ~~igr~~ei~~~~~~L~~~~------~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l--  249 (731)
T TIGR02639       183 PLIGREDELERTIQVLCRRK------KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSL--  249 (731)
T ss_pred             cccCcHHHHHHHHHHHhcCC------CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHH--
Confidence            58999999999999986542      23456999999999999999987321   11111 233442 1    11111  


Q ss_pred             HHHHhhcCCCCCCcccHHH-HHHHHHhhhCCCeEEEEEeCCCCCC--------HhhHHhhcccccCCCCCcEEEEEcCCh
Q 000471          263 SILNSVASDQCKDKDDLNL-LQEKLKKQLSGNKFLLVLDDVWNEN--------YIRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       263 ~i~~~l~~~~~~~~~~~~~-~~~~l~~~l~~k~~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~~s~iivTtR~~  333 (1472)
                        ..   +..  ...+.++ +...+.+.-..++.+|++|++....        ..+-..+..+....+ .-++|-+|...
T Consensus       250 --~a---~~~--~~g~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l~~g-~i~~IgaTt~~  321 (731)
T TIGR02639       250 --LA---GTK--YRGDFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPALSSG-KLRCIGSTTYE  321 (731)
T ss_pred             --hh---hcc--ccchHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHHhCC-CeEEEEecCHH
Confidence              10   000  0112222 2222222223467899999986321        011112222222211 23555555543


Q ss_pred             HHHHhh-------CCCCceeCCCCChHhHHHHHHhhh
Q 000471          334 VVAERM-------GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       334 ~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      +.....       ..-+.+.+++++.++..+++....
T Consensus       322 e~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       322 EYKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            221111       122468999999999999998654

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.63  E-value=0.0013  Score=78.45  Aligned_cols=155  Identities=14%  Similarity=0.131  Sum_probs=88.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      ..-+.|+|+.|+|||+||+++++..  ......+++++      ...+...+...+...      ..    ..+++..+ 
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l--~~~~~~v~yi~------~~~f~~~~~~~l~~~------~~----~~f~~~~~-  201 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHAL--RESGGKILYVR------SELFTEHLVSAIRSG------EM----QRFRQFYR-  201 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHH--HHcCCCEEEee------HHHHHHHHHHHHhcc------hH----HHHHHHcc-
Confidence            4568899999999999999999843  22223344554      233444555444321      11    22333333 


Q ss_pred             CeEEEEEeCCCCCCHhhH--HhhcccccC-CCCCcEEEEEcCCh---------HHHHhhCCCCceeCCCCChHhHHHHHH
Q 000471          293 NKFLLVLDDVWNENYIRW--SELRCPFVA-GAAGSKIVVTTRNL---------VVAERMGADPVYQLKELSDDDCLCVLT  360 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~~~~--~~l~~~l~~-~~~~s~iivTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~  360 (1472)
                      +.-+|++||+.......|  +.+...+.. ...|..||+||...         .+...+....++++.+++.++-.+++.
T Consensus       202 ~~dvLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~  281 (445)
T PRK12422        202 NVDALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLE  281 (445)
T ss_pred             cCCEEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHH
Confidence            344888899865422111  222222111 01355788888642         222333444678999999999999998


Q ss_pred             hhhcCCCCCCCCccHHHHHHHHHHHhCCCh
Q 000471          361 QISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       361 ~~a~~~~~~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      +++-... ..-+   .++..-|++.+.|.-
T Consensus       282 ~k~~~~~-~~l~---~evl~~la~~~~~di  307 (445)
T PRK12422        282 RKAEALS-IRIE---ETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHcC-CCCC---HHHHHHHHHhcCCCH
Confidence            8874322 1111   466666777776544

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.62  E-value=0.0006  Score=81.47  Aligned_cols=161  Identities=17%  Similarity=0.149  Sum_probs=93.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhcc-Cc-ceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRH-YE-IKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~-f~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      ..-+.|+|++|+|||+||+++++.  .... .. .++|++.      .++..++...+...      ..+.    +++..
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~--l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~------~~~~----f~~~~  191 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNY--VVQNEPDLRVMYITS------EKFLNDLVDSMKEG------KLNE----FREKY  191 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHH--HHHhCCCCeEEEEEH------HHHHHHHHHHHhcc------cHHH----HHHHH
Confidence            445899999999999999999984  3222 22 3456643      34555555555321      1222    22233


Q ss_pred             CCCeEEEEEeCCCCCCH-hhH-HhhcccccC-CCCCcEEEEEcC-ChHH--------HHhhCCCCceeCCCCChHhHHHH
Q 000471          291 SGNKFLLVLDDVWNENY-IRW-SELRCPFVA-GAAGSKIVVTTR-NLVV--------AERMGADPVYQLKELSDDDCLCV  358 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~~~~-~~~-~~l~~~l~~-~~~~s~iivTtR-~~~v--------~~~~~~~~~~~l~~L~~~~~~~l  358 (1472)
                      ..+.-+||+||+..... ..+ +.+...+.. ...|..||+||. .+.-        ...+....++++++.+.++-.++
T Consensus       192 ~~~~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~I  271 (440)
T PRK14088        192 RKKVDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKI  271 (440)
T ss_pred             HhcCCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHH
Confidence            33455899999974310 111 122222111 113457888875 3321        12233445778999999999999


Q ss_pred             HHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          359 LTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       359 f~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      +.+.+....- .-+   .+++..|++.+.|.--.+.-
T Consensus       272 L~~~~~~~~~-~l~---~ev~~~Ia~~~~~~~R~L~g  304 (440)
T PRK14088        272 ARKMLEIEHG-ELP---EEVLNFVAENVDDNLRRLRG  304 (440)
T ss_pred             HHHHHHhcCC-CCC---HHHHHHHHhccccCHHHHHH
Confidence            9888743221 111   57788899988887655443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.61  E-value=0.0012  Score=74.14  Aligned_cols=133  Identities=13%  Similarity=0.052  Sum_probs=71.7

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCe
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNK  294 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~  294 (1472)
                      -+.++|++|+||||+|+.++......+.....-|+.++.    .    +++..+.+..      .......+.+.   ..
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~----~l~~~~~g~~------~~~~~~~~~~a---~~  122 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----D----DLVGQYIGHT------APKTKEILKRA---MG  122 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----H----HHhHhhcccc------hHHHHHHHHHc---cC
Confidence            578999999999999987775321111111123444442    1    2222222211      11222233332   23


Q ss_pred             EEEEEeCCCCC---------CHhhHHhhcccccCCCCCcEEEEEcCChHHHHhhC--------CCCceeCCCCChHhHHH
Q 000471          295 FLLVLDDVWNE---------NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMG--------ADPVYQLKELSDDDCLC  357 (1472)
Q Consensus       295 ~LlVlDdv~~~---------~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~--------~~~~~~l~~L~~~~~~~  357 (1472)
                      -+|+||++...         ....+..+...+.....+.+||.++..........        ....+++++++.+|-.+
T Consensus       123 gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~  202 (284)
T TIGR02880       123 GVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLV  202 (284)
T ss_pred             cEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHH
Confidence            58899999632         11223344444444445667777765433222211        13468899999999999


Q ss_pred             HHHhhhc
Q 000471          358 VLTQISL  364 (1472)
Q Consensus       358 lf~~~a~  364 (1472)
                      ++...+-
T Consensus       203 I~~~~l~  209 (284)
T TIGR02880       203 IAGLMLK  209 (284)
T ss_pred             HHHHHHH
Confidence            9888763

Proteins in this family are now designated CbbX. Some previously were CfxQ (carbon fixation Q). Its gene is often found immmediately downstream of the Rubisco large and small chain genes, and it is suggested to be necessary for Rubisco expression. CbbX has been shown to be necessary for photoautotrophic growth. This protein belongs to the larger family of pfam00004, ATPase family Associated with various cellular Activities. Within that larger family, members of this family are most closely related to the stage V sporulation protein K, or SpoVK, in endospore-forming bacteria such as Bacillus subtilis.

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.59  E-value=1.7e-05  Score=95.14  Aligned_cols=175  Identities=18%  Similarity=0.127  Sum_probs=80.5

Q ss_pred             cCCCCCccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCCCCCCCcce
Q 000471         1261 LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQS 1340 (1472)
Q Consensus      1261 l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~ 1340 (1472)
                      +..+.+|+.|++.+|. +..+......+++|++|++++|.+...  ..+..++.|+.|++++| .+..++....+.+|+.
T Consensus        91 l~~~~~l~~l~l~~n~-i~~i~~~l~~~~~L~~L~ls~N~I~~i--~~l~~l~~L~~L~l~~N-~i~~~~~~~~l~~L~~  166 (414)
T KOG0531|consen   91 LSKLKSLEALDLYDNK-IEKIENLLSSLVNLQVLDLSFNKITKL--EGLSTLTLLKELNLSGN-LISDISGLESLKSLKL  166 (414)
T ss_pred             cccccceeeeeccccc-hhhcccchhhhhcchheeccccccccc--cchhhccchhhheeccC-cchhccCCccchhhhc
Confidence            4445555555555532 222222233445555555555443322  23444444555555555 3444444444555555


Q ss_pred             eEeccccCCCCCCccccccccccceeeeccCCCCCC----------------------CCCCCCcc--ccceeccCCCCc
Q 000471         1341 LEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLV----------------------SPPPFPAS--LTNLWISDMPDL 1396 (1472)
Q Consensus      1341 L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~----------------------~~~~~~~~--L~~L~l~~~~~l 1396 (1472)
                      +++++|.+...-+.. +..+.+|+.+++.+|.+...                      ........  |+.+++++|+ +
T Consensus       167 l~l~~n~i~~ie~~~-~~~~~~l~~l~l~~n~i~~i~~~~~~~~l~~~~l~~n~i~~~~~l~~~~~~~L~~l~l~~n~-i  244 (414)
T KOG0531|consen  167 LDLSYNRIVDIENDE-LSELISLEELDLGGNSIREIEGLDLLKKLVLLSLLDNKISKLEGLNELVMLHLRELYLSGNR-I  244 (414)
T ss_pred             ccCCcchhhhhhhhh-hhhccchHHHhccCCchhcccchHHHHHHHHhhcccccceeccCcccchhHHHHHHhcccCc-c
Confidence            555555554433211 24455555555555433222                      22122222  5666666663 3


Q ss_pred             CcccccCCCCCcCceeeccCCCCCCCCCCCCCccccceecccCCcc
Q 000471         1397 ESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPL 1442 (1472)
Q Consensus      1397 ~~i~~~~~~l~~L~~L~l~~~~~l~~lp~~~~~~sL~~L~l~~c~~ 1442 (1472)
                      ..++..+..++.+..|++.+| .+..+........+..+....++.
T Consensus       245 ~~~~~~~~~~~~l~~l~~~~n-~~~~~~~~~~~~~~~~~~~~~~~~  289 (414)
T KOG0531|consen  245 SRSPEGLENLKNLPVLDLSSN-RISNLEGLERLPKLSELWLNDNKL  289 (414)
T ss_pred             ccccccccccccccccchhhc-cccccccccccchHHHhccCcchh
Confidence            333234456666777777655 333332222333444445555543

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.59  E-value=0.00077  Score=81.65  Aligned_cols=160  Identities=17%  Similarity=0.166  Sum_probs=93.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCc--ceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYE--IKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      ..-+.|+|+.|+|||+||+++++.  ....+.  .+++++.      ..+..++...+...      ..+.    +.+.+
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~--~~~~~~~~~v~yi~~------~~~~~~~~~~~~~~------~~~~----~~~~~  209 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNY--ILEKNPNAKVVYVTS------EKFTNDFVNALRNN------TMEE----FKEKY  209 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEEEH------HHHHHHHHHHHHcC------cHHH----HHHHH
Confidence            456889999999999999999984  333332  2445543      23334444444321      1222    22333


Q ss_pred             CCCeEEEEEeCCCCCCHhh--HHhhcccccC-CCCCcEEEEEcCChH---------HHHhhCCCCceeCCCCChHhHHHH
Q 000471          291 SGNKFLLVLDDVWNENYIR--WSELRCPFVA-GAAGSKIVVTTRNLV---------VAERMGADPVYQLKELSDDDCLCV  358 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~~~~~~--~~~l~~~l~~-~~~~s~iivTtR~~~---------v~~~~~~~~~~~l~~L~~~~~~~l  358 (1472)
                      + +.-+|||||++......  .+.+...+.. ...|..||+||....         +...+....++++++.+.++-.++
T Consensus       210 ~-~~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~i  288 (450)
T PRK00149        210 R-SVDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAI  288 (450)
T ss_pred             h-cCCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHH
Confidence            3 23489999996532111  1222221111 113456888776531         223334446789999999999999


Q ss_pred             HHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          359 LTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       359 f~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      +.+.+.... ..-   -+++...|++.++|..-.+.-
T Consensus       289 l~~~~~~~~-~~l---~~e~l~~ia~~~~~~~R~l~~  321 (450)
T PRK00149        289 LKKKAEEEG-IDL---PDEVLEFIAKNITSNVRELEG  321 (450)
T ss_pred             HHHHHHHcC-CCC---CHHHHHHHHcCcCCCHHHHHH
Confidence            999875322 111   157788899999988765443

>PF12799 LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_A 1XEU_A 2OMX_A 2OMU_A 2UZY_A 2WQU_D 1D0B_A 2WQW_A 1OTO_A 2WQV_B

Probab=97.58  E-value=6e-05  Score=56.57  Aligned_cols=40  Identities=33%  Similarity=0.490  Sum_probs=30.2

Q ss_pred             CcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhh
Q 000471          622 KHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLC  662 (1472)
Q Consensus       622 ~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp  662 (1472)
                      ++|++|++++|+|+.+|..+++|++|++|++++| .+..+|
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N-~i~~i~   40 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNN-PISDIS   40 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSS-CCSBEG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCC-CCCCCc
Confidence            4788999999999988888888999999998885 344443

...

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.57  E-value=1.1e-05  Score=86.80  Aligned_cols=90  Identities=21%  Similarity=0.245  Sum_probs=54.1

Q ss_pred             HHHHhccCCcceEEEecCCCCCcc-----CCcccCCCCcCcEEecCCc---c-ccccchhh-------hhcccccEEecC
Q 000471          590 LQRLLNHLPRLRVFSLRGCGNIFN-----LPNEIGNLKHLRCLNLSRT---R-IQILPESI-------NSLYNLHTILLE  653 (1472)
Q Consensus       590 ~~~~~~~l~~Lr~L~L~~~~~~~~-----lp~~i~~L~~Lr~L~L~~~---~-i~~lP~~i-------~~L~~L~~L~L~  653 (1472)
                      .......+..+..++|+|| .++.     +-..+.+.++||.-+++.-   + ..++|+.+       -..++|++||||
T Consensus        22 v~~~~~~~~s~~~l~lsgn-t~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLS  100 (382)
T KOG1909|consen   22 VEEELEPMDSLTKLDLSGN-TFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLS  100 (382)
T ss_pred             HHHHhcccCceEEEeccCC-chhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeecc
Confidence            3344667788999999998 5532     3345666778888888763   1 22555543       234467777777


Q ss_pred             CCcch----hhhhhhhcccCCCceeecCCCC
Q 000471          654 DCHQL----KKLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       654 ~~~~l----~~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                      .|-.-    ..+-.-+.....|+||++.+|.
T Consensus       101 DNA~G~~g~~~l~~ll~s~~~L~eL~L~N~G  131 (382)
T KOG1909|consen  101 DNAFGPKGIRGLEELLSSCTDLEELYLNNCG  131 (382)
T ss_pred             ccccCccchHHHHHHHHhccCHHHHhhhcCC
Confidence            65332    2222234556667777776665

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.55  E-value=9.3e-06  Score=87.31  Aligned_cols=223  Identities=16%  Similarity=0.074  Sum_probs=142.8

Q ss_pred             CcccceEEeccccccccccch-----hccCCcchhhhccccccc---cCc-------cccCCCCCccEEeeccCCCcccc
Q 000471         1217 PQALKYLRVEDCSKLESLAER-----LDNTSLEEITISVLENLK---SLP-------ADLHNLHHLQKIWINYCPNLESF 1281 (1472)
Q Consensus      1217 ~~~L~~L~l~~c~~l~~l~~~-----~~~~~L~~L~l~~~~~~~---~~~-------~~l~~l~~L~~L~Ls~~~~l~~l 1281 (1472)
                      ..+++.++|+++..-+.-...     ...++|+..++++-.-..   .+|       ..+..+|+|++|+||+|.+-...
T Consensus        29 ~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~~g  108 (382)
T KOG1909|consen   29 MDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGPKG  108 (382)
T ss_pred             cCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCccc
Confidence            357899999997754332221     123677777777643222   222       34567889999999998655443


Q ss_pred             CCC----CCCCCCccEEeccccccccc-------------ccccCCCCCcccEeeecCCCCCccCCCC------CCCCCc
Q 000471         1282 PEE----GLPSTKLTELTIYDCENLKA-------------LPNCMHNLTSLLILEIRGCPSVVSFPED------GFPTNL 1338 (1472)
Q Consensus      1282 ~~~----~~~l~~L~~L~Ls~c~~l~~-------------lp~~l~~l~~L~~L~L~~n~~l~~~p~~------~~~~~L 1338 (1472)
                      +..    +..+..|++|+|.+|..-..             ...-..+-+.|+++..+.| .+.+.+..      ...+.|
T Consensus       109 ~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rN-rlen~ga~~~A~~~~~~~~l  187 (382)
T KOG1909|consen  109 IRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRN-RLENGGATALAEAFQSHPTL  187 (382)
T ss_pred             hHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecc-ccccccHHHHHHHHHhcccc
Confidence            332    23467899999999864211             1122345678999999888 45554432      345889


Q ss_pred             ceeEeccccCCCCC---CccccccccccceeeeccCCCCCC-------CCCCCCccccceeccCCCCcCc-----ccccC
Q 000471         1339 QSLEVRGLKISKPL---PEWGFNRFTSLRRFTICGGCPDLV-------SPPPFPASLTNLWISDMPDLES-----ISSIG 1403 (1472)
Q Consensus      1339 ~~L~l~~n~~~~~~---~~~~l~~l~~L~~L~Ls~n~~~~~-------~~~~~~~~L~~L~l~~~~~l~~-----i~~~~ 1403 (1472)
                      +++.++.|.+....   ....|..++.|+.|||..|-.+..       .++. .+.|+.|.+++|. ++.     +...+
T Consensus       188 eevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s-~~~L~El~l~dcl-l~~~Ga~a~~~al  265 (382)
T KOG1909|consen  188 EEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSS-WPHLRELNLGDCL-LENEGAIAFVDAL  265 (382)
T ss_pred             ceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcc-cchheeecccccc-cccccHHHHHHHH
Confidence            99999999886322   223578899999999988754422       2222 3479999999994 332     22222


Q ss_pred             -CCCCcCceeeccCCCCCCCCC----C-CCCccccceecccCCcc
Q 000471         1404 -ENLTSLETLRLFNCPKLKYFP----E-QGLPKSLSRLSIHNCPL 1442 (1472)
Q Consensus      1404 -~~l~~L~~L~l~~~~~l~~lp----~-~~~~~sL~~L~l~~c~~ 1442 (1472)
                       ...|+|+.|.+.+|..-..-.    . ..-.+.|..|++++|..
T Consensus       266 ~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  266 KESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             hccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence             568999999999984322110    0 01256899999999987

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.54  E-value=0.0016  Score=74.26  Aligned_cols=97  Identities=13%  Similarity=0.112  Sum_probs=65.7

Q ss_pred             CCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCC
Q 000471          292 GNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAER-MGADPVYQLKELSDDDCLCVLTQISLGARDF  369 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~  369 (1472)
                      +++-++|+|+++.........+...+.....++.+|+||.+.. +... ......+.+.+++.+++.+.+.... +..  
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~-~~~--  181 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQAL-PES--  181 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhc-ccC--
Confidence            3444557799988877777777766665556778888877754 2222 2233568999999999998887653 111  


Q ss_pred             CCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          370 TRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       370 ~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                       .    .+.+..++..++|.|..+..+
T Consensus       182 -~----~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        182 -D----ERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             -C----hHHHHHHHHHcCCCHHHHHHH
Confidence             1    344667889999999766554

>PF14516 AAA_35: AAA-like domain

Probab=97.53  E-value=0.0047  Score=71.19  Aligned_cols=203  Identities=13%  Similarity=0.108  Sum_probs=118.1

Q ss_pred             cCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC-----CCHH
Q 000471          184 NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-----FDVF  258 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~  258 (1472)
                      +.+..|.|...-+++.+.+.+.       ...+.|.|+-.+|||+|..++.+..+. ..| .++++++..-     .+..
T Consensus         9 ~~~~Yi~R~~~e~~~~~~i~~~-------G~~~~I~apRq~GKTSll~~l~~~l~~-~~~-~~v~id~~~~~~~~~~~~~   79 (331)
T PF14516_consen    9 DSPFYIERPPAEQECYQEIVQP-------GSYIRIKAPRQMGKTSLLLRLLERLQQ-QGY-RCVYIDLQQLGSAIFSDLE   79 (331)
T ss_pred             CCCcccCchHHHHHHHHHHhcC-------CCEEEEECcccCCHHHHHHHHHHHHHH-CCC-EEEEEEeecCCCcccCCHH
Confidence            3445778986777777777553       258999999999999999999874332 233 3557776542     2455


Q ss_pred             HHHHHHHHhhcCCCCC----------CcccHHHHHHHHHhhh---CCCeEEEEEeCCCCCCH-----hh-HHhhcccccC
Q 000471          259 RISKSILNSVASDQCK----------DKDDLNLLQEKLKKQL---SGNKFLLVLDDVWNENY-----IR-WSELRCPFVA  319 (1472)
Q Consensus       259 ~~~~~i~~~l~~~~~~----------~~~~~~~~~~~l~~~l---~~k~~LlVlDdv~~~~~-----~~-~~~l~~~l~~  319 (1472)
                      +.++.++..+...-..          ...........+.+++   .+++.+|+||+|+..-.     .+ +..++.....
T Consensus        80 ~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~  159 (331)
T PF14516_consen   80 QFLRWFCEEISRQLKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQ  159 (331)
T ss_pred             HHHHHHHHHHHHHcCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHh
Confidence            5555555544332110          0111223333444432   26899999999965321     11 1111111111


Q ss_pred             C-----CCCcEEEEEcCCh-HHHHh-----hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCC
Q 000471          320 G-----AAGSKIVVTTRNL-VVAER-----MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGG  388 (1472)
Q Consensus       320 ~-----~~~s~iivTtR~~-~v~~~-----~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~g  388 (1472)
                      .     ...-++++....+ .....     ......++|.+++.+|...|..++-..-.        .+..++|...+||
T Consensus       160 ~~~~~~~~~L~li~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~~~--------~~~~~~l~~~tgG  231 (331)
T PF14516_consen  160 RKNNPIWQKLRLILAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLEFS--------QEQLEQLMDWTGG  231 (331)
T ss_pred             cccCcccceEEEEEecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhccCC--------HHHHHHHHHHHCC
Confidence            0     1111222222111 11111     11234688999999999999887642211        2338899999999


Q ss_pred             ChhHHHHHHhhhcCC
Q 000471          389 LPLAAKTLGGLLRGR  403 (1472)
Q Consensus       389 lPLal~~~~~~L~~~  403 (1472)
                      +|.-+..++..+..+
T Consensus       232 hP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  232 HPYLVQKACYLLVEE  246 (331)
T ss_pred             CHHHHHHHHHHHHHc
Confidence            999999999999764

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.53  E-value=0.0019  Score=73.20  Aligned_cols=197  Identities=14%  Similarity=0.094  Sum_probs=111.5

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcch-------------hccCcceEEEEecC
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV-------------QRHYEIKAWTCVSE  253 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~-------------~~~f~~~~wv~~~~  253 (1472)
                      +++|.+..++.+.+.+..+.     -.....++|+.|+||+++|..+++..-.             ........|+.-..
T Consensus         5 ~iiGq~~~~~~L~~~i~~~r-----l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~   79 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQNR-----IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTY   79 (314)
T ss_pred             HhCCHHHHHHHHHHHHHhCC-----CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccc
Confidence            58999999999999996542     2468899999999999999877653111             11122234442210


Q ss_pred             CCCHHHHHHHHHHhhcCC-CCCCcccHHHHHHHHHhhh-----CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEE
Q 000471          254 DFDVFRISKSILNSVASD-QCKDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIV  327 (1472)
Q Consensus       254 ~~~~~~~~~~i~~~l~~~-~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~ii  327 (1472)
                      ..+-..+-..-++..+.. .......++++. .+.+.+     .+++-++|+|+++.........+...+.... .+.+|
T Consensus        80 ~~~g~~~~~~~~~~~~~~~~~~~~I~id~ir-~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fI  157 (314)
T PRK07399         80 QHQGKLITASEAEEAGLKRKAPPQIRLEQIR-EIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLI  157 (314)
T ss_pred             cccccccchhhhhhccccccccccCcHHHHH-HHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEE
Confidence            000000001111111100 000111223322 233332     3567799999998877666666666665444 44555


Q ss_pred             EEcCCh-HHHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          328 VTTRNL-VVAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       328 vTtR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      ++|.+. .+.... .....+.+.++++++..+.+.+......       .......++..++|.|..+..+.
T Consensus       158 Li~~~~~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~-------~~~~~~~l~~~a~Gs~~~al~~l  222 (314)
T PRK07399        158 LIAPSPESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI-------LNINFPELLALAQGSPGAAIANI  222 (314)
T ss_pred             EEECChHhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc-------chhHHHHHHHHcCCCHHHHHHHH
Confidence            555443 333322 3346789999999999999987642111       01123678899999997665433

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.47  E-value=4.3e-05  Score=79.96  Aligned_cols=83  Identities=14%  Similarity=0.123  Sum_probs=60.4

Q ss_pred             CCcchhhhccccccc--cCccccCCCCCccEEeeccCCCccccCCCCCCCCCccEEeccccccc-ccccccCCCCCcccE
Q 000471         1241 TSLEEITISVLENLK--SLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENL-KALPNCMHNLTSLLI 1317 (1472)
Q Consensus      1241 ~~L~~L~l~~~~~~~--~~~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l-~~lp~~l~~l~~L~~ 1317 (1472)
                      +.++++|+.+|.+..  .+...+.++|.|+.|+|+.|+....|...-.+..+|++|.|.|-... ...-..+..+|.++.
T Consensus        71 ~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~vte  150 (418)
T KOG2982|consen   71 TDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKVTE  150 (418)
T ss_pred             hhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhhhh
Confidence            778888998887765  44556788999999999998876655443367789999999774321 122234567888888


Q ss_pred             eeecCC
Q 000471         1318 LEIRGC 1323 (1472)
Q Consensus      1318 L~L~~n 1323 (1472)
                      |+++.|
T Consensus       151 lHmS~N  156 (418)
T KOG2982|consen  151 LHMSDN  156 (418)
T ss_pred             hhhccc
Confidence            888887

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.45  E-value=0.0018  Score=78.20  Aligned_cols=159  Identities=16%  Similarity=0.186  Sum_probs=93.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccC--cceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHY--EIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLS  291 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~  291 (1472)
                      ..+.|+|..|+|||.|++++++.  ....+  ..+++++      ..++..++...+...      ..+    .+++.++
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~--a~~~~~g~~V~Yit------aeef~~el~~al~~~------~~~----~f~~~y~  376 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHY--ARRLYPGTRVRYVS------SEEFTNEFINSIRDG------KGD----SFRRRYR  376 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH--HHHhCCCCeEEEee------HHHHHHHHHHHHHhc------cHH----HHHHHhh
Confidence            45899999999999999999984  22222  2334553      334444444443221      112    2233333


Q ss_pred             CCeEEEEEeCCCCCCHh-hHH-hhcccccC-CCCCcEEEEEcCCh---------HHHHhhCCCCceeCCCCChHhHHHHH
Q 000471          292 GNKFLLVLDDVWNENYI-RWS-ELRCPFVA-GAAGSKIVVTTRNL---------VVAERMGADPVYQLKELSDDDCLCVL  359 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~~~~-~~~-~l~~~l~~-~~~~s~iivTtR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf  359 (1472)
                      + -=+|||||+...... .|. .+...+.. ...|..|||||+..         .+...+...-+++|.+.+.+.-.+++
T Consensus       377 ~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL  455 (617)
T PRK14086        377 E-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAIL  455 (617)
T ss_pred             c-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHH
Confidence            2 347889999764321 222 22222211 12356688888753         23344455667899999999999999


Q ss_pred             HhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHH
Q 000471          360 TQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       360 ~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~  395 (1472)
                      .+++.... ...+   .++++-|++.+.+..-.+.-
T Consensus       456 ~kka~~r~-l~l~---~eVi~yLa~r~~rnvR~Leg  487 (617)
T PRK14086        456 RKKAVQEQ-LNAP---PEVLEFIASRISRNIRELEG  487 (617)
T ss_pred             HHHHHhcC-CCCC---HHHHHHHHHhccCCHHHHHH
Confidence            98874432 1111   57778888887776544433

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.44  E-value=5.7e-06  Score=96.46  Aligned_cols=122  Identities=20%  Similarity=0.185  Sum_probs=77.5

Q ss_pred             CccEEeeccCCCccccCCCCCCCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCC-CCCCCcceeEec
Q 000471         1266 HLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED-GFPTNLQSLEVR 1344 (1472)
Q Consensus      1266 ~L~~L~Ls~~~~l~~l~~~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~-~~~~~L~~L~l~ 1344 (1472)
                      .|...+.++| .+..+..++.-++.|+.|+|++|.....  ..+..++.|++|||+.| .++.+|.. ..-..|..|.++
T Consensus       165 ~L~~a~fsyN-~L~~mD~SLqll~ale~LnLshNk~~~v--~~Lr~l~~LkhLDlsyN-~L~~vp~l~~~gc~L~~L~lr  240 (1096)
T KOG1859|consen  165 KLATASFSYN-RLVLMDESLQLLPALESLNLSHNKFTKV--DNLRRLPKLKHLDLSYN-CLRHVPQLSMVGCKLQLLNLR  240 (1096)
T ss_pred             hHhhhhcchh-hHHhHHHHHHHHHHhhhhccchhhhhhh--HHHHhcccccccccccc-hhccccccchhhhhheeeeec
Confidence            4555555553 3444444555556778888888665433  25677778888888877 46666655 122347888888


Q ss_pred             cccCCCCCCccccccccccceeeeccCCCCCCCCCCC---CccccceeccCCC
Q 000471         1345 GLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPF---PASLTNLWISDMP 1394 (1472)
Q Consensus      1345 ~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~~---~~~L~~L~l~~~~ 1394 (1472)
                      ||.+....   ++.+|.+|+.||++.|++..-+--.+   +..|..|.|.+||
T Consensus       241 nN~l~tL~---gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  241 NNALTTLR---GIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             ccHHHhhh---hHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCc
Confidence            88776543   56777888888888876654333332   4566777777776

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.39  E-value=0.00072  Score=87.90  Aligned_cols=155  Identities=21%  Similarity=0.212  Sum_probs=85.1

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcc---hhccC-cceEEEEecCCCCHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR---VQRHY-EIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~f-~~~~wv~~~~~~~~~~~~~  262 (1472)
                      .++||++++++++++|....      ..-+.++|++|+|||++|+.++....   +.... +..+|. +    +...+  
T Consensus       180 ~~igr~~ei~~~~~~L~r~~------~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l--  246 (821)
T CHL00095        180 PVIGREKEIERVIQILGRRT------KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLL--  246 (821)
T ss_pred             CCCCcHHHHHHHHHHHcccc------cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHH--
Confidence            48999999999999996532      23456999999999999999987421   11111 234442 1    11111  


Q ss_pred             HHHHhhcCCCCCCcccHH-HHHHHHHhhhCCCeEEEEEeCCCCCC-------HhhHHhhcccccCCCCCcEEEEEcCChH
Q 000471          263 SILNSVASDQCKDKDDLN-LLQEKLKKQLSGNKFLLVLDDVWNEN-------YIRWSELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       263 ~i~~~l~~~~~~~~~~~~-~~~~~l~~~l~~k~~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                           +.+...  ..+.+ .+...+.+.-..++.+|++|++...-       ..+...+..+.... ..-++|.+|...+
T Consensus       247 -----~ag~~~--~ge~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r-g~l~~IgaTt~~e  318 (821)
T CHL00095        247 -----LAGTKY--RGEFEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR-GELQCIGATTLDE  318 (821)
T ss_pred             -----hccCCC--ccHHHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC-CCcEEEEeCCHHH
Confidence                 111111  11222 23333333334568999999994210       01112222222221 2346666666655


Q ss_pred             HHHhh-------CCCCceeCCCCChHhHHHHHHhh
Q 000471          335 VAERM-------GADPVYQLKELSDDDCLCVLTQI  362 (1472)
Q Consensus       335 v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~  362 (1472)
                      .....       .....+.+...+.++...+++..
T Consensus       319 y~~~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        319 YRKHIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHHHHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence            43221       12245788888989888887653

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.37  E-value=0.0014  Score=82.74  Aligned_cols=156  Identities=20%  Similarity=0.239  Sum_probs=86.3

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh---cc-CcceEEEEecCCCCHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ---RH-YEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~~-f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      .++||+++++++++.|....      ..-+.++|++|+|||++|+.+++.....   .. .++.+|..     +..    
T Consensus       187 ~liGR~~ei~~~i~iL~r~~------~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~----  251 (758)
T PRK11034        187 PLIGREKELERAIQVLCRRR------KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIG----  251 (758)
T ss_pred             cCcCCCHHHHHHHHHHhccC------CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHH----
Confidence            48999999999999996632      2334689999999999999998632111   11 13344421     111    


Q ss_pred             HHHHhhcCCCCCCcccHHHHHHHHHhhh-CCCeEEEEEeCCCCC--------CHhhHHhhcccccCCCCCcEEEEEcCCh
Q 000471          263 SILNSVASDQCKDKDDLNLLQEKLKKQL-SGNKFLLVLDDVWNE--------NYIRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       263 ~i~~~l~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~--------~~~~~~~l~~~l~~~~~~s~iivTtR~~  333 (1472)
                      .++   .+..  ...+.+.....+.+.+ +.++.+|++|++...        ...+...+..++... ..-+||-+|...
T Consensus       252 ~ll---aG~~--~~Ge~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~~  325 (758)
T PRK11034        252 SLL---AGTK--YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQ  325 (758)
T ss_pred             HHh---cccc--hhhhHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCChH
Confidence            111   1111  1112222222222222 346789999999532        122333333333322 234556566554


Q ss_pred             HHHHhh-------CCCCceeCCCCChHhHHHHHHhhh
Q 000471          334 VVAERM-------GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       334 ~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      +.....       ..-+.+.+++.+.+++.+++....
T Consensus       326 E~~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        326 EFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHHHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            432221       122468999999999999988654

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.36  E-value=0.0017  Score=77.60  Aligned_cols=167  Identities=12%  Similarity=0.127  Sum_probs=90.1

Q ss_pred             CceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc---cCcceEEEEecCCC
Q 000471          186 AKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR---HYEIKAWTCVSEDF  255 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~---~f~~~~wv~~~~~~  255 (1472)
                      .++.|.+..++++.+.+...-.       -+-...+-+.++|++|.|||++|+++++......   .+....|+.+... 
T Consensus       182 ~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~v~~~-  260 (512)
T TIGR03689       182 ADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLNIKGP-  260 (512)
T ss_pred             HHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEeccch-
Confidence            4588899999998887642100       0112345688999999999999999998432110   1123344444332 


Q ss_pred             CHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCH-------hh-----HHhhcccccCC--
Q 000471          256 DVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENY-------IR-----WSELRCPFVAG--  320 (1472)
Q Consensus       256 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~-------~~-----~~~l~~~l~~~--  320 (1472)
                             +++....+.   .......+.+..++. -.+++++|+||+++..-.       .+     ...+...+...  
T Consensus       261 -------eLl~kyvGe---te~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~  330 (512)
T TIGR03689       261 -------ELLNKYVGE---TERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVES  330 (512)
T ss_pred             -------hhcccccch---HHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhccccc
Confidence                   111111110   011122222233322 235789999999964210       01     11222222211  


Q ss_pred             CCCcEEEEEcCChHHHHh--h---CCCCceeCCCCChHhHHHHHHhhh
Q 000471          321 AAGSKIVVTTRNLVVAER--M---GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       321 ~~~s~iivTtR~~~v~~~--~---~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      ..+..||.||...+....  .   .-+..+++...+.++..++|+.+.
T Consensus       331 ~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l  378 (512)
T TIGR03689       331 LDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYL  378 (512)
T ss_pred             CCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHh
Confidence            234456666665543221  1   223458999999999999999876

In the Actinobacteria, as shown for Mycobacterium tuberculosis, some proteins are modified by ligation between an epsilon-amino group of a lysine side chain and the C-terminal carboxylate of the ubiquitin-like protein Pup. This modification leads to protein degradation by the archaeal-like proteasome found in the Actinobacteria. Members of this protein family belong to the AAA family of ATPases and tend to be clustered with the genes for Pup, the Pup ligase PafA, and structural components of the proteasome. This protein forms hexameric rings with ATPase activity.

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

Probab=97.36  E-value=0.00037  Score=68.87  Aligned_cols=70  Identities=23%  Similarity=0.134  Sum_probs=41.0

Q ss_pred             EEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC-Ce
Q 000471          216 ISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG-NK  294 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~-k~  294 (1472)
                      |.|+|++|+||||+|+.+++..  ..+   .+.++.+.-.+.                ........+...+.+.-+. ++
T Consensus         1 ill~G~~G~GKT~l~~~la~~l--~~~---~~~i~~~~~~~~----------------~~~~~~~~i~~~~~~~~~~~~~   59 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL--GFP---FIEIDGSELISS----------------YAGDSEQKIRDFFKKAKKSAKP   59 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT--TSE---EEEEETTHHHTS----------------STTHHHHHHHHHHHHHHHTSTS
T ss_pred             CEEECcCCCCeeHHHHHHHhhc--ccc---cccccccccccc----------------cccccccccccccccccccccc
Confidence            5789999999999999999843  211   233333222100                0222333344444443333 48


Q ss_pred             EEEEEeCCCCCC
Q 000471          295 FLLVLDDVWNEN  306 (1472)
Q Consensus       295 ~LlVlDdv~~~~  306 (1472)
                      .+|++||++...
T Consensus        60 ~vl~iDe~d~l~   71 (132)
T PF00004_consen   60 CVLFIDEIDKLF   71 (132)
T ss_dssp             EEEEEETGGGTS
T ss_pred             eeeeeccchhcc
Confidence            999999996653

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=97.34  E-value=0.0035  Score=74.24  Aligned_cols=107  Identities=27%  Similarity=0.334  Sum_probs=67.5

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      +.+-+|.++-+++|++++.-..-.+..+.++++.+|++|||||++|+.|+..  ..+.|   +-+++++-.|+.++-..-
T Consensus       410 deDHYgm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~A--LnRkF---fRfSvGG~tDvAeIkGHR  484 (906)
T KOG2004|consen  410 DEDHYGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARA--LNRKF---FRFSVGGMTDVAEIKGHR  484 (906)
T ss_pred             cccccchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHH--hCCce---EEEeccccccHHhhcccc
Confidence            4567899999999999997655445667899999999999999999999872  33333   234566655554432111


Q ss_pred             HHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCC
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  304 (1472)
                      -..++       .-...+.+.+++. +..+=|+.+|.|+.
T Consensus       485 RTYVG-------AMPGkiIq~LK~v-~t~NPliLiDEvDK  516 (906)
T KOG2004|consen  485 RTYVG-------AMPGKIIQCLKKV-KTENPLILIDEVDK  516 (906)
T ss_pred             eeeec-------cCChHHHHHHHhh-CCCCceEEeehhhh
Confidence            01111       1112233333332 34566888999854

>TIGR00602 rad24 checkpoint protein rad24

Probab=97.32  E-value=0.0015  Score=80.09  Aligned_cols=209  Identities=14%  Similarity=0.140  Sum_probs=103.6

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC---CCCHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE---DFDVFRIS  261 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~---~~~~~~~~  261 (1472)
                      -.+++|-++.++++..|+..... .....+++.|+|++|+||||+++.++...    .++..-|+.-..   ..+...+.
T Consensus        83 ldel~~~~~ki~~l~~~l~~~~~-~~~~~~illL~GP~GsGKTTl~~~la~~l----~~~~~Ew~npv~~~~~~~~~~~~  157 (637)
T TIGR00602        83 QHELAVHKKKIEEVETWLKAQVL-ENAPKRILLITGPSGCGKSTTIKILSKEL----GIQVQEWSNPTLPDFQKNDHKVT  157 (637)
T ss_pred             HHHhcCcHHHHHHHHHHHHhccc-ccCCCcEEEEECCCCCCHHHHHHHHHHHh----hhHHHHHhhhhhhcccccccccc
Confidence            45799999999999999865432 22334689999999999999999998732    233333422110   00111111


Q ss_pred             HHHHHhhcCCCCCCcccHHHHHHHHHh---h----hCCCeEEEEEeCCCCCC---HhhHHhhcc-cccCCCCCcEEEEEc
Q 000471          262 KSILNSVASDQCKDKDDLNLLQEKLKK---Q----LSGNKFLLVLDDVWNEN---YIRWSELRC-PFVAGAAGSKIVVTT  330 (1472)
Q Consensus       262 ~~i~~~l~~~~~~~~~~~~~~~~~l~~---~----l~~k~~LlVlDdv~~~~---~~~~~~l~~-~l~~~~~~s~iivTt  330 (1472)
                      ..+..++..... .......+......   .    ..+++.+|++|++....   ...+..+.. .+...+.-.-|+|||
T Consensus       158 ~s~~~~~~~~~s-~~~~F~~fl~~a~~~~~~~g~~~~~~~~IILIDEiPn~~~r~~~~lq~lLr~~~~e~~~~pLI~I~T  236 (637)
T TIGR00602       158 LSLESCFSNFQS-QIEVFSEFLLRATNKLQMLGDDLMTDKKIILVEDLPNQFYRDTRALHEILRWKYVSIGRCPLVFIIT  236 (637)
T ss_pred             hhhhhccccccc-hHHHHHHHHHHHHhhhcccccccCCceeEEEeecchhhchhhHHHHHHHHHHHhhcCCCceEEEEec
Confidence            122222211110 11122222222221   1    13567899999994421   112333333 222222223455666


Q ss_pred             CChH---------HH-------HhhC--CCCceeCCCCChHhHHHHHHhhhcCCCCCCCCc---cHHHHHHHHHHHhCCC
Q 000471          331 RNLV---------VA-------ERMG--ADPVYQLKELSDDDCLCVLTQISLGARDFTRHL---SLKEVGEQIVIKCGGL  389 (1472)
Q Consensus       331 R~~~---------v~-------~~~~--~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~---~~~~~~~~i~~~~~gl  389 (1472)
                      ....         ..       ....  ....+...++...+-.+.+.+.+-.........   .-.+....|+..++|-
T Consensus       237 E~~~~~~~~~~~~f~~~~lL~~eLls~~rv~~I~FnPia~t~l~K~L~rIl~~E~~~~~~~~~~p~~~~l~~I~~~s~GD  316 (637)
T TIGR00602       237 ESLEGDNNQRRLLFPAETIMNKEILEEPRVSNISFNPIAPTIMKKFLNRIVTIEAKKNGEKIKVPKKTSVELLCQGCSGD  316 (637)
T ss_pred             CCccccccccccccchhcccCHhHhcccceeEEEeCCCCHHHHHHHHHHHHHhhhhccccccccCCHHHHHHHHHhCCCh
Confidence            3211         00       0111  123578899999986666655543211100000   0135667777778776


Q ss_pred             hhHHHHHHhh
Q 000471          390 PLAAKTLGGL  399 (1472)
Q Consensus       390 PLal~~~~~~  399 (1472)
                      -..+...-..
T Consensus       317 iRsAIn~LQf  326 (637)
T TIGR00602       317 IRSAINSLQF  326 (637)
T ss_pred             HHHHHHHHHH
Confidence            5544433333

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.30  E-value=1.2e-05  Score=93.73  Aligned_cols=177  Identities=21%  Similarity=0.195  Sum_probs=118.0

Q ss_pred             ccccCCCCCccEEeeccCCCccccCCCCCCC-CCccEEecccccccccc----cccCC------CCCcccEeeecCCCCC
Q 000471         1258 PADLHNLHHLQKIWINYCPNLESFPEEGLPS-TKLTELTIYDCENLKAL----PNCMH------NLTSLLILEIRGCPSV 1326 (1472)
Q Consensus      1258 ~~~l~~l~~L~~L~Ls~~~~l~~l~~~~~~l-~~L~~L~Ls~c~~l~~l----p~~l~------~l~~L~~L~L~~n~~l 1326 (1472)
                      |-.+..|.+|+.|.+.+|+..+.  ..+..+ ..|++|...+  .+..+    ....+      -...|...+.+.| .+
T Consensus       102 pi~ifpF~sLr~LElrg~~L~~~--~GL~~lr~qLe~LIC~~--Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN-~L  176 (1096)
T KOG1859|consen  102 PISIFPFRSLRVLELRGCDLSTA--KGLQELRHQLEKLICHN--SLDALRHVFASCGGDISNSPVWNKLATASFSYN-RL  176 (1096)
T ss_pred             CceeccccceeeEEecCcchhhh--hhhHHHHHhhhhhhhhc--cHHHHHHHHHHhccccccchhhhhHhhhhcchh-hH
Confidence            55666788888888888876551  122222 3455554322  11111    01111      1235667777777 45


Q ss_pred             ccCCCC-CCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCC-CCccccceeccCCCCcCcccccCC
Q 000471         1327 VSFPED-GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP-FPASLTNLWISDMPDLESISSIGE 1404 (1472)
Q Consensus      1327 ~~~p~~-~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~-~~~~L~~L~l~~~~~l~~i~~~~~ 1404 (1472)
                      +..... ..++.|+.|+|++|++...-   .+..|+.|++|||+.||.....-.. ---.|+.|.|.+| .++++- ++.
T Consensus       177 ~~mD~SLqll~ale~LnLshNk~~~v~---~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~L~~L~lrnN-~l~tL~-gie  251 (1096)
T KOG1859|consen  177 VLMDESLQLLPALESLNLSHNKFTKVD---NLRRLPKLKHLDLSYNCLRHVPQLSMVGCKLQLLNLRNN-ALTTLR-GIE  251 (1096)
T ss_pred             HhHHHHHHHHHHhhhhccchhhhhhhH---HHHhcccccccccccchhccccccchhhhhheeeeeccc-HHHhhh-hHH
Confidence            555444 67899999999999997754   4788999999999999886443222 1124999999998 566665 568


Q ss_pred             CCCcCceeeccCCCCCCCCCCC---CCccccceecccCCcchHH
Q 000471         1405 NLTSLETLRLFNCPKLKYFPEQ---GLPKSLSRLSIHNCPLIEK 1445 (1472)
Q Consensus      1405 ~l~~L~~L~l~~~~~l~~lp~~---~~~~sL~~L~l~~c~~l~~ 1445 (1472)
                      ++.+|+.||+++|- +....+.   ..+.+|+.|.+.|||.-|.
T Consensus       252 ~LksL~~LDlsyNl-l~~hseL~pLwsLs~L~~L~LeGNPl~c~  294 (1096)
T KOG1859|consen  252 NLKSLYGLDLSYNL-LSEHSELEPLWSLSSLIVLWLEGNPLCCA  294 (1096)
T ss_pred             hhhhhhccchhHhh-hhcchhhhHHHHHHHHHHHhhcCCccccC
Confidence            99999999999984 4433332   3467899999999998764

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.30  E-value=0.00057  Score=80.37  Aligned_cols=158  Identities=16%  Similarity=0.160  Sum_probs=88.1

Q ss_pred             CceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      .++.|.+..++++.+.+.-.-.       -+-...+-+.++|++|+|||++|+++++.  ....|     +.+...    
T Consensus       183 ~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~e--l~~~f-----i~V~~s----  251 (438)
T PTZ00361        183 ADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANE--TSATF-----LRVVGS----  251 (438)
T ss_pred             HHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHh--hCCCE-----EEEecc----
Confidence            3578999999988887742100       01123456889999999999999999983  33333     222111    


Q ss_pred             HHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH----------h----hHHhhcccccC--CCC
Q 000471          259 RISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY----------I----RWSELRCPFVA--GAA  322 (1472)
Q Consensus       259 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~----------~----~~~~l~~~l~~--~~~  322 (1472)
                      .+    .....+      .....+...+.......+.+|+||+++....          .    ....+...+..  ...
T Consensus       252 eL----~~k~~G------e~~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~  321 (438)
T PTZ00361        252 EL----IQKYLG------DGPKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRG  321 (438)
T ss_pred             hh----hhhhcc------hHHHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccC
Confidence            11    111111      1111222233333345678999999743200          0    01111111111  123


Q ss_pred             CcEEEEEcCChHHHHhh-----CCCCceeCCCCChHhHHHHHHhhhc
Q 000471          323 GSKIVVTTRNLVVAERM-----GADPVYQLKELSDDDCLCVLTQISL  364 (1472)
Q Consensus       323 ~s~iivTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a~  364 (1472)
                      +.+||.||...+.....     ..+..+++...+.++..++|..+..
T Consensus       322 ~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~  368 (438)
T PTZ00361        322 DVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTS  368 (438)
T ss_pred             CeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHh
Confidence            56788888866544331     1234678899999999999987763

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.30  E-value=0.0079  Score=67.86  Aligned_cols=187  Identities=13%  Similarity=0.086  Sum_probs=100.5

Q ss_pred             hHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC-----cceEEEEecCCCCHHHHHHHHHHh
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY-----EIKAWTCVSEDFDVFRISKSILNS  267 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-----~~~~wv~~~~~~~~~~~~~~i~~~  267 (1472)
                      ...+.+...+..+.     -...+.++|+.|+||+++|..++...-.....     .+.-|+..+..+|...+-.. -+.
T Consensus        11 ~~~~~l~~~~~~~r-----l~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~-p~~   84 (319)
T PRK08769         11 RAYDQTVAALDAGR-----LGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFI-PNR   84 (319)
T ss_pred             HHHHHHHHHHHcCC-----cceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecC-CCc
Confidence            34666777765432     24568899999999999998887532111100     00001111111111100000 000


Q ss_pred             hcCCCCCCcccHHHHHHHHHhhh-----CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHhh-C
Q 000471          268 VASDQCKDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM-G  340 (1472)
Q Consensus       268 l~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~~-~  340 (1472)
                       .+........++++.+. .+.+     .+++-++|+|+++......-..+...+.....++.+|++|...+ +.... .
T Consensus        85 -~~~k~~~~I~idqIR~l-~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIrS  162 (319)
T PRK08769         85 -TGDKLRTEIVIEQVREI-SQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIRS  162 (319)
T ss_pred             -ccccccccccHHHHHHH-HHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHHh
Confidence             00000001123332222 2222     25667999999988765555566665655556777777776543 33222 2


Q ss_pred             CCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          341 ADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       341 ~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      ....+.+.+++.+++.+.+....   .   +    .+.+..++..++|.|+.+..+.
T Consensus       163 RCq~i~~~~~~~~~~~~~L~~~~---~---~----~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        163 RCQRLEFKLPPAHEALAWLLAQG---V---S----ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             hheEeeCCCcCHHHHHHHHHHcC---C---C----hHHHHHHHHHcCCCHHHHHHHh
Confidence            33567899999999988886531   1   1    2336678999999998765544

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.27  E-value=0.0024  Score=83.30  Aligned_cols=156  Identities=15%  Similarity=0.150  Sum_probs=84.2

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc----cCcceEEEEecCCCCHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR----HYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      .++||+.+++++++.|....      ..-+.++|++|+|||++|+.++.......    .....+|.-     +...+  
T Consensus       174 ~~igr~~ei~~~~~~l~r~~------~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l-----~~~~l--  240 (852)
T TIGR03346       174 PVIGRDEEIRRTIQVLSRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL-----DMGAL--  240 (852)
T ss_pred             cCCCcHHHHHHHHHHHhcCC------CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe-----eHHHH--
Confidence            49999999999999996532      23456899999999999999887421110    012233321     11111  


Q ss_pred             HHHHhhcCCCCCCcccHH-HHHHHHHhhhC-CCeEEEEEeCCCCCC-------HhhHHhhcccccCCCCCcEEEEEcCCh
Q 000471          263 SILNSVASDQCKDKDDLN-LLQEKLKKQLS-GNKFLLVLDDVWNEN-------YIRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       263 ~i~~~l~~~~~~~~~~~~-~~~~~l~~~l~-~k~~LlVlDdv~~~~-------~~~~~~l~~~l~~~~~~s~iivTtR~~  333 (1472)
                        +.   +..  ...+.+ .+...+.+.-+ +++.+|++|++....       ..+...+..+.... ..-++|-+|...
T Consensus       241 --~a---~~~--~~g~~e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~-g~i~~IgaTt~~  312 (852)
T TIGR03346       241 --IA---GAK--YRGEFEERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR-GELHCIGATTLD  312 (852)
T ss_pred             --hh---cch--hhhhHHHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc-CceEEEEeCcHH
Confidence              10   100  011222 22233332222 468999999996431       01112222222222 224566566555


Q ss_pred             HHHHhh-------CCCCceeCCCCChHhHHHHHHhhh
Q 000471          334 VVAERM-------GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       334 ~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      +.....       ..-+.+.+...+.++..++++...
T Consensus       313 e~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       313 EYRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HHHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            432211       122457888889999999887654

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.23  E-value=3.8e-05  Score=70.96  Aligned_cols=83  Identities=20%  Similarity=0.217  Sum_probs=41.1

Q ss_pred             cCCcceEEEecCCCCCccCCcccCCC-CcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCcee
Q 000471          596 HLPRLRVFSLRGCGNIFNLPNEIGNL-KHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHL  674 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~~~~lp~~i~~L-~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L  674 (1472)
                      ....|...+|++| .++++|..|... +-++.|+|++|.|..+|..+..++.|+.|+++. +.+...|..|..|.+|-.|
T Consensus        51 ~~~el~~i~ls~N-~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~-N~l~~~p~vi~~L~~l~~L  128 (177)
T KOG4579|consen   51 KGYELTKISLSDN-GFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRF-NPLNAEPRVIAPLIKLDML  128 (177)
T ss_pred             CCceEEEEecccc-hhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhccccc-CccccchHHHHHHHhHHHh
Confidence            3444555555555 555555444322 245555555555555555555555555555554 3344444445455555555


Q ss_pred             ecCCCC
Q 000471          675 RNSTAN  680 (1472)
Q Consensus       675 ~l~~~~  680 (1472)
                      +..+|.
T Consensus       129 ds~~na  134 (177)
T KOG4579|consen  129 DSPENA  134 (177)
T ss_pred             cCCCCc
Confidence            544443

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.23  E-value=0.0032  Score=72.23  Aligned_cols=160  Identities=19%  Similarity=0.202  Sum_probs=91.6

Q ss_pred             CCceeechhHHHH-HHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          185 EAKVYGREKEKEE-IIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       185 ~~~~vGr~~~~~~-l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      +..++|-...... +...+...   .......+.|||..|.|||.|++++.+  ....+......+.+    +.+....+
T Consensus        87 dnFv~g~~N~~A~aa~~~va~~---~g~~~nplfi~G~~GlGKTHLl~Aign--~~~~~~~~a~v~y~----~se~f~~~  157 (408)
T COG0593          87 DNFVVGPSNRLAYAAAKAVAEN---PGGAYNPLFIYGGVGLGKTHLLQAIGN--EALANGPNARVVYL----TSEDFTND  157 (408)
T ss_pred             hheeeCCchHHHHHHHHHHHhc---cCCcCCcEEEECCCCCCHHHHHHHHHH--HHHhhCCCceEEec----cHHHHHHH
Confidence            4456666544332 22333222   112467899999999999999999998  34444443333333    23333444


Q ss_pred             HHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHh-hHH-hhcccccC-CCCCcEEEEEcCCh-------
Q 000471          264 ILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYI-RWS-ELRCPFVA-GAAGSKIVVTTRNL-------  333 (1472)
Q Consensus       264 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~-~~~-~l~~~l~~-~~~~s~iivTtR~~-------  333 (1472)
                      ++..+...          -.+.+++..  .-=++++||++-.... .|. ++...|.. ...|-.||+|++..       
T Consensus       158 ~v~a~~~~----------~~~~Fk~~y--~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~  225 (408)
T COG0593         158 FVKALRDN----------EMEKFKEKY--SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGL  225 (408)
T ss_pred             HHHHHHhh----------hHHHHHHhh--ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccc
Confidence            44443321          122344444  3348899999663211 122 22222211 12344899999753       


Q ss_pred             --HHHHhhCCCCceeCCCCChHhHHHHHHhhhcC
Q 000471          334 --VVAERMGADPVYQLKELSDDDCLCVLTQISLG  365 (1472)
Q Consensus       334 --~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~  365 (1472)
                        .+...+...-++++.+.+.+....++.+++..
T Consensus       226 ~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~kka~~  259 (408)
T COG0593         226 EDRLRSRLEWGLVVEIEPPDDETRLAILRKKAED  259 (408)
T ss_pred             cHHHHHHHhceeEEeeCCCCHHHHHHHHHHHHHh
Confidence              34455566678999999999999999887643

>PRK08116 hypothetical protein; Validated

Probab=97.21  E-value=0.001  Score=73.76  Aligned_cols=104  Identities=24%  Similarity=0.228  Sum_probs=58.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      ..+.++|.+|+|||.||.++++..  ..+...+++++      ..+++..+........   ..+...    +.+.+.+-
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l--~~~~~~v~~~~------~~~ll~~i~~~~~~~~---~~~~~~----~~~~l~~~  179 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANEL--IEKGVPVIFVN------FPQLLNRIKSTYKSSG---KEDENE----IIRSLVNA  179 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEE------HHHHHHHHHHHHhccc---cccHHH----HHHHhcCC
Confidence            458899999999999999999853  22233455654      3345555544433221   112222    22333333


Q ss_pred             eEEEEEeCCCCCCHhhHHh--hcccccC-CCCCcEEEEEcCCh
Q 000471          294 KFLLVLDDVWNENYIRWSE--LRCPFVA-GAAGSKIVVTTRNL  333 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~~--l~~~l~~-~~~~s~iivTtR~~  333 (1472)
                      . ||||||+......+|..  +...+.. -..|..+||||...
T Consensus       180 d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        180 D-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             C-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            3 89999996543344433  2222211 12456799999753

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.20  E-value=8.8e-05  Score=92.48  Aligned_cols=63  Identities=22%  Similarity=0.418  Sum_probs=29.6

Q ss_pred             CCccEEEEecCCCcccCchhhhcCCCCccceEeecccCCcccc---ccccCCCccceEEecccccc
Q 000471         1102 SQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYI---ARIQLPPSLKRLIVSRCWNL 1164 (1472)
Q Consensus      1102 ~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~c~~l~~~---~~~~~~~~L~~L~l~~c~~l 1164 (1472)
                      ++|+.|++++|..+++.........+++|+.|.+.+|..+++.   .-...++.|++|+++.|..+
T Consensus       243 ~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  243 RKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             CCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            3444555555444444444444444555555555555543331   11233445555555555443

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.19  E-value=0.003  Score=74.01  Aligned_cols=179  Identities=14%  Similarity=0.136  Sum_probs=96.0

Q ss_pred             CceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      .++.|.+..+++|.+.+...-.       .+-...+-+.++|++|.|||++|+++++..  ...|   +.+..      .
T Consensus       145 ~digGl~~~k~~l~~~v~~pl~~~~~~~~~Gl~~pkgvLL~GppGTGKT~LAkalA~~l--~~~f---i~i~~------s  213 (398)
T PTZ00454        145 SDIGGLDIQKQEIREAVELPLTCPELYEQIGIDPPRGVLLYGPPGTGKTMLAKAVAHHT--TATF---IRVVG------S  213 (398)
T ss_pred             HHcCCHHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc--CCCE---EEEeh------H
Confidence            4688999998888876632100       022345778899999999999999999742  2222   12211      1


Q ss_pred             HHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC----------Hhh----HHhhcccccC--CCC
Q 000471          259 RISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN----------YIR----WSELRCPFVA--GAA  322 (1472)
Q Consensus       259 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~----~~~l~~~l~~--~~~  322 (1472)
                      .    +.....+      .....+.+.+.......+.+|++|+++...          ...    +..+...+..  ...
T Consensus       214 ~----l~~k~~g------e~~~~lr~lf~~A~~~~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~  283 (398)
T PTZ00454        214 E----FVQKYLG------EGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTT  283 (398)
T ss_pred             H----HHHHhcc------hhHHHHHHHHHHHHhcCCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCC
Confidence            1    1111111      111122233333334678999999985421          001    1122222211  224


Q ss_pred             CcEEEEEcCChHHHHh--h---CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh
Q 000471          323 GSKIVVTTRNLVVAER--M---GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       323 ~s~iivTtR~~~v~~~--~---~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      +..||.||...+....  .   .-+..+.+...+.++-.++|..+... .....+.+    ..++++.+.|.-
T Consensus       284 ~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~R~~Il~~~~~~-~~l~~dvd----~~~la~~t~g~s  351 (398)
T PTZ00454        284 NVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQKRLIFQTITSK-MNLSEEVD----LEDFVSRPEKIS  351 (398)
T ss_pred             CEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHHHHHHHHHHHhc-CCCCcccC----HHHHHHHcCCCC
Confidence            5678888886543321  1   22345788888888888888766532 22222223    344556665553

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.18  E-value=0.011  Score=66.77  Aligned_cols=179  Identities=12%  Similarity=0.018  Sum_probs=102.0

Q ss_pred             hHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc-------cCcceEEEEecCCCCHHHHHHHHH
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-------HYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      ...+++.+.+..+.     -...+.++|+.|+||+++|+.++...--..       .....-++..+..+|...+     
T Consensus        10 ~~~~~l~~~~~~~r-----l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~~~Cg~C~sC~~~~~g~HPD~~~i-----   79 (319)
T PRK06090         10 PVWQNWKAGLDAGR-----IPGALLLQSDEGLGVESLVELFSRALLCQNYQSEACGFCHSCELMQSGNHPDLHVI-----   79 (319)
T ss_pred             HHHHHHHHHHHcCC-----cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHcCCCCCEEEE-----
Confidence            34566666664432     245788999999999999998865211100       0000001111111111100     


Q ss_pred             HhhcCCCCCCcccHHHHHHHHHhhh-----CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHhh
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM  339 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~~  339 (1472)
                         ..........++++.+ +.+.+     .+++-++|+|+++.........+...+.....++.+|++|.+.+ +....
T Consensus        80 ---~p~~~~~~I~vdqiR~-l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI  155 (319)
T PRK06090         80 ---KPEKEGKSITVEQIRQ-CNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTI  155 (319)
T ss_pred             ---ecCcCCCcCCHHHHHH-HHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHH
Confidence               0000001122333322 22222     24566899999988877777777777766666777777766543 33332


Q ss_pred             -CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          340 -GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       340 -~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                       ..-..+.+.+++++++.+.+....   .   +      .+..+++.++|.|+.+..+.
T Consensus       156 ~SRCq~~~~~~~~~~~~~~~L~~~~---~---~------~~~~~l~l~~G~p~~A~~~~  202 (319)
T PRK06090        156 VSRCQQWVVTPPSTAQAMQWLKGQG---I---T------VPAYALKLNMGSPLKTLAMM  202 (319)
T ss_pred             HhcceeEeCCCCCHHHHHHHHHHcC---C---c------hHHHHHHHcCCCHHHHHHHh
Confidence             334578999999999998886531   0   0      13567889999998776553

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=97.18  E-value=0.0077  Score=69.33  Aligned_cols=163  Identities=10%  Similarity=0.044  Sum_probs=89.9

Q ss_pred             eee-chhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHH
Q 000471          188 VYG-REKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       188 ~vG-r~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  266 (1472)
                      ++| -+..++.+...+..+.     -.....++|+.|+||||+|+.+.+..-........       .+..-..-+.+..
T Consensus         7 i~~~q~~~~~~L~~~~~~~~-----l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~-------~cg~C~~c~~~~~   74 (329)
T PRK08058          7 LTALQPVVVKMLQNSIAKNR-----LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-------PCGTCTNCKRIDS   74 (329)
T ss_pred             HHhhHHHHHHHHHHHHHcCC-----CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC-------CCCcCHHHHHHhc
Confidence            566 6667778888775432     24677899999999999998886532111100000       0000000001100


Q ss_pred             hhcC-----CCCCCcccHHHHHHHHHhh----hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HH
Q 000471          267 SVAS-----DQCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VA  336 (1472)
Q Consensus       267 ~l~~-----~~~~~~~~~~~~~~~l~~~----l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~  336 (1472)
                      .-..     .........+++.+.+...    ..+.+-++|+|+++.........+...+.....++.+|++|.+.. +.
T Consensus        75 ~~hpD~~~i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll  154 (329)
T PRK08058         75 GNHPDVHLVAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQIL  154 (329)
T ss_pred             CCCCCEEEeccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCc
Confidence            0000     0000112233333222211    235566899999987766666677777766566777887776543 22


Q ss_pred             Hhh-CCCCceeCCCCChHhHHHHHHhh
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQI  362 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~L~~~~~~~lf~~~  362 (1472)
                      ... ....++++.++++++..+.+...
T Consensus       155 ~TIrSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        155 PTILSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             HHHHhhceeeeCCCCCHHHHHHHHHHc
Confidence            222 23467899999999998888653

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.13  E-value=0.002  Score=64.70  Aligned_cols=88  Identities=16%  Similarity=-0.017  Sum_probs=46.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      ..+.|+|++|+||||+|+.++......  ...++++..+...........  ................ ...+.+..+..
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~~~~~~   77 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPP--GGGVIYIDGEDILEEVLDQLL--LIIVGGKKASGSGELR-LRLALALARKL   77 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCC--CCCEEEECCEEccccCHHHHH--hhhhhccCCCCCHHHH-HHHHHHHHHhc
Confidence            578999999999999999998743222  123555555444332222211  1111111111222222 22333333333


Q ss_pred             -eEEEEEeCCCCCC
Q 000471          294 -KFLLVLDDVWNEN  306 (1472)
Q Consensus       294 -~~LlVlDdv~~~~  306 (1472)
                       ..+|++|+++...
T Consensus        78 ~~~viiiDei~~~~   91 (148)
T smart00382       78 KPDVLILDEITSLL   91 (148)
T ss_pred             CCCEEEEECCcccC
Confidence             4999999997764

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.11  E-value=0.017  Score=65.35  Aligned_cols=177  Identities=11%  Similarity=0.041  Sum_probs=101.2

Q ss_pred             HHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC--------cceEEEEecCCCCHHHHHHHHH
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY--------EIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--------~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      ..+.+...+..+.     -.....+.|+.|+||+++|++++...-.....        +..-++..+..+|...+     
T Consensus        10 ~~~~l~~~~~~~r-----l~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i-----   79 (325)
T PRK06871         10 TYQQITQAFQQGL-----GHHALLFKADSGLGTEQLIRALAQWLMCQTPQGDQPCGQCHSCHLFQAGNHPDFHIL-----   79 (325)
T ss_pred             HHHHHHHHHHcCC-----cceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHhcCCCCCEEEE-----
Confidence            3556667665432     24567789999999999999887532111100        00011111122221111     


Q ss_pred             HhhcCCCCCCcccHHHHHH---HHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHhh-
Q 000471          266 NSVASDQCKDKDDLNLLQE---KLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM-  339 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~---~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~~-  339 (1472)
                         .. .......++++.+   .+... ..+++-++|+|+++.........+...+.....++.+|++|.+.+ +.... 
T Consensus        80 ---~p-~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~  155 (325)
T PRK06871         80 ---EP-IDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIY  155 (325)
T ss_pred             ---cc-ccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHH
Confidence               00 0001122333332   22211 236667888999988877777777777766666778887777653 33222 


Q ss_pred             CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          340 GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       340 ~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      ..-..+.+.++++++..+.+..... .    .    ...+...+..++|.|..+
T Consensus       156 SRC~~~~~~~~~~~~~~~~L~~~~~-~----~----~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        156 SRCQTWLIHPPEEQQALDWLQAQSS-A----E----ISEILTALRINYGRPLLA  200 (325)
T ss_pred             hhceEEeCCCCCHHHHHHHHHHHhc-c----C----hHHHHHHHHHcCCCHHHH
Confidence            2335789999999999988876531 1    1    123566788899999644

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

Probab=97.07  E-value=0.0057  Score=62.20  Aligned_cols=136  Identities=14%  Similarity=0.103  Sum_probs=76.7

Q ss_pred             echhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc------------------cCcceEEEEe
Q 000471          190 GREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR------------------HYEIKAWTCV  251 (1472)
Q Consensus       190 Gr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~------------------~f~~~~wv~~  251 (1472)
                      |-++..+.+.+.+..+.     -...+.++|+.|+||+|+|..+++..--..                  ......|+.-
T Consensus         1 gq~~~~~~L~~~~~~~~-----l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~   75 (162)
T PF13177_consen    1 GQEEIIELLKNLIKSGR-----LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKP   75 (162)
T ss_dssp             S-HHHHHHHHHHHHCTC-------SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEET
T ss_pred             CcHHHHHHHHHHHHcCC-----cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEec
Confidence            45667778888775542     245678999999999999988875321111                  1122233322


Q ss_pred             cCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh-----CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEE
Q 000471          252 SEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKI  326 (1472)
Q Consensus       252 ~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~i  326 (1472)
                      ....                   .....+++. .+.+.+     .+++=++|+||++......+..+...+.....++++
T Consensus        76 ~~~~-------------------~~i~i~~ir-~i~~~~~~~~~~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~f  135 (162)
T PF13177_consen   76 DKKK-------------------KSIKIDQIR-EIIEFLSLSPSEGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYF  135 (162)
T ss_dssp             TTSS-------------------SSBSHHHHH-HHHHHCTSS-TTSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEE
T ss_pred             cccc-------------------chhhHHHHH-HHHHHHHHHHhcCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEE
Confidence            2110                   012233333 222222     245678999999988878888888887777788999


Q ss_pred             EEEcCChH-HHHh-hCCCCceeCCCC
Q 000471          327 VVTTRNLV-VAER-MGADPVYQLKEL  350 (1472)
Q Consensus       327 ivTtR~~~-v~~~-~~~~~~~~l~~L  350 (1472)
                      |++|++.. +... ......+.+.++
T Consensus       136 iL~t~~~~~il~TI~SRc~~i~~~~l  161 (162)
T PF13177_consen  136 ILITNNPSKILPTIRSRCQVIRFRPL  161 (162)
T ss_dssp             EEEES-GGGS-HHHHTTSEEEEE---
T ss_pred             EEEECChHHChHHHHhhceEEecCCC
Confidence            99888764 2222 222344555554

...

>PRK10536 hypothetical protein; Provisional

Probab=97.04  E-value=0.0091  Score=63.89  Aligned_cols=134  Identities=13%  Similarity=0.170  Sum_probs=75.0

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEE----ecCC-----CCH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC----VSED-----FDV  257 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~----~~~~-----~~~  257 (1472)
                      .+.+|......+..++...        .+|.++|++|.|||+||.++..+.-..+.|+.++.+.    +++.     -+.
T Consensus        56 ~i~p~n~~Q~~~l~al~~~--------~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~  127 (262)
T PRK10536         56 PILARNEAQAHYLKAIESK--------QLIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDI  127 (262)
T ss_pred             cccCCCHHHHHHHHHHhcC--------CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCH
Confidence            4678888888999988542        4899999999999999998876422233444333221    1111     011


Q ss_pred             HHH----HHHHHHhhcCCCCCCcccHHHHHH--------HHHhhhCCCeE---EEEEeCCCCCCHhhHHhhcccccCCCC
Q 000471          258 FRI----SKSILNSVASDQCKDKDDLNLLQE--------KLKKQLSGNKF---LLVLDDVWNENYIRWSELRCPFVAGAA  322 (1472)
Q Consensus       258 ~~~----~~~i~~~l~~~~~~~~~~~~~~~~--------~l~~~l~~k~~---LlVlDdv~~~~~~~~~~l~~~l~~~~~  322 (1472)
                      .+-    ++.+...+..-.  .....+....        .--.+++++.+   +||+|.+.+.+..+...+...   .+.
T Consensus       128 ~eK~~p~~~pi~D~L~~~~--~~~~~~~~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR---~g~  202 (262)
T PRK10536        128 AEKFAPYFRPVYDVLVRRL--GASFMQYCLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTR---LGE  202 (262)
T ss_pred             HHHHHHHHHHHHHHHHHHh--ChHHHHHHHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhh---cCC
Confidence            111    122222221100  0011111100        00234566654   999999998876655555544   357


Q ss_pred             CcEEEEEcCCh
Q 000471          323 GSKIVVTTRNL  333 (1472)
Q Consensus       323 ~s~iivTtR~~  333 (1472)
                      +|++|+|--..
T Consensus       203 ~sk~v~~GD~~  213 (262)
T PRK10536        203 NVTVIVNGDIT  213 (262)
T ss_pred             CCEEEEeCChh
Confidence            89999987644

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=97.04  E-value=0.01  Score=67.79  Aligned_cols=161  Identities=17%  Similarity=0.226  Sum_probs=94.7

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      .....+.+.|++|+|||+||..++..    ..|+.+--++-..-.             +..   +......+...+...-
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~----S~FPFvKiiSpe~mi-------------G~s---EsaKc~~i~k~F~DAY  595 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS----SDFPFVKIISPEDMI-------------GLS---ESAKCAHIKKIFEDAY  595 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh----cCCCeEEEeChHHcc-------------Ccc---HHHHHHHHHHHHHHhh
Confidence            35667788999999999999999863    456544433221111             110   1222333444555556


Q ss_pred             CCCeEEEEEeCCCCCCHhhHHhhcccc---------------cCCCCCcEEEEEcCChHHHHhhCC----CCceeCCCCC
Q 000471          291 SGNKFLLVLDDVWNENYIRWSELRCPF---------------VAGAAGSKIVVTTRNLVVAERMGA----DPVYQLKELS  351 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~~~~~~~~~l~~~l---------------~~~~~~s~iivTtR~~~v~~~~~~----~~~~~l~~L~  351 (1472)
                      ++.--.||+||+...  .+|..+...+               |+.+..--|+-||....+.+.|+-    ...|.++.++
T Consensus       596 kS~lsiivvDdiErL--iD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~  673 (744)
T KOG0741|consen  596 KSPLSIIVVDDIERL--LDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLT  673 (744)
T ss_pred             cCcceEEEEcchhhh--hcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccC
Confidence            677789999999553  6666554443               222333335557778888888763    3468899888


Q ss_pred             h-HhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          352 D-DDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       352 ~-~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                      . ++..+.+...-     .-.+.+.+.++++.+.+|  +-..|+.+-..+
T Consensus       674 ~~~~~~~vl~~~n-----~fsd~~~~~~~~~~~~~~--~~vgIKklL~li  716 (744)
T KOG0741|consen  674 TGEQLLEVLEELN-----IFSDDEVRAIAEQLLSKK--VNVGIKKLLMLI  716 (744)
T ss_pred             chHHHHHHHHHcc-----CCCcchhHHHHHHHhccc--cchhHHHHHHHH
Confidence            7 67777776542     112223455566666655  333344444333

>PRK10865 protein disaggregation chaperone; Provisional

Probab=97.03  E-value=0.0051  Score=79.91  Aligned_cols=156  Identities=15%  Similarity=0.109  Sum_probs=82.7

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchh---cc-CcceEE-EEecCCCCHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQ---RH-YEIKAW-TCVSEDFDVFRIS  261 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~---~~-f~~~~w-v~~~~~~~~~~~~  261 (1472)
                      .++||+.+++++++.|....      ..-+.++|++|+|||++|+.+.......   .. ....+| ++.+.      +.
T Consensus       179 ~vigr~~ei~~~i~iL~r~~------~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~------l~  246 (857)
T PRK10865        179 PVIGRDEEIRRTIQVLQRRT------KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV  246 (857)
T ss_pred             cCCCCHHHHHHHHHHHhcCC------cCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh------hh
Confidence            59999999999999996542      2345689999999999999998732110   00 122222 22211      10


Q ss_pred             HHHHHhhcCCCCCCcccHHHHHHHHHhhh-CCCeEEEEEeCCCCCCH-------hhHHhhcccccCCCCCcEEEEEcCCh
Q 000471          262 KSILNSVASDQCKDKDDLNLLQEKLKKQL-SGNKFLLVLDDVWNENY-------IRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       262 ~~i~~~l~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~-------~~~~~l~~~l~~~~~~s~iivTtR~~  333 (1472)
                          .   +... ...-.+.+...+.+.- .+++.+|++|++.....       .+-..+..+.... ..-++|-+|...
T Consensus       247 ----a---g~~~-~g~~e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~-g~l~~IgaTt~~  317 (857)
T PRK10865        247 ----A---GAKY-RGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTLD  317 (857)
T ss_pred             ----h---ccch-hhhhHHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc-CCCeEEEcCCCH
Confidence                0   0000 1111122223333221 25689999999854310       1112222222222 234666666655


Q ss_pred             HHHHhh-------CCCCceeCCCCChHhHHHHHHhhh
Q 000471          334 VVAERM-------GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       334 ~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      +.....       ..-+.+.+..-+.++..++++...
T Consensus       318 e~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        318 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HHHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            432211       112345666668888888886554

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.00  E-value=0.00015  Score=90.31  Aligned_cols=133  Identities=21%  Similarity=0.346  Sum_probs=63.3

Q ss_pred             CCccceEEeccCCCCCc--cchhhcCCCCccEEEeccC-CCccccC-----CCCCCCCcceEEecCCCCCCCChhhhhcc
Q 000471         1005 PCRLQFLKLSKCEGLTR--LPQALLTLSSLTEMRISGC-ASLVSFP-----QAALPSHLRTVKIEDCNALESLPEAWMHN 1076 (1472)
Q Consensus      1005 l~~L~~L~Ls~~~~~~~--l~~~~~~l~~L~~L~l~~c-~~l~~~~-----~~~~~~~L~~L~l~~~~~l~~~~~~~~~~ 1076 (1472)
                      .+.|+.|.+.+|..+..  +-.....++.|++|++++| ......+     .....++|+.|+++.|..+++..-.....
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~~l~~l~~  266 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDIGLSALAS  266 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCchhHHHHHh
Confidence            34555555555554444  2234445566666666652 2222111     11123556666666666555544443333


Q ss_pred             CCCCcceEEeecCCCCCcCC---CCCCCCCccEEEEecCCCcccCchhhhcCCCCccceEeecc
Q 000471         1077 SNSSLESLKIRNCNSLVSFP---EVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKG 1137 (1472)
Q Consensus      1077 ~~~~L~~L~l~~~~~l~~~~---~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~l~~L~~L~l~~ 1137 (1472)
                      .+++|+.|.+.+|..+++..   ....+++|++|++++|..+++........++++|+.|.+..
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~~  330 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLLS  330 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhhh
Confidence            35666666666665433321   12234456666666666553332222223355544444433

>CHL00176 ftsH cell division protein; Validated

Probab=97.00  E-value=0.0058  Score=75.90  Aligned_cols=177  Identities=16%  Similarity=0.191  Sum_probs=96.5

Q ss_pred             CceeechhHHHHHHHHH---hcCCC---CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          186 AKVYGREKEKEEIIELL---LNDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L---~~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .+++|.++.++++.+.+   .....   -+....+-|.++|++|+|||++|++++...  ..     -|+.++..    +
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~--~~-----p~i~is~s----~  251 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEA--EV-----PFFSISGS----E  251 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHh--CC-----CeeeccHH----H
Confidence            45889877766655543   32210   011234568899999999999999998732  11     12333211    1


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC----------Hhh----HHhhcccccC--CCCC
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN----------YIR----WSELRCPFVA--GAAG  323 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~----~~~l~~~l~~--~~~~  323 (1472)
                      +.    ....+      .....+...+.+.....+.+|++||++...          ...    +..+...+..  ...+
T Consensus       252 f~----~~~~g------~~~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~  321 (638)
T CHL00176        252 FV----EMFVG------VGAARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKG  321 (638)
T ss_pred             HH----HHhhh------hhHHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCC
Confidence            11    11100      112233444555556778999999995431          111    1222222211  2345


Q ss_pred             cEEEEEcCChHHHHh-h----CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCC
Q 000471          324 SKIVVTTRNLVVAER-M----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGG  388 (1472)
Q Consensus       324 s~iivTtR~~~v~~~-~----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~g  388 (1472)
                      -.||.||...+.... +    .-+..+.+...+.++-.++++.++-... ..    .......+++.+.|
T Consensus       322 ViVIaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~-~~----~d~~l~~lA~~t~G  386 (638)
T CHL00176        322 VIVIAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKK-LS----PDVSLELIARRTPG  386 (638)
T ss_pred             eeEEEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcc-cc----hhHHHHHHHhcCCC
Confidence            567777776543321 1    1235678888888888889988764311 11    12345667777777

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=96.98  E-value=0.028  Score=59.07  Aligned_cols=182  Identities=18%  Similarity=0.192  Sum_probs=104.6

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEe-cCCCCHHHHHHHHHHhhcCCCCCC-cccHHHHHHHHHhh
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCV-SEDFDVFRISKSILNSVASDQCKD-KDDLNLLQEKLKKQ  289 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~-~~~~~~~~~~~~i~~~l~~~~~~~-~~~~~~~~~~l~~~  289 (1472)
                      +.+++.|+|.-|.|||.++++....  ..  =+.++-|.+ ....+...+...+...+....... ..-.+...+.+.+.
T Consensus        50 ~qg~~~vtGevGsGKTv~~Ral~~s--~~--~d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al  125 (269)
T COG3267          50 GQGILAVTGEVGSGKTVLRRALLAS--LN--EDQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAAL  125 (269)
T ss_pred             CCceEEEEecCCCchhHHHHHHHHh--cC--CCceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHH
Confidence            3569999999999999999955431  11  111222222 334566777788888777632211 11223333334433


Q ss_pred             h-CCCe-EEEEEeCCCCCCHhhHHhhcccccCCCCCc---EEEEEcCCh-------HHHHhh-CCCCc-eeCCCCChHhH
Q 000471          290 L-SGNK-FLLVLDDVWNENYIRWSELRCPFVAGAAGS---KIVVTTRNL-------VVAERM-GADPV-YQLKELSDDDC  355 (1472)
Q Consensus       290 l-~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s---~iivTtR~~-------~v~~~~-~~~~~-~~l~~L~~~~~  355 (1472)
                      . +++| ..+++||..+......+.++....-...++   +|+..-.-+       .+.... ....+ |++.|++.++.
T Consensus       126 ~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t  205 (269)
T COG3267         126 VKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAET  205 (269)
T ss_pred             HHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHHH
Confidence            3 4677 999999998776555555544322111111   233322211       111111 11223 89999999998


Q ss_pred             HHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHh
Q 000471          356 LCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGG  398 (1472)
Q Consensus       356 ~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~  398 (1472)
                      ..+++.+..+...+.+ ---.+....|..+..|.|.+|..++.
T Consensus       206 ~~yl~~~Le~a~~~~~-l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         206 GLYLRHRLEGAGLPEP-LFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHHHhccCCCcc-cCChhHHHHHHHHhccchHHHHHHHH
Confidence            8888777654432211 11245677889999999999987764

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=96.94  E-value=0.0014  Score=65.37  Aligned_cols=102  Identities=17%  Similarity=0.135  Sum_probs=67.6

Q ss_pred             CCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCC--CCCCCcceeEeccccCCCCCCcccccccccccee
Q 000471         1289 TKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRF 1366 (1472)
Q Consensus      1289 ~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~--~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L 1366 (1472)
                      .+...+||++|.....  ..|.+++.|.+|.+++| .++.+...  ..+++|+.|.+.+|.+........+..|+.|++|
T Consensus        42 d~~d~iDLtdNdl~~l--~~lp~l~rL~tLll~nN-rIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~L  118 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKL--DNLPHLPRLHTLLLNNN-RITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYL  118 (233)
T ss_pred             cccceecccccchhhc--ccCCCccccceEEecCC-cceeeccchhhhccccceEEecCcchhhhhhcchhccCCcccee
Confidence            4677888888665332  35778888888888887 46666554  6678889999998888765554567888888888


Q ss_pred             eeccCCCCCCCCCC-----CCccccceeccCC
Q 000471         1367 TICGGCPDLVSPPP-----FPASLTNLWISDM 1393 (1472)
Q Consensus      1367 ~Ls~n~~~~~~~~~-----~~~~L~~L~l~~~ 1393 (1472)
                      .+-+|......---     -+++|++||+..-
T Consensus       119 tll~Npv~~k~~YR~yvl~klp~l~~LDF~kV  150 (233)
T KOG1644|consen  119 TLLGNPVEHKKNYRLYVLYKLPSLRTLDFQKV  150 (233)
T ss_pred             eecCCchhcccCceeEEEEecCcceEeehhhh
Confidence            88765433222111     1345555555544

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=96.93  E-value=0.00029  Score=65.27  Aligned_cols=99  Identities=16%  Similarity=0.299  Sum_probs=70.7

Q ss_pred             CcceEEEecCCCCCccCCc---ccCCCCcCcEEecCCccccccchhhhh-cccccEEecCCCcchhhhhhhhcccCCCce
Q 000471          598 PRLRVFSLRGCGNIFNLPN---EIGNLKHLRCLNLSRTRIQILPESINS-LYNLHTILLEDCHQLKKLCKDMGNLRKLHH  673 (1472)
Q Consensus       598 ~~Lr~L~L~~~~~~~~lp~---~i~~L~~Lr~L~L~~~~i~~lP~~i~~-L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~  673 (1472)
                      +.+..+||+.| .+..+++   .+....+|...+|++|.++..|+.|.. .+-+.+|+|++ +.+..+|.++..++.||.
T Consensus        27 kE~h~ldLssc-~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~-neisdvPeE~Aam~aLr~  104 (177)
T KOG4579|consen   27 KELHFLDLSSC-QLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLAN-NEISDVPEELAAMPALRS  104 (177)
T ss_pred             HHhhhcccccc-hhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcch-hhhhhchHHHhhhHHhhh
Confidence            34556777777 6665553   345566777778888888888877754 44778888887 567788888888888888


Q ss_pred             eecCCCCCcccCCCcccccccccccC
Q 000471          674 LRNSTANSLKEMPKGFGKLTSLLTLG  699 (1472)
Q Consensus       674 L~l~~~~~~~~~p~~i~~L~~L~~L~  699 (1472)
                      |+++.|. +...|.-|..|.+|-.|.
T Consensus       105 lNl~~N~-l~~~p~vi~~L~~l~~Ld  129 (177)
T KOG4579|consen  105 LNLRFNP-LNAEPRVIAPLIKLDMLD  129 (177)
T ss_pred             cccccCc-cccchHHHHHHHhHHHhc
Confidence            8888877 666777776666666663

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.92  E-value=0.0018  Score=68.87  Aligned_cols=36  Identities=22%  Similarity=0.281  Sum_probs=28.7

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEec
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVS  252 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~  252 (1472)
                      .++|+|..|.||||++..+..  .....|+.+++++-.
T Consensus        15 r~viIG~sGSGKT~li~~lL~--~~~~~f~~I~l~t~~   50 (241)
T PF04665_consen   15 RMVIIGKSGSGKTTLIKSLLY--YLRHKFDHIFLITPE   50 (241)
T ss_pred             eEEEECCCCCCHHHHHHHHHH--hhcccCCEEEEEecC
Confidence            567899999999999999986  356678777776543

This is thought to be an ATPase involved in viral DNA packaging [].

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=96.90  E-value=0.00088  Score=83.72  Aligned_cols=110  Identities=20%  Similarity=0.220  Sum_probs=82.7

Q ss_pred             hccCCccceeeecccCcccccchhhHHHHHHhccCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccc--hh
Q 000471          563 ICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILP--ES  640 (1472)
Q Consensus       563 ~~~~~~lr~l~~~~~~~~~~~~~~~~~~~~~~~~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP--~~  640 (1472)
                      -.-++.||+|...+...      ..+.+...+.+|++|+.||++++ ++..+ .++++|++|+.|.+++-.+..-+  ..
T Consensus       144 g~~LPsL~sL~i~~~~~------~~~dF~~lc~sFpNL~sLDIS~T-nI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~  215 (699)
T KOG3665|consen  144 GTMLPSLRSLVISGRQF------DNDDFSQLCASFPNLRSLDISGT-NISNL-SGISRLKNLQVLSMRNLEFESYQDLID  215 (699)
T ss_pred             hhhCcccceEEecCcee------cchhHHHHhhccCccceeecCCC-CccCc-HHHhccccHHHHhccCCCCCchhhHHH
Confidence            34578888887765432      22335677899999999999999 89888 78999999999999987777433  46


Q ss_pred             hhhcccccEEecCCCcch------hhhhhhhcccCCCceeecCCCC
Q 000471          641 INSLYNLHTILLEDCHQL------KKLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       641 i~~L~~L~~L~L~~~~~l------~~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                      +.+|++|++||+|.....      ...-+.-..|++||.||.+++.
T Consensus       216 LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTd  261 (699)
T KOG3665|consen  216 LFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTD  261 (699)
T ss_pred             HhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcc
Confidence            789999999999973321      1111223358999999999876

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.89  E-value=0.011  Score=69.81  Aligned_cols=136  Identities=19%  Similarity=0.102  Sum_probs=81.2

Q ss_pred             chhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcC
Q 000471          191 REKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       191 r~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  270 (1472)
                      |..-..++.+.+...       ..++.|+|+-++||||+++.+....  .+.   .+++...+......-+.+       
T Consensus        22 ~~~~~~~l~~~~~~~-------~~i~~i~GpR~~GKTtll~~l~~~~--~~~---~iy~~~~d~~~~~~~l~d-------   82 (398)
T COG1373          22 RRKLLPRLIKKLDLR-------PFIILILGPRQVGKTTLLKLLIKGL--LEE---IIYINFDDLRLDRIELLD-------   82 (398)
T ss_pred             HHhhhHHHHhhcccC-------CcEEEEECCccccHHHHHHHHHhhC--Ccc---eEEEEecchhcchhhHHH-------
Confidence            334455555555221       2299999999999999997666521  111   444433222111100011       


Q ss_pred             CCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHH-----hh-CCCCc
Q 000471          271 DQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAE-----RM-GADPV  344 (1472)
Q Consensus       271 ~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~-----~~-~~~~~  344 (1472)
                                 ....+.+.-..++..|+||.|...  ..|......+.+.+.. +|++|+-+.....     .. |....
T Consensus        83 -----------~~~~~~~~~~~~~~yifLDEIq~v--~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~  148 (398)
T COG1373          83 -----------LLRAYIELKEREKSYIFLDEIQNV--PDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKD  148 (398)
T ss_pred             -----------HHHHHHHhhccCCceEEEecccCc--hhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCcee
Confidence                       111111111127889999999876  6788888878776666 8888887754332     22 33456


Q ss_pred             eeCCCCChHhHHHHH
Q 000471          345 YQLKELSDDDCLCVL  359 (1472)
Q Consensus       345 ~~l~~L~~~~~~~lf  359 (1472)
                      +++.||+-.|...+-
T Consensus       149 ~~l~PlSF~Efl~~~  163 (398)
T COG1373         149 LELYPLSFREFLKLK  163 (398)
T ss_pred             EEECCCCHHHHHhhc
Confidence            899999999987654

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.89  E-value=0.018  Score=59.46  Aligned_cols=122  Identities=21%  Similarity=0.247  Sum_probs=70.2

Q ss_pred             cCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          184 NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      +=..++|.|...+.+++--..-.  ......-|.+||.-|+|||+|++++.+.  +....-.  -|.|.+.         
T Consensus        58 ~L~~l~Gvd~qk~~L~~NT~~F~--~G~pANnVLLwGaRGtGKSSLVKA~~~e--~~~~glr--LVEV~k~---------  122 (287)
T COG2607          58 DLADLVGVDRQKEALVRNTEQFA--EGLPANNVLLWGARGTGKSSLVKALLNE--YADEGLR--LVEVDKE---------  122 (287)
T ss_pred             CHHHHhCchHHHHHHHHHHHHHH--cCCcccceEEecCCCCChHHHHHHHHHH--HHhcCCe--EEEEcHH---------
Confidence            34568999988888776432211  1122346789999999999999999873  3333221  2222111         


Q ss_pred             HHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCC---CCCcEEEEEcCCh
Q 000471          264 ILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAG---AAGSKIVVTTRNL  333 (1472)
Q Consensus       264 i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~---~~~s~iivTtR~~  333 (1472)
                                 +..++-.+.+.++.  ..+||.|..||..-+ ....++.++..+..+   .+...++..|.++
T Consensus       123 -----------dl~~Lp~l~~~Lr~--~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNR  183 (287)
T COG2607         123 -----------DLATLPDLVELLRA--RPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNR  183 (287)
T ss_pred             -----------HHhhHHHHHHHHhc--CCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCC
Confidence                       11222233333332  367999999999543 335567777666543   2334455555443

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.88  E-value=0.024  Score=72.66  Aligned_cols=51  Identities=29%  Similarity=0.419  Sum_probs=39.8

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +.+.+|.++.+++|+++|............++.++|++|+||||+|+.++.
T Consensus       321 ~~~~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~  371 (784)
T PRK10787        321 DTDHYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAK  371 (784)
T ss_pred             hhhccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999988742211122346899999999999999999986

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=96.87  E-value=0.011  Score=64.80  Aligned_cols=188  Identities=16%  Similarity=0.149  Sum_probs=102.9

Q ss_pred             CceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      .++=|-++.+++|.+...-+=.       -+-+.++=|.+||++|.|||-||++|++.  ....|     +.+...    
T Consensus       151 ~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~--T~AtF-----IrvvgS----  219 (406)
T COG1222         151 EDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQ--TDATF-----IRVVGS----  219 (406)
T ss_pred             hhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhc--cCceE-----EEeccH----
Confidence            3566889989888887632110       03345677899999999999999999983  33333     333222    


Q ss_pred             HHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh-CCCeEEEEEeCCCCCC--------------HhhHHhhcccccCC--C
Q 000471          259 RISKSILNSVASDQCKDKDDLNLLQEKLKKQL-SGNKFLLVLDDVWNEN--------------YIRWSELRCPFVAG--A  321 (1472)
Q Consensus       259 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~--------------~~~~~~l~~~l~~~--~  321 (1472)
                          ++.+..-++..       .+.+.+-+.- ...+..|.+|.++...              +...-++...+..+  .
T Consensus       220 ----ElVqKYiGEGa-------RlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~  288 (406)
T COG1222         220 ----ELVQKYIGEGA-------RLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPR  288 (406)
T ss_pred             ----HHHHHHhccch-------HHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCC
Confidence                23332222211       1222222222 2468899999885421              11122233333332  3


Q ss_pred             CCcEEEEEcCChHHHHhh-----CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh----hH
Q 000471          322 AGSKIVVTTRNLVVAERM-----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP----LA  392 (1472)
Q Consensus       322 ~~s~iivTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP----La  392 (1472)
                      ..-|||.+|...++....     .-+..+++..-+.+.=.++|+-++-.- +....-+++    .+++.+.|.-    -|
T Consensus       289 ~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM-~l~~dvd~e----~la~~~~g~sGAdlka  363 (406)
T COG1222         289 GNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKM-NLADDVDLE----LLARLTEGFSGADLKA  363 (406)
T ss_pred             CCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhc-cCccCcCHH----HHHHhcCCCchHHHHH
Confidence            457899988876654322     223456776444444456787776332 223333443    4556666654    34


Q ss_pred             HHHHHhhh
Q 000471          393 AKTLGGLL  400 (1472)
Q Consensus       393 l~~~~~~L  400 (1472)
                      +.+=|+++
T Consensus       364 ictEAGm~  371 (406)
T COG1222         364 ICTEAGMF  371 (406)
T ss_pred             HHHHHhHH
Confidence            55555554

>PRK08118 topology modulation protein; Reviewed

Probab=96.87  E-value=0.00052  Score=70.15  Aligned_cols=34  Identities=32%  Similarity=0.537  Sum_probs=27.0

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchh-ccCcceEE
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQ-RHYEIKAW  248 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~w  248 (1472)
                      .|.|+|++|+||||||+.+++..... -+||..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            57899999999999999999854333 45676666

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.85  E-value=0.039  Score=63.20  Aligned_cols=182  Identities=14%  Similarity=0.100  Sum_probs=103.2

Q ss_pred             hHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc--------cCcceEEEEecCCCCHHHHHHHH
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR--------HYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~--------~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      ..-+++...+..+.     -..-+.+.|+.|+||+++|.+++...--..        +....-++..+..+|+..+    
T Consensus         9 ~~~~~l~~~~~~~r-----l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~~Cg~C~sC~~~~~g~HPD~~~i----   79 (334)
T PRK07993          9 PDYEQLVGSYQAGR-----GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHKSCGHCRGCQLMQAGTHPDYYTL----   79 (334)
T ss_pred             HHHHHHHHHHHcCC-----cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCCEEEE----
Confidence            34567777775432     245778999999999999988765211100        0000111112222222111    


Q ss_pred             HHhhcCCCCCCcccHHHHHH---HHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHh-
Q 000471          265 LNSVASDQCKDKDDLNLLQE---KLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAER-  338 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~---~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~-  338 (1472)
                          ..........++++.+   .+... ..+++-++|+|+++.........+...+.....++.+|++|.+.+ +... 
T Consensus        80 ----~p~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI  155 (334)
T PRK07993         80 ----TPEKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATL  155 (334)
T ss_pred             ----ecccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHH
Confidence                0000001122333332   22211 236677999999988776666777766666566777777776643 4333 


Q ss_pred             hCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          339 MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       339 ~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      ....+.+.+.+++++++.+.+.... + .   +    .+.+..++..++|.|..+..+
T Consensus       156 rSRCq~~~~~~~~~~~~~~~L~~~~-~-~---~----~~~a~~~~~la~G~~~~Al~l  204 (334)
T PRK07993        156 RSRCRLHYLAPPPEQYALTWLSREV-T-M---S----QDALLAALRLSAGAPGAALAL  204 (334)
T ss_pred             HhccccccCCCCCHHHHHHHHHHcc-C-C---C----HHHHHHHHHHcCCCHHHHHHH
Confidence            2233567999999999988776532 1 1   1    234678899999999654433

>TIGR00763 lon ATP-dependent protease La

Probab=96.81  E-value=0.014  Score=75.49  Aligned_cols=51  Identities=35%  Similarity=0.511  Sum_probs=38.6

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .+++|.++.+++|.+++......+.....++.++|++|+|||++|+.+++.
T Consensus       320 ~~~~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~  370 (775)
T TIGR00763       320 EDHYGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKA  370 (775)
T ss_pred             hhcCChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHH
Confidence            458899999999998775321112223458999999999999999999973

This protein is induced by heat shock and other stresses in E. coli, B. subtilis, and other species. The yeast member, designated PIM1, is located in the mitochondrial matrix, required for mitochondrial function, and also induced by heat shock.

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=96.79  E-value=0.017  Score=70.95  Aligned_cols=179  Identities=14%  Similarity=0.127  Sum_probs=93.4

Q ss_pred             CceeechhHHHHHHHHHh---cCCC---CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          186 AKVYGREKEKEEIIELLL---NDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~---~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .+++|.+..++++.+++.   ..+.   .+....+-+.++|++|+|||++|+++++..  ...     ++.++..    .
T Consensus        55 ~di~g~~~~k~~l~~~~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~la~alA~~~--~~~-----~~~i~~~----~  123 (495)
T TIGR01241        55 KDVAGIDEAKEELMEIVDFLKNPSKFTKLGAKIPKGVLLVGPPGTGKTLLAKAVAGEA--GVP-----FFSISGS----D  123 (495)
T ss_pred             HHhCCHHHHHHHHHHHHHHHHCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc--CCC-----eeeccHH----H
Confidence            468898877766655443   1100   012234558899999999999999998742  112     2222211    1


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC----------HhhHHh----hccccc--CCCCC
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN----------YIRWSE----LRCPFV--AGAAG  323 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~~~----l~~~l~--~~~~~  323 (1472)
                      +.    ....+      .....+...+.......+.+|++||++...          ...+..    +...+.  ....+
T Consensus       124 ~~----~~~~g------~~~~~l~~~f~~a~~~~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~  193 (495)
T TIGR01241       124 FV----EMFVG------VGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTG  193 (495)
T ss_pred             HH----HHHhc------ccHHHHHHHHHHHHhcCCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCC
Confidence            11    11111      112233334444444567899999995521          011111    111111  12234


Q ss_pred             cEEEEEcCChHHHH-----hhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh
Q 000471          324 SKIVVTTRNLVVAE-----RMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       324 s~iivTtR~~~v~~-----~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      -.||.||...+...     ...-+..+.+...+.++-.++|..+..... ....    ....++++.+.|.-
T Consensus       194 v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~R~~il~~~l~~~~-~~~~----~~l~~la~~t~G~s  260 (495)
T TIGR01241       194 VIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKGREEILKVHAKNKK-LAPD----VDLKAVARRTPGFS  260 (495)
T ss_pred             eEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHHHHHHHHHHHhcCC-CCcc----hhHHHHHHhCCCCC
Confidence            55666776653221     112335678888888888888887763321 1111    22447777777743

HflB(FtsH) is a pleiotropic protein required for correct cell division in bacteria. It has ATP-dependent zinc metalloprotease activity. It was formerly designated cell division protein FtsH.

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.79  E-value=0.0022  Score=76.52  Aligned_cols=166  Identities=21%  Similarity=0.235  Sum_probs=90.7

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      +.+-+|.++.+++|+++|.-..-...-+-.++++|||+|||||+|++.++.  ...+.|   +-+.+++--|..++-..-
T Consensus       322 d~dHYGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~--al~Rkf---vR~sLGGvrDEAEIRGHR  396 (782)
T COG0466         322 DKDHYGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAK--ALGRKF---VRISLGGVRDEAEIRGHR  396 (782)
T ss_pred             cccccCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHH--HhCCCE---EEEecCccccHHHhcccc
Confidence            456789999999999998643322233457999999999999999999997  344444   234444444443321111


Q ss_pred             HHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHh-------hHHhhccc---------ccCC-CCCcEEE
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYI-------RWSELRCP---------FVAG-AAGSKIV  327 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~-------~~~~l~~~---------l~~~-~~~s~ii  327 (1472)
                      -..++      .. ...+.+.+++. +.+.=+++||.++.....       .+-++..|         +... ..=|.|+
T Consensus       397 RTYIG------am-PGrIiQ~mkka-~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~Vm  468 (782)
T COG0466         397 RTYIG------AM-PGKIIQGMKKA-GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVM  468 (782)
T ss_pred             ccccc------cC-ChHHHHHHHHh-CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheE
Confidence            00111      11 11222333322 456778999998553210       01111111         1110 1124443


Q ss_pred             -EEcCCh-H-H-HHhhCCCCceeCCCCChHhHHHHHHhhh
Q 000471          328 -VTTRNL-V-V-AERMGADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       328 -vTtR~~-~-v-~~~~~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                       |||-+. + + +..+....++++.+.+++|=.++-+++.
T Consensus       469 FiaTANsl~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         469 FIATANSLDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             EEeecCccccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence             455432 1 1 2223444678888989888877766664

>smart00763 AAA_PrkA PrkA AAA domain

Probab=96.76  E-value=0.0012  Score=74.19  Aligned_cols=50  Identities=16%  Similarity=0.282  Sum_probs=42.2

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      +++|.++.++++++++.....+.....+++.++|++|+||||||+.+.+.
T Consensus        52 ~~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~  101 (361)
T smart00763       52 DFFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRG  101 (361)
T ss_pred             hccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            69999999999999997754322345689999999999999999999874

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=96.75  E-value=0.006  Score=72.29  Aligned_cols=189  Identities=17%  Similarity=0.149  Sum_probs=109.7

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  266 (1472)
                      ++||-+.-...|...+..+.-     ..-....|+-|+||||+|+.++...-...      | ...+.+..-..-++|..
T Consensus        17 evvGQe~v~~~L~nal~~~ri-----~hAYlfsG~RGvGKTt~Ari~AkalNC~~------~-~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          17 DVVGQEHVVKTLSNALENGRI-----AHAYLFSGPRGVGKTTIARILAKALNCEN------G-PTAEPCGKCISCKEINE   84 (515)
T ss_pred             HhcccHHHHHHHHHHHHhCcc-----hhhhhhcCCCCcCchhHHHHHHHHhcCCC------C-CCCCcchhhhhhHhhhc
Confidence            579999999999999976532     23456789999999999998875321110      1 11111111122222222


Q ss_pred             hh-------cCCCCCCcccHHHHHHHHHhh-hCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHHH
Q 000471          267 SV-------ASDQCKDKDDLNLLQEKLKKQ-LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVAE  337 (1472)
Q Consensus       267 ~l-------~~~~~~~~~~~~~~~~~l~~~-l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~~  337 (1472)
                      .-       ..-.....++++++.+.+.-. .+++.=+.|+|.|.-.....|..+..-+...-...+.|..|.+. .+..
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~  164 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPN  164 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCch
Confidence            10       000011122333333332221 13555589999998777777888877776555566666666654 3322


Q ss_pred             -hhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh
Q 000471          338 -RMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       338 -~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL  391 (1472)
                       .....+.|.++.++.++-...+...+-...-..+    .+...-|++..+|...
T Consensus       165 TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~~e----~~aL~~ia~~a~Gs~R  215 (515)
T COG2812         165 TILSRCQRFDFKRLDLEEIAKHLAAILDKEGINIE----EDALSLIARAAEGSLR  215 (515)
T ss_pred             hhhhccccccccCCCHHHHHHHHHHHHHhcCCccC----HHHHHHHHHHcCCChh
Confidence             2234467999999999988888887743321111    4556667777777553

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.75  E-value=0.031  Score=72.05  Aligned_cols=121  Identities=17%  Similarity=0.188  Sum_probs=68.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCC---CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLR---GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~---~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..++|.+..++.+.+.+......   ......++.++|+.|+|||+||+.++...     +...+.++.++-.+...   
T Consensus       454 ~~v~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l-----~~~~~~~d~se~~~~~~---  525 (731)
T TIGR02639       454 AKIFGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEAL-----GVHLERFDMSEYMEKHT---  525 (731)
T ss_pred             cceeCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHh-----cCCeEEEeCchhhhccc---
Confidence            45889999999988888642110   11234568899999999999999998632     23345555544222111   


Q ss_pred             HHHHhhcCCCC-CCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhccccc
Q 000471          263 SILNSVASDQC-KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFV  318 (1472)
Q Consensus       263 ~i~~~l~~~~~-~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~  318 (1472)
                       +...++.... ........+.+.+++   ...-+++||+++..+...+..+...+.
T Consensus       526 -~~~lig~~~gyvg~~~~~~l~~~~~~---~p~~VvllDEieka~~~~~~~Ll~~ld  578 (731)
T TIGR02639       526 -VSRLIGAPPGYVGFEQGGLLTEAVRK---HPHCVLLLDEIEKAHPDIYNILLQVMD  578 (731)
T ss_pred             -HHHHhcCCCCCcccchhhHHHHHHHh---CCCeEEEEechhhcCHHHHHHHHHhhc
Confidence             1111221111 011112223333332   234599999998887666666665544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.73  E-value=0.035  Score=61.75  Aligned_cols=56  Identities=18%  Similarity=0.208  Sum_probs=35.5

Q ss_pred             hHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHH
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  261 (1472)
                      +-++++..++..+        +-|.++|++|+|||++|+++++  ...   ....++++....+..+++
T Consensus         9 ~l~~~~l~~l~~g--------~~vLL~G~~GtGKT~lA~~la~--~lg---~~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         9 RVTSRALRYLKSG--------YPVHLRGPAGTGKTTLAMHVAR--KRD---RPVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHhcC--------CeEEEEcCCCCCHHHHHHHHHH--HhC---CCEEEEeCCccCCHHHHh
Confidence            3455666666432        3466899999999999999986  221   123456666555544443

Members of this family are the GvpN protein associated with the production of gas vesicles produced in some prokaryotes to give cells buoyancy. This family belongs to a larger family of ATPases (pfam07728).

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.72  E-value=0.005  Score=69.46  Aligned_cols=122  Identities=16%  Similarity=0.187  Sum_probs=70.1

Q ss_pred             echhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhc
Q 000471          190 GREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVA  269 (1472)
Q Consensus       190 Gr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  269 (1472)
                      +|....+...+++..-..  ....+-+.++|..|+|||.||.++++... +.. ..+.++++      ..++.++.....
T Consensus       135 ~~~~~~~~~~~fi~~~~~--~~~~~gl~L~G~~G~GKThLa~Aia~~l~-~~g-~~v~~~~~------~~l~~~lk~~~~  204 (306)
T PRK08939        135 DRLDALMAALDFLEAYPP--GEKVKGLYLYGDFGVGKSYLLAAIANELA-KKG-VSSTLLHF------PEFIRELKNSIS  204 (306)
T ss_pred             HHHHHHHHHHHHHHHhhc--cCCCCeEEEECCCCCCHHHHHHHHHHHHH-HcC-CCEEEEEH------HHHHHHHHHHHh
Confidence            455555556666643221  11345788999999999999999998532 222 23455544      345555544442


Q ss_pred             CCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHh--hccccc-CC-CCCcEEEEEcCC
Q 000471          270 SDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSE--LRCPFV-AG-AAGSKIVVTTRN  332 (1472)
Q Consensus       270 ~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~--l~~~l~-~~-~~~s~iivTtR~  332 (1472)
                      ..      +..   +.+.. + .+-=||||||+..+....|..  +...+. .. ..+-.+|+||..
T Consensus       205 ~~------~~~---~~l~~-l-~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        205 DG------SVK---EKIDA-V-KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             cC------cHH---HHHHH-h-cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            21      122   22222 2 244589999998776666753  434332 22 245568888874

>PRK08181 transposase; Validated

Probab=96.71  E-value=0.0026  Score=70.00  Aligned_cols=101  Identities=19%  Similarity=0.049  Sum_probs=54.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      .-+.++|++|+|||.||.++.+..  ......+.|++      ..+++..+.....      ....+.....+     .+
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a--~~~g~~v~f~~------~~~L~~~l~~a~~------~~~~~~~l~~l-----~~  167 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLAL--IENGWRVLFTR------TTDLVQKLQVARR------ELQLESAIAKL-----DK  167 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHH--HHcCCceeeee------HHHHHHHHHHHHh------CCcHHHHHHHH-----hc
Confidence            358899999999999999998732  22233445554      3445554433211      11222222222     23


Q ss_pred             eEEEEEeCCCCCCHhhHH--hhcccccCCCCCcEEEEEcCCh
Q 000471          294 KFLLVLDDVWNENYIRWS--ELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~--~l~~~l~~~~~~s~iivTtR~~  333 (1472)
                      -=||||||+.......|.  .+...+.....+..+||||...
T Consensus       168 ~dLLIIDDlg~~~~~~~~~~~Lf~lin~R~~~~s~IiTSN~~  209 (269)
T PRK08181        168 FDLLILDDLAYVTKDQAETSVLFELISARYERRSILITANQP  209 (269)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHhCCCEEEEcCCC
Confidence            349999999654333322  2222222211223588888864

>PRK13531 regulatory ATPase RavA; Provisional

Probab=96.70  E-value=0.0063  Score=71.25  Aligned_cols=41  Identities=17%  Similarity=0.240  Sum_probs=36.2

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .++||++.++.+...+..+.        -|.|+|++|+|||++|+.+..
T Consensus        21 ~i~gre~vI~lll~aalag~--------hVLL~GpPGTGKT~LAraLa~   61 (498)
T PRK13531         21 GLYERSHAIRLCLLAALSGE--------SVFLLGPPGIAKSLIARRLKF   61 (498)
T ss_pred             hccCcHHHHHHHHHHHccCC--------CEEEECCCChhHHHHHHHHHH
Confidence            38999999999999987653        478999999999999999986

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.68  E-value=0.0073  Score=65.87  Aligned_cols=47  Identities=15%  Similarity=0.172  Sum_probs=35.6

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRI  260 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  260 (1472)
                      ..-.++.|+|.+|+|||++|.+++..  ....-..++|++.. .++...+
T Consensus        21 ~~g~i~~i~G~~GsGKT~l~~~la~~--~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         21 ERGTITQIYGPPGSGKTNICLQLAVE--AAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHHCCCeEEEEECC-CCCHHHH
Confidence            44679999999999999999999863  32334678899887 5555443

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=96.66  E-value=0.027  Score=67.28  Aligned_cols=208  Identities=16%  Similarity=0.095  Sum_probs=119.0

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcc---hhccCc--ceEEEEecCCCCHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR---VQRHYE--IKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~---~~~~f~--~~~wv~~~~~~~~~~~~  261 (1472)
                      .+-+||.|..+|.+.+...-. .++..+.+.|.|.+|.|||..+..|.+...   .++.-.  ..+.|+.-.-..+.+++
T Consensus       397 sLpcRe~E~~~I~~f~~~~i~-~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y  475 (767)
T KOG1514|consen  397 SLPCRENEFSEIEDFLRSFIS-DQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIY  475 (767)
T ss_pred             cccchhHHHHHHHHHHHhhcC-CCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHH
Confidence            366899999999988865322 123456999999999999999999987322   112222  23445555556789999


Q ss_pred             HHHHHhhcCCCCCCcccHHHHHHHHHh-hhCCCeEEEEEeCCCCC---CHhhHHhhcccccC-CCCCcEEEEEcCC--hH
Q 000471          262 KSILNSVASDQCKDKDDLNLLQEKLKK-QLSGNKFLLVLDDVWNE---NYIRWSELRCPFVA-GAAGSKIVVTTRN--LV  334 (1472)
Q Consensus       262 ~~i~~~l~~~~~~~~~~~~~~~~~l~~-~l~~k~~LlVlDdv~~~---~~~~~~~l~~~l~~-~~~~s~iivTtR~--~~  334 (1472)
                      ..|..++.+........++.+...+.. .-+.+..++++|+++..   .+.-   +...|.| ..++||++|.+=.  .+
T Consensus       476 ~~I~~~lsg~~~~~~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdV---lYn~fdWpt~~~sKLvvi~IaNTmd  552 (767)
T KOG1514|consen  476 EKIWEALSGERVTWDAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDV---LYNIFDWPTLKNSKLVVIAIANTMD  552 (767)
T ss_pred             HHHHHhcccCcccHHHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHH---HHHHhcCCcCCCCceEEEEeccccc
Confidence            999999988654333334433333320 01245688999987432   2221   2222222 2467776654421  11


Q ss_pred             ---------HHHhhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhh
Q 000471          335 ---------VAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLL  400 (1472)
Q Consensus       335 ---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L  400 (1472)
                               ++..++- ..+...+.+.++-.++...+..+... ......+-+|++|+.-.|..-.|+.+.-++.
T Consensus       553 lPEr~l~nrvsSRlg~-tRi~F~pYth~qLq~Ii~~RL~~~~~-f~~~aielvarkVAavSGDaRraldic~RA~  625 (767)
T KOG1514|consen  553 LPERLLMNRVSSRLGL-TRICFQPYTHEQLQEIISARLKGLDA-FENKAIELVARKVAAVSGDARRALDICRRAA  625 (767)
T ss_pred             CHHHHhccchhhhccc-eeeecCCCCHHHHHHHHHHhhcchhh-cchhHHHHHHHHHHhccccHHHHHHHHHHHH
Confidence                     1111111 23566777777777777666544321 1222334455666666666666665555443

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.63  E-value=0.0069  Score=66.73  Aligned_cols=92  Identities=22%  Similarity=0.163  Sum_probs=54.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhc----cCcceEEEEecCCCCHHHHHHHHHHhhcCCCC-----------CC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQR----HYEIKAWTCVSEDFDVFRISKSILNSVASDQC-----------KD  275 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----------~~  275 (1472)
                      ..-.++.|+|.+|+|||++|.+++.......    .-..++|++....++..++. ++++..+....           ..
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~   95 (235)
T cd01123          17 ETGSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYN   95 (235)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCC
Confidence            4568999999999999999999974322211    13578999988877765443 33333322110           01


Q ss_pred             cccHHHHHHHHHhhhC-C-CeEEEEEeCCC
Q 000471          276 KDDLNLLQEKLKKQLS-G-NKFLLVLDDVW  303 (1472)
Q Consensus       276 ~~~~~~~~~~l~~~l~-~-k~~LlVlDdv~  303 (1472)
                      ..+.......+.+.+. . +.-+||+|-+.
T Consensus        96 ~~~l~~~l~~l~~~l~~~~~~~liVIDSis  125 (235)
T cd01123          96 SDHQLQLLEELEAILIESSRIKLVIVDSVT  125 (235)
T ss_pred             HHHHHHHHHHHHHHHhhcCCeeEEEEeCcH
Confidence            1122223333444443 3 55688888873

This group of recombinases includes the eukaryotic proteins RAD51, RAD55/57 and the meiosis-specific protein DMC1, and the archaeal proteins radA and radB. They are closely related to the bacterial RecA group. Rad51 proteins catalyze a similiar recombination reaction as RecA, using ATP-dependent DNA binding activity and a DNA-dependent ATPase. However, this reaction is less efficient and requires accessory proteins such as RAD55/57 .

>PRK06526 transposase; Provisional

Probab=96.62  E-value=0.0029  Score=69.30  Aligned_cols=100  Identities=20%  Similarity=0.117  Sum_probs=51.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      .-+.|+|++|+|||+||.++..... +..+ .+.|+      +..++...+.....     . ...   ...+.+.  .+
T Consensus        99 ~nlll~Gp~GtGKThLa~al~~~a~-~~g~-~v~f~------t~~~l~~~l~~~~~-----~-~~~---~~~l~~l--~~  159 (254)
T PRK06526         99 ENVVFLGPPGTGKTHLAIGLGIRAC-QAGH-RVLFA------TAAQWVARLAAAHH-----A-GRL---QAELVKL--GR  159 (254)
T ss_pred             ceEEEEeCCCCchHHHHHHHHHHHH-HCCC-chhhh------hHHHHHHHHHHHHh-----c-CcH---HHHHHHh--cc
Confidence            4588999999999999999986432 1222 22332      33344444432211     1 111   1223322  23


Q ss_pred             eEEEEEeCCCCCCHhhHH--hhcccccCC-CCCcEEEEEcCCh
Q 000471          294 KFLLVLDDVWNENYIRWS--ELRCPFVAG-AAGSKIVVTTRNL  333 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~~s~iivTtR~~  333 (1472)
                      .-+||+||+.......|.  .+...+... ..++ +|+||..+
T Consensus       160 ~dlLIIDD~g~~~~~~~~~~~L~~li~~r~~~~s-~IitSn~~  201 (254)
T PRK06526        160 YPLLIVDEVGYIPFEPEAANLFFQLVSSRYERAS-LIVTSNKP  201 (254)
T ss_pred             CCEEEEcccccCCCCHHHHHHHHHHHHHHHhcCC-EEEEcCCC
Confidence            458999999754322222  122222111 2243 88888764

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.60  E-value=0.018  Score=74.94  Aligned_cols=137  Identities=15%  Similarity=0.143  Sum_probs=74.8

Q ss_pred             CceeechhHHHHHHHHHhcCCCC---CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLR---GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~---~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..++|.+..++.+...+.....+   .+....++.++|+.|+|||++|+.+++..  ...-...+.++++.-.. .    
T Consensus       568 ~~viGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l--~~~~~~~i~id~se~~~-~----  640 (857)
T PRK10865        568 HRVIGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFM--FDSDDAMVRIDMSEFME-K----  640 (857)
T ss_pred             CeEeCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHh--hcCCCcEEEEEhHHhhh-h----
Confidence            45899999999998888643210   11223578899999999999999998631  11112234444433211 1    


Q ss_pred             HHHHhhcCCCCC--CcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCC-----------CCCcEEEEE
Q 000471          263 SILNSVASDQCK--DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAG-----------AAGSKIVVT  329 (1472)
Q Consensus       263 ~i~~~l~~~~~~--~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iivT  329 (1472)
                      .....+.+....  .......+...++.   ...-+|+|||+...+...+..+...+..+           ...+.||+|
T Consensus       641 ~~~~~LiG~~pgy~g~~~~g~l~~~v~~---~p~~vLllDEieka~~~v~~~Ll~ile~g~l~d~~gr~vd~rn~iiI~T  717 (857)
T PRK10865        641 HSVSRLVGAPPGYVGYEEGGYLTEAVRR---RPYSVILLDEVEKAHPDVFNILLQVLDDGRLTDGQGRTVDFRNTVVIMT  717 (857)
T ss_pred             hhHHHHhCCCCcccccchhHHHHHHHHh---CCCCeEEEeehhhCCHHHHHHHHHHHhhCceecCCceEEeecccEEEEe
Confidence            111222221111  11111122222221   22359999999877766677666554332           122347788


Q ss_pred             cCC
Q 000471          330 TRN  332 (1472)
Q Consensus       330 tR~  332 (1472)
                      |..
T Consensus       718 SN~  720 (857)
T PRK10865        718 SNL  720 (857)
T ss_pred             CCc
Confidence            875

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.60  E-value=0.033  Score=63.50  Aligned_cols=94  Identities=15%  Similarity=0.203  Sum_probs=64.5

Q ss_pred             CCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCCh-HHHHh-hCCCCceeCCCCChHhHHHHHHhhhcCCCCC
Q 000471          292 GNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL-VVAER-MGADPVYQLKELSDDDCLCVLTQISLGARDF  369 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~-~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~  369 (1472)
                      +++-++|+|+++......+..+...+.....++.+|++|.+. .+... ......+.+.+++.++..+.+....  .   
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~~--~---  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQG--V---  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHcC--C---
Confidence            556688999999888777888877777666777777666654 33322 2233578999999999998887641  1   


Q ss_pred             CCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          370 TRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       370 ~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                       .  +    ...++..++|.|..+..+.
T Consensus       206 -~--~----~~~~l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        206 -A--D----ADALLAEAGGAPLAALALA  226 (342)
T ss_pred             -C--h----HHHHHHHcCCCHHHHHHHH
Confidence             1  0    2235778899997555443

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.59  E-value=0.0035  Score=66.14  Aligned_cols=85  Identities=21%  Similarity=0.252  Sum_probs=51.2

Q ss_pred             ccCCcceEEEecCCCCCccC---CcccCCCCcCcEEecCCccccccchhh-hhcccccEEecCCCcc-hhhhhhhhcccC
Q 000471          595 NHLPRLRVFSLRGCGNIFNL---PNEIGNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQ-LKKLCKDMGNLR  669 (1472)
Q Consensus       595 ~~l~~Lr~L~L~~~~~~~~l---p~~i~~L~~Lr~L~L~~~~i~~lP~~i-~~L~~L~~L~L~~~~~-l~~lp~~i~~L~  669 (1472)
                      .....++.|||.+| .+..-   -.-+.+|++|++|+|+.|.+..--.+. --+.+|++|.|.+... ..........++
T Consensus        68 ~~~~~v~elDL~~N-~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP  146 (418)
T KOG2982|consen   68 SSVTDVKELDLTGN-LISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLP  146 (418)
T ss_pred             HHhhhhhhhhcccc-hhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcch
Confidence            44567777888777 55432   222456778888888887654221111 3456778888776321 133344566777


Q ss_pred             CCceeecCCCC
Q 000471          670 KLHHLRNSTAN  680 (1472)
Q Consensus       670 ~L~~L~l~~~~  680 (1472)
                      +++.|+++.|+
T Consensus       147 ~vtelHmS~N~  157 (418)
T KOG2982|consen  147 KVTELHMSDNS  157 (418)
T ss_pred             hhhhhhhccch
Confidence            77777777764

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=96.58  E-value=0.012  Score=63.64  Aligned_cols=172  Identities=21%  Similarity=0.199  Sum_probs=94.3

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC-cchhccCcceEEEEecCCCCH-HHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND-DRVQRHYEIKAWTCVSEDFDV-FRISKSI  264 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~-~~~~~~f~~~~wv~~~~~~~~-~~~~~~i  264 (1472)
                      .++|-.++..++.+|+.+...  .+...-|.|+|+.|.|||+|...+..+ .++.++   ..-|...+.... +-.+++|
T Consensus        25 ~l~g~~~~~~~l~~~lkqt~~--~gEsnsviiigprgsgkT~li~~~Ls~~q~~~E~---~l~v~Lng~~~~dk~al~~I   99 (408)
T KOG2228|consen   25 NLFGVQDEQKHLSELLKQTIL--HGESNSVIIIGPRGSGKTILIDTRLSDIQENGEN---FLLVRLNGELQTDKIALKGI   99 (408)
T ss_pred             ceeehHHHHHHHHHHHHHHHH--hcCCCceEEEccCCCCceEeeHHHHhhHHhcCCe---EEEEEECccchhhHHHHHHH
Confidence            488999999999998875322  122345779999999999999887765 122233   344444444332 2244555


Q ss_pred             HHhhcCCCCC---CcccHHHHHHHHHhhhC------CCeEEEEEeCCCCCCHhhHHhhcccc----c-CCCCCcEEEEEc
Q 000471          265 LNSVASDQCK---DKDDLNLLQEKLKKQLS------GNKFLLVLDDVWNENYIRWSELRCPF----V-AGAAGSKIVVTT  330 (1472)
Q Consensus       265 ~~~l~~~~~~---~~~~~~~~~~~l~~~l~------~k~~LlVlDdv~~~~~~~~~~l~~~l----~-~~~~~s~iivTt  330 (1472)
                      ..|+..+-..   ...+..+....+-..|+      +-++..|+|.++-.....-..+.-.+    . ...+-+-|-+||
T Consensus       100 ~rql~~e~~~~~k~~gsfte~l~~lL~~L~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Tt  179 (408)
T KOG2228|consen  100 TRQLALELNRIVKSFGSFTENLSKLLEALKKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTT  179 (408)
T ss_pred             HHHHHHHHhhhheeecccchhHHHHHHHHhcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeec
Confidence            5554332111   12222333333333343      23688888887553221111111111    1 123446677899


Q ss_pred             CChH-------HHHhhCCCCceeCCCCChHhHHHHHHhhh
Q 000471          331 RNLV-------VAERMGADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       331 R~~~-------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      |-..       |-.......++-++.++-++...+++...
T Consensus       180 rld~lE~LEKRVKSRFshr~I~m~~~~~l~~yv~l~r~ll  219 (408)
T KOG2228|consen  180 RLDILELLEKRVKSRFSHRVIFMLPSLPLGDYVDLYRKLL  219 (408)
T ss_pred             cccHHHHHHHHHHhhcccceeeccCCCChHHHHHHHHHHh
Confidence            9642       33333333456667777788888877765

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=96.56  E-value=0.069  Score=61.22  Aligned_cols=200  Identities=14%  Similarity=0.137  Sum_probs=120.5

Q ss_pred             chhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHH-HHHhcCcchhccCcceEEEEecCC---CCHHHHHHHHHH
Q 000471          191 REKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLA-QLVYNDDRVQRHYEIKAWTCVSED---FDVFRISKSILN  266 (1472)
Q Consensus       191 r~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa-~~v~~~~~~~~~f~~~~wv~~~~~---~~~~~~~~~i~~  266 (1472)
                      |.+..++|-.||.+..      -.+|.|.||-|.||+.|+ .++..+.+.      +..++|.+-   .+-..+++.++.
T Consensus         1 R~e~~~~L~~wL~e~~------~TFIvV~GPrGSGK~elV~d~~L~~r~~------vL~IDC~~i~~ar~D~~~I~~lA~   68 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENP------NTFIVVQGPRGSGKRELVMDHVLKDRKN------VLVIDCDQIVKARGDAAFIKNLAS   68 (431)
T ss_pred             CchHHHHHHHHHhcCC------CeEEEEECCCCCCccHHHHHHHHhCCCC------EEEEEChHhhhccChHHHHHHHHH
Confidence            5678899999997653      369999999999999999 777764322      555555432   233445555555


Q ss_pred             hhcCC-----------------------CCCCcccHH-HHHH-------HHHh-------------------hhC---CC
Q 000471          267 SVASD-----------------------QCKDKDDLN-LLQE-------KLKK-------------------QLS---GN  293 (1472)
Q Consensus       267 ~l~~~-----------------------~~~~~~~~~-~~~~-------~l~~-------------------~l~---~k  293 (1472)
                      +++--                       ...-..+.+ ++..       .+++                   +|.   .+
T Consensus        69 qvGY~PvFsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~  148 (431)
T PF10443_consen   69 QVGYFPVFSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPER  148 (431)
T ss_pred             hcCCCcchHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCcc
Confidence            55431                       110011111 1111       1111                   111   12


Q ss_pred             eEEEEEeCCCCCC---------HhhHHhhcccccCCCCCcEEEEEcCChHHHHh----hCC--CCceeCCCCChHhHHHH
Q 000471          294 KFLLVLDDVWNEN---------YIRWSELRCPFVAGAAGSKIVVTTRNLVVAER----MGA--DPVYQLKELSDDDCLCV  358 (1472)
Q Consensus       294 ~~LlVlDdv~~~~---------~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~----~~~--~~~~~l~~L~~~~~~~l  358 (1472)
                      |=+||+|+.-...         ..+|.....    ..+-.+||++|-+......    +..  ...+.+...+.+.|.++
T Consensus       149 ~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv----~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~y  224 (431)
T PF10443_consen  149 RPVVVIDNFLHKAEENDFIYDKLAEWAASLV----QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQY  224 (431)
T ss_pred             CCEEEEcchhccCcccchHHHHHHHHHHHHH----hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHH
Confidence            5689999985432         123443221    2345688888887654443    322  24578899999999999


Q ss_pred             HHhhhcCCCCC------------CCC----ccHHHHHHHHHHHhCCChhHHHHHHhhhcCCCCh
Q 000471          359 LTQISLGARDF------------TRH----LSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDP  406 (1472)
Q Consensus       359 f~~~a~~~~~~------------~~~----~~~~~~~~~i~~~~~glPLal~~~~~~L~~~~~~  406 (1472)
                      ...+.-.....            ...    ....+-....++.+||==.-+..+++.++....+
T Consensus       225 V~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksGe~p  288 (431)
T PF10443_consen  225 VLSQLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSGESP  288 (431)
T ss_pred             HHHHhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcCCCH
Confidence            88876432110            000    1233445677889999999999999999887664

It is also involved in the regulation of mtDNA nucleotide structure and number []. Additionally, this protein have a dispensable role in the early maturation of pre-rRNA [].

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.54  E-value=0.0088  Score=64.77  Aligned_cols=103  Identities=18%  Similarity=0.184  Sum_probs=56.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      ...+.++|.+|+|||+||.++++..  ...-..+++++      ..++...+-.....    .....+.    +.+.+. 
T Consensus        99 ~~~~~l~G~~GtGKThLa~aia~~l--~~~g~~v~~it------~~~l~~~l~~~~~~----~~~~~~~----~l~~l~-  161 (244)
T PRK07952         99 IASFIFSGKPGTGKNHLAAAICNEL--LLRGKSVLIIT------VADIMSAMKDTFSN----SETSEEQ----LLNDLS-  161 (244)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHHH--HhcCCeEEEEE------HHHHHHHHHHHHhh----ccccHHH----HHHHhc-
Confidence            3478899999999999999999843  22223445553      34444444333321    1112222    222343 


Q ss_pred             CeEEEEEeCCCCCCHhhHHh--hcccccCC-CCCcEEEEEcCC
Q 000471          293 NKFLLVLDDVWNENYIRWSE--LRCPFVAG-AAGSKIVVTTRN  332 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~~s~iivTtR~  332 (1472)
                      +.=+||+||+......+|+.  +...+... ...-.+||||..
T Consensus       162 ~~dlLvIDDig~~~~s~~~~~~l~~Ii~~Ry~~~~~tiitSNl  204 (244)
T PRK07952        162 NVDLLVIDEIGVQTESRYEKVIINQIVDRRSSSKRPTGMLTNS  204 (244)
T ss_pred             cCCEEEEeCCCCCCCCHHHHHHHHHHHHHHHhCCCCEEEeCCC
Confidence            34488899997765555653  22222111 123457777764

>PRK09183 transposase/IS protein; Provisional

Probab=96.51  E-value=0.0051  Score=67.91  Aligned_cols=23  Identities=39%  Similarity=0.433  Sum_probs=20.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcC
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ..+.|+|++|+|||+||.++...
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHH
Confidence            46779999999999999999763

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.50  E-value=0.055  Score=55.31  Aligned_cols=44  Identities=23%  Similarity=0.298  Sum_probs=35.5

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .++||-++.++++.-.-.+      ++.+-+.|.||+|+||||-+..+++
T Consensus        27 ~dIVGNe~tv~rl~via~~------gnmP~liisGpPG~GKTTsi~~LAr   70 (333)
T KOG0991|consen   27 QDIVGNEDTVERLSVIAKE------GNMPNLIISGPPGTGKTTSILCLAR   70 (333)
T ss_pred             HHhhCCHHHHHHHHHHHHc------CCCCceEeeCCCCCchhhHHHHHHH
Confidence            4699999999988766643      3466788999999999998877765

>PF07693 KAP_NTPase: KAP family P-loop domain; InterPro: IPR011646 The KAP (after Kidins220/ARMS and PifA) family of predicted NTPases are sporadically distributed across a wide phylogenetic range in bacteria and in animals

Probab=96.50  E-value=0.064  Score=62.51  Aligned_cols=43  Identities=26%  Similarity=0.426  Sum_probs=33.6

Q ss_pred             chhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          191 REKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       191 r~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      |+.-.+.+.+.+...+   .....+|+|.|.=|+||||+.+.+.+.
T Consensus         1 ~~~~a~~la~~I~~~~---~~~~~~IgL~G~WGsGKSs~l~~l~~~   43 (325)
T PF07693_consen    1 RKPYAKALAEIIKNPD---SDDPFVIGLYGEWGSGKSSFLNMLKEE   43 (325)
T ss_pred             ChHHHHHHHHHHhccC---CCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3455677788876542   256789999999999999999998774

Many of the prokaryotic KAP NTPases are encoded in plasmids and tend to undergo disruption to form pseudogenes. A unique feature of all eukaryotic and certain bacterial KAP NTPases is the presence of two or four transmembrane helices inserted into the P-loop NTPase domain. These transmembrane helices anchor KAP NTPases in the membrane such that the P-loop domain is located on the intracellular side [].

>PRK12377 putative replication protein; Provisional

Probab=96.50  E-value=0.0057  Score=66.37  Aligned_cols=101  Identities=19%  Similarity=0.103  Sum_probs=55.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      ..+.++|.+|+|||+||.++++..  ......++++++.      +++..+-.....     ......   .+. .+ .+
T Consensus       102 ~~l~l~G~~GtGKThLa~AIa~~l--~~~g~~v~~i~~~------~l~~~l~~~~~~-----~~~~~~---~l~-~l-~~  163 (248)
T PRK12377        102 TNFVFSGKPGTGKNHLAAAIGNRL--LAKGRSVIVVTVP------DVMSRLHESYDN-----GQSGEK---FLQ-EL-CK  163 (248)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH--HHcCCCeEEEEHH------HHHHHHHHHHhc-----cchHHH---HHH-Hh-cC
Confidence            578899999999999999999843  2333345666543      344444333321     111111   122 22 34


Q ss_pred             eEEEEEeCCCCCCHhhHHh--hcccccCC-CCCcEEEEEcCC
Q 000471          294 KFLLVLDDVWNENYIRWSE--LRCPFVAG-AAGSKIVVTTRN  332 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~~--l~~~l~~~-~~~s~iivTtR~  332 (1472)
                      --||||||+.......|..  +...+... ...--+||||..
T Consensus       164 ~dLLiIDDlg~~~~s~~~~~~l~~ii~~R~~~~~ptiitSNl  205 (248)
T PRK12377        164 VDLLVLDEIGIQRETKNEQVVLNQIIDRRTASMRSVGMLTNL  205 (248)
T ss_pred             CCEEEEcCCCCCCCCHHHHHHHHHHHHHHHhcCCCEEEEcCC
Confidence            5699999995544344432  22222211 122346778764

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=96.47  E-value=0.0033  Score=64.95  Aligned_cols=101  Identities=20%  Similarity=0.244  Sum_probs=50.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      .-+.++|..|+|||.||.++.+.. .... ..+.|+.+      .+++..+    .....  ..........+.     +
T Consensus        48 ~~l~l~G~~G~GKThLa~ai~~~~-~~~g-~~v~f~~~------~~L~~~l----~~~~~--~~~~~~~~~~l~-----~  108 (178)
T PF01695_consen   48 ENLILYGPPGTGKTHLAVAIANEA-IRKG-YSVLFITA------SDLLDEL----KQSRS--DGSYEELLKRLK-----R  108 (178)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-HHTT---EEEEEH------HHHHHHH----HCCHC--CTTHCHHHHHHH-----T
T ss_pred             eEEEEEhhHhHHHHHHHHHHHHHh-ccCC-cceeEeec------Cceeccc----ccccc--ccchhhhcCccc-----c
Confidence            568999999999999999998743 2222 23556543      3344443    22211  112222222222     2


Q ss_pred             eEEEEEeCCCCCCHhhHHh--hcccccCCCCCcEEEEEcCCh
Q 000471          294 KFLLVLDDVWNENYIRWSE--LRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~~--l~~~l~~~~~~s~iivTtR~~  333 (1472)
                      -=||||||+......+|..  +...+........+||||...
T Consensus       109 ~dlLilDDlG~~~~~~~~~~~l~~ii~~R~~~~~tIiTSN~~  150 (178)
T PF01695_consen  109 VDLLILDDLGYEPLSEWEAELLFEIIDERYERKPTIITSNLS  150 (178)
T ss_dssp             SSCEEEETCTSS---HHHHHCTHHHHHHHHHT-EEEEEESS-
T ss_pred             ccEecccccceeeecccccccchhhhhHhhcccCeEeeCCCc
Confidence            3478899997765445432  111111111123588888753

They are found associated with IS21 family insertion sequences []. Functionally they have not been characterised, but they may be involved in transposition [].; GO: 0005524 ATP binding; PDB: 3EC2_A 3ECC_A 2W58_A 2QGZ_A.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.44  E-value=0.014  Score=60.51  Aligned_cols=179  Identities=20%  Similarity=0.215  Sum_probs=97.5

Q ss_pred             CceeechhHHH---HHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKE---EIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~---~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      +++||.++.+.   -|.+.|...+.-++-.++-|..+|++|.|||.+|+++++..++  .|     +.+.    ..++  
T Consensus       121 ddViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kv--p~-----l~vk----at~l--  187 (368)
T COG1223         121 DDVIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKV--PL-----LLVK----ATEL--  187 (368)
T ss_pred             hhhhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCC--ce-----EEec----hHHH--
Confidence            46899887764   4667776544334456788999999999999999999985433  12     1111    1111  


Q ss_pred             HHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHh-hHHhhcc-------c----cc--CCCCCcEEEE
Q 000471          263 SILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYI-RWSELRC-------P----FV--AGAAGSKIVV  328 (1472)
Q Consensus       263 ~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~-~~~~l~~-------~----l~--~~~~~s~iiv  328 (1472)
                       |-+.++       +....+.+...+.-+.-++++.+|.++....+ .+..++.       +    +.  ..+.|...|-
T Consensus       188 -iGehVG-------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIa  259 (368)
T COG1223         188 -IGEHVG-------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIA  259 (368)
T ss_pred             -HHHHhh-------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEe
Confidence             111111       11222222222333456899999988553211 1122211       1    11  1245666677


Q ss_pred             EcCChHHHHhh---CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh
Q 000471          329 TTRNLVVAERM---GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       329 TtR~~~v~~~~---~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      .|...+.....   .-..-++..--+++|-.+++..++-.-.-+-     ..-.+.++++.+|+.
T Consensus       260 aTN~p~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k~~Plpv-----~~~~~~~~~~t~g~S  319 (368)
T COG1223         260 ATNRPELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAKKFPLPV-----DADLRYLAAKTKGMS  319 (368)
T ss_pred             ecCChhhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHHhCCCcc-----ccCHHHHHHHhCCCC
Confidence            77766654332   1123456666778888888888773221111     122455666777653

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.41  E-value=0.008  Score=77.83  Aligned_cols=137  Identities=18%  Similarity=0.156  Sum_probs=75.3

Q ss_pred             CceeechhHHHHHHHHHhcCCC---CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..++|.+..++.+.+.+.....   .......++.++|+.|+|||.+|++++..  ..+.....+-++++.-.+.     
T Consensus       566 ~~v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~--l~~~~~~~~~~dmse~~~~-----  638 (852)
T TIGR03345       566 ERVIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAEL--LYGGEQNLITINMSEFQEA-----  638 (852)
T ss_pred             CeEcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHH--HhCCCcceEEEeHHHhhhh-----
Confidence            4689999999999998864211   02233558899999999999999988753  2111112222332221111     


Q ss_pred             HHHHhhcCCCCC--CcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCC-----------CCcEEEEE
Q 000471          263 SILNSVASDQCK--DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGA-----------AGSKIVVT  329 (1472)
Q Consensus       263 ~i~~~l~~~~~~--~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~~s~iivT  329 (1472)
                      .-...+.+....  .......+...+++   ...-+|+||++...+...+..+...+..+.           ..+-||+|
T Consensus       639 ~~~~~l~g~~~gyvg~~~~g~L~~~v~~---~p~svvllDEieka~~~v~~~Llq~ld~g~l~d~~Gr~vd~~n~iiI~T  715 (852)
T TIGR03345       639 HTVSRLKGSPPGYVGYGEGGVLTEAVRR---KPYSVVLLDEVEKAHPDVLELFYQVFDKGVMEDGEGREIDFKNTVILLT  715 (852)
T ss_pred             hhhccccCCCCCcccccccchHHHHHHh---CCCcEEEEechhhcCHHHHHHHHHHhhcceeecCCCcEEeccccEEEEe
Confidence            011112111110  11111223333332   445699999998777666666655544331           44567777


Q ss_pred             cCC
Q 000471          330 TRN  332 (1472)
Q Consensus       330 tR~  332 (1472)
                      |..
T Consensus       716 SNl  718 (852)
T TIGR03345       716 SNA  718 (852)
T ss_pred             CCC
Confidence            764

Members of this protein family are homologs of ClpB, an ATPase associated with chaperone-related functions. These ClpB homologs, designated ClpV1, are a key component of the bacterial pathogenicity-associated type VI secretion system.

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.41  E-value=0.011  Score=63.77  Aligned_cols=49  Identities=16%  Similarity=0.220  Sum_probs=37.3

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..-+++.|+|++|+|||++|.+++..  ....-..++|++... ++..++.+
T Consensus        10 ~~g~i~~i~G~~GsGKT~l~~~~~~~--~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        10 ERGTITQIYGPPGSGKTNICMILAVN--AARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH--HHhCCCeEEEEECCC-CCHHHHHH
Confidence            45689999999999999999998763  333456789999876 66555444

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK06921 hypothetical protein; Provisional

Probab=96.40  E-value=0.0095  Score=65.94  Aligned_cols=37  Identities=24%  Similarity=0.154  Sum_probs=27.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhcc-CcceEEEEe
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRH-YEIKAWTCV  251 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~-f~~~~wv~~  251 (1472)
                      ...+.++|..|+|||+||.++++..  ... ...+++++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l--~~~~g~~v~y~~~  154 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANEL--MRKKGVPVLYFPF  154 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHH--hhhcCceEEEEEH
Confidence            4578999999999999999999843  222 334566654

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=96.39  E-value=0.017  Score=71.03  Aligned_cols=43  Identities=30%  Similarity=0.402  Sum_probs=35.3

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +++|.+..++.+...+...      ...-|.|+|++|+|||++|+.+++
T Consensus        66 ~iiGqs~~i~~l~~al~~~------~~~~vLi~Ge~GtGKt~lAr~i~~  108 (531)
T TIGR02902        66 EIIGQEEGIKALKAALCGP------NPQHVIIYGPPGVGKTAAARLVLE  108 (531)
T ss_pred             HeeCcHHHHHHHHHHHhCC------CCceEEEECCCCCCHHHHHHHHHH
Confidence            5999999999998876432      234567999999999999999975

Members of this protein are LonB, a paralog of the ATP-dependent protease La (LonA, TIGR00763). LonB proteins are found strictly, and almost universally, in endospore-forming bacteria. This protease was shown, in Bacillus subtilis, to be expressed specifically in the forespore, during sporulation, under control of sigma(F). The lonB gene, despite location immediately upstream of lonA, was shown to be monocistronic. LonB appears able to act on sigma(H) for post-translation control, but lonB mutation did not produce an obvious sporulation defect under the conditions tested. Note that additional paralogs of LonA and LonB occur in the Clostridium lineage and this model selects only one per species as the protein that corresponds to LonB in B. subtilis.

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.38  E-value=0.015  Score=65.87  Aligned_cols=104  Identities=19%  Similarity=0.164  Sum_probs=63.3

Q ss_pred             HHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcc-eEEEEecCC-CCHHHHHHHHHHhhcCC
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEI-KAWTCVSED-FDVFRISKSILNSVASD  271 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~-~~~~~~~~~i~~~l~~~  271 (1472)
                      -..++++.+..-     +.-.-+.|+|.+|+|||||++.+++... ..+-+. ++|+.+.+. ..+.++++.+...+...
T Consensus       119 ~~~RvID~l~Pi-----GkGQR~LIvG~pGtGKTTLl~~la~~i~-~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvas  192 (380)
T PRK12608        119 LSMRVVDLVAPI-----GKGQRGLIVAPPRAGKTVLLQQIAAAVA-ANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYAS  192 (380)
T ss_pred             hhHhhhhheeec-----CCCceEEEECCCCCCHHHHHHHHHHHHH-hcCCCceEEEEEecCCCCCHHHHHHHHhhhEEee
Confidence            345577777542     1224568999999999999999887321 122234 367666655 56788888888777654


Q ss_pred             CCCCccc----HHHHHHHHHhhh--CCCeEEEEEeCCC
Q 000471          272 QCKDKDD----LNLLQEKLKKQL--SGNKFLLVLDDVW  303 (1472)
Q Consensus       272 ~~~~~~~----~~~~~~~l~~~l--~~k~~LlVlDdv~  303 (1472)
                      ..+....    .......+.+++  ++++++||+|++.
T Consensus       193 t~de~~~~~~~v~~~~~~~Ae~f~~~GkdVVLvlDslt  230 (380)
T PRK12608        193 TFDRPPDEHIRVAELVLERAKRLVEQGKDVVILLDSLT  230 (380)
T ss_pred             cCCCCHHHHHHHHHHHHHHHHHHHHcCCCEEEEEeCcH
Confidence            3211111    111111222222  4899999999993

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=96.37  E-value=0.015  Score=57.78  Aligned_cols=118  Identities=17%  Similarity=0.131  Sum_probs=62.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC---CCHHHHHHHHHHhhc-----CCC----CCCcc---c
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED---FDVFRISKSILNSVA-----SDQ----CKDKD---D  278 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~---~~~~~~~~~i~~~l~-----~~~----~~~~~---~  278 (1472)
                      ..|-|++..|.||||+|...+-  +...+=..+.+|..-+.   ......++.+ ..+.     ...    .....   .
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~--ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~   79 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLAL--RALGHGYRVGVVQFLKGGWKYGELKALERL-PNIEIHRMGRGFFWTTENDEEDIAA   79 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHH--HHHHCCCeEEEEEEeCCCCccCHHHHHHhC-CCcEEEECCCCCccCCCChHHHHHH
Confidence            4788899999999999977765  33333233444443332   2333333332 1110     000    00001   1


Q ss_pred             HHHHHHHHHhhhCCCe-EEEEEeCCCCC---CHhhHHhhcccccCCCCCcEEEEEcCChH
Q 000471          279 LNLLQEKLKKQLSGNK-FLLVLDDVWNE---NYIRWSELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       279 ~~~~~~~l~~~l~~k~-~LlVlDdv~~~---~~~~~~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                      .....+..++.+.... =|+|||++-..   .....+.+...+.....+.-||+|.|+..
T Consensus        80 a~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          80 AAEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            1122233344444444 49999998442   22344555555555556778999999854

This family consists of the BtuR, CobO, CobP proteins all of which are Cob(I)alamin (vitamin B12) adenosyltransferase, which is involved in cobalamin (vitamin B12) biosynthesis. This enzyme is a homodimer, which catalyzes the adenosylation reaction: ATP + cob(I)alamin + H2O <= phosphate + diphosphate + adenosylcobalamin.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.33  E-value=0.015  Score=76.03  Aligned_cols=138  Identities=15%  Similarity=0.180  Sum_probs=77.3

Q ss_pred             CceeechhHHHHHHHHHhcCCCC---CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLR---GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~---~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..++|.+..++.+.+.+......   ......++.++|+.|+|||++|+.+...  ....-...+.++++.-.....+ .
T Consensus       565 ~~v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~--l~~~~~~~i~~d~s~~~~~~~~-~  641 (852)
T TIGR03346       565 ERVVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEF--LFDDEDAMVRIDMSEYMEKHSV-A  641 (852)
T ss_pred             cccCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHH--hcCCCCcEEEEechhhcccchH-H
Confidence            45899999999999998753210   1122467889999999999999999863  1111123344444432221111 1


Q ss_pred             HHHHhhcCCCC-CCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCC-----------CCCcEEEEEc
Q 000471          263 SILNSVASDQC-KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAG-----------AAGSKIVVTT  330 (1472)
Q Consensus       263 ~i~~~l~~~~~-~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iivTt  330 (1472)
                      .+   ++.+.. ........+...+++   ....+|+||++...+...+..+...+..+           -..+-||+||
T Consensus       642 ~l---~g~~~g~~g~~~~g~l~~~v~~---~p~~vlllDeieka~~~v~~~Ll~~l~~g~l~d~~g~~vd~rn~iiI~TS  715 (852)
T TIGR03346       642 RL---IGAPPGYVGYEEGGQLTEAVRR---KPYSVVLFDEVEKAHPDVFNVLLQVLDDGRLTDGQGRTVDFRNTVIIMTS  715 (852)
T ss_pred             Hh---cCCCCCccCcccccHHHHHHHc---CCCcEEEEeccccCCHHHHHHHHHHHhcCceecCCCeEEecCCcEEEEeC
Confidence            11   121111 011111223333332   23359999999888777777776655332           1334477777


Q ss_pred             CC
Q 000471          331 RN  332 (1472)
Q Consensus       331 R~  332 (1472)
                      ..
T Consensus       716 n~  717 (852)
T TIGR03346       716 NL  717 (852)
T ss_pred             Cc
Confidence            64

Members of this protein family are the bacterial ATP-dependent chaperone ClpB. This protein belongs to the AAA family, ATPases associated with various cellular activities (pfam00004). This molecular chaperone does not act as a protease, but rather serves to disaggregate misfolded and aggregated proteins.

>PRK04132 replication factor C small subunit; Provisional

Probab=96.31  E-value=0.071  Score=67.77  Aligned_cols=156  Identities=12%  Similarity=0.050  Sum_probs=96.1

Q ss_pred             cCCCcHHHHHHHHhcCcchhccCc-ceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEE
Q 000471          221 MGGVGKTTLAQLVYNDDRVQRHYE-IKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVL  299 (1472)
Q Consensus       221 ~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVl  299 (1472)
                      |.|+||||+|.+++++. ....++ ..+-++++...... ..++++..+.....               .-..+.-++|+
T Consensus       574 Ph~lGKTT~A~ala~~l-~g~~~~~~~lElNASd~rgid-~IR~iIk~~a~~~~---------------~~~~~~KVvII  636 (846)
T PRK04132        574 PTVLHNTTAALALAREL-FGENWRHNFLELNASDERGIN-VIREKVKEFARTKP---------------IGGASFKIIFL  636 (846)
T ss_pred             CCcccHHHHHHHHHHhh-hcccccCeEEEEeCCCcccHH-HHHHHHHHHHhcCC---------------cCCCCCEEEEE
Confidence            67899999999999842 112222 34556666544443 33333333221111               00124579999


Q ss_pred             eCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHhh-CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHH
Q 000471          300 DDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKE  377 (1472)
Q Consensus       300 Ddv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~  377 (1472)
                      |+++.........+...+......+++|++|.+.. +.... .....+.+.+++.++....+...+.... ...+   .+
T Consensus       637 DEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Eg-i~i~---~e  712 (846)
T PRK04132        637 DEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG-LELT---EE  712 (846)
T ss_pred             ECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcC-CCCC---HH
Confidence            99999877777777776665455677777666543 32222 2236789999999998888776653221 1111   46


Q ss_pred             HHHHHHHHhCCChhHHHHHH
Q 000471          378 VGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       378 ~~~~i~~~~~glPLal~~~~  397 (1472)
                      ....|++.++|.+..+..+-
T Consensus       713 ~L~~Ia~~s~GDlR~AIn~L  732 (846)
T PRK04132        713 GLQAILYIAEGDMRRAINIL  732 (846)
T ss_pred             HHHHHHHHcCCCHHHHHHHH
Confidence            78899999999886554433

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=96.30  E-value=0.02  Score=66.89  Aligned_cols=142  Identities=11%  Similarity=0.058  Sum_probs=82.0

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc-------------------cCcceE
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-------------------HYEIKA  247 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-------------------~f~~~~  247 (1472)
                      +++|-+....++..+.....    .....+.++|++|+||||+|.++++...-..                   ..+.+.
T Consensus         2 ~~~~~~~~~~~l~~~~~~~~----~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~l   77 (325)
T COG0470           2 ELVPWQEAVKRLLVQALESG----RLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFL   77 (325)
T ss_pred             CcccchhHHHHHHHHHHhcC----CCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceE
Confidence            46777888888888886432    1233588999999999999999886421111                   112233


Q ss_pred             EEEecCCCC---HHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCc
Q 000471          248 WTCVSEDFD---VFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGS  324 (1472)
Q Consensus       248 wv~~~~~~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s  324 (1472)
                      .+..+....   ..+..+++.+.......                 .++.-++++|+++......-..+...+......+
T Consensus        78 el~~s~~~~~~i~~~~vr~~~~~~~~~~~-----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~  140 (325)
T COG0470          78 ELNPSDLRKIDIIVEQVRELAEFLSESPL-----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNT  140 (325)
T ss_pred             EecccccCCCcchHHHHHHHHHHhccCCC-----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCe
Confidence            333333322   12223333222221110                 3567899999998876655556666555556778


Q ss_pred             EEEEEcCChH-HHHhh-CCCCceeCCC
Q 000471          325 KIVVTTRNLV-VAERM-GADPVYQLKE  349 (1472)
Q Consensus       325 ~iivTtR~~~-v~~~~-~~~~~~~l~~  349 (1472)
                      ++|++|.... +.... .....+++.+
T Consensus       141 ~~il~~n~~~~il~tI~SRc~~i~f~~  167 (325)
T COG0470         141 RFILITNDPSKILPTIRSRCQRIRFKP  167 (325)
T ss_pred             EEEEEcCChhhccchhhhcceeeecCC
Confidence            8888887432 22211 1223456665

>PRK04296 thymidine kinase; Provisional

Probab=96.26  E-value=0.0086  Score=62.90  Aligned_cols=114  Identities=9%  Similarity=-0.074  Sum_probs=62.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC-CcccHHHHHHHHHhhhCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK-DKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~~~l~~~l~~  292 (1472)
                      .++.|+|+.|.||||+|..++..  ...+...++.+.  ..++.+.....++.+++..... .....+++...+++ ..+
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~--~~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~~~   77 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYN--YEERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE-EGE   77 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHH--HHHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh-hCC
Confidence            57889999999999999888863  333333333332  1112222233445555432211 11233444445544 334


Q ss_pred             CeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH
Q 000471          293 NKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                      +.-+||+|.+.-.+..+..++...+.  ..|..||+|.++.+
T Consensus        78 ~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~~  117 (190)
T PRK04296         78 KIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDTD  117 (190)
T ss_pred             CCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCcc
Confidence            45599999996543222233333222  35788999998744

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.069  Score=62.58  Aligned_cols=99  Identities=20%  Similarity=0.300  Sum_probs=65.2

Q ss_pred             CceeechhHHHHHHHHHhcCCCC------CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLR------GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~------~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .++=|.++.+.++.+++..-...      +=...+-|.++|++|.|||.||+++++...+  .     ++.++..     
T Consensus       190 ~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~v--P-----f~~isAp-----  257 (802)
T KOG0733|consen  190 SDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGV--P-----FLSISAP-----  257 (802)
T ss_pred             hhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCC--c-----eEeecch-----
Confidence            46778999888888877542110      2234577889999999999999999985332  2     2333332     


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCC
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNE  305 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~  305 (1472)
                         +|+..+.+      .+.+.+.+.+.+.-..-++++++|+++-.
T Consensus       258 ---eivSGvSG------ESEkkiRelF~~A~~~aPcivFiDeIDAI  294 (802)
T KOG0733|consen  258 ---EIVSGVSG------ESEKKIRELFDQAKSNAPCIVFIDEIDAI  294 (802)
T ss_pred             ---hhhcccCc------ccHHHHHHHHHHHhccCCeEEEeeccccc
Confidence               33333332      33445555666666778999999999654

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=96.24  E-value=0.0037  Score=78.25  Aligned_cols=55  Identities=18%  Similarity=0.308  Sum_probs=29.8

Q ss_pred             hcccccEEecCCCcc-hhhhhhhhcccCCCceeecCCCCCcccCCCcccccccccccC
Q 000471          643 SLYNLHTILLEDCHQ-LKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLG  699 (1472)
Q Consensus       643 ~L~~L~~L~L~~~~~-l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~L~~L~~L~  699 (1472)
                      .|+.|++|.+++-.. ...+-.-..++++|+.||+++++ +..+ .|+++|++||.|.
T Consensus       146 ~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~Tn-I~nl-~GIS~LknLq~L~  201 (699)
T KOG3665|consen  146 MLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTN-ISNL-SGISRLKNLQVLS  201 (699)
T ss_pred             hCcccceEEecCceecchhHHHHhhccCccceeecCCCC-ccCc-HHHhccccHHHHh
Confidence            355555555554111 11222334456666777777665 4444 5677777777663

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

Probab=96.20  E-value=0.012  Score=61.30  Aligned_cols=132  Identities=22%  Similarity=0.252  Sum_probs=64.2

Q ss_pred             echhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEe----cCCC-----CHHH-
Q 000471          190 GREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCV----SEDF-----DVFR-  259 (1472)
Q Consensus       190 Gr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~----~~~~-----~~~~-  259 (1472)
                      .+..+-...++.|..        ..++.+.|++|.|||.||.+.+-+.-..++|+.++++.-    .+..     +..+ 
T Consensus         4 p~~~~Q~~~~~al~~--------~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK   75 (205)
T PF02562_consen    4 PKNEEQKFALDALLN--------NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEK   75 (205)
T ss_dssp             --SHHHHHHHHHHHH---------SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS-------
T ss_pred             CCCHHHHHHHHHHHh--------CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHH
Confidence            344555666676653        358999999999999999888765444577877776532    1111     0000 


Q ss_pred             ---HHHHHHHhhcCCCCCCcccHHHHHHH------HHhhhCCC---eEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEE
Q 000471          260 ---ISKSILNSVASDQCKDKDDLNLLQEK------LKKQLSGN---KFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIV  327 (1472)
Q Consensus       260 ---~~~~i~~~l~~~~~~~~~~~~~~~~~------l~~~l~~k---~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~ii  327 (1472)
                         ....+...+..-.  .....+.+.+.      --.+++++   ..+||+|++.+....++..+...   .+.|||||
T Consensus        76 ~~p~~~p~~d~l~~~~--~~~~~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii  150 (205)
T PF02562_consen   76 MEPYLRPIYDALEELF--GKEKLEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKII  150 (205)
T ss_dssp             --TTTHHHHHHHTTTS---TTCHHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEE
T ss_pred             HHHHHHHHHHHHHHHh--ChHhHHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEE
Confidence               0111111111110  11122222210      01234554   46999999999877777777554   35789999


Q ss_pred             EEcCChH
Q 000471          328 VTTRNLV  334 (1472)
Q Consensus       328 vTtR~~~  334 (1472)
                      ++--..+
T Consensus       151 ~~GD~~Q  157 (205)
T PF02562_consen  151 ITGDPSQ  157 (205)
T ss_dssp             EEE----
T ss_pred             EecCcee
Confidence            9976543

; GO: 0005524 ATP binding; PDB: 3B85_A.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.20  E-value=0.00027  Score=73.44  Aligned_cols=98  Identities=21%  Similarity=0.249  Sum_probs=67.2

Q ss_pred             CCcccEeeecCCCCCccCCCCCCCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCCCCC---CCccccce
Q 000471         1312 LTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP---FPASLTNL 1388 (1472)
Q Consensus      1312 l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~~~~---~~~~L~~L 1388 (1472)
                      +.+.+.|+++|| .+..|..-..++.|++|.|+-|++...-   .|..|+.|++|+|..||+....-..   .+++|++|
T Consensus        18 l~~vkKLNcwg~-~L~DIsic~kMp~lEVLsLSvNkIssL~---pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~L   93 (388)
T KOG2123|consen   18 LENVKKLNCWGC-GLDDISICEKMPLLEVLSLSVNKISSLA---PLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTL   93 (388)
T ss_pred             HHHhhhhcccCC-CccHHHHHHhcccceeEEeeccccccch---hHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhH
Confidence            456777888888 4555544456788888888888886644   4788888888888887764322211   35678888


Q ss_pred             eccCCCCcCcccccC-----CCCCcCceee
Q 000471         1389 WISDMPDLESISSIG-----ENLTSLETLR 1413 (1472)
Q Consensus      1389 ~l~~~~~l~~i~~~~-----~~l~~L~~L~ 1413 (1472)
                      .|..||..+.-+...     .-+|+|+.||
T Consensus        94 WL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   94 WLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             hhccCCcccccchhHHHHHHHHcccchhcc
Confidence            888888766555433     4577777774

>PRK07261 topology modulation protein; Provisional

Probab=96.19  E-value=0.01  Score=61.15  Aligned_cols=22  Identities=41%  Similarity=0.570  Sum_probs=19.6

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .|.|+|++|+||||||+++...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4789999999999999999763

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=96.13  E-value=0.055  Score=55.69  Aligned_cols=191  Identities=17%  Similarity=0.182  Sum_probs=97.5

Q ss_pred             ceeec-hhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHH
Q 000471          187 KVYGR-EKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       187 ~~vGr-~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      ++||+ ++.+++|.+.+.-+-.       -+-.+++-|.++|++|.|||-||++|+++       ....|+.||..    
T Consensus       147 eMiGgLd~QIkeIkEVIeLPvKHPELF~aLGIaQPKGvlLygppgtGktLlaraVahh-------t~c~firvsgs----  215 (404)
T KOG0728|consen  147 EMIGGLDKQIKEIKEVIELPVKHPELFEALGIAQPKGVLLYGPPGTGKTLLARAVAHH-------TDCTFIRVSGS----  215 (404)
T ss_pred             HHhccHHHHHHHHHHHHhccccCHHHHHhcCCCCCcceEEecCCCCchhHHHHHHHhh-------cceEEEEechH----
Confidence            35554 5555555554321110       03345677889999999999999999963       34556667654    


Q ss_pred             HHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH--------------hhHHhhcccccC--CCC
Q 000471          259 RISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY--------------IRWSELRCPFVA--GAA  322 (1472)
Q Consensus       259 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~--------------~~~~~l~~~l~~--~~~  322 (1472)
                          ++.+...++   ...-..++.-+-++   .-+..|..|.+++...              ...-++...+..  ..+
T Consensus       216 ----elvqk~ige---gsrmvrelfvmare---hapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatk  285 (404)
T KOG0728|consen  216 ----ELVQKYIGE---GSRMVRELFVMARE---HAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATK  285 (404)
T ss_pred             ----HHHHHHhhh---hHHHHHHHHHHHHh---cCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhcccccccc
Confidence                222222221   11222233333332   3567888888755311              011122222322  235


Q ss_pred             CcEEEEEcCChHHHHhh-----CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          323 GSKIVVTTRNLVVAERM-----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       323 ~s~iivTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      .-+||.+|..-++....     ..+.-++..+-+++.-.++++-+.-. .+....-+++.+|+++....|.---++.+=|
T Consensus       286 nikvimatnridild~allrpgridrkiefp~p~e~ar~~ilkihsrk-mnl~rgi~l~kiaekm~gasgaevk~vctea  364 (404)
T KOG0728|consen  286 NIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEARLDILKIHSRK-MNLTRGINLRKIAEKMPGASGAEVKGVCTEA  364 (404)
T ss_pred             ceEEEEeccccccccHhhcCCCcccccccCCCCCHHHHHHHHHHhhhh-hchhcccCHHHHHHhCCCCccchhhhhhhhh
Confidence            67888877765544322     22344667777776667777665422 2222233455555554433333333444444


Q ss_pred             hh
Q 000471          398 GL  399 (1472)
Q Consensus       398 ~~  399 (1472)
                      ++
T Consensus       365 gm  366 (404)
T KOG0728|consen  365 GM  366 (404)
T ss_pred             hH
Confidence            43

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.07  E-value=0.05  Score=62.07  Aligned_cols=71  Identities=11%  Similarity=0.056  Sum_probs=43.9

Q ss_pred             CCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHhh-CCCCceeCCCCChHhHHHHHHhh
Q 000471          292 GNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM-GADPVYQLKELSDDDCLCVLTQI  362 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~~  362 (1472)
                      +++-++|+|++...+...-..+...+.....+..+|++|.+.. +.... ..-..+.+.+++.+++.+.+...
T Consensus       112 ~~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~  184 (325)
T PRK08699        112 GGLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRER  184 (325)
T ss_pred             CCceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhc
Confidence            4444556788877665554455444443334566777777654 33222 22356889999999998888653

>PRK06835 DNA replication protein DnaC; Validated

Probab=96.04  E-value=0.0069  Score=68.86  Aligned_cols=102  Identities=19%  Similarity=0.209  Sum_probs=53.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      ..+.++|..|+|||.||.++++..  ...-..++++++.      ++...+...-. .   ...+....   + +.+. .
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l--~~~g~~V~y~t~~------~l~~~l~~~~~-~---~~~~~~~~---~-~~l~-~  246 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKEL--LDRGKSVIYRTAD------ELIEILREIRF-N---NDKELEEV---Y-DLLI-N  246 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHH--HHCCCeEEEEEHH------HHHHHHHHHHh-c---cchhHHHH---H-HHhc-c
Confidence            568999999999999999999843  2222345565542      23333322111 1   11111111   2 2222 2


Q ss_pred             eEEEEEeCCCCCCHhhHH--hhcccccCC-CCCcEEEEEcCC
Q 000471          294 KFLLVLDDVWNENYIRWS--ELRCPFVAG-AAGSKIVVTTRN  332 (1472)
Q Consensus       294 ~~LlVlDdv~~~~~~~~~--~l~~~l~~~-~~~s~iivTtR~  332 (1472)
                      -=||||||+.......|.  .+...+... ..+-.+||||..
T Consensus       247 ~DLLIIDDlG~e~~t~~~~~~Lf~iin~R~~~~k~tIiTSNl  288 (329)
T PRK06835        247 CDLLIIDDLGTEKITEFSKSELFNLINKRLLRQKKMIISTNL  288 (329)
T ss_pred             CCEEEEeccCCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            248999999665433332  222222211 234568888875

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=96.02  E-value=0.058  Score=61.35  Aligned_cols=91  Identities=12%  Similarity=0.107  Sum_probs=48.3

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC-CCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-FDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      +.++|+++|++|+||||++..++...  ..+-..+..++.... ....+-++...+.++.+.. ...+...+.+.+...-
T Consensus       240 ~~~vI~LVGptGvGKTTTiaKLA~~L--~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~-v~~d~~~L~~aL~~lk  316 (436)
T PRK11889        240 EVQTIALIGPTGVGKTTTLAKMAWQF--HGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVI-AVRDEAAMTRALTYFK  316 (436)
T ss_pred             CCcEEEEECCCCCcHHHHHHHHHHHH--HHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEE-ecCCHHHHHHHHHHHH
Confidence            45899999999999999999998632  222123444544322 1122223333333333221 1234445555554432


Q ss_pred             CC-CeEEEEEeCCCCC
Q 000471          291 SG-NKFLLVLDDVWNE  305 (1472)
Q Consensus       291 ~~-k~~LlVlDdv~~~  305 (1472)
                      .. +.=+|++|-....
T Consensus       317 ~~~~~DvVLIDTaGRs  332 (436)
T PRK11889        317 EEARVDYILIDTAGKN  332 (436)
T ss_pred             hccCCCEEEEeCcccc
Confidence            21 2347788877543

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

Probab=96.02  E-value=0.018  Score=60.44  Aligned_cols=90  Identities=19%  Similarity=0.156  Sum_probs=50.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC-CCCHHHHHHHHHHhhcCCCC---CCcccHHHHHHHHHh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQC---KDKDDLNLLQEKLKK  288 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~---~~~~~~~~~~~~l~~  288 (1472)
                      ++|+.++|+.|+||||.+.+++.....  +-..+..++... .....+-++..++.++.+..   ...+..+.+.+.+++
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~--~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~   78 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKL--KGKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEK   78 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHH--TT--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhh--ccccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHH
Confidence            479999999999999998888764332  233456666532 23455666777777765421   111223333334443


Q ss_pred             hhCCCeEEEEEeCCCC
Q 000471          289 QLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       289 ~l~~k~~LlVlDdv~~  304 (1472)
                      .-..+.=+|++|=...
T Consensus        79 ~~~~~~D~vlIDT~Gr   94 (196)
T PF00448_consen   79 FRKKGYDLVLIDTAGR   94 (196)
T ss_dssp             HHHTTSSEEEEEE-SS
T ss_pred             HhhcCCCEEEEecCCc
Confidence            3222334777776643

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.02  E-value=0.048  Score=70.65  Aligned_cols=180  Identities=16%  Similarity=0.115  Sum_probs=92.3

Q ss_pred             CceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      .++.|.++.++++.+++...-.       -+-...+-+.++|++|+|||++|+++++.  ....|     +.+...    
T Consensus       178 ~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~--~~~~~-----i~i~~~----  246 (733)
T TIGR01243       178 EDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANE--AGAYF-----ISINGP----  246 (733)
T ss_pred             HHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHH--hCCeE-----EEEecH----
Confidence            3588999999998887642100       01123466889999999999999999873  22222     222211    


Q ss_pred             HHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH-----------hhHHhhcccccCC-CCCcEE
Q 000471          259 RISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY-----------IRWSELRCPFVAG-AAGSKI  326 (1472)
Q Consensus       259 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----------~~~~~l~~~l~~~-~~~s~i  326 (1472)
                      .    +....      .......+...+.......+.+|++|+++....           .....+...+... ..+..+
T Consensus       247 ~----i~~~~------~g~~~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vi  316 (733)
T TIGR01243       247 E----IMSKY------YGESEERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVI  316 (733)
T ss_pred             H----Hhccc------ccHHHHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEE
Confidence            1    11110      011122233344444456678999999854210           0111222222211 123334


Q ss_pred             EE-EcCChH-HHHhh----CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh
Q 000471          327 VV-TTRNLV-VAERM----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       327 iv-TtR~~~-v~~~~----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL  391 (1472)
                      +| ||.... +...+    .-...+.+...+.++-.+++....-+. ....+    ....++++.+.|.--
T Consensus       317 vI~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~-~l~~d----~~l~~la~~t~G~~g  382 (733)
T TIGR01243       317 VIGATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNM-PLAED----VDLDKLAEVTHGFVG  382 (733)
T ss_pred             EEeecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCC-CCccc----cCHHHHHHhCCCCCH
Confidence            44 555432 11111    113456777778888888887554221 11111    224667778877653

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.01  E-value=0.063  Score=56.67  Aligned_cols=206  Identities=16%  Similarity=0.158  Sum_probs=111.3

Q ss_pred             eeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCc----chhccCcceEEEEecCC---------
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDD----RVQRHYEIKAWTCVSED---------  254 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~----~~~~~f~~~~wv~~~~~---------  254 (1472)
                      +.++++....+......      ++..-..++|+.|.||-|.+..+.+..    -.+-+-+...|.+-+..         
T Consensus        15 l~~~~e~~~~Lksl~~~------~d~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS   88 (351)
T KOG2035|consen   15 LIYHEELANLLKSLSST------GDFPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSS   88 (351)
T ss_pred             cccHHHHHHHHHHhccc------CCCCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecc
Confidence            66777777777766532      346778899999999999876655421    11112234445443332         


Q ss_pred             -C-----------CHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeE-EEEEeCCCCCCHhhHHhhcccccCCC
Q 000471          255 -F-----------DVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKF-LLVLDDVWNENYIRWSELRCPFVAGA  321 (1472)
Q Consensus       255 -~-----------~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~~~~~~~~l~~~l~~~~  321 (1472)
                       +           .-+.+.+++++++.....     ++        .-..+.| ++|+-.++.-..+.-..++.-...-.
T Consensus        89 ~yHlEitPSDaG~~DRvViQellKevAQt~q-----ie--------~~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs  155 (351)
T KOG2035|consen   89 NYHLEITPSDAGNYDRVVIQELLKEVAQTQQ-----IE--------TQGQRPFKVVVINEADELTRDAQHALRRTMEKYS  155 (351)
T ss_pred             cceEEeChhhcCcccHHHHHHHHHHHHhhcc-----hh--------hccccceEEEEEechHhhhHHHHHHHHHHHHHHh
Confidence             1           112233333333322111     00        0012334 66676666544444444555444445


Q ss_pred             CCcEEEEEcCCh--HHHHhhCCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh-hHHHHHHh
Q 000471          322 AGSKIVVTTRNL--VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP-LAAKTLGG  398 (1472)
Q Consensus       322 ~~s~iivTtR~~--~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP-Lal~~~~~  398 (1472)
                      ..+|+|+...+.  -+...-...-.+++...+++|....+++.+-..+- .. |  .+++.+|+++++|.- .|+-++-.
T Consensus       156 ~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l-~l-p--~~~l~rIa~kS~~nLRrAllmlE~  231 (351)
T KOG2035|consen  156 SNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGL-QL-P--KELLKRIAEKSNRNLRRALLMLEA  231 (351)
T ss_pred             cCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcc-cC-c--HHHHHHHHHHhcccHHHHHHHHHH
Confidence            677887754321  11111112235789999999999999887743321 11 2  689999999998864 34433322


Q ss_pred             hhcCC-C--------ChhhHHHHHhhc
Q 000471          399 LLRGR-D--------DPRDWEFVLKTD  416 (1472)
Q Consensus       399 ~L~~~-~--------~~~~w~~~~~~~  416 (1472)
                      .-..+ +        ...+|+.+..+.
T Consensus       232 ~~~~n~~~~a~~~~i~~~dWe~~i~e~  258 (351)
T KOG2035|consen  232 VRVNNEPFTANSQVIPKPDWEIYIQEI  258 (351)
T ss_pred             HHhccccccccCCCCCCccHHHHHHHH
Confidence            21111 0        145788777653

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.00  E-value=0.075  Score=63.34  Aligned_cols=172  Identities=17%  Similarity=0.175  Sum_probs=83.9

Q ss_pred             ceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      ++=|.|+-+.+|-+...-.-.       -+-..++-|..+|++|.|||++|+++++.  .+..|     +.+...     
T Consensus       435 dIGGlE~lK~elq~~V~~p~~~pe~F~r~Gi~ppkGVLlyGPPGC~KT~lAkalAne--~~~nF-----lsvkgp-----  502 (693)
T KOG0730|consen  435 DIGGLEELKRELQQAVEWPLKHPEKFARFGISPPKGVLLYGPPGCGKTLLAKALANE--AGMNF-----LSVKGP-----  502 (693)
T ss_pred             hccCHHHHHHHHHHHHhhhhhchHHHHHhcCCCCceEEEECCCCcchHHHHHHHhhh--hcCCe-----eeccCH-----
Confidence            455566666555544322110       02345678899999999999999999983  33334     222221     


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhh-----------HHhhcccccCCCC--CcEE
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIR-----------WSELRCPFVAGAA--GSKI  326 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~-----------~~~l~~~l~~~~~--~s~i  326 (1472)
                         +++....+      .....+.+.+++.=+-.+.+|.||.++......           ...+..-+.....  +--|
T Consensus       503 ---EL~sk~vG------eSEr~ir~iF~kAR~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~V  573 (693)
T KOG0730|consen  503 ---ELFSKYVG------ESERAIREVFRKARQVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLV  573 (693)
T ss_pred             ---HHHHHhcC------chHHHHHHHHHHHhhcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEE
Confidence               11111111      122233333333333456788888775431110           1122222222222  2223


Q ss_pred             EEEcCChHHHH-h-hC---CCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHH
Q 000471          327 VVTTRNLVVAE-R-MG---ADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGE  380 (1472)
Q Consensus       327 ivTtR~~~v~~-~-~~---~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~  380 (1472)
                      |-.|..++... . +.   -+.++.++.-+.+.-.++|+.++-+.. ..+.-+++++|+
T Consensus       574 iAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~~Ilk~~~kkmp-~~~~vdl~~La~  631 (693)
T KOG0730|consen  574 IAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARLEILKQCAKKMP-FSEDVDLEELAQ  631 (693)
T ss_pred             EeccCChhhcCHHHcCCcccceeEeecCccHHHHHHHHHHHHhcCC-CCccccHHHHHH
Confidence            33344333222 1 22   345666666666666789998874432 223334454443

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.99  E-value=0.019  Score=71.10  Aligned_cols=122  Identities=15%  Similarity=0.179  Sum_probs=73.0

Q ss_pred             CceeechhHHHHHHHHHhcCCCC---CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC---cceEEEEecCCCCHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLR---GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY---EIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~---~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f---~~~~wv~~~~~~~~~~  259 (1472)
                      ..++|-+..++.+.+.+.....+   ......+...+|+.|||||-||++++..     -|   +..+-++.|+-..   
T Consensus       491 ~rViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~-----Lfg~e~aliR~DMSEy~E---  562 (786)
T COG0542         491 KRVIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEA-----LFGDEQALIRIDMSEYME---  562 (786)
T ss_pred             cceeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHH-----hcCCCccceeechHHHHH---
Confidence            46999999999999998754321   2234568888999999999999998862     23   2333333332211   


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeE-EEEEeCCCCCCHhhHHhhcccccC
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKF-LLVLDDVWNENYIRWSELRCPFVA  319 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~~~~~~~~l~~~l~~  319 (1472)
                        +.-...+-+..+. -...++ --.+-+..+.++| +|.||++...+++-.+-+..-+.+
T Consensus       563 --kHsVSrLIGaPPG-YVGyee-GG~LTEaVRr~PySViLlDEIEKAHpdV~nilLQVlDd  619 (786)
T COG0542         563 --KHSVSRLIGAPPG-YVGYEE-GGQLTEAVRRKPYSVILLDEIEKAHPDVFNLLLQVLDD  619 (786)
T ss_pred             --HHHHHHHhCCCCC-Cceecc-ccchhHhhhcCCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence              1122333332221 111111 1234444556777 889999988887766666665544

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.99  E-value=0.013  Score=65.84  Aligned_cols=86  Identities=23%  Similarity=0.174  Sum_probs=55.3

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCC----CCcccHHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC----KDKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~l  286 (1472)
                      +.-+++-|+|++|+||||||.+++..  ....-..++||+..+.+++.     .+++++.+..    ....+.++....+
T Consensus        53 p~G~iteI~Gp~GsGKTtLal~~~~~--~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~  125 (325)
T cd00983          53 PKGRIIEIYGPESSGKTTLALHAIAE--AQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIA  125 (325)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHH
Confidence            45689999999999999999998753  33445568899988877753     2333332210    0223344445555


Q ss_pred             HhhhC-CCeEEEEEeCCC
Q 000471          287 KKQLS-GNKFLLVLDDVW  303 (1472)
Q Consensus       287 ~~~l~-~k~~LlVlDdv~  303 (1472)
                      ....+ +.--+||+|-|-
T Consensus       126 ~~li~s~~~~lIVIDSva  143 (325)
T cd00983         126 DSLVRSGAVDLIVVDSVA  143 (325)
T ss_pred             HHHHhccCCCEEEEcchH
Confidence            44443 345699999974

RecA couples ATP hydrolysis to DNA strand exchange.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.99  E-value=0.026  Score=73.71  Aligned_cols=137  Identities=14%  Similarity=0.164  Sum_probs=75.4

Q ss_pred             CceeechhHHHHHHHHHhcCCC---CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..++|-+..++.+.+.+.....   .......++.++|+.|+|||+||+.+++.  .-..-...+-++.++-.+...+.+
T Consensus       509 ~~v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~--l~~~~~~~~~~d~s~~~~~~~~~~  586 (821)
T CHL00095        509 KRIIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASY--FFGSEDAMIRLDMSEYMEKHTVSK  586 (821)
T ss_pred             CcCcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHH--hcCCccceEEEEchhccccccHHH
Confidence            4689999999999888863221   01122356778999999999999999862  111112233344433222111111


Q ss_pred             HHHHhhcCCC-CCCcccHHHHHHHHHhhhCCCe-EEEEEeCCCCCCHhhHHhhcccccCC-----------CCCcEEEEE
Q 000471          263 SILNSVASDQ-CKDKDDLNLLQEKLKKQLSGNK-FLLVLDDVWNENYIRWSELRCPFVAG-----------AAGSKIVVT  329 (1472)
Q Consensus       263 ~i~~~l~~~~-~~~~~~~~~~~~~l~~~l~~k~-~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iivT  329 (1472)
                          -++.+. .........+.    +.++.++ -+++||+++..+...+..+...+..+           ...+-||+|
T Consensus       587 ----l~g~~~gyvg~~~~~~l~----~~~~~~p~~VvllDeieka~~~v~~~Llq~le~g~~~d~~g~~v~~~~~i~I~T  658 (821)
T CHL00095        587 ----LIGSPPGYVGYNEGGQLT----EAVRKKPYTVVLFDEIEKAHPDIFNLLLQILDDGRLTDSKGRTIDFKNTLIIMT  658 (821)
T ss_pred             ----hcCCCCcccCcCccchHH----HHHHhCCCeEEEECChhhCCHHHHHHHHHHhccCceecCCCcEEecCceEEEEe
Confidence                112111 10111122233    3333343 58999999888776677666655432           234556777


Q ss_pred             cCC
Q 000471          330 TRN  332 (1472)
Q Consensus       330 tR~  332 (1472)
                      |..
T Consensus       659 sn~  661 (821)
T CHL00095        659 SNL  661 (821)
T ss_pred             CCc
Confidence            764

>TIGR02012 tigrfam_recA protein RecA

Probab=95.98  E-value=0.014  Score=65.63  Aligned_cols=86  Identities=22%  Similarity=0.179  Sum_probs=55.3

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCC----CCcccHHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC----KDKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~l  286 (1472)
                      ..-+++-|+|++|+||||||.+++..  ....-..++|++..+.++..     .+++++.+..    ......++....+
T Consensus        53 p~G~iteI~G~~GsGKTtLaL~~~~~--~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~  125 (321)
T TIGR02012        53 PRGRIIEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIA  125 (321)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            45689999999999999999988763  33344567899888776653     2344433211    0223344445555


Q ss_pred             HhhhC-CCeEEEEEeCCC
Q 000471          287 KKQLS-GNKFLLVLDDVW  303 (1472)
Q Consensus       287 ~~~l~-~k~~LlVlDdv~  303 (1472)
                      ....+ +..-+||+|-|-
T Consensus       126 ~~li~~~~~~lIVIDSv~  143 (321)
T TIGR02012       126 ETLVRSGAVDIIVVDSVA  143 (321)
T ss_pred             HHHhhccCCcEEEEcchh
Confidence            54443 456699999984

This model describes orthologs of the recA protein. RecA promotes hybridization of homolgous regions of DNA. A segment of ssDNA can be hybridized to another ssDNA region, or to a dsDNA region. ATP is hydrolyzed in the process. Part of the SOS respones, it is regulated by LexA via autocatalytic cleavage.

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=95.96  E-value=0.0031  Score=39.17  Aligned_cols=21  Identities=29%  Similarity=0.539  Sum_probs=12.7

Q ss_pred             cCcEEecCCccccccchhhhh
Q 000471          623 HLRCLNLSRTRIQILPESINS  643 (1472)
Q Consensus       623 ~Lr~L~L~~~~i~~lP~~i~~  643 (1472)
                      +|++|||++|+|+.+|.+|++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            356666666666666665544

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.96  E-value=0.087  Score=68.30  Aligned_cols=179  Identities=14%  Similarity=0.129  Sum_probs=94.6

Q ss_pred             CceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      .++.|.+..++++.+.+.-.-.       .+-...+-+.++|++|.|||++|+++++..  ...|     +.+...    
T Consensus       453 ~di~g~~~~k~~l~~~v~~~~~~~~~~~~~g~~~~~giLL~GppGtGKT~lakalA~e~--~~~f-----i~v~~~----  521 (733)
T TIGR01243       453 SDIGGLEEVKQELREAVEWPLKHPEIFEKMGIRPPKGVLLFGPPGTGKTLLAKAVATES--GANF-----IAVRGP----  521 (733)
T ss_pred             hhcccHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhc--CCCE-----EEEehH----
Confidence            4578888888877776532100       011234558899999999999999999742  2222     222211    


Q ss_pred             HHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH------------hhHHhhcccccC--CCCCc
Q 000471          259 RISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY------------IRWSELRCPFVA--GAAGS  324 (1472)
Q Consensus       259 ~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~------------~~~~~l~~~l~~--~~~~s  324 (1472)
                          +++....+      .....+...+...-...+.+|++|+++....            .....+...+..  ...+-
T Consensus       522 ----~l~~~~vG------ese~~i~~~f~~A~~~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v  591 (733)
T TIGR01243       522 ----EILSKWVG------ESEKAIREIFRKARQAAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNV  591 (733)
T ss_pred             ----HHhhcccC------cHHHHHHHHHHHHHhcCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCE
Confidence                11111111      1122233333333346679999999854210            001112222221  12344


Q ss_pred             EEEEEcCChHHHHhh-----CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCCh
Q 000471          325 KIVVTTRNLVVAERM-----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       325 ~iivTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      -||.||...+.....     .-+..+.+...+.++-.++|+.+.-+. ......+    ...+++.+.|.-
T Consensus       592 ~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~~i~~~~~~~~-~~~~~~~----l~~la~~t~g~s  657 (733)
T TIGR01243       592 VVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARKEIFKIHTRSM-PLAEDVD----LEELAEMTEGYT  657 (733)
T ss_pred             EEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHHHHHHHHhcCC-CCCccCC----HHHHHHHcCCCC
Confidence            566677665433221     234567888888888888887665322 1122222    345667777654

This subfamily of the AAA family ATPases includes two members each from three archaeal species. It also includes yeast CDC48 (cell division control protein 48) and the human ortholog, transitional endoplasmic reticulum ATPase (valosin-containing protein). These proteins in eukaryotes are involved in the budding and transfer of membrane from the transitional endoplasmic reticulum to the Golgi apparatus.

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.91  E-value=0.04  Score=60.24  Aligned_cols=91  Identities=19%  Similarity=0.073  Sum_probs=54.2

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccC------cceEEEEecCCCCHHHHHHHHHHhhcCCCC--------CCc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY------EIKAWTCVSEDFDVFRISKSILNSVASDQC--------KDK  276 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f------~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~--------~~~  276 (1472)
                      ..-.++.|+|.+|+|||++|.+++...  ....      ..++|++....++...+. ++.+.......        ...
T Consensus        17 ~~g~v~~I~G~~GsGKT~l~~~ia~~~--~~~~~~~g~~~~v~yi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~   93 (226)
T cd01393          17 PTGRITEIFGEFGSGKTQLCLQLAVEA--QLPGELGGLEGKVVYIDTEGAFRPERLV-QLAVRFGLDPEEVLDNIYVARP   93 (226)
T ss_pred             cCCcEEEEeCCCCCChhHHHHHHHHHh--hcccccCCCcceEEEEecCCCCCHHHHH-HHHHHhccchhhhhccEEEEeC
Confidence            456799999999999999999987532  1222      457899988777765543 33333221100        011


Q ss_pred             ccHHHHHHHHHhhhC----CCeEEEEEeCCCC
Q 000471          277 DDLNLLQEKLKKQLS----GNKFLLVLDDVWN  304 (1472)
Q Consensus       277 ~~~~~~~~~l~~~l~----~k~~LlVlDdv~~  304 (1472)
                      .+.+++...+.+...    .+.-++|+|.+..
T Consensus        94 ~~~~~~~~~l~~~~~~~~~~~~~lvVIDsis~  125 (226)
T cd01393          94 YNGEQQLEIVEELERIMSSGRVDLVVVDSVAA  125 (226)
T ss_pred             CCHHHHHHHHHHHHHHhhcCCeeEEEEcCcch
Confidence            234444444444332    3445889998843

RecA couples ATP hydrolysis to DNA strand exchange. While prokaryotes have a single RecA protein, eukaryotes have multiple RecA homologs such as Rad51, DMC1 and Rad55/57. Archaea have the RecA-like homologs radA and radB.

>PF00158 Sigma54_activat: Sigma-54 interaction domain; InterPro: IPR002078 Some bacterial regulatory proteins activate the expression of genes from promoters recognised by core RNA polymerase associated with the alternative sigma-54 factor

Probab=95.87  E-value=0.018  Score=58.67  Aligned_cols=45  Identities=22%  Similarity=0.309  Sum_probs=32.4

Q ss_pred             eeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      +||....+.++.+.+..-.   ... .-|.|+|..|+||+.+|+.+++.
T Consensus         1 liG~s~~m~~~~~~~~~~a---~~~-~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    1 LIGESPAMKRLREQAKRAA---SSD-LPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             SS--SHHHHHHHHHHHHHT---TST-S-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CEeCCHHHHHHHHHHHHHh---CCC-CCEEEEcCCCCcHHHHHHHHHHh
Confidence            4788888888888776542   122 34669999999999999999973

These have a conserved domain of about 230 residues involved in the ATP-dependent [, ] interaction with sigma-54. About half of the proteins in which this domain is found (algB, dcdT, flbD, hoxA, hupR1, hydG, ntrC, pgtA and pilR) belong to signal transduction two-component systems [] and possess a domain that can be phosphorylated by a sensor-kinase protein in their N-terminal section. Almost all of these proteins possess a helix-turn-helix DNA-binding domain in their C-terminal section. The domain which interacts with the sigma-54 factor has an ATPase activity. This may be required to promote a conformational change necessary for the interaction []. The domain contains an atypical ATP-binding motif A (P-loop) as well as a form of motif B. The two ATP-binding motifs are located in the N-terminal section of the domain.; GO: 0005524 ATP binding, 0008134 transcription factor binding, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1NY6_K 3M0E_G 1NY5_A 1OJL_A 3DZD_B 2C9C_A 2C98_A 2C96_A 2BJV_A 2C99_A ....

>cd01394 radB RadB

Probab=95.86  E-value=0.037  Score=60.00  Aligned_cols=44  Identities=18%  Similarity=0.121  Sum_probs=32.7

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD  256 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  256 (1472)
                      ..-+++.|.|.+|+||||+|.+++..  ....-..++|++....+.
T Consensus        17 ~~g~i~~i~G~~GsGKT~l~~~~a~~--~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          17 ERGTVTQVYGPPGTGKTNIAIQLAVE--TAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHhcCCeEEEEECCCCCH
Confidence            45689999999999999999998863  223334577887665554

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>PRK09354 recA recombinase A; Provisional

Probab=95.85  E-value=0.019  Score=65.11  Aligned_cols=86  Identities=22%  Similarity=0.179  Sum_probs=56.5

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCC----CCcccHHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC----KDKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~----~~~~~~~~~~~~l  286 (1472)
                      ..-+++-|+|++|+||||||.+++..  ....-..++||+..+.++..     .+++++.+..    ......++....+
T Consensus        58 p~G~IteI~G~~GsGKTtLal~~~~~--~~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~  130 (349)
T PRK09354         58 PRGRIVEIYGPESSGKTTLALHAIAE--AQKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIA  130 (349)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHH
Confidence            45689999999999999999998763  33445678999998888763     3344433210    0223344445555


Q ss_pred             HhhhC-CCeEEEEEeCCC
Q 000471          287 KKQLS-GNKFLLVLDDVW  303 (1472)
Q Consensus       287 ~~~l~-~k~~LlVlDdv~  303 (1472)
                      ...++ +.--+||+|-|-
T Consensus       131 ~~li~s~~~~lIVIDSva  148 (349)
T PRK09354        131 DTLVRSGAVDLIVVDSVA  148 (349)
T ss_pred             HHHhhcCCCCEEEEeChh
Confidence            55443 445699999984

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=95.84  E-value=0.0058  Score=72.29  Aligned_cols=49  Identities=22%  Similarity=0.350  Sum_probs=40.2

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +++|.++.+++|++.|..........-+++.++|++|+||||||+.+.+
T Consensus        77 d~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~  125 (644)
T PRK15455         77 EFYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKS  125 (644)
T ss_pred             cccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHH
Confidence            5899999999999999433222334567999999999999999999986

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=95.83  E-value=0.0081  Score=59.51  Aligned_cols=107  Identities=14%  Similarity=0.093  Sum_probs=59.5

Q ss_pred             eechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcch-hccCcceEEEEecCCCCHHHHHHHHHHh
Q 000471          189 YGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV-QRHYEIKAWTCVSEDFDVFRISKSILNS  267 (1472)
Q Consensus       189 vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~-~~~f~~~~wv~~~~~~~~~~~~~~i~~~  267 (1472)
                      ||+-..++++.+.+..-.    .....|.|+|..|+||+++|+.++..... ...|...   .+... .           
T Consensus         1 vG~S~~~~~l~~~l~~~a----~~~~pvli~GE~GtGK~~~A~~lh~~~~~~~~~~~~~---~~~~~-~-----------   61 (138)
T PF14532_consen    1 VGKSPAMRRLRRQLERLA----KSSSPVLITGEPGTGKSLLARALHRYSGRANGPFIVI---DCASL-P-----------   61 (138)
T ss_dssp             --SCHHHHHHHHHHHHHH----CSSS-EEEECCTTSSHHHHHHCCHHTTTTCCS-CCCC---CHHCT-C-----------
T ss_pred             CCCCHHHHHHHHHHHHHh----CCCCcEEEEcCCCCCHHHHHHHHHhhcCccCCCeEEe---chhhC-c-----------
Confidence            466666777766665421    12345789999999999999988864221 1122110   11110 0           


Q ss_pred             hcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccC-CCCCcEEEEEcCC
Q 000471          268 VASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVA-GAAGSKIVVTTRN  332 (1472)
Q Consensus       268 l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~-~~~~s~iivTtR~  332 (1472)
                                     .+.+.+.   +.--|+++|++.-.......+...+.. .....|+|.||+.
T Consensus        62 ---------------~~~l~~a---~~gtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~RlI~ss~~  109 (138)
T PF14532_consen   62 ---------------AELLEQA---KGGTLYLKNIDRLSPEAQRRLLDLLKRQERSNVRLIASSSQ  109 (138)
T ss_dssp             ---------------HHHHHHC---TTSEEEEECGCCS-HHHHHHHHHHHHHCTTTTSEEEEEECC
T ss_pred             ---------------HHHHHHc---CCCEEEECChHHCCHHHHHHHHHHHHhcCCCCeEEEEEeCC
Confidence                           1111111   334577999988765555556555542 2567899999985

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=95.82  E-value=0.006  Score=58.98  Aligned_cols=21  Identities=48%  Similarity=0.605  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ||+|.|++|+||||+|+.+..
T Consensus         1 vI~I~G~~gsGKST~a~~La~   21 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAE   21 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999987

...

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=95.82  E-value=0.021  Score=62.92  Aligned_cols=56  Identities=20%  Similarity=0.157  Sum_probs=39.9

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchh----ccCcceEEEEecCCCCHHHHHHHHHHhh
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQ----RHYEIKAWTCVSEDFDVFRISKSILNSV  268 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l  268 (1472)
                      ...+.=|+|.+|+|||.|+.+++-.....    +.=..++|++....|+..++. +|++..
T Consensus        37 ~g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~   96 (256)
T PF08423_consen   37 TGSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERF   96 (256)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHT
T ss_pred             CCcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhcc
Confidence            45699999999999999998876422221    122458999999999887775 466554

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PHA02244 ATPase-like protein

Probab=95.76  E-value=0.073  Score=60.28  Aligned_cols=42  Identities=14%  Similarity=0.281  Sum_probs=29.0

Q ss_pred             ceeechhH----HHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          187 KVYGREKE----KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       187 ~~vGr~~~----~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .++|....    ...+.+++...        .-|.|+|++|+|||++|+++++.
T Consensus        97 ~~ig~sp~~~~~~~ri~r~l~~~--------~PVLL~GppGtGKTtLA~aLA~~  142 (383)
T PHA02244         97 TKIASNPTFHYETADIAKIVNAN--------IPVFLKGGAGSGKNHIAEQIAEA  142 (383)
T ss_pred             cccCCCHHHHHHHHHHHHHHhcC--------CCEEEECCCCCCHHHHHHHHHHH
Confidence            36665433    44555555332        23678999999999999999873

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=95.76  E-value=0.02  Score=62.37  Aligned_cols=89  Identities=20%  Similarity=0.277  Sum_probs=52.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCc-ceEEEEecCCC-CHHHHHHHHHHhhcCC-------CCCCcccHH---
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYE-IKAWTCVSEDF-DVFRISKSILNSVASD-------QCKDKDDLN---  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~~~---  280 (1472)
                      -.-++|+|.+|+||||||+++++.  .+.+|+ .++++-+++.. .+.++..++.+.=...       ...+.....   
T Consensus        69 GQr~~If~~~G~GKTtLa~~i~~~--i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~  146 (274)
T cd01133          69 GGKIGLFGGAGVGKTVLIMELINN--IAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARV  146 (274)
T ss_pred             CCEEEEecCCCCChhHHHHHHHHH--HHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHH
Confidence            356899999999999999999984  444454 44556666654 3455555554421110       010111111   


Q ss_pred             -HHHHHHHhhh---CCCeEEEEEeCCC
Q 000471          281 -LLQEKLKKQL---SGNKFLLVLDDVW  303 (1472)
Q Consensus       281 -~~~~~l~~~l---~~k~~LlVlDdv~  303 (1472)
                       ...-.+.+++   +++.+|+|+||+-
T Consensus       147 ~~~a~~~AEyfr~~~g~~Vl~~~Dslt  173 (274)
T cd01133         147 ALTGLTMAEYFRDEEGQDVLLFIDNIF  173 (274)
T ss_pred             HHHHHHHHHHHHHhcCCeEEEEEeChh
Confidence             1122344444   3889999999983

The F-ATPase is found in bacterial plasma membranes, mitochondrial inner membranes and in chloroplast thylakoid membranes. It has also been found in the archaea Methanosarcina barkeri. It uses a proton gradient to drive ATP synthesis and hydrolyzes ATP to build the proton gradient. The extrinisic membrane domain, F1, is composed of alpha, beta, gamma, delta and epsilon subunits with a stoichiometry of 3:3:1:1:1. The beta subunit of ATP synthase is catalytic.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=95.75  E-value=0.019  Score=59.83  Aligned_cols=36  Identities=36%  Similarity=0.557  Sum_probs=27.8

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEE
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWT  249 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv  249 (1472)
                      ...+|.+.|+.|+||||+|+.++.  +....+...+++
T Consensus         6 ~~~~I~i~G~~GsGKst~a~~l~~--~l~~~~~~~~~~   41 (176)
T PRK05541          6 NGYVIWITGLAGSGKTTIAKALYE--RLKLKYSNVIYL   41 (176)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH--HHHHcCCcEEEE
Confidence            456999999999999999999987  344455555555

>PRK06696 uridine kinase; Validated

Probab=95.74  E-value=0.012  Score=63.92  Aligned_cols=43  Identities=26%  Similarity=0.295  Sum_probs=35.4

Q ss_pred             echhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          190 GREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       190 Gr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .|++-+++|.+.+...   ..+...+|+|.|.+|+||||+|+.+..
T Consensus         2 ~~~~~~~~la~~~~~~---~~~~~~iI~I~G~sgsGKSTlA~~L~~   44 (223)
T PRK06696          2 SRKQLIKELAEHILTL---NLTRPLRVAIDGITASGKTTFADELAE   44 (223)
T ss_pred             cHHHHHHHHHHHHHHh---CCCCceEEEEECCCCCCHHHHHHHHHH
Confidence            4677788888888653   234678999999999999999999986

>CHL00195 ycf46 Ycf46; Provisional

Probab=95.72  E-value=0.047  Score=65.62  Aligned_cols=180  Identities=12%  Similarity=0.068  Sum_probs=90.0

Q ss_pred             CceeechhHHHHHHHHHhc---C-CCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLN---D-DLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~---~-~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  261 (1472)
                      .++.|.+..++.+.+....   . ..-+-...+-|.++|++|.|||.+|+++++..  ...|   +-++.+.        
T Consensus       228 ~dvgGl~~lK~~l~~~~~~~~~~~~~~gl~~pkGILL~GPpGTGKTllAkaiA~e~--~~~~---~~l~~~~--------  294 (489)
T CHL00195        228 SDIGGLDNLKDWLKKRSTSFSKQASNYGLPTPRGLLLVGIQGTGKSLTAKAIANDW--QLPL---LRLDVGK--------  294 (489)
T ss_pred             HHhcCHHHHHHHHHHHHHHhhHHHHhcCCCCCceEEEECCCCCcHHHHHHHHHHHh--CCCE---EEEEhHH--------
Confidence            3577877666655543211   0 00012345678899999999999999998732  2121   1122111        


Q ss_pred             HHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH-------h-h----HHhhcccccCCCCCcEEEEE
Q 000471          262 KSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY-------I-R----WSELRCPFVAGAAGSKIVVT  329 (1472)
Q Consensus       262 ~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-------~-~----~~~l~~~l~~~~~~s~iivT  329 (1472)
                        +.....      ......+.+.+...-...+++|++|+++..-.       . .    ...+...+.....+--||.|
T Consensus       295 --l~~~~v------Gese~~l~~~f~~A~~~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaT  366 (489)
T CHL00195        295 --LFGGIV------GESESRMRQMIRIAEALSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVAT  366 (489)
T ss_pred             --hccccc------ChHHHHHHHHHHHHHhcCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEe
Confidence              111110      11122223333333335789999999964210       0 0    01111112222334446667


Q ss_pred             cCChHH-----HHhhCCCCceeCCCCChHhHHHHHHhhhcCCCC-CCCCccHHHHHHHHHHHhCCCh
Q 000471          330 TRNLVV-----AERMGADPVYQLKELSDDDCLCVLTQISLGARD-FTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       330 tR~~~v-----~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~-~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      |...+.     .+...-+..+.++.-+.++-.++|+.+..+... .....+    ...+++.+.|.-
T Consensus       367 TN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~Il~~~l~~~~~~~~~~~d----l~~La~~T~GfS  429 (489)
T CHL00195        367 ANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKIFKIHLQKFRPKSWKKYD----IKKLSKLSNKFS  429 (489)
T ss_pred             cCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHHHHHHHhhcCCCcccccC----HHHHHhhcCCCC
Confidence            765532     111123456788888888888899887643221 111122    345666666543

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=95.72  E-value=0.014  Score=58.68  Aligned_cols=93  Identities=22%  Similarity=0.199  Sum_probs=68.5

Q ss_pred             HhccCCCCCCCCeEEEEeeCCCCCCcccCCCCcccccEEEEcCCCC---CCCCCCCCCCCccceeecCCCCceEeCcccc
Q 000471          773 VLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTS---TSLPSVGQLPFLKELRISGMDGVKSVGSEFY  849 (1472)
Q Consensus       773 ~~~~l~~~~~L~~L~l~~~~~~~~p~~~~~~~l~~L~~L~L~~~~~---~~l~~l~~l~~L~~L~L~~~~~l~~i~~~~~  849 (1472)
                      ..+.|..++.|..|.+.+|.++.+..-+.. .+++|..|.|.+|.+   .++.++..+|.|++|.+-+|+.-..-....+
T Consensus        56 ~l~~lp~l~rL~tLll~nNrIt~I~p~L~~-~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~Npv~~k~~YR~y  134 (233)
T KOG1644|consen   56 KLDNLPHLPRLHTLLLNNNRITRIDPDLDT-FLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLGNPVEHKKNYRLY  134 (233)
T ss_pred             hcccCCCccccceEEecCCcceeeccchhh-hccccceEEecCcchhhhhhcchhccCCccceeeecCCchhcccCceeE
Confidence            456677788999999999999988776653 578999999999998   5667788999999999988764332221111


Q ss_pred             CCCCCCCCCCccEEeccCcc
Q 000471          850 GNSRSVPFPSLETLSFFDMR  869 (1472)
Q Consensus       850 ~~~~~~~fp~L~~L~l~~~~  869 (1472)
                      -   ...+|+|+.|++.+..
T Consensus       135 v---l~klp~l~~LDF~kVt  151 (233)
T KOG1644|consen  135 V---LYKLPSLRTLDFQKVT  151 (233)
T ss_pred             E---EEecCcceEeehhhhh
Confidence            1   1237777777777654

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.70  E-value=0.14  Score=63.27  Aligned_cols=182  Identities=14%  Similarity=0.102  Sum_probs=99.5

Q ss_pred             CceeechhHH---HHHHHHHhcCCC---CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          186 AKVYGREKEK---EEIIELLLNDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~---~~l~~~L~~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .++.|-|+.+   +++++.|..++.   -+..-++=|.++|++|.|||-||++++-...+       =|++++..     
T Consensus       311 kDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGEAgV-------PF~svSGS-----  378 (774)
T KOG0731|consen  311 KDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGEAGV-------PFFSVSGS-----  378 (774)
T ss_pred             ccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcccCC-------ceeeechH-----
Confidence            4688887655   555566654321   12234677889999999999999999985433       23445443     


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH---------------hhHHhhcccccCCCCCc
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY---------------IRWSELRCPFVAGAAGS  324 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~---------------~~~~~l~~~l~~~~~~s  324 (1472)
                         +.++-+.+..      .....+.+...=...+..|.+|+++....               ..+.++..-+.....+.
T Consensus       379 ---EFvE~~~g~~------asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~  449 (774)
T KOG0731|consen  379 ---EFVEMFVGVG------ASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSK  449 (774)
T ss_pred             ---HHHHHhcccc------hHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCC
Confidence               2222222211      11112222222235678888888754311               11222222222222222


Q ss_pred             --EEEEEcCChHHHHhh-----CCCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhH
Q 000471          325 --KIVVTTRNLVVAERM-----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLA  392 (1472)
Q Consensus       325 --~iivTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLa  392 (1472)
                        -+|-+|+..++....     .-+..+.++.-+...-.++|..++-.....   .+..++++ |+...-|.+=|
T Consensus       450 ~vi~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~---~e~~dl~~-~a~~t~gf~ga  520 (774)
T KOG0731|consen  450 GVIVLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLD---DEDVDLSK-LASLTPGFSGA  520 (774)
T ss_pred             cEEEEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCC---cchhhHHH-HHhcCCCCcHH
Confidence              333456665544321     223567788888888888998887433221   23355666 88888887744

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=95.63  E-value=0.019  Score=64.26  Aligned_cols=26  Identities=27%  Similarity=0.368  Sum_probs=23.8

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ..++.++|||++|.|||.+|+++++.
T Consensus       146 k~PlgllL~GPPGcGKTllAraiA~e  171 (413)
T PLN00020        146 KVPLILGIWGGKGQGKSFQCELVFKK  171 (413)
T ss_pred             CCCeEEEeeCCCCCCHHHHHHHHHHH
Confidence            46789999999999999999999984

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.62  E-value=0.024  Score=67.73  Aligned_cols=77  Identities=22%  Similarity=0.277  Sum_probs=53.5

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      +..++..++|++|+||||||..|+++.-    | .++=|++|+.-+...+-..|...+......+              -
T Consensus       324 P~kKilLL~GppGlGKTTLAHViAkqaG----Y-sVvEINASDeRt~~~v~~kI~~avq~~s~l~--------------a  384 (877)
T KOG1969|consen  324 PPKKILLLCGPPGLGKTTLAHVIAKQAG----Y-SVVEINASDERTAPMVKEKIENAVQNHSVLD--------------A  384 (877)
T ss_pred             CccceEEeecCCCCChhHHHHHHHHhcC----c-eEEEecccccccHHHHHHHHHHHHhhccccc--------------c
Confidence            4568999999999999999999987432    2 3556777777776666666655554332200              0


Q ss_pred             CCCeEEEEEeCCCCCC
Q 000471          291 SGNKFLLVLDDVWNEN  306 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~~~  306 (1472)
                      .+++.-+|+|.++-..
T Consensus       385 dsrP~CLViDEIDGa~  400 (877)
T KOG1969|consen  385 DSRPVCLVIDEIDGAP  400 (877)
T ss_pred             CCCcceEEEecccCCc
Confidence            2678889999997764

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.62  E-value=0.26  Score=58.07  Aligned_cols=155  Identities=16%  Similarity=0.264  Sum_probs=88.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      +.-|.+||++|.|||-||++|+|.  .+..|     +++-+.        +++...-+      .....+...+.+.-..
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANE--ag~NF-----isVKGP--------ELlNkYVG------ESErAVR~vFqRAR~s  603 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANE--AGANF-----ISVKGP--------ELLNKYVG------ESERAVRQVFQRARAS  603 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhh--ccCce-----EeecCH--------HHHHHHhh------hHHHHHHHHHHHhhcC
Confidence            456789999999999999999994  33344     344332        22222111      2223333444444457


Q ss_pred             CeEEEEEeCCCCCCH-----hh------HHhhcccccC--CCCCcEEEEEcCChHHHHhh--C---CCCceeCCCCChHh
Q 000471          293 NKFLLVLDDVWNENY-----IR------WSELRCPFVA--GAAGSKIVVTTRNLVVAERM--G---ADPVYQLKELSDDD  354 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~-----~~------~~~l~~~l~~--~~~~s~iivTtR~~~v~~~~--~---~~~~~~l~~L~~~~  354 (1472)
                      .+++|.||.++..-.     ..      ..++..-+..  ...|--||-.|..+++....  .   -+...-+..-+.+|
T Consensus       604 aPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~e  683 (802)
T KOG0733|consen  604 APCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEE  683 (802)
T ss_pred             CCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHH
Confidence            799999999855211     11      1122222221  23566778777777654321  2   23456677778888


Q ss_pred             HHHHHHhhhcCCCC-CCCCccHHHHHHHHHHHhCCCh
Q 000471          355 CLCVLTQISLGARD-FTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       355 ~~~lf~~~a~~~~~-~~~~~~~~~~~~~i~~~~~glP  390 (1472)
                      -.++++...-.... ...+-++.++|+.  .+|.|.-
T Consensus       684 R~~ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  684 RVAILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             HHHHHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            88888887742111 2334466666654  4566654

>PRK13695 putative NTPase; Provisional

Probab=95.56  E-value=0.022  Score=59.17  Aligned_cols=22  Identities=45%  Similarity=0.498  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -++|+|.+|+|||||++.+++.
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~   23 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAEL   23 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999998864

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=95.56  E-value=0.0055  Score=60.94  Aligned_cols=85  Identities=21%  Similarity=0.067  Sum_probs=45.2

Q ss_pred             EEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeE
Q 000471          216 ISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKF  295 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~  295 (1472)
                      |.++|++|+|||+||+.+++.  ..   ....-+.++...+..++....--. ...   .......+...+     .+..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~--~~---~~~~~i~~~~~~~~~dl~g~~~~~-~~~---~~~~~~~l~~a~-----~~~~   67 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAAL--LG---RPVIRINCSSDTTEEDLIGSYDPS-NGQ---FEFKDGPLVRAM-----RKGG   67 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHH--HT---CEEEEEE-TTTSTHHHHHCEEET--TTT---TCEEE-CCCTTH-----HEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHH--hh---cceEEEEeccccccccceeeeeec-ccc---cccccccccccc-----ccee
Confidence            679999999999999999863  21   122346677777766554332111 000   000000000001     1789


Q ss_pred             EEEEeCCCCCCHhhHHhhc
Q 000471          296 LLVLDDVWNENYIRWSELR  314 (1472)
Q Consensus       296 LlVlDdv~~~~~~~~~~l~  314 (1472)
                      ++|||++......-+..+.
T Consensus        68 il~lDEin~a~~~v~~~L~   86 (139)
T PF07728_consen   68 ILVLDEINRAPPEVLESLL   86 (139)
T ss_dssp             EEEESSCGG--HHHHHTTH
T ss_pred             EEEECCcccCCHHHHHHHH
Confidence            9999999866544444443

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.55  E-value=0.0014  Score=68.45  Aligned_cols=105  Identities=20%  Similarity=0.270  Sum_probs=67.4

Q ss_pred             cCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhh--hhhcccCCCce
Q 000471          596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLC--KDMGNLRKLHH  673 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp--~~i~~L~~L~~  673 (1472)
                      .+.+.+.|++-|| .+..+ .-+.+|+.|++|.||-|.|+.| ..+..+++|+.|.|+.| .+..+.  .-+.+|++||.
T Consensus        17 dl~~vkKLNcwg~-~L~DI-sic~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN-~I~sldEL~YLknlpsLr~   92 (388)
T KOG2123|consen   17 DLENVKKLNCWGC-GLDDI-SICEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKN-CIESLDELEYLKNLPSLRT   92 (388)
T ss_pred             HHHHhhhhcccCC-CccHH-HHHHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhc-ccccHHHHHHHhcCchhhh
Confidence            3455666777777 66666 2345677777777777777777 45677777777777763 344432  23667888888


Q ss_pred             eecCCCCCcccCCCc-----ccccccccccCceEec
Q 000471          674 LRNSTANSLKEMPKG-----FGKLTSLLTLGRFVVG  704 (1472)
Q Consensus       674 L~l~~~~~~~~~p~~-----i~~L~~L~~L~~~~~~  704 (1472)
                      |.+..|.-...-+..     +.-|++|++|+...+.
T Consensus        93 LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLDnv~Vt  128 (388)
T KOG2123|consen   93 LWLDENPCCGEAGQNYRRKVLRVLPNLKKLDNVPVT  128 (388)
T ss_pred             HhhccCCcccccchhHHHHHHHHcccchhccCcccc
Confidence            888777644444432     5567777777654443

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.53  E-value=0.035  Score=62.91  Aligned_cols=59  Identities=19%  Similarity=0.186  Sum_probs=42.3

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchh----ccCcceEEEEecCCCCHHHHHHHHHHhhcC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQ----RHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  270 (1472)
                      ..-+++-|+|++|+|||+++.+++-.....    ..=..++||+..+.|+++++.+ +++.++.
T Consensus        94 ~~G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~~-~a~~~g~  156 (313)
T TIGR02238        94 ESMSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIRA-IAERFGV  156 (313)
T ss_pred             cCCeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            456899999999999999998876321111    1124689999999998887754 5565544

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=95.51  E-value=0.038  Score=60.67  Aligned_cols=81  Identities=23%  Similarity=0.222  Sum_probs=48.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      ..-+.++|.+|+|||.||.++.++.-  ..--.+.+++      ..+++.++.......     .    ....+.+.+ .
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~--~~g~sv~f~~------~~el~~~Lk~~~~~~-----~----~~~~l~~~l-~  166 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELL--KAGISVLFIT------APDLLSKLKAAFDEG-----R----LEEKLLREL-K  166 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHH--HcCCeEEEEE------HHHHHHHHHHHHhcC-----c----hHHHHHHHh-h
Confidence            34688999999999999999998543  2222344553      445555555544431     1    112222222 1


Q ss_pred             CeEEEEEeCCCCCCHhhHH
Q 000471          293 NKFLLVLDDVWNENYIRWS  311 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~~~~~  311 (1472)
                      +-=||||||+.......|.
T Consensus       167 ~~dlLIiDDlG~~~~~~~~  185 (254)
T COG1484         167 KVDLLIIDDIGYEPFSQEE  185 (254)
T ss_pred             cCCEEEEecccCccCCHHH
Confidence            2248999999776544444

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.50  E-value=0.062  Score=58.94  Aligned_cols=93  Identities=24%  Similarity=0.161  Sum_probs=60.3

Q ss_pred             CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHh-h---cCCCCCCcccHHHHHH
Q 000471          209 GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNS-V---ASDQCKDKDDLNLLQE  284 (1472)
Q Consensus       209 ~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~-l---~~~~~~~~~~~~~~~~  284 (1472)
                      +-+..+++=|+|+.|.||||+|.+++-  ..+..-..++|++....+++..+.. +... +   ............++.+
T Consensus        56 Gl~~g~ItEiyG~~gsGKT~lal~~~~--~aq~~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~  132 (279)
T COG0468          56 GLPRGRITEIYGPESSGKTTLALQLVA--NAQKPGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAE  132 (279)
T ss_pred             CcccceEEEEecCCCcchhhHHHHHHH--HhhcCCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHH
Confidence            345678999999999999999998875  3444445789999999999876543 3333 2   2122212223333444


Q ss_pred             HHHhhhCCCeEEEEEeCCCC
Q 000471          285 KLKKQLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       285 ~l~~~l~~k~~LlVlDdv~~  304 (1472)
                      .+.+....+--|+|+|-+-.
T Consensus       133 ~~~~~~~~~i~LvVVDSvaa  152 (279)
T COG0468         133 KLARSGAEKIDLLVVDSVAA  152 (279)
T ss_pred             HHHHhccCCCCEEEEecCcc
Confidence            44444444456999998843

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=95.49  E-value=0.043  Score=61.64  Aligned_cols=88  Identities=19%  Similarity=0.119  Sum_probs=46.0

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC-CHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF-DVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      ..++++|+|++|+||||++..++.....+..-..+..|+..... ...+.+....+.++.+.. ...+...+...+.+. 
T Consensus       193 ~~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D~~r~~a~eql~~~~~~~~~p~~-~~~~~~~l~~~l~~~-  270 (282)
T TIGR03499       193 QGGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTDTYRIGAVEQLKTYAKILGVPVK-VARDPKELRKALDRL-  270 (282)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECCccchhHHHHHHHHHHHhCCcee-ccCCHHHHHHHHHHc-
Confidence            46799999999999999999887633222111234555543211 122223333333333221 223334444444443 


Q ss_pred             CCCeEEEEEeCC
Q 000471          291 SGNKFLLVLDDV  302 (1472)
Q Consensus       291 ~~k~~LlVlDdv  302 (1472)
                      .+ .=+|++|..
T Consensus       271 ~~-~d~vliDt~  281 (282)
T TIGR03499       271 RD-KDLILIDTA  281 (282)
T ss_pred             cC-CCEEEEeCC
Confidence            33 347777754

>PRK06762 hypothetical protein; Provisional

Probab=95.46  E-value=0.099  Score=53.80  Aligned_cols=23  Identities=39%  Similarity=0.564  Sum_probs=21.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ..+|.|.|++|+||||+|+.+..
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~   24 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQE   24 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999986

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=95.46  E-value=0.31  Score=50.67  Aligned_cols=49  Identities=22%  Similarity=0.270  Sum_probs=37.4

Q ss_pred             ceeechhHHHHHHHHHhcCCCC-------CCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          187 KVYGREKEKEEIIELLLNDDLR-------GDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~-------~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ++-|-++.++++++.+.-.-..       +-..++-|..+|++|.|||-+|++.+.
T Consensus       172 DiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAa  227 (424)
T KOG0652|consen  172 DIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAA  227 (424)
T ss_pred             ccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHH
Confidence            5778999999999887532210       223456788999999999999999876

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.45  E-value=0.049  Score=69.19  Aligned_cols=120  Identities=18%  Similarity=0.131  Sum_probs=67.3

Q ss_pred             CceeechhHHHHHHHHHhcCCCC---CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLR---GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~---~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..++|-++.++.+.+.+.....+   .......+.++|+.|+|||++|+.++...  .   ...+.+++++-.....   
T Consensus       458 ~~ViGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l--~---~~~i~id~se~~~~~~---  529 (758)
T PRK11034        458 MLVFGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--G---IELLRFDMSEYMERHT---  529 (758)
T ss_pred             ceEeCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHh--C---CCcEEeechhhccccc---
Confidence            35899999999999988632110   11234578899999999999999998632  1   2234445443222111   


Q ss_pred             HHHHhhcCCCCC--CcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhccccc
Q 000471          263 SILNSVASDQCK--DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFV  318 (1472)
Q Consensus       263 ~i~~~l~~~~~~--~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~  318 (1472)
                        ...+.+....  .......+.+.+++   ...-+|+||+++..+..-+..+...+.
T Consensus       530 --~~~LiG~~~gyvg~~~~g~L~~~v~~---~p~sVlllDEieka~~~v~~~LLq~ld  582 (758)
T PRK11034        530 --VSRLIGAPPGYVGFDQGGLLTDAVIK---HPHAVLLLDEIEKAHPDVFNLLLQVMD  582 (758)
T ss_pred             --HHHHcCCCCCcccccccchHHHHHHh---CCCcEEEeccHhhhhHHHHHHHHHHHh
Confidence              1222221110  01111122222222   234699999998877666666655443

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=95.44  E-value=0.089  Score=54.14  Aligned_cols=123  Identities=19%  Similarity=0.216  Sum_probs=63.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCc---chhcc---Cc--ceEEEEecCCCCHHHHHHHHHHhhcCCCC---CC---ccc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDD---RVQRH---YE--IKAWTCVSEDFDVFRISKSILNSVASDQC---KD---KDD  278 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~---~~~~~---f~--~~~wv~~~~~~~~~~~~~~i~~~l~~~~~---~~---~~~  278 (1472)
                      -.+++|+|+.|.|||||.+.+..+.   ++...   |.  ...|+  .+        .+.++.++....   ..   ...
T Consensus        21 G~~~~l~G~nG~GKSTLl~~il~~~G~v~~~~~~~~~~~~~~~~~--~q--------~~~l~~~~L~~~~~~~~~~~LSg   90 (176)
T cd03238          21 NVLVVVTGVSGSGKSTLVNEGLYASGKARLISFLPKFSRNKLIFI--DQ--------LQFLIDVGLGYLTLGQKLSTLSG   90 (176)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhhcCCcEEECCcccccccccEEEE--hH--------HHHHHHcCCCccccCCCcCcCCH
Confidence            3589999999999999999886321   11111   10  12232  11        345555554321   01   111


Q ss_pred             HHHHHHHHHhhhCCC--eEEEEEeCCCCC-CHhhHHhhcccccCC-CCCcEEEEEcCChHHHHhhCCCCceeC
Q 000471          279 LNLLQEKLKKQLSGN--KFLLVLDDVWNE-NYIRWSELRCPFVAG-AAGSKIVVTTRNLVVAERMGADPVYQL  347 (1472)
Q Consensus       279 ~~~~~~~l~~~l~~k--~~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~~s~iivTtR~~~v~~~~~~~~~~~l  347 (1472)
                      -+...-.+.+.+-.+  +-++++|+.-.. +....+.+...+... ..|..||++|.+.+....  ++.++.+
T Consensus        91 Gq~qrl~laral~~~~~p~llLlDEPt~~LD~~~~~~l~~~l~~~~~~g~tvIivSH~~~~~~~--~d~i~~l  161 (176)
T cd03238          91 GELQRVKLASELFSEPPGTLFILDEPSTGLHQQDINQLLEVIKGLIDLGNTVILIEHNLDVLSS--ADWIIDF  161 (176)
T ss_pred             HHHHHHHHHHHHhhCCCCCEEEEeCCcccCCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHHh--CCEEEEE
Confidence            122223344455556  678888987442 222223333322221 246678888888776542  4444444

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.42  E-value=0.057  Score=62.10  Aligned_cols=58  Identities=16%  Similarity=0.190  Sum_probs=41.1

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhc----cCcceEEEEecCCCCHHHHHHHHHHhhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQR----HYEIKAWTCVSEDFDVFRISKSILNSVA  269 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~  269 (1472)
                      ....++-|+|++|+|||++|.+++.......    .=..++||+..+.+++.++.+ +++.++
T Consensus       100 ~~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g  161 (317)
T PRK04301        100 ETQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALG  161 (317)
T ss_pred             cCCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcC
Confidence            3467999999999999999999875322111    114789999999888877654 344443

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=95.40  E-value=0.72  Score=51.86  Aligned_cols=153  Identities=12%  Similarity=0.042  Sum_probs=88.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcc--------hhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDR--------VQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQE  284 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~--------~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~  284 (1472)
                      ..+..++|..|.||+++|+.+.+..-        ...|-+...+++..+                     .....+++.+
T Consensus        18 ~haYLf~G~eg~gk~~~a~~~a~~l~c~~~~~~~~~~~p~n~~~~d~~g---------------------~~i~vd~Ir~   76 (299)
T PRK07132         18 SHSFLLKSNYNEDIDEKILYFLNKFNNLQITNLNEQELPANIILFDIFD---------------------KDLSKSEFLS   76 (299)
T ss_pred             CeEEEEeCCCCCCHHHHHHHHHHHHcCcCCCCCCCCCCCcceEEeccCC---------------------CcCCHHHHHH
Confidence            45677999999999999998876320        011111222222111                     1112222222


Q ss_pred             HHHhh----h-CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCC-hHHHHh-hCCCCceeCCCCChHhHHH
Q 000471          285 KLKKQ----L-SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN-LVVAER-MGADPVYQLKELSDDDCLC  357 (1472)
Q Consensus       285 ~l~~~----l-~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~-~~v~~~-~~~~~~~~l~~L~~~~~~~  357 (1472)
                      ...+.    . .+++-++|+||+..........+...+.....++.+|++|.. ..+... .....++++.++++++..+
T Consensus        77 l~~~~~~~~~~~~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~SRc~~~~f~~l~~~~l~~  156 (299)
T PRK07132         77 AINKLYFSSFVQSQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIVSRCQVFNVKEPDQQKILA  156 (299)
T ss_pred             HHHHhccCCcccCCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHHhCeEEEECCCCCHHHHHH
Confidence            22211    1 147788999999777665666677766666667777765544 333332 2345678999999999987


Q ss_pred             HHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHH
Q 000471          358 VLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       358 lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~  396 (1472)
                      .+...  + .   +    ++.+..++...+|.=-|+..+
T Consensus       157 ~l~~~--~-~---~----~~~a~~~a~~~~~~~~a~~~~  185 (299)
T PRK07132        157 KLLSK--N-K---E----KEYNWFYAYIFSNFEQAEKYI  185 (299)
T ss_pred             HHHHc--C-C---C----hhHHHHHHHHcCCHHHHHHHH
Confidence            77653  1 1   1    244666777777633455553

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.40  E-value=0.011  Score=62.12  Aligned_cols=82  Identities=16%  Similarity=0.205  Sum_probs=36.4

Q ss_pred             CCCcccEeeecCCCCCccCCCCCCCCCcceeEeccc--cCCCCCCccccccccccceeeeccCCCC-CCCCCCC--Cccc
Q 000471         1311 NLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGL--KISKPLPEWGFNRFTSLRRFTICGGCPD-LVSPPPF--PASL 1385 (1472)
Q Consensus      1311 ~l~~L~~L~L~~n~~l~~~p~~~~~~~L~~L~l~~n--~~~~~~~~~~l~~l~~L~~L~Ls~n~~~-~~~~~~~--~~~L 1385 (1472)
                      .+..|+.|++.++ .++++.....+++|+.|.++.|  .+.+.++. ...++++|++|++|+|.+. ..++...  +.+|
T Consensus        41 ~~~~le~ls~~n~-gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~v-l~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL  118 (260)
T KOG2739|consen   41 EFVELELLSVINV-GLTTLTNFPKLPKLKKLELSDNYRRVSGGLEV-LAEKAPNLKVLNLSGNKIKDLSTLRPLKELENL  118 (260)
T ss_pred             cccchhhhhhhcc-ceeecccCCCcchhhhhcccCCccccccccee-hhhhCCceeEEeecCCccccccccchhhhhcch
Confidence            3334444444444 2333333334455555555555  33333332 3344456666666555544 2222221  3345


Q ss_pred             cceeccCCC
Q 000471         1386 TNLWISDMP 1394 (1472)
Q Consensus      1386 ~~L~l~~~~ 1394 (1472)
                      ..|++.+|+
T Consensus       119 ~~Ldl~n~~  127 (260)
T KOG2739|consen  119 KSLDLFNCS  127 (260)
T ss_pred             hhhhcccCC
Confidence            555555553

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.39  E-value=0.042  Score=62.68  Aligned_cols=59  Identities=19%  Similarity=0.107  Sum_probs=42.6

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcch----hccCcceEEEEecCCCCHHHHHHHHHHhhcC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRV----QRHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  270 (1472)
                      ...+++-|+|.+|+|||+|+.+++-....    .+.-..++||+..+.|++.++.+ +++.++.
T Consensus       124 ~~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~  186 (344)
T PLN03187        124 ETRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGM  186 (344)
T ss_pred             CCCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCC
Confidence            45689999999999999999888632111    11224689999999999887655 5555544

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.36  E-value=0.025  Score=67.31  Aligned_cols=73  Identities=23%  Similarity=0.209  Sum_probs=47.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC--CHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF--DVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      ..-|.|.|+.|+|||+||+++++... +.+.-.+.+|+++.--  ..+.+++.                  +...+.+.+
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~-k~~~~hv~~v~Cs~l~~~~~e~iQk~------------------l~~vfse~~  491 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYS-KDLIAHVEIVSCSTLDGSSLEKIQKF------------------LNNVFSEAL  491 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhc-cccceEEEEEechhccchhHHHHHHH------------------HHHHHHHHH
Confidence            35688999999999999999998543 4455556667765431  11122111                  112233445


Q ss_pred             CCCeEEEEEeCCCC
Q 000471          291 SGNKFLLVLDDVWN  304 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~  304 (1472)
                      ...+-+|||||++-
T Consensus       492 ~~~PSiIvLDdld~  505 (952)
T KOG0735|consen  492 WYAPSIIVLDDLDC  505 (952)
T ss_pred             hhCCcEEEEcchhh
Confidence            56789999999943

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.34  E-value=0.097  Score=56.16  Aligned_cols=123  Identities=18%  Similarity=0.192  Sum_probs=69.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcc-----hh------ccC---cceEEEEecCCCC------H----------------
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDR-----VQ------RHY---EIKAWTCVSEDFD------V----------------  257 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~-----~~------~~f---~~~~wv~~~~~~~------~----------------  257 (1472)
                      .+++|+|+.|.|||||.+.+..-.+     +.      ..+   ..+.||.-...++      +                
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G~i~~~g~~~~~~~~~~~IgYVPQ~~~~d~~fP~tV~d~V~~g~~~~~g~~~  110 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGLLKPSSGEIKIFGKPVRKRRKRLRIGYVPQKSSVDRSFPITVKDVVLLGRYGKKGWFR  110 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcCCcceEEEccccccccccCCeEEEcCcccccCCCCCcCHHHHHHccCcccccccc
Confidence            6899999999999999999986211     00      001   2345554221111      1                


Q ss_pred             ------HHHHHHHHHhhcCCCCC-----CcccHHHHHHHHHhhhCCCeEEEEEeCC----CCCCHhhHHhhcccccCCCC
Q 000471          258 ------FRISKSILNSVASDQCK-----DKDDLNLLQEKLKKQLSGNKFLLVLDDV----WNENYIRWSELRCPFVAGAA  322 (1472)
Q Consensus       258 ------~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~l~~~l~~k~~LlVlDdv----~~~~~~~~~~l~~~l~~~~~  322 (1472)
                            .+...+.++.++.....     +-..-+...-.+.+.|..++=|+|||.-    +........++...+...  
T Consensus       111 ~~~~~d~~~v~~aL~~Vgm~~~~~r~i~~LSGGQ~QRV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~~e--  188 (254)
T COG1121         111 RLNKKDKEKVDEALERVGMEDLRDRQIGELSGGQKQRVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELRQE--  188 (254)
T ss_pred             cccHHHHHHHHHHHHHcCchhhhCCcccccCcHHHHHHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHHHC--
Confidence                  13344445544433211     1112233334567778888999999974    222233344444444433  


Q ss_pred             CcEEEEEcCChHHHHh
Q 000471          323 GSKIVVTTRNLVVAER  338 (1472)
Q Consensus       323 ~s~iivTtR~~~v~~~  338 (1472)
                      |..||++|-+-.....
T Consensus       189 g~tIl~vtHDL~~v~~  204 (254)
T COG1121         189 GKTVLMVTHDLGLVMA  204 (254)
T ss_pred             CCEEEEEeCCcHHhHh
Confidence            8889999988765443

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.32  E-value=0.052  Score=62.42  Aligned_cols=98  Identities=21%  Similarity=0.297  Sum_probs=58.2

Q ss_pred             Cceeechh---HHHHHHHHHhcCCC---CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          186 AKVYGREK---EKEEIIELLLNDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~---~~~~l~~~L~~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .++-|-|+   |+++|+++|.++..   -+..=++-|.++|++|.|||-||++|+....+-      +|...+..|+   
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGEA~VP------FF~~sGSEFd---  374 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGEAGVP------FFYASGSEFD---  374 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcccCCC------eEeccccchh---
Confidence            35677764   56788888866432   022335678899999999999999999754332      2333333333   


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCC
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~  304 (1472)
                         +++-.         .....+.+.+...-+.-+++|.+|.++.
T Consensus       375 ---Em~VG---------vGArRVRdLF~aAk~~APcIIFIDEiDa  407 (752)
T KOG0734|consen  375 ---EMFVG---------VGARRVRDLFAAAKARAPCIIFIDEIDA  407 (752)
T ss_pred             ---hhhhc---------ccHHHHHHHHHHHHhcCCeEEEEechhh
Confidence               11111         1112223333333345689999999855

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

Probab=95.31  E-value=0.076  Score=58.52  Aligned_cols=132  Identities=24%  Similarity=0.284  Sum_probs=72.6

Q ss_pred             eechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC-cchhccCcceEE----EEecCCCC-----HH
Q 000471          189 YGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND-DRVQRHYEIKAW----TCVSEDFD-----VF  258 (1472)
Q Consensus       189 vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~-~~~~~~f~~~~w----v~~~~~~~-----~~  258 (1472)
                      -+|..+-.--+++|..+      .+..|.+.|.+|.|||.||-+..=. ...++.|..++-    |.++++..     .+
T Consensus       227 ~prn~eQ~~ALdlLld~------dI~lV~L~G~AGtGKTlLALaAgleqv~e~~~y~KiiVtRp~vpvG~dIGfLPG~eE  300 (436)
T COG1875         227 RPRNAEQRVALDLLLDD------DIDLVSLGGKAGTGKTLLALAAGLEQVLERKRYRKIIVTRPTVPVGEDIGFLPGTEE  300 (436)
T ss_pred             CcccHHHHHHHHHhcCC------CCCeEEeeccCCccHhHHHHHHHHHHHHHHhhhceEEEecCCcCcccccCcCCCchh
Confidence            34666666677778554      5789999999999999998655421 122344443321    33443321     11


Q ss_pred             ----HHHHHHH---HhhcCCCCCCcccHHHHHHHH---------HhhhCCC---eEEEEEeCCCCCCHhhHHhhcccccC
Q 000471          259 ----RISKSIL---NSVASDQCKDKDDLNLLQEKL---------KKQLSGN---KFLLVLDDVWNENYIRWSELRCPFVA  319 (1472)
Q Consensus       259 ----~~~~~i~---~~l~~~~~~~~~~~~~~~~~l---------~~~l~~k---~~LlVlDdv~~~~~~~~~~l~~~l~~  319 (1472)
                          -..+.|.   +.+.....   .....+...+         ..+.+++   +-+||+|.+.+-...+...+..   .
T Consensus       301 eKm~PWmq~i~DnLE~L~~~~~---~~~~~l~~~l~~~~iev~alt~IRGRSl~~~FiIIDEaQNLTpheikTilt---R  374 (436)
T COG1875         301 EKMGPWMQAIFDNLEVLFSPNE---PGDRALEEILSRGRIEVEALTYIRGRSLPDSFIIIDEAQNLTPHELKTILT---R  374 (436)
T ss_pred             hhccchHHHHHhHHHHHhcccc---cchHHHHHHHhccceeeeeeeeecccccccceEEEehhhccCHHHHHHHHH---h
Confidence                1122222   22222211   1111121111         1223444   4699999998876666555544   4


Q ss_pred             CCCCcEEEEEcCC
Q 000471          320 GAAGSKIVVTTRN  332 (1472)
Q Consensus       320 ~~~~s~iivTtR~  332 (1472)
                      .+.||||+.|---
T Consensus       375 ~G~GsKIVl~gd~  387 (436)
T COG1875         375 AGEGSKIVLTGDP  387 (436)
T ss_pred             ccCCCEEEEcCCH
Confidence            5789999998753

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=95.29  E-value=0.06  Score=56.14  Aligned_cols=126  Identities=18%  Similarity=0.141  Sum_probs=61.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcC--CC------------CCCcccH
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS--DQ------------CKDKDDL  279 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~--~~------------~~~~~~~  279 (1472)
                      .+++|+|+.|.|||||++.+..-..   .....+++.-.   +.......+-..+..  +.            ......-
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~g~---~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~i~~~LS~G  102 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGDLK---PQQGEITLDGV---PVSDLEKALSSLISVLNQRPYLFDTTLRNNLGRRFSGG  102 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhccCC---CCCCEEEECCE---EHHHHHHHHHhhEEEEccCCeeecccHHHhhcccCCHH
Confidence            5899999999999999999986422   11223332211   111110111111110  00            0001111


Q ss_pred             HHHHHHHHhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCCCCCcEEEEEcCChHHHHhhCCCCceeC
Q 000471          280 NLLQEKLKKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQL  347 (1472)
Q Consensus       280 ~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~~~~~~l  347 (1472)
                      +...-.+.+.+-.++-++++|+.... +....+.+...+.....+..||++|.+......  .+.++.+
T Consensus       103 ~~qrv~laral~~~p~~lllDEP~~~LD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  169 (178)
T cd03247         103 ERQRLALARILLQDAPIVLLDEPTVGLDPITERQLLSLIFEVLKDKTLIWITHHLTGIEH--MDKILFL  169 (178)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence            22223345556677788999998543 212222222222222236678888888776643  3444433

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.26  E-value=0.065  Score=55.08  Aligned_cols=40  Identities=25%  Similarity=0.263  Sum_probs=29.3

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD  256 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  256 (1472)
                      ++.|+|++|+||||+|+.+....  ...-..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~--~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNI--ATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHH--HhcCCEEEEEECCcchH
Confidence            36899999999999999998732  22334577777765543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=95.25  E-value=0.062  Score=61.14  Aligned_cols=58  Identities=17%  Similarity=0.081  Sum_probs=40.1

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhc----cCcceEEEEecCCCCHHHHHHHHHHhhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQR----HYEIKAWTCVSEDFDVFRISKSILNSVA  269 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~~~i~~~l~  269 (1472)
                      ....++.|+|.+|+||||||..++.......    .-..++|++..+.++..++ .++++.++
T Consensus        94 ~~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~  155 (316)
T TIGR02239        94 ETGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYG  155 (316)
T ss_pred             CCCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcC
Confidence            3468999999999999999998874221111    1135699999888887764 44455443

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.23  E-value=0.05  Score=58.62  Aligned_cols=81  Identities=17%  Similarity=0.274  Sum_probs=48.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCc--chhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDD--RVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~--~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      -|+|.++||+|.|||+|.++.+++.  |....|....-+.+...        .+......+   ...-+..+.+.+.+.+
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liEinsh--------sLFSKWFsE---SgKlV~kmF~kI~ELv  245 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIEINSH--------SLFSKWFSE---SGKLVAKMFQKIQELV  245 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEEEehh--------HHHHHHHhh---hhhHHHHHHHHHHHHH
Confidence            4889999999999999999999865  34455555555544322        122222221   1233444555566666


Q ss_pred             CCCe--EEEEEeCCCC
Q 000471          291 SGNK--FLLVLDDVWN  304 (1472)
Q Consensus       291 ~~k~--~LlVlDdv~~  304 (1472)
                      .++.  +.+.+|.|..
T Consensus       246 ~d~~~lVfvLIDEVES  261 (423)
T KOG0744|consen  246 EDRGNLVFVLIDEVES  261 (423)
T ss_pred             hCCCcEEEEEeHHHHH
Confidence            5543  4566788843

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.23  E-value=0.011  Score=62.15  Aligned_cols=102  Identities=20%  Similarity=0.242  Sum_probs=56.1

Q ss_pred             CCCCcceeEeccccCCCCCCccccccccccceeeeccCCCCCCC----CCCCCccccceeccCCCC--cCcccccCCCCC
Q 000471         1334 FPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVS----PPPFPASLTNLWISDMPD--LESISSIGENLT 1407 (1472)
Q Consensus      1334 ~~~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~Ls~n~~~~~~----~~~~~~~L~~L~l~~~~~--l~~i~~~~~~l~ 1407 (1472)
                      ....|+.|++.++.++...   .|-.+++|++|.+|.|......    +....++|++|+++.|..  +.+++ ....+.
T Consensus        41 ~~~~le~ls~~n~gltt~~---~~P~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~-pl~~l~  116 (260)
T KOG2739|consen   41 EFVELELLSVINVGLTTLT---NFPKLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR-PLKELE  116 (260)
T ss_pred             cccchhhhhhhccceeecc---cCCCcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccc-hhhhhc
Confidence            3456777777776665432   3555677777777776333221    111246777777777732  22232 225666


Q ss_pred             cCceeeccCCCCCCCCCCC-----CCccccceecccCC
Q 000471         1408 SLETLRLFNCPKLKYFPEQ-----GLPKSLSRLSIHNC 1440 (1472)
Q Consensus      1408 ~L~~L~l~~~~~l~~lp~~-----~~~~sL~~L~l~~c 1440 (1472)
                      +|..|++.+|.-.. +...     ..+++|++||-.++
T Consensus       117 nL~~Ldl~n~~~~~-l~dyre~vf~ll~~L~~LD~~dv  153 (260)
T KOG2739|consen  117 NLKSLDLFNCSVTN-LDDYREKVFLLLPSLKYLDGCDV  153 (260)
T ss_pred             chhhhhcccCCccc-cccHHHHHHHHhhhhcccccccc
Confidence            67777777664322 2221     23566777765554

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.20  E-value=0.12  Score=61.20  Aligned_cols=91  Identities=13%  Similarity=0.089  Sum_probs=48.6

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC-CCCHHHHHHHHHHhhcCCCCC--CcccHHHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQCK--DKDDLNLLQEKLK  287 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~~l~  287 (1472)
                      ..+.+|.++|.+|+||||+|..++....  ..-..++.|++.. .....+.++.++.+++.+...  ...+.........
T Consensus        93 ~~p~vI~lvG~~GsGKTTtaakLA~~L~--~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al  170 (437)
T PRK00771         93 LKPQTIMLVGLQGSGKTTTAAKLARYFK--KKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGL  170 (437)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHH--HcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHH
Confidence            3578999999999999999999886332  2212333444322 122244455566665543221  1122222222222


Q ss_pred             hhhCCCeEEEEEeCCCC
Q 000471          288 KQLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       288 ~~l~~k~~LlVlDdv~~  304 (1472)
                      +...+. -+||+|..-.
T Consensus       171 ~~~~~~-DvVIIDTAGr  186 (437)
T PRK00771        171 EKFKKA-DVIIVDTAGR  186 (437)
T ss_pred             HHhhcC-CEEEEECCCc
Confidence            233333 5688888743

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=95.19  E-value=0.11  Score=52.40  Aligned_cols=117  Identities=17%  Similarity=0.138  Sum_probs=61.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceE---EEEecCCCCHHHHHHHHHHhhcCC---C------CCCccc---
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKA---WTCVSEDFDVFRISKSILNSVASD---Q------CKDKDD---  278 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~---wv~~~~~~~~~~~~~~i~~~l~~~---~------~~~~~~---  278 (1472)
                      ..|-|++..|.||||.|..++-  +...+=..++   |+...........+..+  .+...   .      .....+   
T Consensus         6 Gli~v~~g~GkGKtt~a~g~a~--ra~~~g~~v~ivQFlKg~~~~GE~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~   81 (173)
T TIGR00708         6 GIIIVHTGNGKGKTTAAFGMAL--RALGHGKKVGVIQFIKGAWPNGERAAFEPH--GVEFQVMGTGFTWETQNREADTAI   81 (173)
T ss_pred             cEEEEECCCCCChHHHHHHHHH--HHHHCCCeEEEEEEecCCcccChHHHHHhc--CcEEEECCCCCeecCCCcHHHHHH
Confidence            5788888899999999977765  2222222232   22222222333333332  11100   0      000111   


Q ss_pred             HHHHHHHHHhhhCCCeE-EEEEeCCCCC---CHhhHHhhcccccCCCCCcEEEEEcCChH
Q 000471          279 LNLLQEKLKKQLSGNKF-LLVLDDVWNE---NYIRWSELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       279 ~~~~~~~l~~~l~~k~~-LlVlDdv~~~---~~~~~~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                      .....+..++.+...+| |+|||.+-..   .....+++...+.....+.-||+|-|+..
T Consensus        82 ~~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~rp~~~evVlTGR~~p  141 (173)
T TIGR00708        82 AKAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQERPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHhCCCCCEEEEECCCCC
Confidence            12233334555555444 9999998431   12334455555555556779999999863

Alternate name: corrinoid adenosyltransferase.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.18  E-value=0.031  Score=57.45  Aligned_cols=22  Identities=41%  Similarity=0.466  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .|.|.|++|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999875

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

Probab=95.14  E-value=0.021  Score=60.34  Aligned_cols=108  Identities=14%  Similarity=0.136  Sum_probs=54.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh---
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL---  290 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l---  290 (1472)
                      +++.|.|++|.||||+++.+......  . ...+.+......-.    ..+.+..+.    ....+..........-   
T Consensus        19 ~~~~l~G~aGtGKT~~l~~~~~~~~~--~-g~~v~~~apT~~Aa----~~L~~~~~~----~a~Ti~~~l~~~~~~~~~~   87 (196)
T PF13604_consen   19 RVSVLQGPAGTGKTTLLKALAEALEA--A-GKRVIGLAPTNKAA----KELREKTGI----EAQTIHSFLYRIPNGDDEG   87 (196)
T ss_dssp             SEEEEEESTTSTHHHHHHHHHHHHHH--T-T--EEEEESSHHHH----HHHHHHHTS-----EEEHHHHTTEECCEECCS
T ss_pred             eEEEEEECCCCCHHHHHHHHHHHHHh--C-CCeEEEECCcHHHH----HHHHHhhCc----chhhHHHHHhcCCcccccc
Confidence            68889999999999999988763222  2 12333332222122    223333221    1122221111100000   


Q ss_pred             ---CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH
Q 000471          291 ---SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       291 ---~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                         ..++-+||+|++...+...+..+......  .|+|+|+.-=..+
T Consensus        88 ~~~~~~~~vliVDEasmv~~~~~~~ll~~~~~--~~~klilvGD~~Q  132 (196)
T PF13604_consen   88 RPELPKKDVLIVDEASMVDSRQLARLLRLAKK--SGAKLILVGDPNQ  132 (196)
T ss_dssp             SCC-TSTSEEEESSGGG-BHHHHHHHHHHS-T---T-EEEEEE-TTS
T ss_pred             cccCCcccEEEEecccccCHHHHHHHHHHHHh--cCCEEEEECCcch
Confidence               12345999999988776677777665544  5778887754433

>PRK08233 hypothetical protein; Provisional

Probab=95.12  E-value=0.057  Score=56.65  Aligned_cols=24  Identities=33%  Similarity=0.508  Sum_probs=21.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ..+|+|.|++|+||||+|+.++..
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            479999999999999999999863

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.10  E-value=0.051  Score=67.47  Aligned_cols=155  Identities=17%  Similarity=0.211  Sum_probs=83.2

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC-----cceEEEEecCCCCHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY-----EIKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f-----~~~~wv~~~~~~~~~~~~  261 (1472)
                      .++||++|++++++.|.....   ++   -.++|.+|||||++|.-++... +.+.-     +..++.            
T Consensus       171 PvIGRd~EI~r~iqIL~RR~K---NN---PvLiGEpGVGKTAIvEGLA~rI-v~g~VP~~L~~~~i~s------------  231 (786)
T COG0542         171 PVIGRDEEIRRTIQILSRRTK---NN---PVLVGEPGVGKTAIVEGLAQRI-VNGDVPESLKDKRIYS------------  231 (786)
T ss_pred             CCcChHHHHHHHHHHHhccCC---CC---CeEecCCCCCHHHHHHHHHHHH-hcCCCCHHHcCCEEEE------------
Confidence            489999999999999976432   11   2367999999999987776521 11111     111110            


Q ss_pred             HHHHHhhcCCCCCCcccHHHHHHHHHhhh-CCCeEEEEEeCCCCCC--------HhhHHhhcccccCCCCCcEEEEEcCC
Q 000471          262 KSILNSVASDQCKDKDDLNLLQEKLKKQL-SGNKFLLVLDDVWNEN--------YIRWSELRCPFVAGAAGSKIVVTTRN  332 (1472)
Q Consensus       262 ~~i~~~l~~~~~~~~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~--------~~~~~~l~~~l~~~~~~s~iivTtR~  332 (1472)
                      -++..-+.+..  -..+.++....+.+.+ +.++..+++|.+...-        ..+-..+..|....+. -+.|-.|-.
T Consensus       232 LD~g~LvAGak--yRGeFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGe-L~~IGATT~  308 (786)
T COG0542         232 LDLGSLVAGAK--YRGEFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGE-LRCIGATTL  308 (786)
T ss_pred             ecHHHHhcccc--ccCcHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCC-eEEEEeccH
Confidence            01111111111  2234444444444444 3558999999985420        0122222222222222 345544443


Q ss_pred             hHHHHhh-------CCCCceeCCCCChHhHHHHHHhhh
Q 000471          333 LVVAERM-------GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       333 ~~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      .+.-+..       ..-+.+.+..-+.+++..+++...
T Consensus       309 ~EYRk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         309 DEYRKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHHHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            3332222       223567889999999999887654

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.08  E-value=0.056  Score=62.14  Aligned_cols=90  Identities=17%  Similarity=0.079  Sum_probs=48.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC-CCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLS  291 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~  291 (1472)
                      ..++.++|+.|+||||++.++......+.....+..++... .....+-++...+.++.+.. ...+...+...+.+ +.
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~-~~~~~~~l~~~l~~-l~  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVH-AVKDGGDLQLALAE-LR  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceE-ecCCcccHHHHHHH-hc
Confidence            46899999999999999999986322111122345554322 12334445555555554322 11222223333333 34


Q ss_pred             CCeEEEEEeCCCCC
Q 000471          292 GNKFLLVLDDVWNE  305 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~  305 (1472)
                      ++ -+|++|.....
T Consensus       215 ~~-DlVLIDTaG~~  227 (374)
T PRK14722        215 NK-HMVLIDTIGMS  227 (374)
T ss_pred             CC-CEEEEcCCCCC
Confidence            44 55669988543

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.06  E-value=0.019  Score=55.55  Aligned_cols=23  Identities=43%  Similarity=0.485  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcC
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      --|+|.||+|+||||+++.+.+.
T Consensus         6 mki~ITG~PGvGKtTl~~ki~e~   28 (179)
T COG1618           6 MKIFITGRPGVGKTTLVLKIAEK   28 (179)
T ss_pred             eEEEEeCCCCccHHHHHHHHHHH
Confidence            45889999999999999999874

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=95.05  E-value=0.0072  Score=63.03  Aligned_cols=88  Identities=23%  Similarity=0.220  Sum_probs=59.1

Q ss_pred             cCCcceEEEecCCCCCcc-----CCcccCCCCcCcEEecCCcc---cc-ccc-------hhhhhcccccEEecCCCcchh
Q 000471          596 HLPRLRVFSLRGCGNIFN-----LPNEIGNLKHLRCLNLSRTR---IQ-ILP-------ESINSLYNLHTILLEDCHQLK  659 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~~~~-----lp~~i~~L~~Lr~L~L~~~~---i~-~lP-------~~i~~L~~L~~L~L~~~~~l~  659 (1472)
                      .+..+..++|+|| .++.     +-..|.+-.+|+.-+++.-.   .. ++|       +.+-++++||+.+||.|-.-.
T Consensus        28 ~~d~~~evdLSGN-tigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~  106 (388)
T COG5238          28 MMDELVEVDLSGN-TIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGS  106 (388)
T ss_pred             hhcceeEEeccCC-cccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCc
Confidence            4677888888888 5542     34556677788888877531   11 333       345677889999999876544


Q ss_pred             hhhh----hhcccCCCceeecCCCCCcccC
Q 000471          660 KLCK----DMGNLRKLHHLRNSTANSLKEM  685 (1472)
Q Consensus       660 ~lp~----~i~~L~~L~~L~l~~~~~~~~~  685 (1472)
                      ..|+    -|++-+.|.||.+++|. +..+
T Consensus       107 ~~~e~L~d~is~~t~l~HL~l~NnG-lGp~  135 (388)
T COG5238         107 EFPEELGDLISSSTDLVHLKLNNNG-LGPI  135 (388)
T ss_pred             ccchHHHHHHhcCCCceeEEeecCC-CCcc
Confidence            4443    36677889999998887 4433

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=95.01  E-value=0.18  Score=52.64  Aligned_cols=123  Identities=16%  Similarity=0.145  Sum_probs=64.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC--CCCHHHHHH------HHHHhhcCCCC-----CCcccH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE--DFDVFRISK------SILNSVASDQC-----KDKDDL  279 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~--~~~~~~~~~------~i~~~l~~~~~-----~~~~~~  279 (1472)
                      -.+++|+|+.|.|||||++.++...   ......+++.-..  ..+......      ++++.++....     .....-
T Consensus        25 G~~~~l~G~nGsGKStLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G  101 (180)
T cd03214          25 GEIVGILGPNGAGKSTLLKTLAGLL---KPSSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGG  101 (180)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCC---CCCCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHH
Confidence            3589999999999999999998732   2233444432111  112212111      13444433211     011112


Q ss_pred             HHHHHHHHhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCC-CC-CcEEEEEcCChHHHHh
Q 000471          280 NLLQEKLKKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAG-AA-GSKIVVTTRNLVVAER  338 (1472)
Q Consensus       280 ~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~-~s~iivTtR~~~v~~~  338 (1472)
                      +...-.+.+.+-..+-++++|+--.. +......+...+... .. +..||++|.+......
T Consensus       102 ~~qrl~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~~~  163 (180)
T cd03214         102 ERQRVLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLAAR  163 (180)
T ss_pred             HHHHHHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHHHH
Confidence            22333455566677889999997442 222233333333221 12 5678888887765533

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=94.96  E-value=0.17  Score=50.34  Aligned_cols=106  Identities=18%  Similarity=0.136  Sum_probs=56.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      -.+++|+|..|.|||||++.+..-..   .....+|+....             .+..-.  +...-+...-.+.+.+..
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~~~~-------------~i~~~~--~lS~G~~~rv~laral~~   87 (144)
T cd03221          26 GDRIGLVGRNGAGKSTLLKLIAGELE---PDEGIVTWGSTV-------------KIGYFE--QLSGGEKMRLALAKLLLE   87 (144)
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCCC---CCceEEEECCeE-------------EEEEEc--cCCHHHHHHHHHHHHHhc
Confidence            35899999999999999999986422   223334432100             000000  011112222334555566


Q ss_pred             CeEEEEEeCCCCC-CHhhHHhhcccccCCCCCcEEEEEcCChHHHHh
Q 000471          293 NKFLLVLDDVWNE-NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAER  338 (1472)
Q Consensus       293 k~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~  338 (1472)
                      ++-++++|+.... +......+...+...  +..||++|.+.+....
T Consensus        88 ~p~illlDEP~~~LD~~~~~~l~~~l~~~--~~til~~th~~~~~~~  132 (144)
T cd03221          88 NPNLLLLDEPTNHLDLESIEALEEALKEY--PGTVILVSHDRYFLDQ  132 (144)
T ss_pred             CCCEEEEeCCccCCCHHHHHHHHHHHHHc--CCEEEEEECCHHHHHH
Confidence            7778999987432 222333333333322  2468888877665543

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>PTZ00035 Rad51 protein; Provisional

Probab=94.94  E-value=0.12  Score=59.48  Aligned_cols=58  Identities=17%  Similarity=0.091  Sum_probs=40.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcch----hccCcceEEEEecCCCCHHHHHHHHHHhhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRV----QRHYEIKAWTCVSEDFDVFRISKSILNSVA  269 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  269 (1472)
                      ....++.|+|.+|+|||||+..++-....    ...-..++|++....++.+++ .++++.++
T Consensus       116 ~~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g  177 (337)
T PTZ00035        116 ETGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFG  177 (337)
T ss_pred             CCCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhC
Confidence            45689999999999999999988743221    112235679998888877764 44455543

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=94.92  E-value=0.064  Score=61.74  Aligned_cols=133  Identities=14%  Similarity=0.049  Sum_probs=70.5

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  266 (1472)
                      .++|+...+.++.+.+..-..    ...-|.|+|..|+||+++|+.++....  ..-...+.|++..-. ...+-..+..
T Consensus         7 ~liG~S~~~~~~~~~i~~~a~----~~~pVlI~GE~GtGK~~lA~~iH~~s~--r~~~pfv~v~c~~~~-~~~~~~~lfg   79 (326)
T PRK11608          7 NLLGEANSFLEVLEQVSRLAP----LDKPVLIIGERGTGKELIASRLHYLSS--RWQGPFISLNCAALN-ENLLDSELFG   79 (326)
T ss_pred             ccEECCHHHHHHHHHHHHHhC----CCCCEEEECCCCCcHHHHHHHHHHhCC--ccCCCeEEEeCCCCC-HHHHHHHHcc
Confidence            489999999888888765421    223577999999999999999985211  111223445555432 2222222221


Q ss_pred             hhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCC-----------CCcEEEEEcCC
Q 000471          267 SVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGA-----------AGSKIVVTTRN  332 (1472)
Q Consensus       267 ~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~~s~iivTtR~  332 (1472)
                      .-..... . . .......+.   ....=.|+||||..........+...+..+.           ...|||.||..
T Consensus        80 ~~~~~~~-g-~-~~~~~g~l~---~a~gGtL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~s~~  150 (326)
T PRK11608         80 HEAGAFT-G-A-QKRHPGRFE---RADGGTLFLDELATAPMLVQEKLLRVIEYGELERVGGSQPLQVNVRLVCATNA  150 (326)
T ss_pred             ccccccC-C-c-ccccCCchh---ccCCCeEEeCChhhCCHHHHHHHHHHHhcCcEEeCCCCceeeccEEEEEeCch
Confidence            1100000 0 0 000001111   1223358899998876555556555443211           23688888764

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=94.91  E-value=0.1  Score=59.96  Aligned_cols=58  Identities=14%  Similarity=0.142  Sum_probs=41.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchh----ccCcceEEEEecCCCCHHHHHHHHHHhhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQ----RHYEIKAWTCVSEDFDVFRISKSILNSVA  269 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~  269 (1472)
                      ....++-|+|.+|+||||++.+++......    ..=..++||+..+.++..++. ++++.++
T Consensus        93 ~~g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~g  154 (310)
T TIGR02236        93 ETQAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARG  154 (310)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcC
Confidence            346899999999999999999987542211    111368999999988887654 3444443

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>PF00154 RecA: recA bacterial DNA recombination protein; InterPro: IPR013765 The recA gene product is a multifunctional enzyme that plays a role in homologous recombination, DNA repair and induction of the SOS response []

Probab=94.89  E-value=0.062  Score=60.25  Aligned_cols=87  Identities=23%  Similarity=0.161  Sum_probs=52.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC----CcccHHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK----DKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~l  286 (1472)
                      +.-+++-|+|+.|+||||||.++..  ..+..-..++||+....+++..     +++++.+...    .++..++....+
T Consensus        51 p~G~ivEi~G~~ssGKttLaL~~ia--~~q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~  123 (322)
T PF00154_consen   51 PRGRIVEIYGPESSGKTTLALHAIA--EAQKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIA  123 (322)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHH--HHHHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHH
T ss_pred             ccCceEEEeCCCCCchhhhHHHHHH--hhhcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHH
Confidence            4567999999999999999998886  3444456689999988887643     3444433211    122334444444


Q ss_pred             HhhhC-CCeEEEEEeCCCC
Q 000471          287 KKQLS-GNKFLLVLDDVWN  304 (1472)
Q Consensus       287 ~~~l~-~k~~LlVlDdv~~  304 (1472)
                      .+.++ +.--++|+|-|-.
T Consensus       124 e~lirsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  124 EQLIRSGAVDLVVVDSVAA  142 (322)
T ss_dssp             HHHHHTTSESEEEEE-CTT
T ss_pred             HHHhhcccccEEEEecCcc
Confidence            45444 3345899998844

In homologous recombination, the protein functions as a DNA-dependent ATPase, promoting synapsis, heteroduplex formation and strand exchange between homologous DNAs []. RecA also acts as a protease cofactor that promotes autodigestion of the lexA product and phage repressors. The proteolytic inactivation of the lexA repressor by an activated form of recA may cause a derepression of the 20 or so genes involved in the SOS response, which regulates DNA repair, induced mutagenesis, delayed cell division and prophage induction in response to DNA damage []. RecA is a protein of about 350 amino-acid residues. Its sequence is very well conserved [, , ] among eubacterial species. It is also found in the chloroplast of plants []. RecA-like proteins are found in archaea and diverse eukaryotic organisms, like fission yeast, mouse or human. In the filament visualised by X-ray crystallography, beta-strand 3, the loop C-terminal to beta-strand 2, and alpha-helix D of the core domain form one surface that packs against alpha-helix A and beta-strand 0 (the N-terminal domain) of an adjacent monomer during polymerisation []. The core ATP-binding site domain is well conserved, with 14 invariant residues. It contains the nucleotide binding loop between beta-strand 1 and alpha-helix C. The Escherichia coli sequence GPESSGKT matches the consensus sequence of amino acids (G/A)XXXXGK(T/S) for the Walker A box (also referred to as the P-loop) found in a number of nucleoside triphosphate (NTP)-binding proteins. Another nucleotide binding motif, the Walker B box is found at beta-strand 4 in the RecA structure. The Walker B box is characterised by four hydrophobic amino acids followed by an acidic residue (usually aspartate). Nucleotide specificity and additional ATP binding interactions are contributed by the amino acid residues at beta-strand 2 and the loop C-terminal to that strand, all of which are greater than 90% conserved among bacterial RecA proteins.; GO: 0003697 single-stranded DNA binding, 0005524 ATP binding, 0006281 DNA repair; PDB: 2IN0_A 1MO3_A 3IFJ_A 2IN8_A 2IMZ_B 1G18_A 1MO4_A 3IGD_A 2L8L_A 2IN9_A ....

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=94.88  E-value=0.21  Score=51.26  Aligned_cols=119  Identities=9%  Similarity=-0.039  Sum_probs=58.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcch-hcc--Cc---ceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRV-QRH--YE---IKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKL  286 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~-~~~--f~---~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l  286 (1472)
                      -.+++|+|+.|.|||||++.+...... .+.  ++   .+.++  .+.....  ...+.+.+..........-+...-.+
T Consensus        27 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~~~i~~~--~q~~~~~--~~tv~~nl~~~~~~~LS~G~~~rv~l  102 (166)
T cd03223          27 GDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEGEDLLFL--PQRPYLP--LGTLREQLIYPWDDVLSGGEQQRLAF  102 (166)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCCceEEEE--CCCCccc--cccHHHHhhccCCCCCCHHHHHHHHH
Confidence            358999999999999999999864221 111  11   11222  2221111  01122222110111222223333345


Q ss_pred             HhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCCCCCcEEEEEcCChHHHH
Q 000471          287 KKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAE  337 (1472)
Q Consensus       287 ~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~  337 (1472)
                      .+.+-.++=++++|+--.. +......+...+...  +..||++|.+.....
T Consensus       103 aral~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~--~~tiiivsh~~~~~~  152 (166)
T cd03223         103 ARLLLHKPKFVFLDEATSALDEESEDRLYQLLKEL--GITVISVGHRPSLWK  152 (166)
T ss_pred             HHHHHcCCCEEEEECCccccCHHHHHHHHHHHHHh--CCEEEEEeCChhHHh
Confidence            5556667778889986432 112222232222222  356788887776553

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=94.87  E-value=0.15  Score=52.64  Aligned_cols=126  Identities=17%  Similarity=0.125  Sum_probs=62.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC--CCHHHHHHHHHHhhcC--CCCC--C-------cccH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED--FDVFRISKSILNSVAS--DQCK--D-------KDDL  279 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~--~~~~--~-------~~~~  279 (1472)
                      -.+++|+|+.|.|||||.+.++.-..   .....+++.-...  ......    ...+..  +...  .       ...-
T Consensus        28 G~~~~l~G~nGsGKstLl~~i~G~~~---~~~G~i~~~g~~~~~~~~~~~----~~~i~~~~~~~~~~~~t~~e~lLS~G  100 (171)
T cd03228          28 GEKVAIVGPSGSGKSTLLKLLLRLYD---PTSGEILIDGVDLRDLDLESL----RKNIAYVPQDPFLFSGTIRENILSGG  100 (171)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCCC---CCCCEEEECCEEhhhcCHHHH----HhhEEEEcCCchhccchHHHHhhCHH
Confidence            35899999999999999999987322   2233333321110  011111    111110  0000  0       0001


Q ss_pred             HHHHHHHHhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCCCCCcEEEEEcCChHHHHhhCCCCceeC
Q 000471          280 NLLQEKLKKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQL  347 (1472)
Q Consensus       280 ~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~~~~~~l  347 (1472)
                      +...-.+.+.+..++-++++|+-... +......+...+.....+..||++|.+.+....  ++.++.+
T Consensus       101 ~~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~~~~tii~~sh~~~~~~~--~d~~~~l  167 (171)
T cd03228         101 QRQRIAIARALLRDPPILILDEATSALDPETEALILEALRALAKGKTVIVIAHRLSTIRD--ADRIIVL  167 (171)
T ss_pred             HHHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhcCCCEEEEEecCHHHHHh--CCEEEEE
Confidence            11222345556667789999997543 212222332322222235678888888776644  3444443

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.84  E-value=0.13  Score=56.47  Aligned_cols=88  Identities=19%  Similarity=0.134  Sum_probs=54.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCC-----------------
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC-----------------  273 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~-----------------  273 (1472)
                      ...+++.|+|.+|+|||++|.++...  ...+=..++|++..+.  ..++.+.+ ++++....                 
T Consensus        23 ~~g~~~~i~G~~GsGKt~l~~~~~~~--~~~~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~   97 (234)
T PRK06067         23 PFPSLILIEGDHGTGKSVLSQQFVYG--ALKQGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEG   97 (234)
T ss_pred             cCCcEEEEECCCCCChHHHHHHHHHH--HHhCCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEeccccc
Confidence            45679999999999999999998652  1123346788888654  34444443 22321110                 


Q ss_pred             --CCcccHHHHHHHHHhhhCC-CeEEEEEeCCC
Q 000471          274 --KDKDDLNLLQEKLKKQLSG-NKFLLVLDDVW  303 (1472)
Q Consensus       274 --~~~~~~~~~~~~l~~~l~~-k~~LlVlDdv~  303 (1472)
                        ....+.+.+...+.+.+.. +.-++|+|.+.
T Consensus        98 ~~~~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067         98 FEWNSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             cccCcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence              0112334555666666543 55589999975

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=94.82  E-value=0.17  Score=60.14  Aligned_cols=89  Identities=16%  Similarity=0.049  Sum_probs=46.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC-CHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF-DVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLS  291 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~  291 (1472)
                      .+++.++|++|+||||++..++........-..+..|+....- ...+-++...+.++.+.. ...+...+...+.+. .
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~-~~~~~~~l~~~l~~~-~  298 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVE-VVYDPKELAKALEQL-R  298 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceE-ccCCHHhHHHHHHHh-C
Confidence            4699999999999999988876532211222345566543321 111222222333333221 222334455555443 2


Q ss_pred             CCeEEEEEeCCCC
Q 000471          292 GNKFLLVLDDVWN  304 (1472)
Q Consensus       292 ~k~~LlVlDdv~~  304 (1472)
                       ..=+||+|....
T Consensus       299 -~~DlVlIDt~G~  310 (424)
T PRK05703        299 -DCDVILIDTAGR  310 (424)
T ss_pred             -CCCEEEEeCCCC
Confidence             356888997643

>TIGR00959 ffh signal recognition particle protein

Probab=94.78  E-value=0.13  Score=60.82  Aligned_cols=24  Identities=33%  Similarity=0.346  Sum_probs=21.5

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhc
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .+.++.++|++|+||||.|..++.
T Consensus        98 ~p~vi~~vG~~GsGKTTtaakLA~  121 (428)
T TIGR00959        98 PPTVILMVGLQGSGKTTTCGKLAY  121 (428)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHH
Confidence            468999999999999999888876

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.72  E-value=0.12  Score=61.50  Aligned_cols=90  Identities=18%  Similarity=0.076  Sum_probs=45.9

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC-CCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      ...+++|+|++|+||||++..+......+.....+..++... .....+.++.....++.... ...+...+...+++. 
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~-~a~d~~~L~~aL~~l-  426 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVH-EADSAESLLDLLERL-  426 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeE-ecCcHHHHHHHHHHh-
Confidence            357999999999999999988875321111122344444322 11122222222233322211 222333444444433 


Q ss_pred             CCCeEEEEEeCCCC
Q 000471          291 SGNKFLLVLDDVWN  304 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~  304 (1472)
                      . ..-+|++|....
T Consensus       427 ~-~~DLVLIDTaG~  439 (559)
T PRK12727        427 R-DYKLVLIDTAGM  439 (559)
T ss_pred             c-cCCEEEecCCCc
Confidence            3 345888898854

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.72  E-value=0.046  Score=58.52  Aligned_cols=120  Identities=15%  Similarity=0.122  Sum_probs=58.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC--Cc----ccHHHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK--DK----DDLNLLQEKL  286 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~----~~~~~~~~~l  286 (1472)
                      .+++.|+|+.|.||||+.+.+...... .+-...+|  +.. .. .....++...+......  ..    .+...+...+
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~~~~l-a~~G~~v~--a~~-~~-~~~~d~i~~~l~~~~si~~~~S~f~~el~~l~~~l  103 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVALIVFL-AHIGSFVP--ADS-AT-IGLVDKIFTRMSSRESVSSGQSAFMIDLYQVSKAL  103 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHHHHHH-HhCCCeeE--cCC-cE-EeeeeeeeeeeCCccChhhccchHHHHHHHHHHHH
Confidence            378999999999999999998742111 11111222  111 00 01111222222221100  00    1111222111


Q ss_pred             HhhhCCCeEEEEEeCCCCCCH-hhH----HhhcccccCC-CCCcEEEEEcCChHHHHhh
Q 000471          287 KKQLSGNKFLLVLDDVWNENY-IRW----SELRCPFVAG-AAGSKIVVTTRNLVVAERM  339 (1472)
Q Consensus       287 ~~~l~~k~~LlVlDdv~~~~~-~~~----~~l~~~l~~~-~~~s~iivTtR~~~v~~~~  339 (1472)
                        .+..++.|+++|....... .+.    ..+...+... ..+..+|+||-+.+++...
T Consensus       104 --~~~~~~slvllDE~~~gtd~~~~~~~~~ail~~l~~~~~~~~~vli~TH~~~l~~~~  160 (213)
T cd03281         104 --RLATRRSLVLIDEFGKGTDTEDGAGLLIATIEHLLKRGPECPRVIVSTHFHELFNRS  160 (213)
T ss_pred             --HhCCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHhcCCCCcEEEEEcChHHHHHhh
Confidence              2246789999999865421 111    1122223222 2345799999998887665

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=94.72  E-value=0.13  Score=58.73  Aligned_cols=59  Identities=17%  Similarity=0.108  Sum_probs=42.1

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchh----ccCcceEEEEecCCCCHHHHHHHHHHhhcC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQ----RHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~  270 (1472)
                      ....++-|+|.+|+|||++|..++-.....    ..-..++|++..+.|+++++. ++++.++.
T Consensus       121 ~~g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~  183 (342)
T PLN03186        121 ETGSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGL  183 (342)
T ss_pred             cCceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCC
Confidence            346789999999999999998877422111    112368999999999887764 55665543

>TIGR01817 nifA Nif-specific regulatory protein

Probab=94.71  E-value=0.23  Score=61.89  Aligned_cols=135  Identities=13%  Similarity=0.083  Sum_probs=72.2

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      ...++|....+.++.+.+..-.    ....-|.|+|..|+|||++|+.+++...  ..-...+.|++..-..  ..+.. 
T Consensus       195 ~~~liG~s~~~~~~~~~~~~~a----~~~~pvli~Ge~GtGK~~lA~~ih~~s~--r~~~pfv~i~c~~~~~--~~~~~-  265 (534)
T TIGR01817       195 EDGIIGKSPAMRQVVDQARVVA----RSNSTVLLRGESGTGKELIAKAIHYLSP--RAKRPFVKVNCAALSE--TLLES-  265 (534)
T ss_pred             cCceEECCHHHHHHHHHHHHHh----CcCCCEEEECCCCccHHHHHHHHHHhCC--CCCCCeEEeecCCCCH--HHHHH-
Confidence            4569999999999888876532    1223567999999999999999987421  1111234455544322  22221 


Q ss_pred             HHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCC-----------CCcEEEEEcCC
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGA-----------AGSKIVVTTRN  332 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~~s~iivTtR~  332 (1472)
                        .+.+...........  ......-....-.|+||+|..........+...+..+.           ...|||.||..
T Consensus       266 --~lfg~~~~~~~~~~~--~~~g~~~~a~~GtL~ldei~~L~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~s~~  340 (534)
T TIGR01817       266 --ELFGHEKGAFTGAIA--QRKGRFELADGGTLFLDEIGEISPAFQAKLLRVLQEGEFERVGGNRTLKVDVRLVAATNR  340 (534)
T ss_pred             --HHcCCCCCccCCCCc--CCCCcccccCCCeEEEechhhCCHHHHHHHHHHHhcCcEEECCCCceEeecEEEEEeCCC
Confidence              121111000000000  00000001234468899998876665666655443221           13588887754

This model represents NifA, a DNA-binding regulatory protein for nitrogen fixation. The model produces scores between the trusted and noise cutoffs for a well-described NifA homolog in Aquifex aeolicus (which lacks nitrogenase), for transcriptional activators of alternative nitrogenases (VFe or FeFe instead of MoFe), and truncated forms.

>PRK00625 shikimate kinase; Provisional

Probab=94.71  E-value=0.22  Score=51.09  Aligned_cols=21  Identities=29%  Similarity=0.442  Sum_probs=19.1

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .|.++||+|+||||+|+.+..
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~   22 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAK   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999999986

>PRK10867 signal recognition particle protein; Provisional

Probab=94.70  E-value=0.13  Score=60.71  Aligned_cols=25  Identities=36%  Similarity=0.417  Sum_probs=21.4

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ..+.+|.++|++|+||||.|..++.
T Consensus        98 ~~p~vI~~vG~~GsGKTTtaakLA~  122 (433)
T PRK10867         98 KPPTVIMMVGLQGAGKTTTAGKLAK  122 (433)
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHHH
Confidence            3478999999999999998877765

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=94.69  E-value=0.097  Score=53.53  Aligned_cols=117  Identities=16%  Similarity=0.064  Sum_probs=60.8

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC--CCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED--FDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLS  291 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~--~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~  291 (1472)
                      .+++|+|+.|.|||||.+.++...   ......+++....-  .+..+..+   ..++.-.  +...-+...-.+.+.+-
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~---~~~~G~v~~~g~~~~~~~~~~~~~---~~i~~~~--qLS~G~~qrl~laral~   98 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLY---KPDSGEILVDGKEVSFASPRDARR---AGIAMVY--QLSVGERQMVEIARALA   98 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCC---CCCCeEEEECCEECCcCCHHHHHh---cCeEEEE--ecCHHHHHHHHHHHHHh
Confidence            589999999999999999998632   22334444432111  11111111   1111100  11112223334555566


Q ss_pred             CCeEEEEEeCCCCC-CHhhHHhhcccccCC-CCCcEEEEEcCChHHHHh
Q 000471          292 GNKFLLVLDDVWNE-NYIRWSELRCPFVAG-AAGSKIVVTTRNLVVAER  338 (1472)
Q Consensus       292 ~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~~s~iivTtR~~~v~~~  338 (1472)
                      .++-++++|+.-.. +......+...+... ..|..||++|.+......
T Consensus        99 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~~~  147 (163)
T cd03216          99 RNARLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEVFE  147 (163)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHH
Confidence            67788899997442 222233333333221 236678888888764443

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.69  E-value=0.067  Score=55.72  Aligned_cols=79  Identities=23%  Similarity=0.258  Sum_probs=43.3

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCC-CCCCcccHHHHHHHHHhh
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASD-QCKDKDDLNLLQEKLKKQ  289 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-~~~~~~~~~~~~~~l~~~  289 (1472)
                      .++.+|+|.|.+|.||||+|+.++..  .....  ++-++- ..+-...-.....+..... ......+.+.+.+.|...
T Consensus         6 ~~~iiIgIaG~SgSGKTTva~~l~~~--~~~~~--~~~I~~-D~YYk~~~~~~~~~~~~~n~d~p~A~D~dLl~~~L~~L   80 (218)
T COG0572           6 EKVIIIGIAGGSGSGKTTVAKELSEQ--LGVEK--VVVISL-DDYYKDQSHLPFEERNKINYDHPEAFDLDLLIEHLKDL   80 (218)
T ss_pred             CceEEEEEeCCCCCCHHHHHHHHHHH--hCcCc--ceEeec-cccccchhhcCHhhcCCcCccChhhhcHHHHHHHHHHH
Confidence            45689999999999999999999873  22221  111111 1111111111111111111 111445677788888888


Q ss_pred             hCCCe
Q 000471          290 LSGNK  294 (1472)
Q Consensus       290 l~~k~  294 (1472)
                      +++++
T Consensus        81 ~~g~~   85 (218)
T COG0572          81 KQGKP   85 (218)
T ss_pred             HcCCc
Confidence            88877

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=94.68  E-value=0.12  Score=65.20  Aligned_cols=118  Identities=16%  Similarity=0.151  Sum_probs=70.4

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCC--CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGD--DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~--~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      .++|-++.+..|.+.+.....+..  .....+.+.|+.|+|||-||++++.  -+-+..+..+-++.++      ... +
T Consensus       563 ~V~gQ~eAv~aIa~AI~~sr~gl~~~~~~awflflGpdgvGKt~lAkaLA~--~~Fgse~~~IriDmse------~~e-v  633 (898)
T KOG1051|consen  563 RVIGQDEAVAAIAAAIRRSRAGLKDPNPDAWFLFLGPDGVGKTELAKALAE--YVFGSEENFIRLDMSE------FQE-V  633 (898)
T ss_pred             hccchHHHHHHHHHHHHhhhcccCCCCCCeEEEEECCCchhHHHHHHHHHH--HHcCCccceEEechhh------hhh-h
Confidence            478888888888888876543111  2467888899999999999999986  2323333334444333      222 2


Q ss_pred             HHhhcCCCC-CCcccHHHHHHHHHhhhCCCeE-EEEEeCCCCCCHhhHHhhcccc
Q 000471          265 LNSVASDQC-KDKDDLNLLQEKLKKQLSGNKF-LLVLDDVWNENYIRWSELRCPF  317 (1472)
Q Consensus       265 ~~~l~~~~~-~~~~~~~~~~~~l~~~l~~k~~-LlVlDdv~~~~~~~~~~l~~~l  317 (1472)
                      .+-++.+.. ......+    .+.+.++.++| +|.||||+..+......+...+
T Consensus       634 skligsp~gyvG~e~gg----~LteavrrrP~sVVLfdeIEkAh~~v~n~llq~l  684 (898)
T KOG1051|consen  634 SKLIGSPPGYVGKEEGG----QLTEAVKRRPYSVVLFEEIEKAHPDVLNILLQLL  684 (898)
T ss_pred             hhccCCCcccccchhHH----HHHHHHhcCCceEEEEechhhcCHHHHHHHHHHH
Confidence            222232211 1222223    45555666655 7889999888766655444444

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.67  E-value=0.093  Score=56.30  Aligned_cols=125  Identities=14%  Similarity=0.102  Sum_probs=71.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC-----CCCHHHHHHHHHHhhcCCCCC------CcccHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-----DFDVFRISKSILNSVASDQCK------DKDDLNL  281 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-----~~~~~~~~~~i~~~l~~~~~~------~~~~~~~  281 (1472)
                      ..+++|||..|.||||+|+.+..   ....-...+++...+     .....+...++++.++.....      +...-+.
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~---L~~pt~G~i~f~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQr  115 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILG---LEEPTSGEILFEGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQR  115 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHc---CcCCCCceEEEcCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhh
Confidence            46899999999999999999986   222223334433221     222334556666666643210      1122222


Q ss_pred             HHHHHHhhhCCCeEEEEEeCCCCCCH----hhHHhhcccccCCCCCcEEEEEcCChHHHHhhCC
Q 000471          282 LQEKLKKQLSGNKFLLVLDDVWNENY----IRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGA  341 (1472)
Q Consensus       282 ~~~~l~~~l~~k~~LlVlDdv~~~~~----~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~  341 (1472)
                      ..-.+.+.|.-++-++|.|..-+.-.    .+.-.+...+. ...|-..+..|-+-.+++.+..
T Consensus       116 QRi~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq-~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         116 QRIGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQ-EELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             hhHHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHH-HHhCCeEEEEEEEHHhhhhhcc
Confidence            23346777888999999998744311    11111111121 1345667777887777776643

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=94.67  E-value=0.23  Score=56.04  Aligned_cols=53  Identities=25%  Similarity=0.196  Sum_probs=36.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSV  268 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l  268 (1472)
                      ..++.|.|.+|+||||+|.+++.... ..+-..++|++....  ..++...+...+
T Consensus        30 g~~~~i~g~~G~GKT~l~~~~~~~~~-~~~g~~vl~iS~E~~--~~~~~~r~~~~~   82 (271)
T cd01122          30 GELIILTAGTGVGKTTFLREYALDLI-TQHGVRVGTISLEEP--VVRTARRLLGQY   82 (271)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHH-HhcCceEEEEEcccC--HHHHHHHHHHHH
Confidence            45888999999999999999876421 222345788877663  455555555443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK05986 cob(I)alamin adenolsyltransferase/cobinamide ATP-dependent adenolsyltransferase; Validated

Probab=94.67  E-value=0.11  Score=53.25  Aligned_cols=120  Identities=18%  Similarity=0.100  Sum_probs=62.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC---CCHHHHHHHH--HHhh--cCC----CCCCccc---
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED---FDVFRISKSI--LNSV--ASD----QCKDKDD---  278 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~---~~~~~~~~~i--~~~l--~~~----~~~~~~~---  278 (1472)
                      ...|.|+|..|-||||.|..+.-  +...+=..+..|..-+.   ......+..+  +...  +..    ......+   
T Consensus        22 ~g~v~v~~g~GkGKtt~a~g~a~--ra~g~G~~V~ivQFlKg~~~~GE~~~l~~l~~v~~~~~g~~~~~~~~~~~e~~~~   99 (191)
T PRK05986         22 KGLLIVHTGNGKGKSTAAFGMAL--RAVGHGKKVGVVQFIKGAWSTGERNLLEFGGGVEFHVMGTGFTWETQDRERDIAA   99 (191)
T ss_pred             CCeEEEECCCCCChHHHHHHHHH--HHHHCCCeEEEEEEecCCCccCHHHHHhcCCCcEEEECCCCCcccCCCcHHHHHH
Confidence            35789999999999999977764  22222223333333222   2333333321  0000  010    0000111   


Q ss_pred             HHHHHHHHHhhhCCCe-EEEEEeCCCCC---CHhhHHhhcccccCCCCCcEEEEEcCChH
Q 000471          279 LNLLQEKLKKQLSGNK-FLLVLDDVWNE---NYIRWSELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       279 ~~~~~~~l~~~l~~k~-~LlVlDdv~~~---~~~~~~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                      .....+..++.+.+.+ =|+|||.+-..   .....+++...+.....+.-||+|-|+..
T Consensus       100 ~~~~~~~a~~~l~~~~ydlvVLDEi~~Al~~gli~~eevi~~L~~rp~~~evVlTGR~~p  159 (191)
T PRK05986        100 AREGWEEAKRMLADESYDLVVLDELTYALKYGYLDVEEVLEALNARPGMQHVVITGRGAP  159 (191)
T ss_pred             HHHHHHHHHHHHhCCCCCEEEEehhhHHHHCCCccHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            1122333455554444 49999998432   22345566666655556779999999863

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=94.62  E-value=0.31  Score=48.83  Aligned_cols=61  Identities=15%  Similarity=0.271  Sum_probs=37.4

Q ss_pred             HHHHHHHHhhhCCCeEEEEEeCCCC-CC-HhhHHhhcccccCCCCCcEEEEEcCChHHHHhhC
Q 000471          280 NLLQEKLKKQLSGNKFLLVLDDVWN-EN-YIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMG  340 (1472)
Q Consensus       280 ~~~~~~l~~~l~~k~~LlVlDdv~~-~~-~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~  340 (1472)
                      ++..-.|.+.+-+++-+++=|.--- .+ ...|+-+.-.-.-+..|..||++|-+.++...+.
T Consensus       142 EQQRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeeinr~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         142 EQQRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEINRLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHhhcCcEEEEEeccHHHHHhcc
Confidence            3334456666678888888886411 11 1334433322222457999999999999887764

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=94.61  E-value=0.064  Score=53.64  Aligned_cols=21  Identities=38%  Similarity=0.526  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +|.+.|++|+||||+|+.+..
T Consensus         1 lii~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999985

...

>PRK14974 cell division protein FtsY; Provisional

Probab=94.60  E-value=0.19  Score=57.27  Aligned_cols=91  Identities=13%  Similarity=0.117  Sum_probs=47.6

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC--HHHHHHHHHHhhcCCCCC--CcccH-HHHHHHH
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD--VFRISKSILNSVASDQCK--DKDDL-NLLQEKL  286 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~~--~~~~~-~~~~~~l  286 (1472)
                      +..++.++|++|+||||++..++.... ...+ .++.+. ...+.  ..+-++.....++.+...  ...+. ....+.+
T Consensus       139 ~~~vi~~~G~~GvGKTTtiakLA~~l~-~~g~-~V~li~-~Dt~R~~a~eqL~~~a~~lgv~v~~~~~g~dp~~v~~~ai  215 (336)
T PRK14974        139 KPVVIVFVGVNGTGKTTTIAKLAYYLK-KNGF-SVVIAA-GDTFRAGAIEQLEEHAERLGVKVIKHKYGADPAAVAYDAI  215 (336)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH-HcCC-eEEEec-CCcCcHHHHHHHHHHHHHcCCceecccCCCCHHHHHHHHH
Confidence            468999999999999998888875322 1223 233343 22222  223344555555543211  11222 2223333


Q ss_pred             HhhhCCCeEEEEEeCCCCC
Q 000471          287 KKQLSGNKFLLVLDDVWNE  305 (1472)
Q Consensus       287 ~~~l~~k~~LlVlDdv~~~  305 (1472)
                      ...-....=+|++|-+...
T Consensus       216 ~~~~~~~~DvVLIDTaGr~  234 (336)
T PRK14974        216 EHAKARGIDVVLIDTAGRM  234 (336)
T ss_pred             HHHHhCCCCEEEEECCCcc
Confidence            3322222238999998654

>TIGR01650 PD_CobS cobaltochelatase, CobS subunit

Probab=94.58  E-value=0.67  Score=52.16  Aligned_cols=40  Identities=18%  Similarity=0.208  Sum_probs=29.3

Q ss_pred             eeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ++=..+....+..++...        +-|.|.|++|+||||+|++++.
T Consensus        47 y~f~~~~~~~vl~~l~~~--------~~ilL~G~pGtGKTtla~~lA~   86 (327)
T TIGR01650        47 YLFDKATTKAICAGFAYD--------RRVMVQGYHGTGKSTHIEQIAA   86 (327)
T ss_pred             ccCCHHHHHHHHHHHhcC--------CcEEEEeCCCChHHHHHHHHHH
Confidence            333334456677777432        3588999999999999999987

This model describes the aerobic cobalamin pathway Pseudomonas denitrificans CobS gene product, which is a cobalt chelatase subunit, with a MW ~37 kDa. The aerobic pathway cobalt chelatase is a heterotrimeric, ATP-dependent enzyme that catalyzes cobalt insertion during cobalamin biosynthesis. The other two subunits are the P. denitrificans CobT (TIGR01651) and CobN (pfam02514 CobN/Magnesium Chelatase) proteins. To avoid potential confusion with the nonhomologous Salmonella typhimurium/E.coli cobS gene product, the P. denitrificans gene symbol is not used in the name of this model.

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.57  E-value=0.15  Score=56.80  Aligned_cols=92  Identities=17%  Similarity=0.163  Sum_probs=48.4

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCH--HHHHHHHHHhhcCCC---CCCcccHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDV--FRISKSILNSVASDQ---CKDKDDLNLLQEK  285 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~i~~~l~~~~---~~~~~~~~~~~~~  285 (1472)
                      .+.+++.++|++|+||||++..++...  ...-..++++++. .+..  .+-++...+..+.+.   ....+......+.
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l--~~~g~~V~li~~D-~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~  146 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKL--KKQGKSVLLAAGD-TFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDA  146 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHH--HhcCCEEEEEeCC-CCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHH
Confidence            346899999999999999998887632  2222345555543 2322  222333344433221   1011112223344


Q ss_pred             HHhhhCCCeEEEEEeCCCCC
Q 000471          286 LKKQLSGNKFLLVLDDVWNE  305 (1472)
Q Consensus       286 l~~~l~~k~~LlVlDdv~~~  305 (1472)
                      +........=++++|-.-..
T Consensus       147 l~~~~~~~~D~ViIDT~G~~  166 (272)
T TIGR00064       147 IQKAKARNIDVVLIDTAGRL  166 (272)
T ss_pred             HHHHHHCCCCEEEEeCCCCC
Confidence            44444344557888887443

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.55  E-value=0.092  Score=60.74  Aligned_cols=24  Identities=29%  Similarity=0.224  Sum_probs=21.5

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhc
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ...++.++|++|+||||+|..++.
T Consensus       222 ~~~vi~lvGptGvGKTTtaaKLA~  245 (432)
T PRK12724        222 QRKVVFFVGPTGSGKTTSIAKLAA  245 (432)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999999986

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=94.50  E-value=0.15  Score=52.73  Aligned_cols=128  Identities=23%  Similarity=0.222  Sum_probs=61.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC--CCCHHHHHHHHHHhhcCCCCC-C-------cccHHHHH
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE--DFDVFRISKSILNSVASDQCK-D-------KDDLNLLQ  283 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~--~~~~~~~~~~i~~~l~~~~~~-~-------~~~~~~~~  283 (1472)
                      .+++|+|+.|.|||||++.++.-..   .....+++.-..  ........+.+ ..+...... .       ...-+...
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~g~~~~~~~~~~~~~~i-~~~~q~~~~~~~tv~~~lLS~G~~qr  104 (173)
T cd03246          29 ESLAIIGPSGSGKSTLARLILGLLR---PTSGRVRLDGADISQWDPNELGDHV-GYLPQDDELFSGSIAENILSGGQRQR  104 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhccC---CCCCeEEECCEEcccCCHHHHHhhe-EEECCCCccccCcHHHHCcCHHHHHH
Confidence            5899999999999999999986321   223333332111  01111111111 000000000 0       01111222


Q ss_pred             HHHHhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccC-CCCCcEEEEEcCChHHHHhhCCCCceeC
Q 000471          284 EKLKKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVA-GAAGSKIVVTTRNLVVAERMGADPVYQL  347 (1472)
Q Consensus       284 ~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~-~~~~s~iivTtR~~~v~~~~~~~~~~~l  347 (1472)
                      -.+.+.+-.++-++++|+.... +......+...+.. ...|..||++|.+.+... . .+.++.+
T Consensus       105 v~la~al~~~p~~lllDEPt~~LD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~-~-~d~v~~l  168 (173)
T cd03246         105 LGLARALYGNPRILVLDEPNSHLDVEGERALNQAIAALKAAGATRIVIAHRPETLA-S-ADRILVL  168 (173)
T ss_pred             HHHHHHHhcCCCEEEEECCccccCHHHHHHHHHHHHHHHhCCCEEEEEeCCHHHHH-h-CCEEEEE
Confidence            3345555667778899987543 22222222222221 123667888888877664 2 3444443

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>PF08298 AAA_PrkA: PrkA AAA domain; InterPro: IPR013153 This is entry is found at the N terminus of PrkA proteins - bacterial and archaeal serine kinases approximately 630 residues in length

Probab=94.47  E-value=0.042  Score=61.36  Aligned_cols=51  Identities=24%  Similarity=0.377  Sum_probs=44.4

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +.+|+|.++.++++++.+.....+.+..-+|+.++|+.|.||||||+.+-+
T Consensus        60 ~~~~~G~~~~i~~lV~~fk~AA~g~~~~krIl~L~GPvg~GKSsl~~~Lk~  110 (358)
T PF08298_consen   60 EDEFYGMEETIERLVNYFKSAAQGLEERKRILLLLGPVGGGKSSLAELLKR  110 (358)
T ss_pred             cccccCcHHHHHHHHHHHHHHHhccCccceEEEEECCCCCCHHHHHHHHHH
Confidence            347999999999999999876654566779999999999999999998875

PrkA possesses the A-motif of nucleotide-binding proteins and exhibits distant homology to eukaryotic protein kinases []. Note that many of these are hypothetical.

>TIGR02974 phageshock_pspF psp operon transcriptional activator PspF

Probab=94.42  E-value=0.1  Score=59.96  Aligned_cols=45  Identities=20%  Similarity=0.112  Sum_probs=33.2

Q ss_pred             eeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ++|+...+.++.+.+..-..    ...-|.|+|..|+||+++|+.++..
T Consensus         1 liG~S~~m~~~~~~~~~~a~----~~~pVLI~GE~GtGK~~lAr~iH~~   45 (329)
T TIGR02974         1 LIGESNAFLEVLEQVSRLAP----LDRPVLIIGERGTGKELIAARLHYL   45 (329)
T ss_pred             CCcCCHHHHHHHHHHHHHhC----CCCCEEEECCCCChHHHHHHHHHHh
Confidence            46777777777777655321    2234789999999999999999863

Members of this protein family are PspF, the sigma-54-dependent transcriptional activator of the phage shock protein (psp) operon, in Escherichia coli and numerous other species. The psp operon is induced by a number of stress conditions, including heat shock, ethanol, and filamentous phage infection. Changed com_name to adhere to TIGR role notes conventions. 09/15/06 - DMH

>PRK07667 uridine kinase; Provisional

Probab=94.38  E-value=0.052  Score=57.25  Aligned_cols=37  Identities=22%  Similarity=0.444  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .+.|.+.+....    +...+|+|.|.+|+||||+|+.+..
T Consensus         3 ~~~~~~~~~~~~----~~~~iIgI~G~~gsGKStla~~L~~   39 (193)
T PRK07667          3 TNELINIMKKHK----ENRFILGIDGLSRSGKTTFVANLKE   39 (193)
T ss_pred             HHHHHHHHHhcC----CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            456666665432    3458999999999999999999986

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.35  E-value=0.2  Score=58.32  Aligned_cols=90  Identities=13%  Similarity=0.102  Sum_probs=51.9

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchh--ccCcceEEEEecCCCC--HHHHHHHHHHhhcCCCCCCcccHHHHHHHHH
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQ--RHYEIKAWTCVSEDFD--VFRISKSILNSVASDQCKDKDDLNLLQEKLK  287 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~--~~f~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~  287 (1472)
                      ..++|.++|+.|+||||.+..++......  .+-..+..+++. .+.  ..+-++..++.++.+.. .....+.+...+.
T Consensus       173 ~~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~-~~~~~~~l~~~L~  250 (388)
T PRK12723        173 KKRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVK-AIESFKDLKEEIT  250 (388)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceE-eeCcHHHHHHHHH
Confidence            35799999999999999998887632221  111234444443 332  22334555555554322 2234455555554


Q ss_pred             hhhCCCeEEEEEeCCCCC
Q 000471          288 KQLSGNKFLLVLDDVWNE  305 (1472)
Q Consensus       288 ~~l~~k~~LlVlDdv~~~  305 (1472)
                      +.  .+.-+|++|.+...
T Consensus       251 ~~--~~~DlVLIDTaGr~  266 (388)
T PRK12723        251 QS--KDFDLVLVDTIGKS  266 (388)
T ss_pred             Hh--CCCCEEEEcCCCCC
Confidence            43  34568999998554

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.35  E-value=0.051  Score=57.55  Aligned_cols=110  Identities=14%  Similarity=0.198  Sum_probs=56.4

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHH-HHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF-RISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      .+|.|+|+.|.||||+++.+...  ........++. +.+..... .-...+..+-.     ...+.....+.++..++.
T Consensus         2 GlilI~GptGSGKTTll~~ll~~--~~~~~~~~i~t-~e~~~E~~~~~~~~~i~q~~-----vg~~~~~~~~~i~~aLr~   73 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDY--INKNKTHHILT-IEDPIEFVHESKRSLINQRE-----VGLDTLSFENALKAALRQ   73 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH--hhhcCCcEEEE-EcCCccccccCccceeeecc-----cCCCccCHHHHHHHHhcC
Confidence            47899999999999999987763  22222333332 22211100 00001111100     011122345566777776


Q ss_pred             CeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHH
Q 000471          293 NKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVA  336 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~  336 (1472)
                      ..=.+++|++.+.+  .+......   ...|..++.|+-...+.
T Consensus        74 ~pd~ii~gEird~e--~~~~~l~~---a~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          74 DPDVILVGEMRDLE--TIRLALTA---AETGHLVMSTLHTNSAA  112 (198)
T ss_pred             CcCEEEEcCCCCHH--HHHHHHHH---HHcCCEEEEEecCCcHH
Confidence            77799999997642  23222222   22455677776655443

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=94.35  E-value=0.23  Score=51.11  Aligned_cols=103  Identities=17%  Similarity=0.083  Sum_probs=54.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEe------cCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHH
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCV------SEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLK  287 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~------~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~  287 (1472)
                      .+++|+|+.|.|||||++.+..-..   .....+++..      .+...                   ...-+...-.+.
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~~---p~~G~i~~~g~~i~~~~q~~~-------------------LSgGq~qrv~la   83 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQLI---PNGDNDEWDGITPVYKPQYID-------------------LSGGELQRVAIA   83 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCCC---CCCcEEEECCEEEEEEcccCC-------------------CCHHHHHHHHHH
Confidence            5899999999999999999986322   1222332211      11100                   111122233345


Q ss_pred             hhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCC--CCCcEEEEEcCChHHHHh
Q 000471          288 KQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAG--AAGSKIVVTTRNLVVAER  338 (1472)
Q Consensus       288 ~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~--~~~s~iivTtR~~~v~~~  338 (1472)
                      +.+..++-++++|+--.. +......+...+...  ..+..||++|.+......
T Consensus        84 ral~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~~~~~tiiivsH~~~~~~~  137 (177)
T cd03222          84 AALLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSEEGKKTALVVEHDLAVLDY  137 (177)
T ss_pred             HHHhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHHcCCCEEEEEECCHHHHHH
Confidence            556667788999987443 112222222222211  122567777777665544

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PTZ00301 uridine kinase; Provisional

Probab=94.35  E-value=0.075  Score=56.34  Aligned_cols=23  Identities=35%  Similarity=0.625  Sum_probs=21.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ..+|+|.|.+|.||||||+.+..
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~   25 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVS   25 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHH
Confidence            47999999999999999998876

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=94.31  E-value=0.14  Score=53.03  Aligned_cols=21  Identities=48%  Similarity=0.548  Sum_probs=19.2

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ++.++|++|+||||+++.++.
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~   22 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLAL   22 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            678999999999999998886

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=94.29  E-value=0.15  Score=65.72  Aligned_cols=134  Identities=13%  Similarity=0.060  Sum_probs=72.3

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  266 (1472)
                      .++|+...+..+.+.+..-.    ....-|.|+|..|+|||++|+.+++....  .-...+.+++..-. ...+-..+..
T Consensus       377 ~liG~S~~~~~~~~~~~~~a----~~~~pVLI~GE~GTGK~~lA~~ih~~s~r--~~~~~v~i~c~~~~-~~~~~~~lfg  449 (686)
T PRK15429        377 EIIGRSEAMYSVLKQVEMVA----QSDSTVLILGETGTGKELIARAIHNLSGR--NNRRMVKMNCAAMP-AGLLESDLFG  449 (686)
T ss_pred             ceeecCHHHHHHHHHHHHHh----CCCCCEEEECCCCcCHHHHHHHHHHhcCC--CCCCeEEEecccCC-hhHhhhhhcC
Confidence            59999999988877665432    12245789999999999999999874211  11234455555432 1111112211


Q ss_pred             hhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCC-----------CCCcEEEEEcCCh
Q 000471          267 SVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAG-----------AAGSKIVVTTRNL  333 (1472)
Q Consensus       267 ~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iivTtR~~  333 (1472)
                      ...+...  . ........+.   ....=.|+||||..........+...+...           ..+.|||.||...
T Consensus       450 ~~~~~~~--g-~~~~~~g~le---~a~~GtL~Ldei~~L~~~~Q~~L~~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  521 (686)
T PRK15429        450 HERGAFT--G-ASAQRIGRFE---LADKSSLFLDEVGDMPLELQPKLLRVLQEQEFERLGSNKIIQTDVRLIAATNRD  521 (686)
T ss_pred             ccccccc--c-cccchhhHHH---hcCCCeEEEechhhCCHHHHHHHHHHHHhCCEEeCCCCCcccceEEEEEeCCCC
Confidence            1110000  0 0001111121   123356999999887655555555444221           1346888888653

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=94.25  E-value=0.11  Score=59.68  Aligned_cols=51  Identities=25%  Similarity=0.328  Sum_probs=36.9

Q ss_pred             CceeechhHHHHHHHHHhcC--------CCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          186 AKVYGREKEKEEIIELLLND--------DLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ..++|.++.++.+.-.+...        +.......+-|.++|++|+|||++|+.+...
T Consensus        12 ~~IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~   70 (441)
T TIGR00390        12 KYIIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKL   70 (441)
T ss_pred             hhccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHH
Confidence            45889988888887666542        0001123467889999999999999999873

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=94.21  E-value=0.11  Score=55.06  Aligned_cols=83  Identities=23%  Similarity=0.361  Sum_probs=50.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC-CCHHHHHHHHHHhhcCC-------CCCCcccH------
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-FDVFRISKSILNSVASD-------QCKDKDDL------  279 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~~------  279 (1472)
                      .-++|.|.+|+|||+|+.++.++.    .-+..+++.+++. ..+.++.+++...-..+       ...+....      
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~----~~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~   91 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQ----DADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY   91 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHC----TTTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhcc----cccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence            468899999999999999998743    2233477777766 34556666654431110       11011111      


Q ss_pred             --HHHHHHHHhhhCCCeEEEEEeCC
Q 000471          280 --NLLQEKLKKQLSGNKFLLVLDDV  302 (1472)
Q Consensus       280 --~~~~~~l~~~l~~k~~LlVlDdv  302 (1472)
                        -...+.++.  +++.+|+++||+
T Consensus        92 ~a~t~AEyfrd--~G~dVlli~Dsl  114 (215)
T PF00006_consen   92 TALTIAEYFRD--QGKDVLLIIDSL  114 (215)
T ss_dssp             HHHHHHHHHHH--TTSEEEEEEETH
T ss_pred             cchhhhHHHhh--cCCceeehhhhh
Confidence              122333343  699999999998

ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. The F-ATPases (or F1F0-ATPases), V-ATPases (or V1V0-ATPases) and A-ATPases (or A1A0-ATPases) are composed of two linked complexes: the F1, V1 or A1 complex contains the catalytic core that synthesizes/hydrolyses ATP, and the F0, V0 or A0 complex that forms the membrane-spanning pore. The F-, V- and A-ATPases all contain rotary motors, one that drives proton translocation across the membrane and one that drives ATP synthesis/hydrolysis [, ]. In F-ATPases, there are three copies each of the alpha and beta subunits that form the catalytic core of the F1 complex, while the remaining F1 subunits (gamma, delta, epsilon) form part of the stalks. There is a substrate-binding site on each of the alpha and beta subunits, those on the beta subunits being catalytic, while those on the alpha subunits are regulatory. The alpha and beta subunits form a cylinder that is attached to the central stalk. The alpha/beta subunits undergo a sequence of conformational changes leading to the formation of ATP from ADP, which are induced by the rotation of the gamma subunit, itself driven by the movement of protons through the F0 complex C subunit []. In V- and A-ATPases, the alpha/A and beta/B subunits of the V1 or A1 complex are homologous to the alpha and beta subunits in the F1 complex of F-ATPases, except that the alpha subunit is catalytic and the beta subunit is regulatory. The structure of the alpha and beta subunits is almost identical. Each subunit consists of a N-terminal beta-barrel, a central domain containing the nucleotide-binding site and a C-terminal alpha bundle domain []. This entry represents the central domain. It is found in the alpha and beta subunits from F1, V1, and A1 complexes, as well as in flagellar ATPase and the termination factor Rho. ; GO: 0005524 ATP binding; PDB: 3OEE_N 2HLD_W 3FKS_N 3OE7_O 3OFN_M 2XOK_D 3OEH_V 2WPD_F 3ZRY_D 2OBL_A ....

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=94.20  E-value=0.32  Score=61.52  Aligned_cols=156  Identities=15%  Similarity=0.115  Sum_probs=80.0

Q ss_pred             ceeechhHHHHHHHHHhcCCC------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDL------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRI  260 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~  260 (1472)
                      ++.|.+..++++.+.+.....      .+..-.+-|.++|++|.|||++|+.+++..  ...|   +.++.+.      +
T Consensus       153 di~g~~~~~~~l~~i~~~~~~~~~~~~~~~~~~~gill~G~~G~GKt~~~~~~a~~~--~~~f---~~is~~~------~  221 (644)
T PRK10733        153 DVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVPF---FTISGSD------F  221 (644)
T ss_pred             HHcCHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCcEEEECCCCCCHHHHHHHHHHHc--CCCE---EEEehHH------h
Confidence            567877666655554422110      011113348899999999999999998732  2222   1222111      1


Q ss_pred             HHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC----------HhhHHh----hcccccC--CCCCc
Q 000471          261 SKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN----------YIRWSE----LRCPFVA--GAAGS  324 (1472)
Q Consensus       261 ~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~~~----l~~~l~~--~~~~s  324 (1472)
                      .    .....      .....+...+...-...+.+|++|+++...          ...+..    +...+..  ...+.
T Consensus       222 ~----~~~~g------~~~~~~~~~f~~a~~~~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~v  291 (644)
T PRK10733        222 V----EMFVG------VGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGI  291 (644)
T ss_pred             H----Hhhhc------ccHHHHHHHHHHHHhcCCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCe
Confidence            1    11111      111223333333334567899999985531          011111    1111111  12344


Q ss_pred             EEEEEcCChHHHHhh-----CCCCceeCCCCChHhHHHHHHhhh
Q 000471          325 KIVVTTRNLVVAERM-----GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       325 ~iivTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      -||.||..++.....     .-+..+.+...+.++-.++++.+.
T Consensus       292 ivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R~~Il~~~~  335 (644)
T PRK10733        292 IVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHM  335 (644)
T ss_pred             eEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHHHHHHHHHh
Confidence            566678776543221     123556777778777778887765

>PF07724 AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR013093 ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=94.20  E-value=0.036  Score=56.73  Aligned_cols=40  Identities=28%  Similarity=0.148  Sum_probs=28.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchh-ccCcceEEEEecCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQ-RHYEIKAWTCVSED  254 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~-~~f~~~~wv~~~~~  254 (1472)
                      ..++.+.|+.|+|||.+|+++..-  .. +.....+-++++.-
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~--l~~~~~~~~~~~d~s~~   43 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAEL--LFVGSERPLIRIDMSEY   43 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHH--HT-SSCCEEEEEEGGGH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--hccCCccchHHHhhhcc
Confidence            467889999999999999999862  22 23334555555543

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of ATPase AAA-2 domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. Some of these ATPases function as a chaperone subunit of a proteasome-like degradation complex. This ATPase family includes some proteins not detected by IPR003959 from INTERPRO.; GO: 0005524 ATP binding; PDB: 1R6B_X 1KSF_X 3PXI_C 1KYI_T 1G3I_S 1OFH_B 1OFI_A 1G41_A 1IM2_A 1HQY_E ....

>PF01583 APS_kinase: Adenylylsulphate kinase; InterPro: IPR002891 Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases

Probab=94.15  E-value=0.062  Score=53.31  Aligned_cols=36  Identities=28%  Similarity=0.157  Sum_probs=26.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEE
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC  250 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  250 (1472)
                      ..||.|.|.+|.||||||+++...  ....-..+.+++
T Consensus         2 g~vIwltGlsGsGKtTlA~~L~~~--L~~~g~~~~~LD   37 (156)
T PF01583_consen    2 GFVIWLTGLSGSGKTTLARALERR--LFARGIKVYLLD   37 (156)
T ss_dssp             -EEEEEESSTTSSHHHHHHHHHHH--HHHTTS-EEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEec
Confidence            368999999999999999999873  333333445543

Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity []: Serine/threonine-protein kinases Tyrosine-protein kinases Dual specific protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins) Protein kinase function has been evolutionarily conserved from Escherichia coli to human []. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation []. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases []. This domain contains an ATP binding P-loop motif [].; GO: 0005524 ATP binding, 0016301 kinase activity, 0016772 transferase activity, transferring phosphorus-containing groups, 0000103 sulfate assimilation; PDB: 1M7H_B 1M7G_B 3CR7_B 1D6J_A 2OFW_G 1X6V_B 1XNJ_A 1XJQ_B 2PEY_A 2PEZ_B ....

>PRK13948 shikimate kinase; Provisional

Probab=94.13  E-value=0.4  Score=49.57  Aligned_cols=24  Identities=17%  Similarity=0.342  Sum_probs=21.6

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhc
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ..+.|.++|+.|+||||+++.+..
T Consensus         9 ~~~~I~LiG~~GsGKSTvg~~La~   32 (182)
T PRK13948          9 PVTWVALAGFMGTGKSRIGWELSR   32 (182)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
Confidence            457889999999999999999986

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=94.11  E-value=0.14  Score=62.16  Aligned_cols=59  Identities=22%  Similarity=0.354  Sum_probs=43.2

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEE
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC  250 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  250 (1472)
                      +++--.+-++++..||...-. +....+++.+.|++|+||||.++.+++..    .|+..-|.+
T Consensus        20 eLavhkkKv~eV~~wl~~~~~-~~~~~~iLlLtGP~G~GKtttv~~La~el----g~~v~Ew~n   78 (519)
T PF03215_consen   20 ELAVHKKKVEEVRSWLEEMFS-GSSPKRILLLTGPSGCGKTTTVKVLAKEL----GFEVQEWIN   78 (519)
T ss_pred             HhhccHHHHHHHHHHHHHHhc-cCCCcceEEEECCCCCCHHHHHHHHHHHh----CCeeEEecC
Confidence            455556778999999976432 33346799999999999999999998742    356666754

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=94.10  E-value=0.32  Score=50.32  Aligned_cols=120  Identities=17%  Similarity=0.089  Sum_probs=60.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcC--CCC--CC---------cccH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS--DQC--KD---------KDDL  279 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~--~~~--~~---------~~~~  279 (1472)
                      -.+++|+|+.|.|||||++.++....   .....+++.-....+..   ..+...+..  +..  ..         ...-
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~~~---~~~G~i~~~g~~~~~~~---~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G   99 (173)
T cd03230          26 GEIYGLLGPNGAGKTTLIKIILGLLK---PDSGEIKVLGKDIKKEP---EEVKRRIGYLPEEPSLYENLTVRENLKLSGG   99 (173)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC---CCCeEEEECCEEcccch---HhhhccEEEEecCCccccCCcHHHHhhcCHH
Confidence            35899999999999999999986421   22333443211100000   011111110  000  00         0111


Q ss_pred             HHHHHHHHhhhCCCeEEEEEeCCCCC-CHhhHHhhcccccCC-CCCcEEEEEcCChHHHHh
Q 000471          280 NLLQEKLKKQLSGNKFLLVLDDVWNE-NYIRWSELRCPFVAG-AAGSKIVVTTRNLVVAER  338 (1472)
Q Consensus       280 ~~~~~~l~~~l~~k~~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~~s~iivTtR~~~v~~~  338 (1472)
                      +...-.+.+.+..++-++++|+.-.. +......+...+... ..|..||++|.+......
T Consensus       100 ~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~~~g~tiii~th~~~~~~~  160 (173)
T cd03230         100 MKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELKKEGKTILLSSHILEEAER  160 (173)
T ss_pred             HHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHCCCEEEEECCCHHHHHH
Confidence            12223455666678889999997443 222223333333221 236678888888776554

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK06547 hypothetical protein; Provisional

Probab=94.10  E-value=0.064  Score=54.99  Aligned_cols=26  Identities=38%  Similarity=0.547  Sum_probs=23.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ....+|+|.|+.|+||||+|+.+...
T Consensus        13 ~~~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547         13 GGMITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            45789999999999999999999863

>PTZ00494 tuzin-like protein; Provisional

Probab=94.07  E-value=2  Score=49.16  Aligned_cols=170  Identities=15%  Similarity=0.138  Sum_probs=102.7

Q ss_pred             CCcCCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHH
Q 000471          182 LVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       182 ~~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  261 (1472)
                      .....++|.|++|-..+.+.|.+-+.   ..++++.+.|.-|.||++|.+.....+..     ..++|++....|   -+
T Consensus       367 ~a~~~~~V~R~~eE~~vRqvL~qld~---aHPRIvV~TG~~GcGKSslcRsAvrkE~~-----paV~VDVRg~ED---tL  435 (664)
T PTZ00494        367 AAAEAFEVRREDEEALVRSVLTQMAP---SHPRIVALAGGSGGGRCVPCRRAVRVEGV-----ALVHVDVGGTED---TL  435 (664)
T ss_pred             ccccccccchhhHHHHHHHHHhhccC---CCCcEEEEecCCCCCchHHHHHHHHHcCC-----CeEEEEecCCcc---hH
Confidence            34566799999999999998877643   56899999999999999999888764332     467788877655   46


Q ss_pred             HHHHHhhcCCCCCC-cccHHHHHHHHH---hhhCCCeEEEEEeCCCCCCHh-hHHhhcccccCCCCCcEEEEEcCChHHH
Q 000471          262 KSILNSVASDQCKD-KDDLNLLQEKLK---KQLSGNKFLLVLDDVWNENYI-RWSELRCPFVAGAAGSKIVVTTRNLVVA  336 (1472)
Q Consensus       262 ~~i~~~l~~~~~~~-~~~~~~~~~~l~---~~l~~k~~LlVlDdv~~~~~~-~~~~l~~~l~~~~~~s~iivTtR~~~v~  336 (1472)
                      +.+.+.++.+..+. .+-++-+.+..+   ....++.=+||+-==.-.+.. -+.+.. .+.....-|.|++---.+.+.
T Consensus       436 rsVVKALgV~nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkLREGssL~RVYnE~v-aLacDrRlCHvv~EVplESLT  514 (664)
T PTZ00494        436 RSVVRALGVSNVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRLREGSDLGRVYGEVV-SLVSDCQACHIVLAVPMKALT  514 (664)
T ss_pred             HHHHHHhCCCChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEeccCCcHHHHHHHHH-HHHccchhheeeeechHhhhc
Confidence            77788887764322 122333333332   234456556665322111111 111111 223334456777654433322


Q ss_pred             Hhh---CCCCceeCCCCChHhHHHHHHhhh
Q 000471          337 ERM---GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       337 ~~~---~~~~~~~l~~L~~~~~~~lf~~~a  363 (1472)
                      ...   ..-..|.+.+++.++|.+.-.+..
T Consensus       515 ~~n~~LPRLDFy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        515 PLNVSSRRLDFYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             hhhccCccceeEecCCcCHHHHHHHHhccc
Confidence            111   112468899999999988876653

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=94.05  E-value=0.24  Score=54.49  Aligned_cols=21  Identities=29%  Similarity=0.430  Sum_probs=18.7

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +..|+|+||+|||+||..++-
T Consensus         3 ~~ll~g~~G~GKS~lal~la~   23 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLAL   23 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHH
Confidence            567899999999999998875

RepA is encoded by a plasmid, which is found in most Gram negative bacteria. RepA is a 5'-3' DNA helicase which can utilize ATP, GTP and CTP to a lesser extent.

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=93.98  E-value=0.29  Score=56.98  Aligned_cols=85  Identities=20%  Similarity=0.171  Sum_probs=49.3

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC----CcccHHHHHHHHH
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK----DKDDLNLLQEKLK  287 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~l~  287 (1472)
                      .-.++.|.|.+|+|||||+.+++...  ...-..++|++..+.  ..++ +.-+..++.....    ...+.+.+.+.+.
T Consensus        81 ~GslvLI~G~pG~GKStLllq~a~~~--a~~g~~VlYvs~EEs--~~qi-~~Ra~rlg~~~~~l~l~~e~~le~I~~~i~  155 (372)
T cd01121          81 PGSVILIGGDPGIGKSTLLLQVAARL--AKRGGKVLYVSGEES--PEQI-KLRADRLGISTENLYLLAETNLEDILASIE  155 (372)
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEECCcC--HHHH-HHHHHHcCCCcccEEEEccCcHHHHHHHHH
Confidence            45799999999999999999998632  222345677776543  3332 2223444432211    1123444444443


Q ss_pred             hhhCCCeEEEEEeCCCC
Q 000471          288 KQLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       288 ~~l~~k~~LlVlDdv~~  304 (1472)
                      +   .+.-+||+|.+..
T Consensus       156 ~---~~~~lVVIDSIq~  169 (372)
T cd01121         156 E---LKPDLVIIDSIQT  169 (372)
T ss_pred             h---cCCcEEEEcchHH
Confidence            2   3566888888743

This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=93.96  E-value=0.38  Score=59.47  Aligned_cols=157  Identities=17%  Similarity=0.133  Sum_probs=85.2

Q ss_pred             ceeechhHHHHHHHHH---hcCCCC----CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          187 KVYGREKEKEEIIELL---LNDDLR----GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L---~~~~~~----~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      ++.|.+...+.+.+.+   ......    +-...+.+.++|++|.|||.||+++++  ....+|-     .+...     
T Consensus       243 diggl~~~k~~l~e~v~~~~~~~e~~~~~~~~~~~giLl~GpPGtGKT~lAkava~--~~~~~fi-----~v~~~-----  310 (494)
T COG0464         243 DIGGLEEAKEELKEAIETPLKRPELFRKLGLRPPKGVLLYGPPGTGKTLLAKAVAL--ESRSRFI-----SVKGS-----  310 (494)
T ss_pred             hhhcHHHHHHHHHHHHHhHhhChHHHHhcCCCCCCeeEEECCCCCCHHHHHHHHHh--hCCCeEE-----EeeCH-----
Confidence            4556665555544443   221110    123456899999999999999999998  2233332     22111     


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCH-----------hhHHhhcccccC--CCCCcEE
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENY-----------IRWSELRCPFVA--GAAGSKI  326 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~-----------~~~~~l~~~l~~--~~~~s~i  326 (1472)
                         +++....      ......+...+....+..+..|.+|.++....           .-...+...+..  ...+..|
T Consensus       311 ---~l~sk~v------Gesek~ir~~F~~A~~~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~v  381 (494)
T COG0464         311 ---ELLSKWV------GESEKNIRELFEKARKLAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLV  381 (494)
T ss_pred             ---HHhcccc------chHHHHHHHHHHHHHcCCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEE
Confidence               1111111      12223334444455567889999999854210           111222222221  2234445


Q ss_pred             EEEcCChHHHHhh-----CCCCceeCCCCChHhHHHHHHhhhc
Q 000471          327 VVTTRNLVVAERM-----GADPVYQLKELSDDDCLCVLTQISL  364 (1472)
Q Consensus       327 ivTtR~~~v~~~~-----~~~~~~~l~~L~~~~~~~lf~~~a~  364 (1472)
                      |-||-.+......     .-+..+.+..-+.++..+.|..+.-
T Consensus       382 i~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~i~~~~~~  424 (494)
T COG0464         382 IAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLEIFKIHLR  424 (494)
T ss_pred             EecCCCccccCHhhcccCccceEeecCCCCHHHHHHHHHHHhc
Confidence            5566555433221     2245678888899999999998874

>PRK05439 pantothenate kinase; Provisional

Probab=93.96  E-value=0.26  Score=55.32  Aligned_cols=82  Identities=18%  Similarity=0.105  Sum_probs=43.6

Q ss_pred             CCCcEEEEEEccCCCcHHHHHHHHhcCcchhcc--CcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHH
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYNDDRVQRH--YEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLK  287 (1472)
Q Consensus       210 ~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~--f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~  287 (1472)
                      ....-+|+|.|.+|+||||+|+.+..-  ....  -..+.-++...=+-..+.+.+- ..+......+.-+.+.+...+.
T Consensus        83 ~~~~~iIgIaG~~gsGKSTla~~L~~~--l~~~~~~~~v~vi~~DdFy~~~~~l~~~-~l~~~kg~Pes~D~~~l~~~L~  159 (311)
T PRK05439         83 QKVPFIIGIAGSVAVGKSTTARLLQAL--LSRWPEHPKVELVTTDGFLYPNAVLEER-GLMKRKGFPESYDMRALLRFLS  159 (311)
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH--HHhhCCCCceEEEeccccccCHHHHhhh-hccccCCCcccccHHHHHHHHH
Confidence            346789999999999999999988752  2221  1223334333322222222110 1111111123456666777666


Q ss_pred             hhhCCCe
Q 000471          288 KQLSGNK  294 (1472)
Q Consensus       288 ~~l~~k~  294 (1472)
                      ....++.
T Consensus       160 ~Lk~G~~  166 (311)
T PRK05439        160 DVKSGKP  166 (311)
T ss_pred             HHHcCCC
Confidence            6655554

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=93.94  E-value=0.012  Score=61.44  Aligned_cols=88  Identities=22%  Similarity=0.216  Sum_probs=62.7

Q ss_pred             cccCCCCcCcEEecCCcccc-----ccchhhhhcccccEEecCCCc---chhhh-------hhhhcccCCCceeecCCCC
Q 000471          616 NEIGNLKHLRCLNLSRTRIQ-----ILPESINSLYNLHTILLEDCH---QLKKL-------CKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       616 ~~i~~L~~Lr~L~L~~~~i~-----~lP~~i~~L~~L~~L~L~~~~---~l~~l-------p~~i~~L~~L~~L~l~~~~  680 (1472)
                      ..+..+..+..++||||.|.     .+...|.+-.+|+..+++.-.   ...++       -..+-++++|+..++|.|.
T Consensus        24 eel~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNA  103 (388)
T COG5238          24 EELEMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNA  103 (388)
T ss_pred             HHHHhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccc
Confidence            44556788999999999886     355667788899999887521   11233       3346678999999999998


Q ss_pred             CcccCCCc----ccccccccccCceEe
Q 000471          681 SLKEMPKG----FGKLTSLLTLGRFVV  703 (1472)
Q Consensus       681 ~~~~~p~~----i~~L~~L~~L~~~~~  703 (1472)
                      +....|+.    |++-+.|.+|....+
T Consensus       104 fg~~~~e~L~d~is~~t~l~HL~l~Nn  130 (388)
T COG5238         104 FGSEFPEELGDLISSSTDLVHLKLNNN  130 (388)
T ss_pred             cCcccchHHHHHHhcCCCceeEEeecC
Confidence            76676654    566777887754433

>KOG0727 consensus 26S proteasome regulatory complex, ATPase RPT3 [Posttranslational modification, protein turnover, chaperones]

Probab=93.94  E-value=0.27  Score=50.92  Aligned_cols=51  Identities=33%  Similarity=0.284  Sum_probs=37.5

Q ss_pred             CceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          186 AKVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .++-|.+-.++++.+...-.-.       -+-+.++-|.++|++|.|||.||++|+++
T Consensus       155 ~diggld~qkqeireavelplt~~~ly~qigidpprgvllygppg~gktml~kava~~  212 (408)
T KOG0727|consen  155 ADIGGLDVQKQEIREAVELPLTHADLYKQIGIDPPRGVLLYGPPGTGKTMLAKAVANH  212 (408)
T ss_pred             cccccchhhHHHHHHHHhccchHHHHHHHhCCCCCcceEEeCCCCCcHHHHHHHHhhc
Confidence            3567888888888776532110       03355678889999999999999999985

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=93.94  E-value=0.028  Score=34.93  Aligned_cols=22  Identities=32%  Similarity=0.617  Sum_probs=18.8

Q ss_pred             cceEEEecCCCCCccCCcccCCC
Q 000471          599 RLRVFSLRGCGNIFNLPNEIGNL  621 (1472)
Q Consensus       599 ~Lr~L~L~~~~~~~~lp~~i~~L  621 (1472)
                      +|++|||++| .++.+|.+|++|
T Consensus         1 ~L~~Ldls~n-~l~~ip~~~~~l   22 (22)
T PF00560_consen    1 NLEYLDLSGN-NLTSIPSSFSNL   22 (22)
T ss_dssp             TESEEEETSS-EESEEGTTTTT-
T ss_pred             CccEEECCCC-cCEeCChhhcCC
Confidence            5899999999 999999888764

LRRs occur in proteins ranging from viruses to eukaryotes, and appear to provide a structural framework for the formation of protein-protein interactions [, ].Proteins containing LRRs include tyrosine kinase receptors, cell-adhesion molecules, virulence factors, and extracellular matrix-binding glycoproteins, and are involved in a variety of biological processes, including signal transduction, cell adhesion, DNA repair, recombination, transcription, RNA processing, disease resistance, apoptosis, and the immune response []. Sequence analyses of LRR proteins suggested the existence of several different subfamilies of LRRs. The significance of this classification is that repeats from different subfamilies never occur simultaneously and have most probably evolved independently. It is, however, now clear that all major classes of LRR have curved horseshoe structures with a parallel beta sheet on the concave side and mostly helical elements on the convex side. At least six families of LRR proteins, characterised by different lengths and consensus sequences of the repeats, have been identified. Eleven-residue segments of the LRRs (LxxLxLxxN/CxL), corresponding to the beta-strand and adjacent loop regions, are conserved in LRR proteins, whereas the remaining parts of the repeats (herein termed variable) may be very different. Despite the differences, each of the variable parts contains two half-turns at both ends and a "linear" segment (as the chain follows a linear path overall), usually formed by a helix, in the middle. The concave face and the adjacent loops are the most common protein interaction surfaces on LRR proteins. 3D structure of some LRR proteins-ligand complexes show that the concave surface of LRR domain is ideal for interaction with alpha-helix, thus supporting earlier conclusions that the elongated and curved LRR structure provides an outstanding framework for achieving diverse protein-protein interactions []. Molecular modeling suggests that the conserved pattern LxxLxL, which is shorter than the previously proposed LxxLxLxxN/CxL is sufficient to impart the characteristic horseshoe curvature to proteins with 20- to 30-residue repeats []. ; GO: 0005515 protein binding; PDB: 4ECO_B 2A0Z_A 3ULU_A 1ZIW_A 3ULV_A 1DCE_C 1LTX_A 3J0A_B 3A79_B 4FCG_A ....

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=93.93  E-value=0.31  Score=53.46  Aligned_cols=49  Identities=16%  Similarity=0.228  Sum_probs=34.7

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      ...+++.|.|.+|+|||++|.++...  .-..-..++||+..+  ++.++.+.
T Consensus        19 ~~gs~~lI~G~pGsGKT~la~~~l~~--~~~~ge~~lyvs~ee--~~~~i~~~   67 (237)
T TIGR03877        19 PERNVVLLSGGPGTGKSIFSQQFLWN--GLQMGEPGIYVALEE--HPVQVRRN   67 (237)
T ss_pred             cCCeEEEEEcCCCCCHHHHHHHHHHH--HHHcCCcEEEEEeeC--CHHHHHHH
Confidence            35689999999999999999987652  112345678888765  34455444

Members of this family contain a single copy of the KaiC domain (pfam06745) that occurs in two copies of the circadian clock protein kinase KaiC itself. Members occur primarily in thermophilic archaea and in Thermotoga.

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=93.92  E-value=0.04  Score=46.59  Aligned_cols=22  Identities=36%  Similarity=0.616  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      +|+|.|..|+||||+|+.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998863

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PF12775 AAA_7: P-loop containing dynein motor region D3; PDB: 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A

Probab=93.92  E-value=0.052  Score=60.32  Aligned_cols=94  Identities=21%  Similarity=0.265  Sum_probs=47.7

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHh-hcCCCC
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNS-VASDQC  273 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~-l~~~~~  273 (1472)
                      ...+++.+...       -+-|.++|+.|+|||++++........ ..| ...-++.+...+...+++ ++++ +.....
T Consensus        22 ~~~ll~~l~~~-------~~pvLl~G~~GtGKT~li~~~l~~l~~-~~~-~~~~~~~s~~Tts~~~q~-~ie~~l~k~~~   91 (272)
T PF12775_consen   22 YSYLLDLLLSN-------GRPVLLVGPSGTGKTSLIQNFLSSLDS-DKY-LVITINFSAQTTSNQLQK-IIESKLEKRRG   91 (272)
T ss_dssp             HHHHHHHHHHC-------TEEEEEESSTTSSHHHHHHHHHHCSTT-CCE-EEEEEES-TTHHHHHHHH-CCCTTECECTT
T ss_pred             HHHHHHHHHHc-------CCcEEEECCCCCchhHHHHhhhccCCc-ccc-ceeEeeccCCCCHHHHHH-HHhhcEEcCCC
Confidence            35566666553       246789999999999999998753211 111 123344544433333322 2211 111000


Q ss_pred             CCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhh
Q 000471          274 KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIR  309 (1472)
Q Consensus       274 ~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~  309 (1472)
                       .          ...--.+|+.++.+||+.-...+.
T Consensus        92 -~----------~~gP~~~k~lv~fiDDlN~p~~d~  116 (272)
T PF12775_consen   92 -R----------VYGPPGGKKLVLFIDDLNMPQPDK  116 (272)
T ss_dssp             -E----------EEEEESSSEEEEEEETTT-S---T
T ss_pred             -C----------CCCCCCCcEEEEEecccCCCCCCC
Confidence             0          000114789999999996654443

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=93.90  E-value=0.19  Score=62.10  Aligned_cols=136  Identities=13%  Similarity=0.097  Sum_probs=73.9

Q ss_pred             CCceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      ...++|+...++++.+.+..-..    ...-|.|+|..|+|||++|+.+++...  ..-...+.|++..-.+ ..+-.++
T Consensus       186 ~~~iig~s~~~~~~~~~i~~~a~----~~~pVlI~Ge~GtGK~~~A~~ih~~s~--r~~~p~v~v~c~~~~~-~~~e~~l  258 (509)
T PRK05022        186 EGEMIGQSPAMQQLKKEIEVVAA----SDLNVLILGETGVGKELVARAIHAASP--RADKPLVYLNCAALPE-SLAESEL  258 (509)
T ss_pred             CCceeecCHHHHHHHHHHHHHhC----CCCcEEEECCCCccHHHHHHHHHHhCC--cCCCCeEEEEcccCCh-HHHHHHh
Confidence            34699999999998888866421    234578999999999999999987321  1112345566654432 1111122


Q ss_pred             HHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCC-----------CCcEEEEEcCCh
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGA-----------AGSKIVVTTRNL  333 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~~s~iivTtR~~  333 (1472)
                      .....+... . . .......+..   ...=-|+||+|..........+...+..+.           ...|||.||...
T Consensus       259 fG~~~g~~~-g-a-~~~~~g~~~~---a~gGtL~ldeI~~L~~~~Q~~Ll~~l~~~~~~~~g~~~~~~~~~RiI~~t~~~  332 (509)
T PRK05022        259 FGHVKGAFT-G-A-ISNRSGKFEL---ADGGTLFLDEIGELPLALQAKLLRVLQYGEIQRVGSDRSLRVDVRVIAATNRD  332 (509)
T ss_pred             cCccccccC-C-C-cccCCcchhh---cCCCEEEecChhhCCHHHHHHHHHHHhcCCEeeCCCCcceecceEEEEecCCC
Confidence            111111000 0 0 0000001111   122347899998876665566655443221           245888888653

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=93.89  E-value=0.49  Score=50.06  Aligned_cols=60  Identities=13%  Similarity=0.114  Sum_probs=36.4

Q ss_pred             HHHHHHHHhhhCCCeEEEEEeCCCC-CCHhhHHhhcccccC--CCCCcEEEEEcCChHHHHhh
Q 000471          280 NLLQEKLKKQLSGNKFLLVLDDVWN-ENYIRWSELRCPFVA--GAAGSKIVVTTRNLVVAERM  339 (1472)
Q Consensus       280 ~~~~~~l~~~l~~k~~LlVlDdv~~-~~~~~~~~l~~~l~~--~~~~s~iivTtR~~~v~~~~  339 (1472)
                      ++..-.+.+.|-..+-+|+-|+=-. -+...-+.+...+..  ...|..||+.|-++.+|..+
T Consensus       147 qqQRVAIARAL~~~P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~g~tii~VTHd~~lA~~~  209 (226)
T COG1136         147 QQQRVAIARALINNPKIILADEPTGNLDSKTAKEVLELLRELNKERGKTIIMVTHDPELAKYA  209 (226)
T ss_pred             HHHHHHHHHHHhcCCCeEEeeCccccCChHHHHHHHHHHHHHHHhcCCEEEEEcCCHHHHHhC
Confidence            3444556777778888888887422 111222223222222  23577899999999999864

>PF08433 KTI12: Chromatin associated protein KTI12 ; InterPro: IPR013641 This is a family of chromatin associated proteins which interact with the Elongator complex, a component of the elongating form of RNA polymerase II []

Probab=93.89  E-value=0.071  Score=58.92  Aligned_cols=23  Identities=30%  Similarity=0.315  Sum_probs=18.0

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcC
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      +.|.|.|.+|+||||+|+++...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~   24 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKY   24 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Confidence            46889999999999999999863

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=93.87  E-value=0.076  Score=51.50  Aligned_cols=44  Identities=25%  Similarity=0.326  Sum_probs=32.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCC
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASD  271 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~  271 (1472)
                      +|.|-|++|.||||+|+.++++....  |           .+.-.++++|++..+..
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~--~-----------vsaG~iFR~~A~e~gms   45 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLK--L-----------VSAGTIFREMARERGMS   45 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCc--e-----------eeccHHHHHHHHHcCCC
Confidence            68899999999999999998743221  1           13446778888877654

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=93.86  E-value=0.039  Score=53.98  Aligned_cols=21  Identities=43%  Similarity=0.656  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHhcC
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      |+|.|++|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999999873

...

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=93.85  E-value=0.23  Score=51.82  Aligned_cols=55  Identities=29%  Similarity=0.283  Sum_probs=37.4

Q ss_pred             ceeechhHHHHHHHHHhcCCC-------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC
Q 000471          187 KVYGREKEKEEIIELLLNDDL-------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY  243 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~-------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f  243 (1472)
                      ++=|-.++++++.+...-.--       -+-+.++-|..+|++|.|||-.|++|+|  +....|
T Consensus       178 dvggckeqieklrevve~pll~perfv~lgidppkgvllygppgtgktl~aravan--rtdacf  239 (435)
T KOG0729|consen  178 DVGGCKEQIEKLREVVELPLLHPERFVNLGIDPPKGVLLYGPPGTGKTLCARAVAN--RTDACF  239 (435)
T ss_pred             cccchHHHHHHHHHHHhccccCHHHHhhcCCCCCCceEEeCCCCCchhHHHHHHhc--ccCceE
Confidence            455667777777765432110       0234567788999999999999999998  444444

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=93.84  E-value=0.29  Score=54.60  Aligned_cols=25  Identities=36%  Similarity=0.376  Sum_probs=21.7

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ..+.+|+|.|..|+||||+|+.+..
T Consensus        60 ~~p~IIGIaG~~GSGKSTlar~L~~   84 (290)
T TIGR00554        60 KIPYIISIAGSVAVGKSTTARILQA   84 (290)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999987754

Shown to be a homodimer in E. coli. This enzyme catalyzes the rate-limiting step in the biosynthesis of coenzyme A. It is very well conserved from E. coli to B. subtilis, but differs considerably from known eukaryotic forms, described in a separate model.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=93.83  E-value=0.12  Score=59.44  Aligned_cols=81  Identities=25%  Similarity=0.299  Sum_probs=49.2

Q ss_pred             CceeechhHHHHHHHHHhcC--------CCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccC---cceEEEEec-C
Q 000471          186 AKVYGREKEKEEIIELLLND--------DLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY---EIKAWTCVS-E  253 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~--------~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f---~~~~wv~~~-~  253 (1472)
                      ..++|.++.++.+..++...        ........+.+.++|++|+|||++|+.+...  ....|   +...|...+ .
T Consensus        15 ~~IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~--l~~~fi~vD~t~f~e~Gyv   92 (443)
T PRK05201         15 KYIIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKL--ANAPFIKVEATKFTEVGYV   92 (443)
T ss_pred             cccCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHH--hCChheeecchhhccCCcc
Confidence            45899999999988887541        0001112467899999999999999999863  22222   222222221 1


Q ss_pred             CCCHHHHHHHHHHhh
Q 000471          254 DFDVFRISKSILNSV  268 (1472)
Q Consensus       254 ~~~~~~~~~~i~~~l  268 (1472)
                      ..+...+.+.+....
T Consensus        93 G~d~e~~ir~L~~~A  107 (443)
T PRK05201         93 GRDVESIIRDLVEIA  107 (443)
T ss_pred             cCCHHHHHHHHHHHH
Confidence            235556666665544

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=93.83  E-value=0.23  Score=52.35  Aligned_cols=63  Identities=17%  Similarity=0.146  Sum_probs=38.7

Q ss_pred             CCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEE---------EEecCCCCHHHHH--HHHHHhhcCCCC
Q 000471          209 GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAW---------TCVSEDFDVFRIS--KSILNSVASDQC  273 (1472)
Q Consensus       209 ~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~w---------v~~~~~~~~~~~~--~~i~~~l~~~~~  273 (1472)
                      ...+..+|.++||+|.||||..+.++.+...  .+....-         |....+.|++...  ++..++......
T Consensus        15 ~~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~--~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPN   88 (366)
T KOG1532|consen   15 AIQRPVIILVVGMAGSGKTTFMQRLNSHLHA--KKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPN   88 (366)
T ss_pred             cccCCcEEEEEecCCCCchhHHHHHHHHHhh--ccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCC
Confidence            3345678889999999999999999874322  2221111         2233344555543  566777665544

>TIGR00235 udk uridine kinase

Probab=93.82  E-value=0.052  Score=58.19  Aligned_cols=25  Identities=40%  Similarity=0.566  Sum_probs=22.4

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +...+|+|+|++|+||||||+.++.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~   28 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYE   28 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHH
Confidence            3458999999999999999999986

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=93.82  E-value=1  Score=54.89  Aligned_cols=99  Identities=23%  Similarity=0.239  Sum_probs=60.5

Q ss_pred             CceeechhHHHHHHHHHhcCCC------CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDL------RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .++=|.++-+.+|.+-+.-.=.      .+-.+..=|.++|++|.|||-+|++|+..  ..     ..|++|-+.     
T Consensus       672 dDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATE--cs-----L~FlSVKGP-----  739 (953)
T KOG0736|consen  672 DDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATE--CS-----LNFLSVKGP-----  739 (953)
T ss_pred             hcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhh--ce-----eeEEeecCH-----
Confidence            4577888888888876632100      01122456789999999999999999973  21     234555443     


Q ss_pred             HHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCC
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNE  305 (1472)
Q Consensus       260 ~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~  305 (1472)
                         +++.---+      .+.+.+.+.+.+.=..++++|.||.+++.
T Consensus       740 ---ELLNMYVG------qSE~NVR~VFerAR~A~PCVIFFDELDSl  776 (953)
T KOG0736|consen  740 ---ELLNMYVG------QSEENVREVFERARSAAPCVIFFDELDSL  776 (953)
T ss_pred             ---HHHHHHhc------chHHHHHHHHHHhhccCCeEEEecccccc
Confidence               22221111      12233444444444578999999999764

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=93.81  E-value=0.18  Score=54.23  Aligned_cols=21  Identities=38%  Similarity=0.556  Sum_probs=19.5

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +|+|.|..|+||||+|+.+..
T Consensus         1 IigI~G~sGSGKTTla~~L~~   21 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQA   21 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHH
Confidence            589999999999999999986

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=93.81  E-value=0.045  Score=57.97  Aligned_cols=21  Identities=48%  Similarity=0.670  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ||+|.|++|+||||+|+++..
T Consensus         1 IIgI~G~sgSGKTTla~~L~~   21 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQ   21 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            799999999999999999986

7.1.19 from EC catalyses the ATP-dependent phosphorylation of ribulose-5-phosphate to ribulose-1,5-phosphate, a key step in the pentose phosphate pathway where carbon dioxide is assimilated by autotrophic organisms []. In general, plant enzymes are light-activated by the thioredoxin/ferredoxin system, while those from photosynthetic bacteria are regulated by a system that has an absolute requirement for NADH. Thioredoxin/ferredoxin regulation is mediated by the reversible oxidation/reduction of sulphydryl and disulphide groups. Uridine kinase (pyrimidine ribonucleoside kinase) is the rate-limiting enzyme in the pyrimidine salvage pathway. It catalyzes the following reaction: ATP + Uridine = ADP + UMP Pantothenate kinase (2.7.1.33 from EC) catalyzes the rate-limiting step in the biosynthesis of coenzyme A, the conversion of pantothenate to D-4'-phosphopantothenate in the presence of ATP. ; GO: 0005524 ATP binding, 0016301 kinase activity, 0008152 metabolic process; PDB: 2ZSE_A 2ZS7_A 3AF0_A 3AVP_A 2ZS9_A 2ZS8_A 3AEZ_A 2ZSB_A 2ZSD_A 2GEV_A ....

>PRK05480 uridine/cytidine kinase; Provisional

Probab=93.79  E-value=0.051  Score=58.44  Aligned_cols=26  Identities=38%  Similarity=0.597  Sum_probs=23.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .+..+|+|.|.+|+||||||+.++..
T Consensus         4 ~~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          4 KKPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            35689999999999999999999863

>COG2842 Uncharacterized ATPase, putative transposase [General function prediction only]

Probab=93.79  E-value=0.95  Score=49.28  Aligned_cols=97  Identities=20%  Similarity=0.175  Sum_probs=68.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      .+.+.|+|+.|+|||+-++.+++.      .+..+-+..+..+....+...+.........   .........+...+++
T Consensus        94 g~l~~vyg~~g~gKt~a~~~y~~s------~p~~~l~~~~p~~~a~~~i~~i~~~~~~~~~---~~~~d~~~~~~~~l~~  164 (297)
T COG2842          94 GSLVVVYGYAGLGKTQAAKNYAPS------NPNALLIEADPSYTALVLILIICAAAFGATD---GTINDLTERLMIRLRD  164 (297)
T ss_pred             CceEEEeccccchhHHHHHhhccc------CccceeecCChhhHHHHHHHHHHHHHhcccc---hhHHHHHHHHHHHHcc
Confidence            348889999999999999999873      2334446677777777777766665554432   3444555566666788


Q ss_pred             CeEEEEEeCCCCCCHhhHHhhccccc
Q 000471          293 NKFLLVLDDVWNENYIRWSELRCPFV  318 (1472)
Q Consensus       293 k~~LlVlDdv~~~~~~~~~~l~~~l~  318 (1472)
                      ..-+|+.|+.+......++.++....
T Consensus       165 ~~~~iivDEA~~L~~~ale~lr~i~d  190 (297)
T COG2842         165 TVRLIIVDEADRLPYRALEELRRIHD  190 (297)
T ss_pred             CcceeeeehhhccChHHHHHHHHHHH
Confidence            89999999998876666776665443

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=93.79  E-value=0.24  Score=53.94  Aligned_cols=25  Identities=32%  Similarity=0.541  Sum_probs=22.9

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +...+++|.|+.|.|||||++.+..
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~   55 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEA   55 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4578999999999999999999986

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=93.75  E-value=0.032  Score=52.48  Aligned_cols=27  Identities=33%  Similarity=0.583  Sum_probs=18.0

Q ss_pred             EEEEccCCCcHHHHHHHHhcCcchhccCc
Q 000471          216 ISINGMGGVGKTTLAQLVYNDDRVQRHYE  244 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~  244 (1472)
                      |.|+|.+|+||||+|+.++.  .....|.
T Consensus         2 vLleg~PG~GKT~la~~lA~--~~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALAR--SLGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHH--HTT--EE
T ss_pred             EeeECCCccHHHHHHHHHHH--HcCCcee
Confidence            67999999999999999997  3445553

AAA ATPases form a large, functionally diverse protein family belonging to the AAA+ superfamily of ring-shaped P-loop NTPases, which exert their activity through the energy-dependent unfolding of macromolecules. AAA ATPases contain a P-loop NTPase domain, which is the most abundant class of NTP-binding protein fold, and is found throughout all kingdoms of life []. P-loop NTPase domains act to hydrolyse the beta-gamma phosphate bond of bound nucleoside triphosphate. There are two classes of P-loop domains: the KG (kinase-GTPase) division, and the ASCE division, the latter including the AAA+ group as well as several other ATPases. There are at least six major clades of AAA domains (metalloproteases, meiotic proteins, D1 and D2 domains of ATPases with two AAA domains, proteasome subunits, and BSC1), as well as several minor clades, some of which consist of hypothetical proteins []. The domain organisation of AAA ATPases consists of a non-ATPase N-terminal domain that acts in substrate recognition, followed by one or two AAA domains (D1 and D2), one of which may be degenerate.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 2R44_A.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.73  E-value=0.27  Score=55.95  Aligned_cols=90  Identities=14%  Similarity=0.068  Sum_probs=52.7

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC-CCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-FDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      +.+++.|+|+.|+||||++..++...  ...-..+.+|++... ....+-++...+.++.+.. ...+..++.+.+...-
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l--~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~-~~~dp~dL~~al~~l~  281 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQL--LKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELI-VATSPAELEEAVQYMT  281 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHH--HHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEE-ecCCHHHHHHHHHHHH
Confidence            46899999999999999999887632  222234556665432 1223445555555554322 2234445555554332


Q ss_pred             C-CCeEEEEEeCCCC
Q 000471          291 S-GNKFLLVLDDVWN  304 (1472)
Q Consensus       291 ~-~k~~LlVlDdv~~  304 (1472)
                      . +..=+|++|-...
T Consensus       282 ~~~~~D~VLIDTAGr  296 (407)
T PRK12726        282 YVNCVDHILIDTVGR  296 (407)
T ss_pred             hcCCCCEEEEECCCC
Confidence            1 3446788888755

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=93.71  E-value=0.23  Score=53.18  Aligned_cols=54  Identities=17%  Similarity=0.247  Sum_probs=45.3

Q ss_pred             chHHHHHHHHHHHHHHHHHHHHhhhc-cCCChHHHHHHHHHHhHhhcchhhhhHH
Q 000471           33 KLEADFIKWKRMLKMIKAVLADAEDR-QTKDESVKTWLDDLQNLAYDAEDVLDEL   86 (1472)
Q Consensus        33 ~~~~~~~~l~~~l~~i~~~l~~a~~~-~~~~~~~~~wl~~lr~~ayd~ed~lD~~   86 (1472)
                      -++.+++-++.+++.+|.||+..... +..-.....+..++-..||++|+++|.+
T Consensus       318 flKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~~ed~a~~ii~kAyevEYVVDaC  372 (402)
T PF12061_consen  318 FLKNQIQVIQTELESLQPFLKHVVEEPHNKHDTNEDCATQIIRKAYEVEYVVDAC  372 (402)
T ss_pred             HHHHHHHHHHHHHHHhhHHHHHHHhccchhhhhhhhHHHHHHHHHhheeeeeehh
Confidence            36899999999999999999987443 4333348899999999999999999975

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>PTZ00088 adenylate kinase 1; Provisional

Probab=93.71  E-value=0.078  Score=57.08  Aligned_cols=21  Identities=38%  Similarity=0.608  Sum_probs=19.1

Q ss_pred             EEEEccCCCcHHHHHHHHhcC
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      |.|.|++|+||||+|+.++..
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999763

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=93.64  E-value=0.4  Score=56.27  Aligned_cols=25  Identities=32%  Similarity=0.351  Sum_probs=22.0

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ....+|.++|++|+||||+|..++.
T Consensus        98 ~~~~vi~lvG~~GvGKTTtaaKLA~  122 (429)
T TIGR01425        98 GKQNVIMFVGLQGSGKTTTCTKLAY  122 (429)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3468999999999999999988875

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.54  E-value=0.18  Score=52.36  Aligned_cols=24  Identities=29%  Similarity=0.458  Sum_probs=21.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ..+|+|+|++|+||||+|++++..
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999999999873

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=93.51  E-value=0.2  Score=52.10  Aligned_cols=24  Identities=25%  Similarity=0.365  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -.+++|+|+.|.|||||++.++..
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          26 GEIVALLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999863

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=93.50  E-value=0.3  Score=51.98  Aligned_cols=24  Identities=33%  Similarity=0.448  Sum_probs=21.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ..+++|+|..|.|||||.+.+...
T Consensus        26 Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          26 GEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999874

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=93.45  E-value=0.19  Score=59.08  Aligned_cols=89  Identities=19%  Similarity=0.209  Sum_probs=49.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCC------CCCCcccHH----HH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASD------QCKDKDDLN----LL  282 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~------~~~~~~~~~----~~  282 (1472)
                      -..++|+|..|+|||||++.+.....   ....++|....+..++.++....+......      ...+.....    ..
T Consensus       165 Gqri~I~G~SGsGKTTLL~~Ia~l~~---pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~  241 (450)
T PRK06002        165 GQRIGIFAGSGVGKSTLLAMLARADA---FDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLT  241 (450)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCC---CCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHH
Confidence            35799999999999999999886322   222344544334445555554444433111      010111111    11


Q ss_pred             HHHHHhhh--CCCeEEEEEeCCCC
Q 000471          283 QEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       283 ~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      .-.+.+++  +++.+|+++||+-.
T Consensus       242 a~~iAEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        242 ATAIAEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHHHHHcCCCEEEeccchHH
Confidence            12233333  48899999999833

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=93.39  E-value=0.18  Score=63.32  Aligned_cols=86  Identities=22%  Similarity=0.155  Sum_probs=56.8

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC----CcccHHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK----DKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~l  286 (1472)
                      ...+++-|+|++|+||||||.+++..  ....-..++|++..+.++..     .+++++.+...    .....+.....+
T Consensus        58 p~GsiteI~G~~GsGKTtLal~~~~~--a~~~G~~v~yId~E~t~~~~-----~A~~lGvDl~~llv~~~~~~E~~l~~i  130 (790)
T PRK09519         58 PRGRVIEIYGPESSGKTTVALHAVAN--AQAAGGVAAFIDAEHALDPD-----YAKKLGVDTDSLLVSQPDTGEQALEIA  130 (790)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH--HHHcCCcEEEECCccchhHH-----HHHHcCCChhHeEEecCCCHHHHHHHH
Confidence            45689999999999999999887652  22333567999988887743     55666554211    223334445555


Q ss_pred             HhhhC-CCeEEEEEeCCC
Q 000471          287 KKQLS-GNKFLLVLDDVW  303 (1472)
Q Consensus       287 ~~~l~-~k~~LlVlDdv~  303 (1472)
                      .+.++ ++--|||+|-+.
T Consensus       131 ~~lv~~~~~~LVVIDSI~  148 (790)
T PRK09519        131 DMLIRSGALDIVVIDSVA  148 (790)
T ss_pred             HHHhhcCCCeEEEEcchh
Confidence            55554 456689999984

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=93.34  E-value=0.52  Score=47.26  Aligned_cols=21  Identities=38%  Similarity=0.668  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ||.|+|.+|+||||+|+.+..
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~   21 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEE   21 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHH
Confidence            578999999999999999986

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PHA00729 NTP-binding motif containing protein

Probab=93.33  E-value=0.095  Score=55.37  Aligned_cols=24  Identities=46%  Similarity=0.468  Sum_probs=21.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ...|.|+|.+|+||||||..+.+.
T Consensus        17 f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         17 FVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHH
Confidence            457889999999999999999873

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.31  E-value=0.66  Score=48.31  Aligned_cols=60  Identities=15%  Similarity=0.059  Sum_probs=35.2

Q ss_pred             HHhhhCCCeEEEEEeCCCCCC-HhhHHhhcccccC-CCCCcEEEEEcCChHHHHhhCCCCce
Q 000471          286 LKKQLSGNKFLLVLDDVWNEN-YIRWSELRCPFVA-GAAGSKIVVTTRNLVVAERMGADPVY  345 (1472)
Q Consensus       286 l~~~l~~k~~LlVlDdv~~~~-~~~~~~l~~~l~~-~~~~s~iivTtR~~~v~~~~~~~~~~  345 (1472)
                      +.+.+-=++-+.|||..++-- .+..+.+...+.. ...|+-+||.|-.+.++.....+.+|
T Consensus       155 ilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~vh  216 (251)
T COG0396         155 ILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDKVH  216 (251)
T ss_pred             HHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCEEE
Confidence            344444567799999987742 1222222221111 13467788888888899887666543

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=93.30  E-value=0.11  Score=54.88  Aligned_cols=22  Identities=27%  Similarity=0.256  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ++++|+|+.|.|||||.+.+..
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~   47 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGV   47 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHH
Confidence            7999999999999999998874

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>PRK10820 DNA-binding transcriptional regulator TyrR; Provisional

Probab=93.23  E-value=0.22  Score=61.45  Aligned_cols=62  Identities=15%  Similarity=0.022  Sum_probs=40.6

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      .++|....+.++++.+..-..    .-.-|.|+|..|+||+++|++++... . ..-...+.++++.-
T Consensus       205 ~~ig~s~~~~~~~~~~~~~A~----~~~pvlI~GE~GtGK~~lA~aiH~~s-~-r~~~pfv~inca~~  266 (520)
T PRK10820        205 QIVAVSPKMRQVVEQARKLAM----LDAPLLITGDTGTGKDLLAYACHLRS-P-RGKKPFLALNCASI  266 (520)
T ss_pred             ceeECCHHHHHHHHHHHHHhC----CCCCEEEECCCCccHHHHHHHHHHhC-C-CCCCCeEEeccccC
Confidence            589999888888777653221    12347799999999999999987531 1 11123345665554

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.20  E-value=0.6  Score=56.65  Aligned_cols=183  Identities=16%  Similarity=0.159  Sum_probs=91.8

Q ss_pred             CcCCceeechhHHHH---HHHHHhcCCC---CCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC
Q 000471          183 VNEAKVYGREKEKEE---IIELLLNDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD  256 (1472)
Q Consensus       183 ~~~~~~vGr~~~~~~---l~~~L~~~~~---~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~  256 (1472)
                      +.-.++.|.|+.+++   +++.|.++..   -+..-++-|..+|++|.|||.||++++....+-  |     .+.|..  
T Consensus       147 v~F~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgEA~VP--F-----f~iSGS--  217 (596)
T COG0465         147 VTFADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGEAGVP--F-----FSISGS--  217 (596)
T ss_pred             cChhhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcccCCC--c-----eeccch--
Confidence            344568898876655   5555544321   022335678899999999999999999865442  2     112221  


Q ss_pred             HHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC----------HhhHHhhccc----ccCCC-
Q 000471          257 VFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN----------YIRWSELRCP----FVAGA-  321 (1472)
Q Consensus       257 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~----------~~~~~~l~~~----l~~~~-  321 (1472)
                            +..+.+-      ........+...+..+.-++.|++|.++...          .+++++....    ....+ 
T Consensus       218 ------~FVemfV------GvGAsRVRdLF~qAkk~aP~IIFIDEiDAvGr~Rg~g~GggnderEQTLNQlLvEmDGF~~  285 (596)
T COG0465         218 ------DFVEMFV------GVGASRVRDLFEQAKKNAPCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGG  285 (596)
T ss_pred             ------hhhhhhc------CCCcHHHHHHHHHhhccCCCeEEEehhhhcccccCCCCCCCchHHHHHHHHHHhhhccCCC
Confidence                  1111111      1112233445555556668899999875431          1223332222    22222 


Q ss_pred             -CCcEEEEEcCChHHHHhh--C---CCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChh
Q 000471          322 -AGSKIVVTTRNLVVAERM--G---ADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       322 -~~s~iivTtR~~~v~~~~--~---~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPL  391 (1472)
                       .|-.||-.|-.++|....  .   -+..+.++.-+-..-.++++-++-... ....-++..    |++.+-|.--
T Consensus       286 ~~gviviaaTNRpdVlD~ALlRpgRFDRqI~V~~PDi~gRe~IlkvH~~~~~-l~~~Vdl~~----iAr~tpGfsG  356 (596)
T COG0465         286 NEGVIVIAATNRPDVLDPALLRPGRFDRQILVELPDIKGREQILKVHAKNKP-LAEDVDLKK----IARGTPGFSG  356 (596)
T ss_pred             CCceEEEecCCCcccchHhhcCCCCcceeeecCCcchhhHHHHHHHHhhcCC-CCCcCCHHH----HhhhCCCccc
Confidence             343444455555555322  1   223344444444555556665542221 112222222    6666766543

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=93.18  E-value=0.14  Score=54.57  Aligned_cols=60  Identities=25%  Similarity=0.244  Sum_probs=35.1

Q ss_pred             HHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCH
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDV  257 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  257 (1472)
                      +..++++.+...    .++..+|+|.|+||+|||||..++....+.+++=-.++=|+=|..++-
T Consensus        14 ~~~~ll~~l~~~----~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tG   73 (266)
T PF03308_consen   14 EARELLKRLYPH----TGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTG   73 (266)
T ss_dssp             HHHHHHHHHGGG----TT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC-
T ss_pred             HHHHHHHHHHhh----cCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCC
Confidence            455666666543    235689999999999999999888764333222223333444445543

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=93.14  E-value=0.29  Score=53.40  Aligned_cols=91  Identities=16%  Similarity=0.162  Sum_probs=54.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcch--hccCcceEEEEecCCC-CHHHHHHHHHHhhcCC-------CCCCcccHH---
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRV--QRHYEIKAWTCVSEDF-DVFRISKSILNSVASD-------QCKDKDDLN---  280 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~--~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~-------~~~~~~~~~---  280 (1472)
                      .-++|.|..|+|||+|+..+.++...  +.+-+.++++-+++.. .+.++..++.+.=...       ...+..-..   
T Consensus        70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a  149 (276)
T cd01135          70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT  149 (276)
T ss_pred             CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHH
Confidence            46799999999999999998875321  1234667888887764 4555665554431111       000111111   


Q ss_pred             -HHHHHHHhhh---CCCeEEEEEeCCCC
Q 000471          281 -LLQEKLKKQL---SGNKFLLVLDDVWN  304 (1472)
Q Consensus       281 -~~~~~l~~~l---~~k~~LlVlDdv~~  304 (1472)
                       .....+.+++   +++++|+++||+-.
T Consensus       150 ~~~a~aiAEyfrd~~g~~VLl~~D~ltr  177 (276)
T cd01135         150 PRMALTTAEYLAYEKGKHVLVILTDMTN  177 (276)
T ss_pred             HHHHHHHHHHHHhccCCeEEEEEcChhH
Confidence             1122344444   26899999999844

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=93.10  E-value=0.05  Score=50.92  Aligned_cols=21  Identities=48%  Similarity=0.629  Sum_probs=18.6

Q ss_pred             EEEEccCCCcHHHHHHHHhcC
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      |.|+|++|+|||++|+.++.+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999998863

All of the proteins bind ATP and, consequently, all of them carry the classical Walker A (phosphate-binding loop or P-loop) and Walker B (Mg2+-binding aspartic acid) motifs. Superfamily 3 consists of helicases encoded mainly by small DNA viruses and some large nucleocytoplasmic DNA viruses [, ]. Small viruses are very dependent on the host-cell machinery to replicate. SF3 helicase in small viruses is associated with an origin-binding domain. By pairing a domain that recognises the ori with a helicase, the virus can bypass the host-cell-based regulation pathway and initiate its own replication. The protein binds to the viral ori leading to origin unwinding. Cellular replication proteins are then recruited to the ori and the viral DNA is replicated. In SF3 helicases the Walker A and Walker B motifs are separated by spacers of rather uniform, and relatively short, length. In addition to the A and B motifs this family is characterised by a third motif (C) which resides between the B motif and the C terminus of the conserved region. This motif consists of an Asn residue preceded by a run of hydrophobic residues []. Several structures of SF3 helicases have been solved []. They all possess the same core alpha/beta fold, consisting of a five-stranded parallel beta sheet flanked on both sides by several alpha helices. In contrast to SF1 and SF2 helicases, which have RecA-like core folds, the strand connectivity within the alpha/beta core domain is that of AAA+ proteins []. The SF3 helicase proteins assemble into a hexameric ring. Some proteins known to contain an SF3 helicase domain are listed below: Polyomavirus large T antigen. It initiates DNA unwinding and replication via interactions with the viral origin of replication. Papillomavirus E1 protein. An ATP-dependent DNA helicase required for initiation of viral DNA replication. Parvovirus Rep/NS1 protein, which is also required for the initiation of viral replication. Poxviridae and other large DNA viruses D5 protein. Bacteriophage DNA primase/helicase protein. Bacterial prophage DNA primase/helicase protein. The entry represents the core alpha/beta fold of the SF3 helicase domain found predominantly in DNA viruses.; GO: 0003723 RNA binding, 0003724 RNA helicase activity

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=93.10  E-value=0.068  Score=54.78  Aligned_cols=25  Identities=48%  Similarity=0.525  Sum_probs=22.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~  237 (1472)
                      ..+|+|-||=|+||||||+.+.++.
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l   28 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHL   28 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHh
Confidence            4689999999999999999999743

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.09  E-value=0.5  Score=59.34  Aligned_cols=87  Identities=20%  Similarity=0.151  Sum_probs=49.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC--HHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD--VFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      .+|++++|+.|+||||++..++...........+..++.. .+.  ..+-++...+.++.+.. ...+..++.+.+.+ +
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~D-t~RigA~eQL~~~a~~~gvpv~-~~~~~~~l~~al~~-~  261 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTD-SFRIGALEQLRIYGRILGVPVH-AVKDAADLRFALAA-L  261 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCc-ccchHHHHHHHHHHHhCCCCcc-ccCCHHHHHHHHHH-h
Confidence            5799999999999999998888643211111234444433 232  33445555555554332 22344555555543 3


Q ss_pred             CCCeEEEEEeCCC
Q 000471          291 SGNKFLLVLDDVW  303 (1472)
Q Consensus       291 ~~k~~LlVlDdv~  303 (1472)
                      +++ =+|++|=.-
T Consensus       262 ~~~-D~VLIDTAG  273 (767)
T PRK14723        262 GDK-HLVLIDTVG  273 (767)
T ss_pred             cCC-CEEEEeCCC
Confidence            444 377777775

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=93.08  E-value=0.13  Score=49.56  Aligned_cols=40  Identities=28%  Similarity=0.240  Sum_probs=28.3

Q ss_pred             hHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ++.+++.+.|...-    ....+|.+.|.-|.||||+++.++..
T Consensus         6 ~~t~~l~~~l~~~l----~~~~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150         6 KAMDKFGKAFAKPL----DFGTVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             HHHHHHHHHHHHhC----CCCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            44555555554321    12358999999999999999999874

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=93.05  E-value=0.26  Score=54.66  Aligned_cols=41  Identities=20%  Similarity=0.300  Sum_probs=30.5

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE  253 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  253 (1472)
                      ...+++.|.|.+|+|||++|.+++...  ...=..+++++...
T Consensus        34 p~gs~~lI~G~pGtGKT~l~~qf~~~~--a~~Ge~vlyis~Ee   74 (259)
T TIGR03878        34 PAYSVINITGVSDTGKSLMVEQFAVTQ--ASRGNPVLFVTVES   74 (259)
T ss_pred             ECCcEEEEEcCCCCCHHHHHHHHHHHH--HhCCCcEEEEEecC
Confidence            346799999999999999999986531  12234678888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=93.01  E-value=0.46  Score=52.56  Aligned_cols=130  Identities=17%  Similarity=0.080  Sum_probs=65.4

Q ss_pred             HHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCC-
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQ-  272 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~-  272 (1472)
                      ..+.++..+...     .+..-++|+|+.|.|||||.+.+.....   .....+++.-..- ...+-..++......-. 
T Consensus        97 ~~~~~l~~l~~~-----~~~~~~~i~g~~g~GKttl~~~l~~~~~---~~~G~i~~~g~~v-~~~d~~~ei~~~~~~~~q  167 (270)
T TIGR02858        97 AADKLLPYLVRN-----NRVLNTLIISPPQCGKTTLLRDLARILS---TGISQLGLRGKKV-GIVDERSEIAGCVNGVPQ  167 (270)
T ss_pred             cHHHHHHHHHhC-----CCeeEEEEEcCCCCCHHHHHHHHhCccC---CCCceEEECCEEe-ecchhHHHHHHHhccccc
Confidence            344555555432     2346789999999999999999987322   2223333321111 00011123322221110 


Q ss_pred             CC-----C-cccHHHHHHHHHhhh-CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChHHHHh
Q 000471          273 CK-----D-KDDLNLLQEKLKKQL-SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAER  338 (1472)
Q Consensus       273 ~~-----~-~~~~~~~~~~l~~~l-~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~  338 (1472)
                      ..     + .+.... ...+...+ ...+=++|+|.+...  ..+..+...+.   .|..||+||-+..+...
T Consensus       168 ~~~~~r~~v~~~~~k-~~~~~~~i~~~~P~villDE~~~~--e~~~~l~~~~~---~G~~vI~ttH~~~~~~~  234 (270)
T TIGR02858       168 HDVGIRTDVLDGCPK-AEGMMMLIRSMSPDVIVVDEIGRE--EDVEALLEALH---AGVSIIATAHGRDVEDL  234 (270)
T ss_pred             ccccccccccccchH-HHHHHHHHHhCCCCEEEEeCCCcH--HHHHHHHHHHh---CCCEEEEEechhHHHHH
Confidence            00     0 001111 11122222 246789999998553  44455544432   47789999987666443

Members of this protein are the stage III sporulation protein AA, encoded by one of several genes in the spoIIIA locus. It seems that this protein is found in a species if and only if that species is capable of endospore formation.

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=92.93  E-value=0.25  Score=48.07  Aligned_cols=36  Identities=22%  Similarity=0.274  Sum_probs=27.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEe
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCV  251 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~  251 (1472)
                      -+.|+|-||+||+++.+.+|.- -..+.|...+||+.
T Consensus        22 K~vivGng~VGKssmiqryCkg-ifTkdykktIgvdf   57 (246)
T KOG4252|consen   22 KFVIVGNGSVGKSSMIQRYCKG-IFTKDYKKTIGVDF   57 (246)
T ss_pred             EEEEECCCccchHHHHHHHhcc-ccccccccccchhh
Confidence            4569999999999999999963 23345666777754

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=92.93  E-value=0.69  Score=46.55  Aligned_cols=22  Identities=27%  Similarity=0.573  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ++.|.|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            3679999999999999999863

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=92.91  E-value=0.42  Score=56.12  Aligned_cols=24  Identities=33%  Similarity=0.310  Sum_probs=21.2

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhc
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ...+++++|+.|+||||++..+..
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~  213 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAA  213 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999988875

>cd02028 UMPK_like Uridine monophosphate kinase_like (UMPK_like) is a family of proteins highly similar to the uridine monophosphate kinase (UMPK, EC 2

Probab=92.90  E-value=0.18  Score=52.32  Aligned_cols=22  Identities=45%  Similarity=0.667  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      +|+|.|..|+||||+|+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999863

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=92.90  E-value=0.43  Score=50.77  Aligned_cols=61  Identities=18%  Similarity=0.226  Sum_probs=34.9

Q ss_pred             HHHhhhCCCeEEEEEeCCCCC-CHhhHH-hhcccccCCC-C-CcEEEEEcCChHHHHhhCCCCceeC
Q 000471          285 KLKKQLSGNKFLLVLDDVWNE-NYIRWS-ELRCPFVAGA-A-GSKIVVTTRNLVVAERMGADPVYQL  347 (1472)
Q Consensus       285 ~l~~~l~~k~~LlVlDdv~~~-~~~~~~-~l~~~l~~~~-~-~s~iivTtR~~~v~~~~~~~~~~~l  347 (1472)
                      .+.+.+..+.-++++|+.... +..... .+...+.... . |..||++|.+.+....  .+.++.+
T Consensus       131 ala~al~~~p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~~~~iiiitH~~~~~~~--~d~i~~l  195 (204)
T cd03240         131 ALAETFGSNCGILALDEPTTNLDEENIEESLAEIIEERKSQKNFQLIVITHDEELVDA--ADHIYRV  195 (204)
T ss_pred             HHHHHhccCCCEEEEcCCccccCHHHHHHHHHHHHHHHHhccCCEEEEEEecHHHHhh--CCEEEEE
Confidence            345566678889999998543 222223 3333333222 2 5578888888776643  3445444

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=92.88  E-value=0.44  Score=54.75  Aligned_cols=70  Identities=9%  Similarity=-0.020  Sum_probs=39.7

Q ss_pred             cEEE-EEcCChHHHHh--hC---CCCceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHH
Q 000471          324 SKIV-VTTRNLVVAER--MG---ADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLG  397 (1472)
Q Consensus       324 s~ii-vTtR~~~v~~~--~~---~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~  397 (1472)
                      -||| .||...+-...  +.   .+-.+.+.--+.+....|+.++.....   +    ..++.+|.+...|.-+.=..++
T Consensus       338 ERIivFTTNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~---~----h~L~~eie~l~~~~~~tPA~V~  410 (457)
T KOG0743|consen  338 ERIIVFTTNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEE---D----HRLFDEIERLIEETEVTPAQVA  410 (457)
T ss_pred             ceEEEEecCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCC---C----cchhHHHHHHhhcCccCHHHHH
Confidence            3555 57776543221  12   223467788888888888888863322   1    2456666666666655544555


Q ss_pred             hhh
Q 000471          398 GLL  400 (1472)
Q Consensus       398 ~~L  400 (1472)
                      ..|
T Consensus       411 e~l  413 (457)
T KOG0743|consen  411 EEL  413 (457)
T ss_pred             HHH
Confidence            444

>PRK04040 adenylate kinase; Provisional

Probab=92.88  E-value=0.078  Score=55.37  Aligned_cols=23  Identities=35%  Similarity=0.615  Sum_probs=21.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ..+|+|+|++|+||||+++.+..
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~   24 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALE   24 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHH
Confidence            36899999999999999999986

>PF13504 LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OOK_G 1QYY_G 1SQ0_B 1P9A_G 1GWB_A 1P8V_A 1M0Z_A 1U0N_D

Probab=92.87  E-value=0.064  Score=30.82  Aligned_cols=16  Identities=50%  Similarity=0.831  Sum_probs=6.3

Q ss_pred             cCcEEecCCccccccc
Q 000471          623 HLRCLNLSRTRIQILP  638 (1472)
Q Consensus       623 ~Lr~L~L~~~~i~~lP  638 (1472)
                      +||.|+|++|+++++|
T Consensus         2 ~L~~L~l~~n~L~~lP   17 (17)
T PF13504_consen    2 NLRTLDLSNNRLTSLP   17 (17)
T ss_dssp             T-SEEEETSS--SSE-
T ss_pred             ccCEEECCCCCCCCCc
Confidence            4555555555555444

...

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=92.87  E-value=0.33  Score=56.75  Aligned_cols=88  Identities=18%  Similarity=0.190  Sum_probs=51.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC-HHHHHHHHHHhhcCCC------CCCcccHH-----
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD-VFRISKSILNSVASDQ------CKDKDDLN-----  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~------~~~~~~~~-----  280 (1472)
                      -..++|+|..|+|||||++.+....    ..+.++.+-+++... +.++..+++..-....      ..+.....     
T Consensus       162 GqrigI~G~sG~GKSTLL~~I~~~~----~~dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~  237 (444)
T PRK08972        162 GQRMGLFAGSGVGKSVLLGMMTRGT----TADVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGC  237 (444)
T ss_pred             CCEEEEECCCCCChhHHHHHhccCC----CCCEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHH
Confidence            3579999999999999999998632    224566666666543 4445555443311110      00111111     


Q ss_pred             HHHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          281 LLQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       281 ~~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      .....+.+++  +++++|+++||+-.
T Consensus       238 ~~A~tiAEyfrd~G~~VLl~~DslTR  263 (444)
T PRK08972        238 ETATTIAEYFRDQGLNVLLLMDSLTR  263 (444)
T ss_pred             HHHHHHHHHHHHcCCCEEEEEcChHH
Confidence            1112233444  58999999999933

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=92.84  E-value=0.0072  Score=61.54  Aligned_cols=85  Identities=16%  Similarity=0.221  Sum_probs=67.8

Q ss_pred             hccCCcceEEEecCCCCCccCCcccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCce
Q 000471          594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH  673 (1472)
Q Consensus       594 ~~~l~~Lr~L~L~~~~~~~~lp~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~  673 (1472)
                      +..++..++||++.| .+..+-..|+.+..|..||++.|.|..+|+.++.+..+..+++.. +.....|.+++.+++++.
T Consensus        38 i~~~kr~tvld~~s~-r~vn~~~n~s~~t~~~rl~~sknq~~~~~~d~~q~~e~~~~~~~~-n~~~~~p~s~~k~~~~k~  115 (326)
T KOG0473|consen   38 IASFKRVTVLDLSSN-RLVNLGKNFSILTRLVRLDLSKNQIKFLPKDAKQQRETVNAASHK-NNHSQQPKSQKKEPHPKK  115 (326)
T ss_pred             hhccceeeeehhhhh-HHHhhccchHHHHHHHHHhccHhhHhhChhhHHHHHHHHHHHhhc-cchhhCCccccccCCcch
Confidence            345677888888888 777777777788888888888888888888888888888888766 567788888888888888


Q ss_pred             eecCCCC
Q 000471          674 LRNSTAN  680 (1472)
Q Consensus       674 L~l~~~~  680 (1472)
                      ++.-++.
T Consensus       116 ~e~k~~~  122 (326)
T KOG0473|consen  116 NEQKKTE  122 (326)
T ss_pred             hhhccCc
Confidence            8877765

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=92.82  E-value=0.12  Score=55.21  Aligned_cols=22  Identities=23%  Similarity=0.194  Sum_probs=20.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .+++|+|+.|.||||+.+.+..
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            6899999999999999999984

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=92.81  E-value=0.36  Score=53.31  Aligned_cols=26  Identities=27%  Similarity=0.219  Sum_probs=23.2

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .+..+|.|.|.+|.|||||+..+.+.
T Consensus       102 ~~~~~v~l~G~pGsGKTTLl~~l~~~  127 (290)
T PRK10463        102 RKQLVLNLVSSPGSGKTTLLTETLMR  127 (290)
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            35789999999999999999999873

>PRK03839 putative kinase; Provisional

Probab=92.79  E-value=0.076  Score=55.52  Aligned_cols=22  Identities=45%  Similarity=0.777  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .|.|+|++|+||||+|+.+++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999874

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=92.77  E-value=0.18  Score=53.36  Aligned_cols=120  Identities=13%  Similarity=0.112  Sum_probs=60.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC--Cc----ccHHHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK--DK----DDLNLLQEKL  286 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~----~~~~~~~~~l  286 (1472)
                      .+++.|.|+.|.||||+.+.+.... +-.+.  ..+|.+.. .. -.+...|...+......  ..    .+..++...+
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~-~la~~--G~~vpa~~-~~-l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il  103 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLA-IMAQI--GCFVPAEY-AT-LPIFNRLLSRLSNDDSMERNLSTFASEMSETAYIL  103 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HHHHc--CCCcchhh-cC-ccChhheeEecCCccccchhhhHHHHHHHHHHHHH
Confidence            3789999999999999999886421 11111  11221111 01 12223333333322110  00    1111221111


Q ss_pred             HhhhCCCeEEEEEeCCCCCC-Hhh----HHhhcccccCCCCCcEEEEEcCChHHHHhhCC
Q 000471          287 KKQLSGNKFLLVLDDVWNEN-YIR----WSELRCPFVAGAAGSKIVVTTRNLVVAERMGA  341 (1472)
Q Consensus       287 ~~~l~~k~~LlVlDdv~~~~-~~~----~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~  341 (1472)
                       + +..++-|+++|...... ..+    ...+...+..  .|..+|++|-+.+++..+..
T Consensus       104 -~-~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~~--~~~~~i~~TH~~~l~~~~~~  159 (204)
T cd03282         104 -D-YADGDSLVLIDELGRGTSSADGFAISLAILECLIK--KESTVFFATHFRDIAAILGN  159 (204)
T ss_pred             -H-hcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHHh--cCCEEEEECChHHHHHHhhc
Confidence             1 23567899999984421 122    1122222322  37899999999998877653

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=92.77  E-value=0.17  Score=52.37  Aligned_cols=22  Identities=41%  Similarity=0.626  Sum_probs=19.9

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      +|+|.|.+|+||||+|+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999873

This enzyme catalyzes the phosphorylation of nicotinamide riboside (NR) to form nicotinamide mononucleotide (NMN). It defines the NR salvage pathway of NAD+ biosynthesis in addition to the pathways through nicotinic acid mononucleotide (NaMN). This enzyme can also phosphorylate the anticancer drug tiazofurin, which is an analog of nicotinamide riboside.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=92.77  E-value=0.088  Score=55.57  Aligned_cols=24  Identities=29%  Similarity=0.335  Sum_probs=21.6

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhc
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +.++|.|+|++|+||||+|+.+..
T Consensus         2 ~~~ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         2 KCKIIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            357999999999999999999985

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>PRK04328 hypothetical protein; Provisional

Probab=92.75  E-value=0.34  Score=53.40  Aligned_cols=41  Identities=20%  Similarity=0.234  Sum_probs=31.1

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      .-.++.|.|.+|.|||+||.++...  ....-...+|++..+.
T Consensus        22 ~gs~ili~G~pGsGKT~l~~~fl~~--~~~~ge~~lyis~ee~   62 (249)
T PRK04328         22 ERNVVLLSGGPGTGKSIFSQQFLWN--GLQMGEPGVYVALEEH   62 (249)
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHH--HHhcCCcEEEEEeeCC
Confidence            4579999999999999999987653  2223456788887664

>KOG0473 consensus Leucine-rich repeat protein [Function unknown]

Probab=92.67  E-value=0.0097  Score=60.64  Aligned_cols=87  Identities=25%  Similarity=0.284  Sum_probs=77.6

Q ss_pred             CccCC-cccCCCCcCcEEecCCccccccchhhhhcccccEEecCCCcchhhhhhhhcccCCCceeecCCCCCcccCCCcc
Q 000471          611 IFNLP-NEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGF  689 (1472)
Q Consensus       611 ~~~lp-~~i~~L~~Lr~L~L~~~~i~~lP~~i~~L~~L~~L~L~~~~~l~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i  689 (1472)
                      +..+| ..|.....-+.||++.|++..+-..|+.|+.|..||++. +.+..+|..++.+..++++++..|+ ....|.++
T Consensus        30 ~s~~~v~ei~~~kr~tvld~~s~r~vn~~~n~s~~t~~~rl~~sk-nq~~~~~~d~~q~~e~~~~~~~~n~-~~~~p~s~  107 (326)
T KOG0473|consen   30 LSEIPVREIASFKRVTVLDLSSNRLVNLGKNFSILTRLVRLDLSK-NQIKFLPKDAKQQRETVNAASHKNN-HSQQPKSQ  107 (326)
T ss_pred             hcccchhhhhccceeeeehhhhhHHHhhccchHHHHHHHHHhccH-hhHhhChhhHHHHHHHHHHHhhccc-hhhCCccc
Confidence            44566 567778899999999999999999999999999999998 6789999999999999999998887 88999999


Q ss_pred             cccccccccC
Q 000471          690 GKLTSLLTLG  699 (1472)
Q Consensus       690 ~~L~~L~~L~  699 (1472)
                      +++..++.+.
T Consensus       108 ~k~~~~k~~e  117 (326)
T KOG0473|consen  108 KKEPHPKKNE  117 (326)
T ss_pred             cccCCcchhh
Confidence            9999888773

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=92.66  E-value=0.81  Score=49.69  Aligned_cols=23  Identities=26%  Similarity=0.407  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      -.+++|+|+.|.|||||++.+..
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G   52 (221)
T cd03244          30 GEKVGIVGRTGSGKSSLLLALFR   52 (221)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHc
Confidence            35899999999999999999975

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=92.66  E-value=0.4  Score=50.11  Aligned_cols=24  Identities=29%  Similarity=0.508  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -.+++|+|..|.|||||++.++.-
T Consensus        26 G~~~~i~G~nGsGKSTLl~~l~G~   49 (182)
T cd03215          26 GEIVGIAGLVGNGQTELAEALFGL   49 (182)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999864

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=92.64  E-value=0.2  Score=59.04  Aligned_cols=50  Identities=30%  Similarity=0.262  Sum_probs=34.8

Q ss_pred             CceeechhHHHHHHHHHhcC----CC------CCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          186 AKVYGREKEKEEIIELLLND----DL------RGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~----~~------~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ..+||.+..++.+...+...    ..      ...-..+.+.++|++|+|||++|+.++.
T Consensus        71 ~~ViGq~~ak~~l~~av~~~~~r~~~~~~~~~~~~~~~~~iLl~Gp~GtGKT~lAr~lA~  130 (412)
T PRK05342         71 QYVIGQERAKKVLSVAVYNHYKRLRHGDKKDDDVELQKSNILLIGPTGSGKTLLAQTLAR  130 (412)
T ss_pred             hHeeChHHHHHHHHHHHHHHHHhhhcccccccccccCCceEEEEcCCCCCHHHHHHHHHH
Confidence            45899999988886554210    00      0011235688999999999999999986

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=92.62  E-value=2  Score=42.39  Aligned_cols=82  Identities=11%  Similarity=0.202  Sum_probs=55.9

Q ss_pred             HHHHHHHHHHHHHHHHHhhhhhHHHhhhchHHHHHHHHHHHHHHHHHHHHhhhccC-CChHHHHHHHHHHhHhhcchhhh
Q 000471            5 GEAVLSASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQT-KDESVKTWLDDLQNLAYDAEDVL   83 (1472)
Q Consensus         5 ~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~i~~~l~~a~~~~~-~~~~~~~wl~~lr~~ayd~ed~l   83 (1472)
                      |+.+++|+++.+++.+..............+.-.++|...++.|.-++++.+.-.. -+..-+.-++++.+..-++++++
T Consensus         3 ~eL~~gaalG~~~~eLlk~v~~~~~k~~~fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~L~~~L~~g~~LV   82 (147)
T PF05659_consen    3 AELVGGAALGAVFGELLKAVIDASKKSLSFKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIERLKELLEKGKELV   82 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHHHHHHHHHHHHHH
Confidence            44445555555555554444444555556778888999999999999998876432 13333677788888888899999


Q ss_pred             hHH
Q 000471           84 DEL   86 (1472)
Q Consensus        84 D~~   86 (1472)
                      +.|
T Consensus        83 ~k~   85 (147)
T PF05659_consen   83 EKC   85 (147)
T ss_pred             HHh
Confidence            876

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=92.57  E-value=0.81  Score=47.19  Aligned_cols=125  Identities=14%  Similarity=0.103  Sum_probs=67.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEec-------------------CCCC-----------------
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVS-------------------EDFD-----------------  256 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~-------------------~~~~-----------------  256 (1472)
                      -.|++|+|+.|.|||||.+.+-.=   ...-...+||.-.                   +.|+                 
T Consensus        28 Gevv~iiGpSGSGKSTlLRclN~L---E~~~~G~I~i~g~~~~~~~~~~~~R~~vGmVFQ~fnLFPHlTvleNv~lap~~  104 (240)
T COG1126          28 GEVVVIIGPSGSGKSTLLRCLNGL---EEPDSGSITVDGEDVGDKKDILKLRRKVGMVFQQFNLFPHLTVLENVTLAPVK  104 (240)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC---cCCCCceEEECCEeccchhhHHHHHHhcCeecccccccccchHHHHHHhhhHH
Confidence            358999999999999999988642   2222344444321                   1111                 


Q ss_pred             --------HHHHHHHHHHhhcCCCCC-----CcccHHHHHHHHHhhhCCCeEEEEEeCCCCCC-HhhHHhhcccccC-CC
Q 000471          257 --------VFRISKSILNSVASDQCK-----DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN-YIRWSELRCPFVA-GA  321 (1472)
Q Consensus       257 --------~~~~~~~i~~~l~~~~~~-----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~-~~~~~~l~~~l~~-~~  321 (1472)
                              .++...++++.++.....     ....-++..-.|.+.|.=++-++.||..-+.- +....++..-+.. ..
T Consensus       105 v~~~~k~eA~~~A~~lL~~VGL~~ka~~yP~qLSGGQqQRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~  184 (240)
T COG1126         105 VKKLSKAEAREKALELLEKVGLADKADAYPAQLSGGQQQRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAE  184 (240)
T ss_pred             HcCCCHHHHHHHHHHHHHHcCchhhhhhCccccCcHHHHHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHH
Confidence                    223333444444332110     11222334445677777778899999986542 2222222222211 23


Q ss_pred             CCcEEEEEcCChHHHHhhC
Q 000471          322 AGSKIVVTTRNLVVAERMG  340 (1472)
Q Consensus       322 ~~s~iivTtR~~~v~~~~~  340 (1472)
                      .|-..|+.|-....|+.+.
T Consensus       185 eGmTMivVTHEM~FAr~Va  203 (240)
T COG1126         185 EGMTMIIVTHEMGFAREVA  203 (240)
T ss_pred             cCCeEEEEechhHHHHHhh
Confidence            5666777777777776653

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=92.56  E-value=0.4  Score=48.73  Aligned_cols=119  Identities=15%  Similarity=0.088  Sum_probs=60.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      .+++|+|..|.|||||++.+.....   .....+++.........  .......+..-.  +...-+...-.+...+...
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~---~~~G~i~~~~~~~~~~~--~~~~~~~i~~~~--qlS~G~~~r~~l~~~l~~~   98 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLK---PTSGEILIDGKDIAKLP--LEELRRRIGYVP--QLSGGQRQRVALARALLLN   98 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCC---CCccEEEECCEEcccCC--HHHHHhceEEEe--eCCHHHHHHHHHHHHHhcC
Confidence            5899999999999999999987422   23444444322111100  011111111100  0111122233355555566


Q ss_pred             eEEEEEeCCCCC-CHhhHHhhcccccCC-CCCcEEEEEcCChHHHHhh
Q 000471          294 KFLLVLDDVWNE-NYIRWSELRCPFVAG-AAGSKIVVTTRNLVVAERM  339 (1472)
Q Consensus       294 ~~LlVlDdv~~~-~~~~~~~l~~~l~~~-~~~s~iivTtR~~~v~~~~  339 (1472)
                      +-++++|+.... +......+...+... ..+..+|++|.+.......
T Consensus        99 ~~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~~~tii~~sh~~~~~~~~  146 (157)
T cd00267          99 PDLLLLDEPTSGLDPASRERLLELLRELAEEGRTVIIVTHDPELAELA  146 (157)
T ss_pred             CCEEEEeCCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHHHHh
Confidence            789999998543 122222332222211 1246788888887766553

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>PRK05917 DNA polymerase III subunit delta'; Validated

Probab=92.55  E-value=1.2  Score=49.53  Aligned_cols=142  Identities=9%  Similarity=-0.015  Sum_probs=72.3

Q ss_pred             HHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhc-cCcceEEEEecCCCCHHHHHHHHHHhhcCCC
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-HYEIKAWTCVSEDFDVFRISKSILNSVASDQ  272 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~  272 (1472)
                      .-+++...+..+.     -.....++|+.|+||+++|..++...-... ...|..| .....+|...        +....
T Consensus         5 ~~~~L~~~i~~~r-----l~HAyLf~G~~G~Gk~~lA~~~A~~llC~~~~~~c~~~-~~~~HPD~~~--------i~p~~   70 (290)
T PRK05917          5 AWEALIQRVRDQK-----VPSAIILHGQDLSNLSARAYELASLILKETSPEAAYKI-SQKIHPDIHE--------FSPQG   70 (290)
T ss_pred             HHHHHHHHHHcCC-----cCeeEeeECCCCCcHHHHHHHHHHHHhCCCCccHHHHH-hcCCCCCEEE--------EecCC
Confidence            3456666665432     245677999999999999988875221100 0000000 0000000000        00000


Q ss_pred             CCCcccHHHHHHHHHhhh-----CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHh-hCCCCce
Q 000471          273 CKDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAER-MGADPVY  345 (1472)
Q Consensus       273 ~~~~~~~~~~~~~l~~~l-----~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~-~~~~~~~  345 (1472)
                      ......+++..+ +.+.+     .+++-++|+|+++......+..+...+.....++.+|++|.+.+ +... ......+
T Consensus        71 ~~~~I~idqiR~-l~~~~~~~p~e~~~kv~ii~~ad~mt~~AaNaLLK~LEEPp~~~~fiL~~~~~~~ll~TI~SRcq~~  149 (290)
T PRK05917         71 KGRLHSIETPRA-IKKQIWIHPYESPYKIYIIHEADRMTLDAISAFLKVLEDPPQHGVIILTSAKPQRLPPTIRSRSLSI  149 (290)
T ss_pred             CCCcCcHHHHHH-HHHHHhhCccCCCceEEEEechhhcCHHHHHHHHHHhhcCCCCeEEEEEeCChhhCcHHHHhcceEE
Confidence            000112333222 22222     35566899999988877778888777766666777776666643 3322 2223455


Q ss_pred             eCCCC
Q 000471          346 QLKEL  350 (1472)
Q Consensus       346 ~l~~L  350 (1472)
                      .+.++
T Consensus       150 ~~~~~  154 (290)
T PRK05917        150 HIPME  154 (290)
T ss_pred             Eccch
Confidence            66554

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=92.52  E-value=0.73  Score=52.44  Aligned_cols=49  Identities=14%  Similarity=0.161  Sum_probs=33.0

Q ss_pred             ceeCCCCChHhHHHHHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHH
Q 000471          344 VYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       344 ~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal  393 (1472)
                      ++++++++.+|+..++.-++-..-- .....-+...+++.-..+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l-~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWL-RSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCcc-ccCCCCHHHHHHHHHhcCCCHHHh
Confidence            6799999999999998877632211 111223556677777779999543

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of conserved proteins which were originally described as death-associated-protein-3 (DAP-3). The proteins carry a P-loop DNA-binding motif, and induce apoptosis []. DAP3 has been shown to be a pro-apoptotic factor in the mitochondrial matrix [] and to be crucial for mitochondrial biogenesis and so has also been designated as MRP-S29 (mitochondrial ribosomal protein subunit 29).

>PRK07276 DNA polymerase III subunit delta'; Validated

Probab=92.47  E-value=3.9  Score=45.62  Aligned_cols=70  Identities=11%  Similarity=0.136  Sum_probs=46.7

Q ss_pred             CCCeEEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH-HHHhh-CCCCceeCCCCChHhHHHHHHh
Q 000471          291 SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM-GADPVYQLKELSDDDCLCVLTQ  361 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~  361 (1472)
                      .+++-++|+||++......+..+...+.....++.+|++|.+.+ +.... .....+.+.+ +.++..+.+..
T Consensus       102 ~~~~kV~II~~ad~m~~~AaNaLLKtLEEPp~~t~~iL~t~~~~~lLpTI~SRcq~i~f~~-~~~~~~~~L~~  173 (290)
T PRK07276        102 EGKQQVFIIKDADKMHVNAANSLLKVIEEPQSEIYIFLLTNDENKVLPTIKSRTQIFHFPK-NEAYLIQLLEQ  173 (290)
T ss_pred             cCCcEEEEeehhhhcCHHHHHHHHHHhcCCCCCeEEEEEECChhhCchHHHHcceeeeCCC-cHHHHHHHHHH
Confidence            35677999999998887778888877776666777777776643 33332 2234566766 66666666643

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=92.46  E-value=0.64  Score=49.06  Aligned_cols=23  Identities=30%  Similarity=0.453  Sum_probs=21.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      -.+++|+|+.|.|||||++.++.
T Consensus        33 Ge~~~l~G~nGsGKSTLl~~l~G   55 (192)
T cd03232          33 GTLTALMGESGAGKTTLLDVLAG   55 (192)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhC
Confidence            36899999999999999999985

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=92.46  E-value=0.65  Score=50.26  Aligned_cols=58  Identities=21%  Similarity=0.259  Sum_probs=34.5

Q ss_pred             HHHHHhhhCCCeEEEEEeCCCCC----CHhhHHhhcccccCCCCCcEEEEEcCChHHHHhhCC
Q 000471          283 QEKLKKQLSGNKFLLVLDDVWNE----NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGA  341 (1472)
Q Consensus       283 ~~~l~~~l~~k~~LlVlDdv~~~----~~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~  341 (1472)
                      ...+.+.|..+.=+++||.=-+.    .+.+.-++...+. ...|..||+++-+.+.|..++.
T Consensus       146 rv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~-~~~~~tvv~vlHDlN~A~ryad  207 (258)
T COG1120         146 RVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLN-REKGLTVVMVLHDLNLAARYAD  207 (258)
T ss_pred             HHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHH-HhcCCEEEEEecCHHHHHHhCC
Confidence            34556677777778889975321    2222222222232 1346779999999888776543

>COG0714 MoxR-like ATPases [General function prediction only]

Probab=92.45  E-value=0.26  Score=57.15  Aligned_cols=64  Identities=23%  Similarity=0.183  Sum_probs=46.8

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      .++|+++.+..+...+..+        +-+.+.|++|+|||+||++++..  ..   ....+|.+.......++...
T Consensus        25 ~~~g~~~~~~~~l~a~~~~--------~~vll~G~PG~gKT~la~~lA~~--l~---~~~~~i~~t~~l~p~d~~G~   88 (329)
T COG0714          25 VVVGDEEVIELALLALLAG--------GHVLLEGPPGVGKTLLARALARA--LG---LPFVRIQCTPDLLPSDLLGT   88 (329)
T ss_pred             eeeccHHHHHHHHHHHHcC--------CCEEEECCCCccHHHHHHHHHHH--hC---CCeEEEecCCCCCHHHhcCc
Confidence            3889988888888777664        34789999999999999999862  22   23456677766666555443

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=92.44  E-value=0.66  Score=55.45  Aligned_cols=25  Identities=32%  Similarity=0.324  Sum_probs=22.1

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ..+|++++|+.|+||||++..++..
T Consensus       255 ~g~Vi~LvGpnGvGKTTTiaKLA~~  279 (484)
T PRK06995        255 RGGVFALMGPTGVGKTTTTAKLAAR  279 (484)
T ss_pred             CCcEEEEECCCCccHHHHHHHHHHH
Confidence            3479999999999999999999863

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=92.44  E-value=0.27  Score=58.22  Aligned_cols=91  Identities=19%  Similarity=0.186  Sum_probs=54.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC-CHHHHHHHHHHhhcCCC------CCCcccH-----H
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF-DVFRISKSILNSVASDQ------CKDKDDL-----N  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~------~~~~~~~-----~  280 (1472)
                      -.-++|.|.+|+|||||+.++.+.... .+-+.++++-+++.. .+.++..++...-....      ..+....     .
T Consensus       143 GQR~gIfa~~G~GKt~Ll~~~~~~~~~-~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~  221 (461)
T PRK12597        143 GGKTGLFGGAGVGKTVLMMELIFNISK-QHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV  221 (461)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHh-hCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH
Confidence            356899999999999999988874332 255677777776654 44555555544221110      0011111     1


Q ss_pred             HHHHHHHhhh---CCCeEEEEEeCCCC
Q 000471          281 LLQEKLKKQL---SGNKFLLVLDDVWN  304 (1472)
Q Consensus       281 ~~~~~l~~~l---~~k~~LlVlDdv~~  304 (1472)
                      .....+.+++   +++++|+++||+-.
T Consensus       222 ~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        222 LTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHhcCCceEEEeccchH
Confidence            1223344555   37899999999933

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=92.33  E-value=0.94  Score=51.71  Aligned_cols=24  Identities=21%  Similarity=0.354  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -.+++|+|+.|.|||||.+.+...
T Consensus        28 Gei~~l~G~NGaGKTTLl~~l~Gl   51 (301)
T TIGR03522        28 GRIVGFLGPNGAGKSTTMKIITGY   51 (301)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999863

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>PTZ00185 ATPase alpha subunit; Provisional

Probab=92.25  E-value=0.55  Score=55.39  Aligned_cols=92  Identities=18%  Similarity=0.231  Sum_probs=51.5

Q ss_pred             cEEEEEEccCCCcHHHHH-HHHhcCcchh-----ccCcceEEEEecCCCCHHHHHHHHHHhhcC-C-------CCCCccc
Q 000471          213 FSVISINGMGGVGKTTLA-QLVYNDDRVQ-----RHYEIKAWTCVSEDFDVFRISKSILNSVAS-D-------QCKDKDD  278 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa-~~v~~~~~~~-----~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~-~-------~~~~~~~  278 (1472)
                      -.-++|.|..|+|||+|| ..+.+...+.     ++-+.++++-+++..+...-+.+.+++-+. .       ...+...
T Consensus       189 GQR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~  268 (574)
T PTZ00185        189 GQRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAG  268 (574)
T ss_pred             CCEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHH
Confidence            356889999999999997 5566643221     234567788888775433323333333321 1       0101111


Q ss_pred             HHH----HHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          279 LNL----LQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       279 ~~~----~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      ..-    ....+.+++  +++.+|+|+||+-.
T Consensus       269 ~r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        269 LQYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence            111    112233333  48899999999944

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=92.24  E-value=0.18  Score=54.46  Aligned_cols=62  Identities=26%  Similarity=0.242  Sum_probs=40.7

Q ss_pred             HHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHH
Q 000471          196 EEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       196 ~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~  261 (1472)
                      .+++..+...    .++..+|+|.|.||+|||||..++....+-+++=-.++=|+-|..++--.++
T Consensus        38 ~~ll~~l~p~----tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiL   99 (323)
T COG1703          38 RELLRALYPR----TGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSIL   99 (323)
T ss_pred             HHHHHHHhhc----CCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCcccc
Confidence            4555555442    3467899999999999999998887644334443344556666666544444

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=92.16  E-value=0.56  Score=50.94  Aligned_cols=48  Identities=21%  Similarity=0.155  Sum_probs=31.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      ..++.|.|.+|+||||+|.+++... .+.. ..+++++...  +..++.+.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~-~~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGF-LQNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHH-HhCC-CcEEEEeCCC--CHHHHHHHH
Confidence            4699999999999999987665432 1222 3456666333  445555555

>TIGR01069 mutS2 MutS2 family protein

Probab=92.14  E-value=0.16  Score=65.10  Aligned_cols=175  Identities=14%  Similarity=0.095  Sum_probs=80.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCC------CCCcccHHHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQ------CKDKDDLNLLQEKL  286 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~~~~~~~~l  286 (1472)
                      .++++|+|+.|.||||+.+.+.... ..  .....+|.+...... ..+.++...++...      ..-......+...+
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~~-l~--aq~G~~Vpa~~~~~~-~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~il  397 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLLA-LM--FQSGIPIPANEHSEI-PYFEEIFADIGDEQSIEQNLSTFSGHMKNISAIL  397 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHHH-HH--HHhCCCccCCccccc-cchhheeeecChHhHHhhhhhHHHHHHHHHHHHH
Confidence            4789999999999999999886531 00  011112222211000 01111111111100      00011122222222


Q ss_pred             HhhhCCCeEEEEEeCCCCC-CHhhHHhh----cccccCCCCCcEEEEEcCChHHHHhhCCCCceeCCCCChH-hHHHHHH
Q 000471          287 KKQLSGNKFLLVLDDVWNE-NYIRWSEL----RCPFVAGAAGSKIVVTTRNLVVAERMGADPVYQLKELSDD-DCLCVLT  360 (1472)
Q Consensus       287 ~~~l~~k~~LlVlDdv~~~-~~~~~~~l----~~~l~~~~~~s~iivTtR~~~v~~~~~~~~~~~l~~L~~~-~~~~lf~  360 (1472)
                      .. + ..+-|+++|..... +..+...+    ...+.  ..|+.+|+||-..++.........+.-..+..+ +... | 
T Consensus       398 ~~-~-~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~~d~~~l~-p-  471 (771)
T TIGR01069       398 SK-T-TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVLFDEETLS-P-  471 (771)
T ss_pred             Hh-c-CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEEEcCCCCc-e-
Confidence            22 2 57899999998653 22222223    22222  257899999999887654322211111111111 1110 0 


Q ss_pred             hhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhcCC
Q 000471          361 QISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGR  403 (1472)
Q Consensus       361 ~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~~~  403 (1472)
                      .+-+..+.+.     ...|-+|++++ |+|-.+.--|..+.+.
T Consensus       472 ~Ykl~~G~~g-----~S~a~~iA~~~-Glp~~ii~~A~~~~~~  508 (771)
T TIGR01069       472 TYKLLKGIPG-----ESYAFEIAQRY-GIPHFIIEQAKTFYGE  508 (771)
T ss_pred             EEEECCCCCC-----CcHHHHHHHHh-CcCHHHHHHHHHHHHh
Confidence            0101111111     24577777777 7887777777766544

Function of MutS2 is unknown. It should not be considered a DNA mismatch repair protein. It is likely a DNA mismatch binding protein of unknown cellular function.

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=92.14  E-value=0.12  Score=50.34  Aligned_cols=23  Identities=39%  Similarity=0.639  Sum_probs=20.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .+++.|+|.+|+||||+.+.+..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~   26 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALK   26 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHH
Confidence            58999999999999999987765

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=92.12  E-value=0.15  Score=53.39  Aligned_cols=120  Identities=13%  Similarity=0.059  Sum_probs=56.5

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCC--CCcccHHHHHHHHHhhhC-
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQC--KDKDDLNLLQEKLKKQLS-  291 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~--~~~~~~~~~~~~l~~~l~-  291 (1472)
                      ++.|+|+.|.||||+.+.+.-.. +-.+-.+.+|.....-    ....+++..++....  ........-..++...+. 
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~~-~la~~G~~v~a~~~~~----~~~d~il~~~~~~d~~~~~~s~fs~~~~~l~~~l~~   75 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLIV-IMAQIGSFVPAESAEL----PVFDRIFTRIGASDSLAQGLSTFMVEMKETANILKN   75 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHHH-HHHHhCCCeeehheEe----cccceEEEEeCCCCchhccccHHHHHHHHHHHHHHh
Confidence            46799999999999999987321 1112212222110000    001111111111100  011111111222333333 


Q ss_pred             -CCeEEEEEeCCCCCC-HhhHH----hhcccccCCCCCcEEEEEcCChHHHHhhC
Q 000471          292 -GNKFLLVLDDVWNEN-YIRWS----ELRCPFVAGAAGSKIVVTTRNLVVAERMG  340 (1472)
Q Consensus       292 -~k~~LlVlDdv~~~~-~~~~~----~l~~~l~~~~~~s~iivTtR~~~v~~~~~  340 (1472)
                       .++-++++|..-... ..+-.    .+...+.. ..++.+|++|...++...+.
T Consensus        76 ~~~~~llllDEp~~g~d~~~~~~~~~~~l~~l~~-~~~~~iii~TH~~~l~~~~~  129 (185)
T smart00534       76 ATENSLVLLDELGRGTSTYDGVAIAAAVLEYLLE-KIGALTLFATHYHELTKLAD  129 (185)
T ss_pred             CCCCeEEEEecCCCCCCHHHHHHHHHHHHHHHHh-cCCCeEEEEecHHHHHHHhh
Confidence             378999999985432 11111    12222221 13678999999988776653

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=92.11  E-value=0.22  Score=61.85  Aligned_cols=75  Identities=15%  Similarity=0.053  Sum_probs=54.9

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|.++.++.+...+...        +.+.++|++|+||||+|+.+.... ...+++..+|...+ ..+...+++.++
T Consensus        31 ~~vigq~~a~~~L~~~~~~~--------~~~l~~G~~G~GKttla~~l~~~l-~~~~~~~~~~~~np-~~~~~~~~~~v~  100 (637)
T PRK13765         31 DQVIGQEHAVEVIKKAAKQR--------RHVMMIGSPGTGKSMLAKAMAELL-PKEELQDILVYPNP-EDPNNPKIRTVP  100 (637)
T ss_pred             HHcCChHHHHHHHHHHHHhC--------CeEEEECCCCCcHHHHHHHHHHHc-ChHhHHHheEeeCC-CcchHHHHHHHH
Confidence            46899999998888877542        368899999999999999998742 23346777887663 336667777777


Q ss_pred             HhhcC
Q 000471          266 NSVAS  270 (1472)
Q Consensus       266 ~~l~~  270 (1472)
                      .+.+.
T Consensus       101 ~~~G~  105 (637)
T PRK13765        101 AGKGK  105 (637)
T ss_pred             HhcCH
Confidence            65544

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=92.11  E-value=0.42  Score=52.90  Aligned_cols=20  Identities=35%  Similarity=0.655  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHhc
Q 000471          216 ISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~  235 (1472)
                      |.++|++|+||||+|+++..
T Consensus         2 Ivl~G~pGSGKST~a~~La~   21 (249)
T TIGR03574         2 IILTGLPGVGKSTFSKELAK   21 (249)
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999999986

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents archaeal proteins with this activity.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=92.09  E-value=0.31  Score=57.47  Aligned_cols=90  Identities=22%  Similarity=0.254  Sum_probs=52.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC-CHHHHHHHHHHhhcCCC------CCCcccHH-----
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF-DVFRISKSILNSVASDQ------CKDKDDLN-----  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~------~~~~~~~~-----  280 (1472)
                      -.-++|.|.+|+|||||+.++....... +=+.++++-+++.. .+.+++.++...=....      ..+.....     
T Consensus       144 GQR~gIfa~~GvGKt~Ll~~i~~~~~~~-~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~  222 (463)
T PRK09280        144 GGKIGLFGGAGVGKTVLIQELINNIAKE-HGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVA  222 (463)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHHhc-CCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHH
Confidence            3568999999999999999887532211 11356677776654 45566666654321110      00111111     


Q ss_pred             HHHHHHHhhh---CCCeEEEEEeCCC
Q 000471          281 LLQEKLKKQL---SGNKFLLVLDDVW  303 (1472)
Q Consensus       281 ~~~~~l~~~l---~~k~~LlVlDdv~  303 (1472)
                      ...-.+.+++   +++++|+++|++-
T Consensus       223 ~~a~tiAEyfrd~~G~~VLll~DslT  248 (463)
T PRK09280        223 LTGLTMAEYFRDVEGQDVLLFIDNIF  248 (463)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecchH
Confidence            1222345555   5789999999993

>PRK11823 DNA repair protein RadA; Provisional

Probab=92.08  E-value=0.63  Score=55.97  Aligned_cols=84  Identities=19%  Similarity=0.152  Sum_probs=48.0

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC----CcccHHHHHHHHH
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK----DKDDLNLLQEKLK  287 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~----~~~~~~~~~~~l~  287 (1472)
                      .-.++.|.|.+|+|||||+.+++....  ..-..++|++..+..  .++.. .++.++.....    ...+.+.+.+.+.
T Consensus        79 ~Gs~~lI~G~pG~GKTtL~lq~a~~~a--~~g~~vlYvs~Ees~--~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i~  153 (446)
T PRK11823         79 PGSVVLIGGDPGIGKSTLLLQVAARLA--AAGGKVLYVSGEESA--SQIKL-RAERLGLPSDNLYLLAETNLEAILATIE  153 (446)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHH--hcCCeEEEEEccccH--HHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHHH
Confidence            457999999999999999999986422  222356788765443  33322 23444332110    1123444444443


Q ss_pred             hhhCCCeEEEEEeCCC
Q 000471          288 KQLSGNKFLLVLDDVW  303 (1472)
Q Consensus       288 ~~l~~k~~LlVlDdv~  303 (1472)
                      +   .+.-++|+|.+.
T Consensus       154 ~---~~~~lVVIDSIq  166 (446)
T PRK11823        154 E---EKPDLVVIDSIQ  166 (446)
T ss_pred             h---hCCCEEEEechh
Confidence            2   245578888874

>PRK05973 replicative DNA helicase; Provisional

Probab=92.06  E-value=0.68  Score=49.86  Aligned_cols=48  Identities=10%  Similarity=0.053  Sum_probs=32.4

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHH
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      ...++.|.|.+|+|||++|.++....  ..+-..+++++....  ..++...
T Consensus        63 ~Gsl~LIaG~PG~GKT~lalqfa~~~--a~~Ge~vlyfSlEes--~~~i~~R  110 (237)
T PRK05973         63 PGDLVLLGARPGHGKTLLGLELAVEA--MKSGRTGVFFTLEYT--EQDVRDR  110 (237)
T ss_pred             CCCEEEEEeCCCCCHHHHHHHHHHHH--HhcCCeEEEEEEeCC--HHHHHHH
Confidence            34689999999999999999887532  122345667766555  3444444

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=92.02  E-value=1.1  Score=48.28  Aligned_cols=24  Identities=29%  Similarity=0.379  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -.+++|+|..|.|||||++.+...
T Consensus        37 Ge~~~i~G~nGsGKSTLl~~i~G~   60 (214)
T PRK13543         37 GEALLVQGDNGAGKTTLLRVLAGL   60 (214)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCC
Confidence            358999999999999999999864

>TIGR00416 sms DNA repair protein RadA

Probab=92.01  E-value=0.72  Score=55.49  Aligned_cols=54  Identities=26%  Similarity=0.158  Sum_probs=35.5

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      ...+-+.|..    +-..-.++.|.|.+|+|||||+.++.....  ..-..++|++..+.
T Consensus        80 i~~LD~vLgG----Gi~~GsvilI~G~pGsGKTTL~lq~a~~~a--~~g~kvlYvs~EEs  133 (454)
T TIGR00416        80 FGELDRVLGG----GIVPGSLILIGGDPGIGKSTLLLQVACQLA--KNQMKVLYVSGEES  133 (454)
T ss_pred             cHHHHHHhcC----CccCCeEEEEEcCCCCCHHHHHHHHHHHHH--hcCCcEEEEECcCC
Confidence            4455555532    223457999999999999999999876322  22235678876543

The gene protuct codes for a probable ATP-dependent protease involved in both DNA repair and degradation of proteins, peptides, glycopeptides. Also known as sms. Residues 11-28 of the SEED alignment contain a putative Zn binding domain. Residues 110-117 of the seed contain a putative ATP binding site both documented in Haemophilus and in Listeria monocytogenes. for E.coli see ( J. BACTERIOL. 178:5045-5048(1996)).

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=92.01  E-value=0.7  Score=52.63  Aligned_cols=25  Identities=36%  Similarity=0.375  Sum_probs=22.3

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ...+++++|++|+||||++..++..
T Consensus       113 ~~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        113 KPFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4689999999999999999998863

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=92.01  E-value=0.15  Score=51.69  Aligned_cols=25  Identities=28%  Similarity=0.410  Sum_probs=22.4

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ...+++|+|..|+|||||++.+...
T Consensus         5 ~~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          5 MIPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             CceEEEEECCCCChHHHHHHHHHHH
Confidence            4679999999999999999999863

>cd01134 V_A-ATPase_A V/A-type ATP synthase catalytic subunit A

Probab=92.00  E-value=0.84  Score=51.43  Aligned_cols=48  Identities=19%  Similarity=0.197  Sum_probs=35.6

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC-CHHHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF-DVFRISKSI  264 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i  264 (1472)
                      -..++|.|..|+|||+|++++.+..    +-+.++++-+++.. .+.+++.++
T Consensus       157 Gqr~~I~G~~G~GKT~L~~~Iak~~----~~dvvVyv~iGERg~Ev~e~l~ef  205 (369)
T cd01134         157 GGTAAIPGPFGCGKTVIQQSLSKYS----NSDIVIYVGCGERGNEMTEVLEEF  205 (369)
T ss_pred             CCEEEEECCCCCChHHHHHHHHhCC----CCCEEEEEEeCCChHHHHHHHHHH
Confidence            3578999999999999999999742    33567788887664 445555554

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=91.99  E-value=0.17  Score=56.55  Aligned_cols=42  Identities=29%  Similarity=0.237  Sum_probs=35.2

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      +.-+++.|+|.+|+|||++|.++..  +...+...++||+..+.
T Consensus        21 p~g~~~lI~G~pGsGKT~f~~qfl~--~~~~~ge~vlyvs~~e~   62 (260)
T COG0467          21 PRGSVVLITGPPGTGKTIFALQFLY--EGAREGEPVLYVSTEES   62 (260)
T ss_pred             cCCcEEEEEcCCCCcHHHHHHHHHH--HHHhcCCcEEEEEecCC
Confidence            4568999999999999999999987  44455788999988766

>PRK11388 DNA-binding transcriptional regulator DhaR; Provisional

Probab=91.94  E-value=0.39  Score=61.45  Aligned_cols=130  Identities=18%  Similarity=0.116  Sum_probs=69.6

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  266 (1472)
                      .++|....+.++.+....-.   .. ..-|.|+|..|+||+++|+.+++...  ..-...+.|++..-.. ..+..+++.
T Consensus       326 ~l~g~s~~~~~~~~~~~~~a---~~-~~pvli~Ge~GtGK~~~A~~ih~~s~--r~~~pfv~vnc~~~~~-~~~~~elfg  398 (638)
T PRK11388        326 HMPQDSPQMRRLIHFGRQAA---KS-SFPVLLCGEEGVGKALLAQAIHNESE--RAAGPYIAVNCQLYPD-EALAEEFLG  398 (638)
T ss_pred             ceEECCHHHHHHHHHHHHHh---Cc-CCCEEEECCCCcCHHHHHHHHHHhCC--ccCCCeEEEECCCCCh-HHHHHHhcC
Confidence            58899988888887775432   11 23377999999999999999986321  1112234455544322 222233332


Q ss_pred             hhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCCC-----------CCcEEEEEcCC
Q 000471          267 SVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGA-----------AGSKIVVTTRN  332 (1472)
Q Consensus       267 ~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~~-----------~~s~iivTtR~  332 (1472)
                      ...........      ..+.   ....=.|+||++..........+...+..+.           ...|||.||..
T Consensus       399 ~~~~~~~~~~~------g~~~---~a~~GtL~ldei~~l~~~~Q~~Ll~~l~~~~~~~~~~~~~~~~~~riI~~t~~  466 (638)
T PRK11388        399 SDRTDSENGRL------SKFE---LAHGGTLFLEKVEYLSPELQSALLQVLKTGVITRLDSRRLIPVDVRVIATTTA  466 (638)
T ss_pred             CCCcCccCCCC------Ccee---ECCCCEEEEcChhhCCHHHHHHHHHHHhcCcEEeCCCCceEEeeEEEEEeccC
Confidence            21110000000      0000   1123458999998876655556655443221           13577777664

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=91.94  E-value=0.45  Score=54.34  Aligned_cols=88  Identities=19%  Similarity=0.143  Sum_probs=45.0

Q ss_pred             cEEEEEEccCCCcHHH-HHHHHhcCcchhccCcceEEEEecC-CCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTT-LAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTt-La~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l  290 (1472)
                      .+||.+||+.|||||| ||+..+.-....++ ..++.++... .....+-++.-++-++.+-. ...+..++...+... 
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~-~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~-vv~~~~el~~ai~~l-  279 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKK-KKVAIITTDTYRIGAVEQLKTYADIMGVPLE-VVYSPKELAEAIEAL-  279 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccC-cceEEEEeccchhhHHHHHHHHHHHhCCceE-EecCHHHHHHHHHHh-
Confidence            6899999999999985 55544431111222 3455555432 22333444444444444432 334445555544433 


Q ss_pred             CCCeEEEEEeCCCC
Q 000471          291 SGNKFLLVLDDVWN  304 (1472)
Q Consensus       291 ~~k~~LlVlDdv~~  304 (1472)
                      ++. =+|.+|=+..
T Consensus       280 ~~~-d~ILVDTaGr  292 (407)
T COG1419         280 RDC-DVILVDTAGR  292 (407)
T ss_pred             hcC-CEEEEeCCCC
Confidence            233 3555566644

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=91.93  E-value=0.29  Score=51.91  Aligned_cols=41  Identities=24%  Similarity=0.278  Sum_probs=27.3

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccC--------cceEEEEecCC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHY--------EIKAWTCVSED  254 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f--------~~~~wv~~~~~  254 (1472)
                      .++.|+|++|+||||++.++.........|        ..++|++....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            478899999999999998887643322222        35678877666

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=91.93  E-value=1.3  Score=47.48  Aligned_cols=23  Identities=35%  Similarity=0.456  Sum_probs=20.8

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhc
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      -.+++|.|..|.|||||++.+..
T Consensus        34 G~~~~i~G~nGsGKSTLl~~l~G   56 (207)
T cd03369          34 GEKIGIVGRTGAGKSTLILALFR   56 (207)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhc
Confidence            35899999999999999999975

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=91.90  E-value=0.097  Score=54.95  Aligned_cols=21  Identities=29%  Similarity=0.344  Sum_probs=19.3

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ||.|+|++|+||||+|+.++.
T Consensus         1 ~i~i~G~pGsGKst~a~~la~   21 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVE   21 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999986

This subfamily of the adenylate kinase superfamily contains examples of UMP-CMP kinase, as well as others proteins with unknown specificity, some currently designated adenylate kinase. All known members are eukaryotic.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=91.87  E-value=0.098  Score=55.68  Aligned_cols=21  Identities=43%  Similarity=0.659  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +|+|.|+.|+||||+|+.+..
T Consensus         1 iigi~G~~GsGKSTl~~~l~~   21 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIE   21 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999999876

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=91.83  E-value=0.52  Score=51.54  Aligned_cols=41  Identities=17%  Similarity=0.203  Sum_probs=29.9

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      .-.++.|.|.+|+||||+|.++.... . ..-..++|++....
T Consensus        19 ~G~~~~i~G~~G~GKT~l~~~~~~~~-~-~~g~~~~~is~e~~   59 (229)
T TIGR03881        19 RGFFVAVTGEPGTGKTIFCLHFAYKG-L-RDGDPVIYVTTEES   59 (229)
T ss_pred             CCeEEEEECCCCCChHHHHHHHHHHH-H-hcCCeEEEEEccCC
Confidence            45799999999999999999876421 1 22346788876443

Members of this protein family are archaeal single-domain KaiC_related proteins, homologous to the Cyanobacterial circadian clock cycle protein KaiC, an autokinase/autophosphorylase that has two copies of the domain.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=91.81  E-value=0.13  Score=53.80  Aligned_cols=23  Identities=30%  Similarity=0.430  Sum_probs=20.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcC
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .+++|+|+.|+||||+|+.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999998763

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=91.79  E-value=0.89  Score=50.30  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -.+++|+|+.|.|||||++.++.-
T Consensus        30 Ge~~~I~G~NGsGKSTLl~~i~Gl   53 (251)
T PRK09544         30 GKILTLLGPNGAGKSTLVRVVLGL   53 (251)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999863

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=91.79  E-value=0.33  Score=57.16  Aligned_cols=91  Identities=15%  Similarity=0.213  Sum_probs=54.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC-HHHHHHHHHHhhcCC-------CCCCcccH----H
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD-VFRISKSILNSVASD-------QCKDKDDL----N  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~-------~~~~~~~~----~  280 (1472)
                      -.-++|.|.+|+|||+|+.++..+.. +.+-+.++++-+++... +.++..++...=...       ...+..-.    -
T Consensus       138 GQr~~Ifg~~G~GKt~l~~~~~~~~~-~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       138 GGKAGLFGGAGVGKTVLLTEMIHNMV-GQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             CCEEEeecCCCCChhHHHHHHHHHHH-hcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            35689999999999999999876532 23346778888876653 455555554421111       00011111    1


Q ss_pred             HHHHHHHhhhC---CCeEEEEEeCCCC
Q 000471          281 LLQEKLKKQLS---GNKFLLVLDDVWN  304 (1472)
Q Consensus       281 ~~~~~l~~~l~---~k~~LlVlDdv~~  304 (1472)
                      .....+.++++   ++++|+++||+-.
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~DslTR  243 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNIFR  243 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecChHH
Confidence            12233455553   6899999999943

A small number of taxonomically diverse prokaryotic species have what appears to be a second ATP synthase, in addition to the normal F1F0 ATPase in bacteria and A1A0 ATPase in archaea. These enzymes use ion gradients to synthesize ATP, and in principle may run in either direction. This model represents the F1 beta subunit of this apparent second ATP synthase.

>PRK00131 aroK shikimate kinase; Reviewed

Probab=91.78  E-value=0.12  Score=53.66  Aligned_cols=24  Identities=29%  Similarity=0.419  Sum_probs=21.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ...|.|+|++|+||||+|+.++..
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            458999999999999999999873

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=91.74  E-value=0.13  Score=50.84  Aligned_cols=20  Identities=50%  Similarity=0.806  Sum_probs=18.5

Q ss_pred             EEEEEccCCCcHHHHHHHHh
Q 000471          215 VISINGMGGVGKTTLAQLVY  234 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~  234 (1472)
                      .|+|.|.+|+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999886

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=91.74  E-value=0.41  Score=54.16  Aligned_cols=98  Identities=21%  Similarity=0.188  Sum_probs=58.7

Q ss_pred             HHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK  274 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~  274 (1472)
                      ..++-+.|-..    --.-.+|.|-|-+|||||||.-+++.+  ....- .+.+|+..+...-.   +--++.++.....
T Consensus        79 ~~EldRVLGGG----~V~Gs~iLIgGdPGIGKSTLLLQva~~--lA~~~-~vLYVsGEES~~Qi---klRA~RL~~~~~~  148 (456)
T COG1066          79 IEELDRVLGGG----LVPGSVILIGGDPGIGKSTLLLQVAAR--LAKRG-KVLYVSGEESLQQI---KLRADRLGLPTNN  148 (456)
T ss_pred             hHHHHhhhcCC----cccccEEEEccCCCCCHHHHHHHHHHH--HHhcC-cEEEEeCCcCHHHH---HHHHHHhCCCccc
Confidence            45555555321    123579999999999999999999873  33333 57777655553322   2234455433221


Q ss_pred             ----CcccHHHHHHHHHhhhCCCeEEEEEeCCCCC
Q 000471          275 ----DKDDLNLLQEKLKKQLSGNKFLLVLDDVWNE  305 (1472)
Q Consensus       275 ----~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~  305 (1472)
                          ...+++.+.+.+.+   .++-++|+|-+...
T Consensus       149 l~l~aEt~~e~I~~~l~~---~~p~lvVIDSIQT~  180 (456)
T COG1066         149 LYLLAETNLEDIIAELEQ---EKPDLVVIDSIQTL  180 (456)
T ss_pred             eEEehhcCHHHHHHHHHh---cCCCEEEEecccee
Confidence                22344444444444   57889999998553

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=91.71  E-value=0.25  Score=55.71  Aligned_cols=48  Identities=19%  Similarity=0.223  Sum_probs=32.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      .+++.+.|.|||||||+|.+.+-  ........++-|+.....+..+++.
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~--~lA~~g~kvLlvStDPAhsL~d~f~   49 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAV--KLAESGKKVLLVSTDPAHSLGDVFD   49 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHH--HHHHcCCcEEEEEeCCCCchHhhhc
Confidence            47999999999999999988654  2222334466666666555554443

>PRK08149 ATP synthase SpaL; Validated

Probab=91.69  E-value=0.46  Score=55.75  Aligned_cols=88  Identities=16%  Similarity=0.233  Sum_probs=49.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC-CCHHHHHHHHHHhhcCC-------CCCCccc----HH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-FDVFRISKSILNSVASD-------QCKDKDD----LN  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~-------~~~~~~~----~~  280 (1472)
                      -..++|+|..|+|||||++.++....    -+.++...+... .++.++..+........       ...+..-    ..
T Consensus       151 Gq~i~I~G~sG~GKTTLl~~i~~~~~----~dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~  226 (428)
T PRK08149        151 GQRMGIFASAGCGKTSLMNMLIEHSE----ADVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA  226 (428)
T ss_pred             CCEEEEECCCCCChhHHHHHHhcCCC----CCeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence            35789999999999999999987432    223333444333 34555666655532211       0101110    11


Q ss_pred             HHHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          281 LLQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       281 ~~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      .....+.+++  ++|++|+++||+-.
T Consensus       227 ~~a~tiAE~fr~~G~~Vll~~DslTr  252 (428)
T PRK08149        227 LVATTVAEYFRDQGKRVVLFIDSMTR  252 (428)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccchHH
Confidence            1122233333  48999999999943

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=91.68  E-value=0.36  Score=54.97  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=18.7

Q ss_pred             EEEEccCCCcHHHHHHHHhcC
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      +.+.|++|.||||+|+.+.+.
T Consensus         2 ~~l~Gl~GaGKST~~~~l~~~   22 (340)
T TIGR03575         2 CVLCGLPAAGKSTLARSLSAT   22 (340)
T ss_pred             eEEECCCCCCHHHHHHHHHHH
Confidence            578999999999999999864

Members of this protein are L-seryl-tRNA(Sec) kinase. This enzyme is part of a two-step pathway in Eukaryota and Archaea for performing selenocysteine biosynthesis by changing serine misacylated on selenocysteine-tRNA to selenocysteine. This enzyme performs the first step, phosphorylation of the OH group of the serine side chain. This family represents eukaryotic proteins with this activity.

>PRK12678 transcription termination factor Rho; Provisional

Probab=91.63  E-value=0.39  Score=57.18  Aligned_cols=90  Identities=21%  Similarity=0.159  Sum_probs=47.7

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceE-EEEecCCCC-HHHHHHHHHHhhcCCCCCCccc----HHHHHHHH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKA-WTCVSEDFD-VFRISKSILNSVASDQCKDKDD----LNLLQEKL  286 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~-wv~~~~~~~-~~~~~~~i~~~l~~~~~~~~~~----~~~~~~~l  286 (1472)
                      -.-..|+|++|+|||||++.+.+... ..+-++.+ .+-+.+... +.++.+.+-..+-.........    ...+.-.+
T Consensus       416 GQR~LIvgpp~aGKTtLL~~IAn~i~-~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~~  494 (672)
T PRK12678        416 GQRGLIVSPPKAGKTTILQNIANAIT-TNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIER  494 (672)
T ss_pred             CCEeEEeCCCCCCHHHHHHHHHHHHh-hcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHHH
Confidence            34678999999999999999987421 12333433 344444432 3333333211111111111111    11222233


Q ss_pred             Hhhh--CCCeEEEEEeCCC
Q 000471          287 KKQL--SGNKFLLVLDDVW  303 (1472)
Q Consensus       287 ~~~l--~~k~~LlVlDdv~  303 (1472)
                      .+++  .++.+||++|++-
T Consensus       495 Ae~fre~G~dVlillDSlT  513 (672)
T PRK12678        495 AKRLVELGKDVVVLLDSIT  513 (672)
T ss_pred             HHHHHHcCCCEEEEEeCch
Confidence            4444  5889999999983

>PF01078 Mg_chelatase: Magnesium chelatase, subunit ChlI; InterPro: IPR000523 Magnesium-chelatase is a three-component enzyme that catalyses the insertion of Mg2+ into protoporphyrin IX

Probab=91.60  E-value=0.25  Score=51.30  Aligned_cols=42  Identities=24%  Similarity=0.270  Sum_probs=30.8

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhc
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      .+++|-+..+..+.-....        ..-+.++|++|+|||++|+.+..
T Consensus         3 ~dI~GQe~aKrAL~iAAaG--------~h~lLl~GppGtGKTmlA~~l~~   44 (206)
T PF01078_consen    3 SDIVGQEEAKRALEIAAAG--------GHHLLLIGPPGTGKTMLARRLPS   44 (206)
T ss_dssp             CCSSSTHHHHHHHHHHHHC--------C--EEEES-CCCTHHHHHHHHHH
T ss_pred             hhhcCcHHHHHHHHHHHcC--------CCCeEEECCCCCCHHHHHHHHHH
Confidence            3578888887777666543        24688999999999999999864

This is the first unique step in the synthesis of (bacterio)chlorophyll. As a result, it is thought that Mg-chelatase has an important role in channeling intermediates into the (bacterio)chlorophyll branch in response to conditions suitable for photosynthetic growth. ChlI and BchD have molecular weights between 38-42 kDa.; GO: 0016851 magnesium chelatase activity, 0015979 photosynthesis, 0015995 chlorophyll biosynthetic process; PDB: 2X31_J 1G8P_A 3K1J_B.

>PF13245 AAA_19: Part of AAA domain

Probab=91.58  E-value=0.26  Score=42.39  Aligned_cols=21  Identities=29%  Similarity=0.373  Sum_probs=16.1

Q ss_pred             EEEEEEccCCCcHHHHHHHHh
Q 000471          214 SVISINGMGGVGKTTLAQLVY  234 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~  234 (1472)
                      +++.|.|++|.|||+++.+..
T Consensus        11 ~~~vv~g~pGtGKT~~~~~~i   31 (76)
T PF13245_consen   11 PLFVVQGPPGTGKTTTLAARI   31 (76)
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            578889999999995554443

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=91.57  E-value=0.59  Score=45.54  Aligned_cols=100  Identities=19%  Similarity=0.268  Sum_probs=42.0

Q ss_pred             ccCCCCCccEEeeccCCCccccCC-CCCCCCCccEEecccccccccc-cccCCCCCcccEeeecCCCCCccCCCC--CCC
Q 000471         1260 DLHNLHHLQKIWINYCPNLESFPE-EGLPSTKLTELTIYDCENLKAL-PNCMHNLTSLLILEIRGCPSVVSFPED--GFP 1335 (1472)
Q Consensus      1260 ~l~~l~~L~~L~Ls~~~~l~~l~~-~~~~l~~L~~L~Ls~c~~l~~l-p~~l~~l~~L~~L~L~~n~~l~~~p~~--~~~ 1335 (1472)
                      .|.++++|+.+.+..  .+..++. .|..+++|+.+++.++  +..+ ...|.++++|+.+.+.+  .+..++..  ...
T Consensus         7 ~F~~~~~l~~i~~~~--~~~~I~~~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~--~~~~i~~~~F~~~   80 (129)
T PF13306_consen    7 AFYNCSNLESITFPN--TIKKIGENAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN--NLKSIGDNAFSNC   80 (129)
T ss_dssp             TTTT-TT--EEEETS--T--EE-TTTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS--TT-EE-TTTTTT-
T ss_pred             HHhCCCCCCEEEECC--CeeEeChhhccccccccccccccc--ccccceeeeecccccccccccc--ccccccccccccc
Confidence            456666677777653  2334433 3455556777766652  2222 23456666677777754  23334333  335


Q ss_pred             CCcceeEeccccCCCCCCccccccccccceeee
Q 000471         1336 TNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTI 1368 (1472)
Q Consensus      1336 ~~L~~L~l~~n~~~~~~~~~~l~~l~~L~~L~L 1368 (1472)
                      ++|+.+++..+ +. .++...|.++ +|+.+.+
T Consensus        81 ~~l~~i~~~~~-~~-~i~~~~f~~~-~l~~i~~  110 (129)
T PF13306_consen   81 TNLKNIDIPSN-IT-EIGSSSFSNC-NLKEINI  110 (129)
T ss_dssp             TTECEEEETTT--B-EEHTTTTTT--T--EEE-
T ss_pred             ccccccccCcc-cc-EEchhhhcCC-CceEEEE
Confidence            66666666543 22 2222245554 5555554

>PF03969 AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654 ATPase family gene 1 (AFG1) ATPase is a 377 amino acid putative protein with an ATPase motif typical of the protein family including SEC18p PAS1, CDC48-VCP and TBP

Probab=91.55  E-value=0.41  Score=55.43  Aligned_cols=101  Identities=20%  Similarity=0.238  Sum_probs=55.9

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhcCcch----hccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCCcccHHHHHHHHH
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRV----QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLK  287 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~  287 (1472)
                      .++=+-|||..|.|||.|.-.+|+...+    +-||.              ....++-+.+..-.. ..+.+..+    .
T Consensus        61 ~~~GlYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~HFh--------------~Fm~~vh~~l~~~~~-~~~~l~~v----a  121 (362)
T PF03969_consen   61 PPKGLYLWGPVGRGKTMLMDLFYDSLPIKRKRRVHFH--------------EFMLDVHSRLHQLRG-QDDPLPQV----A  121 (362)
T ss_pred             CCceEEEECCCCCchhHHHHHHHHhCCcccccccccc--------------HHHHHHHHHHHHHhC-CCccHHHH----H
Confidence            4677999999999999999999985433    23442              223333333322111 22333333    3


Q ss_pred             hhhCCCeEEEEEeCCCCCCHhhH---HhhcccccCCCCCcEEEEEcCChH
Q 000471          288 KQLSGNKFLLVLDDVWNENYIRW---SELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       288 ~~l~~k~~LlVlDdv~~~~~~~~---~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                      +.+.++..||.||.+.-.+..+-   ..+...+.  ..|. |||+|.+..
T Consensus       122 ~~l~~~~~lLcfDEF~V~DiaDAmil~rLf~~l~--~~gv-vlVaTSN~~  168 (362)
T PF03969_consen  122 DELAKESRLLCFDEFQVTDIADAMILKRLFEALF--KRGV-VLVATSNRP  168 (362)
T ss_pred             HHHHhcCCEEEEeeeeccchhHHHHHHHHHHHHH--HCCC-EEEecCCCC
Confidence            34455667999999866544432   22222222  2454 555555543

AFG1 also has substantial homology to these proteins outside the ATPase domain []. This family of proteins contains a P-loop motif.; GO: 0005524 ATP binding

>KOG2170 consensus ATPase of the AAA+ superfamily [General function prediction only]

Probab=91.54  E-value=0.48  Score=51.17  Aligned_cols=115  Identities=13%  Similarity=0.158  Sum_probs=66.4

Q ss_pred             CceeechhHHHHHHHHHhcCC-CCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDD-LRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~-~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      ..++|..-.++.|+..+.+-- ...+.++-|++.+|..|+||.-.|+.++++..-.+-              ........
T Consensus        82 ~~lfGQHla~~~Vv~alk~~~~n~~p~KPLvLSfHG~tGTGKN~Va~iiA~n~~~~Gl--------------~S~~V~~f  147 (344)
T KOG2170|consen   82 RALFGQHLAKQLVVNALKSHWANPNPRKPLVLSFHGWTGTGKNYVAEIIAENLYRGGL--------------RSPFVHHF  147 (344)
T ss_pred             HHhhchHHHHHHHHHHHHHHhcCCCCCCCeEEEecCCCCCchhHHHHHHHHHHHhccc--------------cchhHHHh
Confidence            347787777777777665421 114567889999999999999999998874211110              00111222


Q ss_pred             HHhhcCCCCCCcccHH----HHHHHHHhhh-CCCeEEEEEeCCCCCCHhhHHhhcccc
Q 000471          265 LNSVASDQCKDKDDLN----LLQEKLKKQL-SGNKFLLVLDDVWNENYIRWSELRCPF  317 (1472)
Q Consensus       265 ~~~l~~~~~~~~~~~~----~~~~~l~~~l-~~k~~LlVlDdv~~~~~~~~~~l~~~l  317 (1472)
                      .....-+   ....++    +++.+++..+ .-+|-|+|+|+|+.....-.+.+...+
T Consensus       148 vat~hFP---~~~~ie~Yk~eL~~~v~~~v~~C~rslFIFDE~DKmp~gLld~lkpfL  202 (344)
T KOG2170|consen  148 VATLHFP---HASKIEDYKEELKNRVRGTVQACQRSLFIFDEVDKLPPGLLDVLKPFL  202 (344)
T ss_pred             hhhccCC---ChHHHHHHHHHHHHHHHHHHHhcCCceEEechhhhcCHhHHHHHhhhh
Confidence            2222222   122222    3344444433 257999999999877655555555444

>PRK15453 phosphoribulokinase; Provisional

Probab=91.54  E-value=0.87  Score=49.83  Aligned_cols=24  Identities=25%  Similarity=0.486  Sum_probs=21.7

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhc
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +..+|+|.|.+|+||||+|+.+..
T Consensus         4 k~piI~ItG~SGsGKTTva~~l~~   27 (290)
T PRK15453          4 KHPIIAVTGSSGAGTTTVKRAFEK   27 (290)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998875

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=91.50  E-value=0.88  Score=51.54  Aligned_cols=88  Identities=17%  Similarity=0.232  Sum_probs=48.2

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC-CCCHHHHHHHHHHhhcCC-------CCCCcccHH----
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASD-------QCKDKDDLN----  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~i~~~l~~~-------~~~~~~~~~----  280 (1472)
                      ...++|+|..|.|||||++.+.....    -+..+..-+.. ..++.++....+..-...       ..++.....    
T Consensus        69 Gqri~I~G~sG~GKTtLl~~Ia~~~~----~~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~  144 (326)
T cd01136          69 GQRLGIFAGSGVGKSTLLGMIARGTT----ADVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAA  144 (326)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCC----CCEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHH
Confidence            35789999999999999999987432    12333344433 334555555554432111       010111111    


Q ss_pred             HHHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          281 LLQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       281 ~~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      ...-.+.+++  ++|.+|+++||+-.
T Consensus       145 ~~a~~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         145 YTATAIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHHHHHcCCCeEEEeccchH
Confidence            1112223333  48899999999833

This group of ATPases are responsible for the export of flagellum and virulence-related proteins. The bacterial flagellar motor is similar to the F0F1-ATPase, in that they both are proton driven rotary molecular devices. However, the main function of the bacterial flagellar motor is to rotate the flagellar filament for cell motility. Intracellular pathogens such as Salmonella and Chlamydia also have proteins which are similar to the flagellar-specific ATPase, but function in the secretion of virulence-related proteins via the type III secretory pathway.

>PRK06793 fliI flagellum-specific ATP synthase; Validated

Probab=91.44  E-value=0.68  Score=54.48  Aligned_cols=90  Identities=19%  Similarity=0.173  Sum_probs=50.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCC-------CCCCcccH----HH
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASD-------QCKDKDDL----NL  281 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~-------~~~~~~~~----~~  281 (1472)
                      -..++|+|..|+|||||++.++.....   ...++...-.+...+.+.++..+..-+..       ...+....    ..
T Consensus       156 Gqri~I~G~sG~GKTtLl~~Ia~~~~~---~~gvI~~iGerg~ev~e~~~~~l~~~gl~~tvvv~~tsd~s~~~r~ra~~  232 (432)
T PRK06793        156 GQKIGIFAGSGVGKSTLLGMIAKNAKA---DINVISLVGERGREVKDFIRKELGEEGMRKSVVVVATSDESHLMQLRAAK  232 (432)
T ss_pred             CcEEEEECCCCCChHHHHHHHhccCCC---CeEEEEeCCCCcccHHHHHHHHhhhcccceeEEEEECCCCCHHHHHHHHH
Confidence            457899999999999999999874321   12233332233355666666555442211       01011111    11


Q ss_pred             HHHHHHhhh--CCCeEEEEEeCCCCC
Q 000471          282 LQEKLKKQL--SGNKFLLVLDDVWNE  305 (1472)
Q Consensus       282 ~~~~l~~~l--~~k~~LlVlDdv~~~  305 (1472)
                      ....+.+++  +++++|+|+||+-.-
T Consensus       233 ~a~~iAEyfr~~G~~VLlilDslTr~  258 (432)
T PRK06793        233 LATSIAEYFRDQGNNVLLMMDSVTRF  258 (432)
T ss_pred             HHHHHHHHHHHcCCcEEEEecchHHH
Confidence            222333333  478999999999543

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=91.42  E-value=2.8  Score=45.07  Aligned_cols=50  Identities=28%  Similarity=0.294  Sum_probs=36.0

Q ss_pred             ceeechhHHHHHHHHHhcCC------CCCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          187 KVYGREKEKEEIIELLLNDD------LRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~------~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ++.|-|..++.|-+...-.-      ......-+-|.++|++|.||+-||++|+..
T Consensus       134 DVAGLE~AKeALKEAVILPIKFPqlFtGkR~PwrgiLLyGPPGTGKSYLAKAVATE  189 (439)
T KOG0739|consen  134 DVAGLEGAKEALKEAVILPIKFPQLFTGKRKPWRGILLYGPPGTGKSYLAKAVATE  189 (439)
T ss_pred             hhccchhHHHHHHhheeecccchhhhcCCCCcceeEEEeCCCCCcHHHHHHHHHhh
Confidence            47788888888777643210      002233578899999999999999999974

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=91.41  E-value=0.65  Score=54.64  Aligned_cols=88  Identities=18%  Similarity=0.214  Sum_probs=50.3

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCC-HHHHHHHHHHhhcCCC------CCCcccHH-----
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD-VFRISKSILNSVASDQ------CKDKDDLN-----  280 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~i~~~l~~~~------~~~~~~~~-----  280 (1472)
                      -..++|+|..|+|||||++++++...    .+..+++-+++... +.++..+.+..-+...      ..+.....     
T Consensus       158 Gqri~I~G~sG~GKTtLL~~I~~~~~----~d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~  233 (442)
T PRK08927        158 GQRMGIFAGSGVGKSVLLSMLARNAD----ADVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAA  233 (442)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccC----CCEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHH
Confidence            45789999999999999999986432    23455566665543 4455444443321110      00111111     


Q ss_pred             HHHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          281 LLQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       281 ~~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      ...-.+.+++  +++.+|+++||+-.
T Consensus       234 ~~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        234 YLTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHHCCCcEEEEEeCcHH
Confidence            1122233444  48899999999933

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=91.39  E-value=0.22  Score=49.09  Aligned_cols=39  Identities=26%  Similarity=0.373  Sum_probs=27.2

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecC
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE  253 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~  253 (1472)
                      ++|.|+|+.|+|||||++.+.+.. .+..+...++.+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l-~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINEL-KRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHH-HHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH-hHcCCceEEEEEccC
Confidence            479999999999999999999843 234455555666554

>TIGR03263 guanyl_kin guanylate kinase

Probab=91.38  E-value=0.15  Score=53.37  Aligned_cols=22  Identities=41%  Similarity=0.653  Sum_probs=20.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhc
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ++++|+|+.|+||||||+.++.
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~   23 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLE   23 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHc
Confidence            5799999999999999999987

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=91.37  E-value=0.27  Score=51.14  Aligned_cols=42  Identities=31%  Similarity=0.342  Sum_probs=27.2

Q ss_pred             EEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCH
Q 000471          215 VISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDV  257 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~  257 (1472)
                      .|+|.|-||+||||+|..+.... ...+-..+.-|+...+++.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l-~~~~~~~VLvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRL-LSKGGYNVLVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHH-HhcCCceEEEEeCCCCCCh
Confidence            58999999999999998855421 2222123455666665553

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=91.36  E-value=0.19  Score=52.66  Aligned_cols=36  Identities=22%  Similarity=0.249  Sum_probs=27.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEE
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC  250 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~  250 (1472)
                      .+++.|+|+.|+|||||++++..  ....+|...++.+
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~--~~~~~~~~~v~~T   37 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQ--EFPDKFGRVVSHT   37 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHH--HSTTTEEEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--hcccccccceeec
Confidence            47899999999999999999987  3445564444444

7.4.8 from EC) (GK) [] catalyzes the ATP-dependent phosphorylation of GMP into GDP. It is essential for recycling GMP and indirectly, cGMP. In prokaryotes (such as Escherichia coli), lower eukaryotes (such as yeast) and in vertebrates, GK is a highly conserved monomeric protein of about 200 amino acids. GK has been shown [, , ] to be structurally similar to protein A57R (or SalG2R) from various strains of Vaccinia virus. Proteins containing one or more copies of the DHR domain, an SH3 domain as well as a C-terminal GK-like domain, are collectively termed MAGUKs (membrane-associated guanylate kinase homologs) [], and include Drosophila lethal(1)discs large-1 tumor suppressor protein (gene dlg1); mammalian tight junction protein Zo-1; a family of mammalian synaptic proteins that seem to interact with the cytoplasmic tail of NMDA receptor subunits (SAP90/PSD-95, CHAPSYN-110/PSD-93, SAP97/DLG1 and SAP102); vertebrate 55kDa erythrocyte membrane protein (p55); Caenorhabditis elegans protein lin-2; rat protein CASK; and human proteins DLG2 and DLG3. There is an ATP-binding site (P-loop) in the N-terminal section of GK, which is not conserved in the GK-like domain of the above proteins. However these proteins retain the residues known, in GK, to be involved in the binding of GMP.; GO: 0005515 protein binding; PDB: 3UAT_A 3KFV_A 2ANC_F 2F3T_E 2ANB_A 2AN9_A 1S96_A 2F3R_B 3TR0_A 1LVG_A ....

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=91.34  E-value=1.2  Score=47.15  Aligned_cols=24  Identities=29%  Similarity=0.365  Sum_probs=21.4

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -.+++|.|+.|.|||||.+.+..-
T Consensus        35 Ge~~~l~G~nGsGKStLl~~i~Gl   58 (194)
T cd03213          35 GELTAIMGPSGAGKSTLLNALAGR   58 (194)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCC
Confidence            368999999999999999999863

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=91.29  E-value=1.1  Score=49.50  Aligned_cols=90  Identities=12%  Similarity=0.100  Sum_probs=47.1

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCC-CHHHHHHHHHHhhcCCCCCCcccHHHHHHHHHhhhC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF-DVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLS  291 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~l~~~l~  291 (1472)
                      ..+++++|.+|+||||+++.+....  ...=..+.+++..... ....-++...+.++.+.. ...+...+.+.+...-+
T Consensus        75 ~~~i~~~G~~g~GKTtl~~~l~~~l--~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~-~~~~~~~l~~~l~~l~~  151 (270)
T PRK06731         75 VQTIALIGPTGVGKTTTLAKMAWQF--HGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVI-AVRDEAAMTRALTYFKE  151 (270)
T ss_pred             CCEEEEECCCCCcHHHHHHHHHHHH--HHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEE-ecCCHHHHHHHHHHHHh
Confidence            3689999999999999999887532  2111234555543221 122222233333332211 11233444444433211


Q ss_pred             -CCeEEEEEeCCCCC
Q 000471          292 -GNKFLLVLDDVWNE  305 (1472)
Q Consensus       292 -~k~~LlVlDdv~~~  305 (1472)
                       .+.=++++|..-..
T Consensus       152 ~~~~D~ViIDt~Gr~  166 (270)
T PRK06731        152 EARVDYILIDTAGKN  166 (270)
T ss_pred             cCCCCEEEEECCCCC
Confidence             24568899988554

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=91.28  E-value=0.45  Score=59.51  Aligned_cols=75  Identities=19%  Similarity=0.067  Sum_probs=49.1

Q ss_pred             CceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHH
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~  265 (1472)
                      .+++|.++.++.+...+...        +.+.++|++|+||||+|+.+.+.. ....|...+++.-.. .+...+++.++
T Consensus        18 ~~viG~~~a~~~l~~a~~~~--------~~~ll~G~pG~GKT~la~~la~~l-~~~~~~~~~~~~n~~-~~~~~~~~~v~   87 (608)
T TIGR00764        18 DQVIGQEEAVEIIKKAAKQK--------RNVLLIGEPGVGKSMLAKAMAELL-PDEELEDILVYPNPE-DPNMPRIVEVP   87 (608)
T ss_pred             hhccCHHHHHHHHHHHHHcC--------CCEEEECCCCCCHHHHHHHHHHHc-CchhheeEEEEeCCC-CCchHHHHHHH
Confidence            46899999888888777542        245599999999999999998732 122333334333322 24445567776


Q ss_pred             HhhcC
Q 000471          266 NSVAS  270 (1472)
Q Consensus       266 ~~l~~  270 (1472)
                      .+++.
T Consensus        88 ~~~g~   92 (608)
T TIGR00764        88 AGEGR   92 (608)
T ss_pred             Hhhch
Confidence            66654

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PF06309 Torsin: Torsin; InterPro: IPR010448 This family consists of several eukaryotic torsin proteins

Probab=91.25  E-value=0.37  Score=45.43  Aligned_cols=49  Identities=18%  Similarity=0.324  Sum_probs=32.6

Q ss_pred             eeechhHHHHHHHHHhcCCC-CCCCCcEEEEEEccCCCcHHHHHHHHhcC
Q 000471          188 VYGREKEKEEIIELLLNDDL-RGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~-~~~~~~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ++|-+-..+.+++.+..--. ..+.++-|++.+|+.|+|||.+|+.+++.
T Consensus        27 l~GQhla~~~v~~ai~~~l~~~~p~KpLVlSfHG~tGtGKn~v~~liA~~   76 (127)
T PF06309_consen   27 LFGQHLAVEVVVNAIKGHLANPNPRKPLVLSFHGWTGTGKNFVSRLIAEH   76 (127)
T ss_pred             ccCcHHHHHHHHHHHHHHHcCCCCCCCEEEEeecCCCCcHHHHHHHHHHH
Confidence            55655444444444432100 14567889999999999999998888764

Torsion dystonia is an autosomal dominant movement disorder characterised by involuntary, repetitive muscle contractions and twisted postures. The most severe early-onset form of dystonia has been linked to mutations in the human DYT1 (TOR1A) gene encoding a protein termed torsinA. While causative genetic alterations have been identified, the function of torsin proteins and the molecular mechanism underlying dystonia remain unknown. Phylogenetic analysis of the torsin protein family indicates these proteins share distant sequence similarity with the large and diverse family of AAA ATPase, central region containing proteins () proteins. It has been suggested that torsins play a role in effectively managing protein folding and that possible breakdown in a neuroprotective mechanism that is, in part, mediated by torsins may be responsible for the neuronal dysfunction associated with dystonia [].; GO: 0005524 ATP binding, 0051085 chaperone mediated protein folding requiring cofactor

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=91.24  E-value=0.15  Score=52.86  Aligned_cols=23  Identities=26%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcC
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999863

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>COG4181 Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=91.24  E-value=1.6  Score=43.09  Aligned_cols=85  Identities=16%  Similarity=0.169  Sum_probs=51.3

Q ss_pred             CHHHHHHHHHHhhcCCCC-----CCcccHHHHHHHHHhhhCCCeEEEEEeCC----CCCCHhhHHhhcccccCCCCCcEE
Q 000471          256 DVFRISKSILNSVASDQC-----KDKDDLNLLQEKLKKQLSGNKFLLVLDDV----WNENYIRWSELRCPFVAGAAGSKI  326 (1472)
Q Consensus       256 ~~~~~~~~i~~~l~~~~~-----~~~~~~~~~~~~l~~~l~~k~~LlVlDdv----~~~~~~~~~~l~~~l~~~~~~s~i  326 (1472)
                      +.....+..+++++....     .+...-++..-.+.+.+...+-+++-|.-    +...-....++...+ ....|...
T Consensus       122 ~~~~~A~~lL~~vGLg~Rl~HyP~qLSGGEQQRVAiARAfa~~P~vLfADEPTGNLD~~Tg~~iaDLlF~l-nre~G~Tl  200 (228)
T COG4181         122 DSRAGAKALLEAVGLGKRLTHYPAQLSGGEQQRVALARAFAGRPDVLFADEPTGNLDRATGDKIADLLFAL-NRERGTTL  200 (228)
T ss_pred             cHHHHHHHHHHHhCcccccccCccccCchHHHHHHHHHHhcCCCCEEeccCCCCCcchhHHHHHHHHHHHH-hhhcCceE
Confidence            455667777777765421     12233344555677778888888888864    222112233333322 23578889


Q ss_pred             EEEcCChHHHHhhCC
Q 000471          327 VVTTRNLVVAERMGA  341 (1472)
Q Consensus       327 ivTtR~~~v~~~~~~  341 (1472)
                      ++.|-++.++..|..
T Consensus       201 VlVTHD~~LA~Rc~R  215 (228)
T COG4181         201 VLVTHDPQLAARCDR  215 (228)
T ss_pred             EEEeCCHHHHHhhhh
Confidence            999999999987743

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=91.23  E-value=1.3  Score=47.06  Aligned_cols=24  Identities=25%  Similarity=0.288  Sum_probs=21.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcC
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -.+++|+|..|.|||||++.+...
T Consensus        33 Ge~~~i~G~nGsGKSTLl~~l~G~   56 (202)
T cd03233          33 GEMVLVLGRPGSGCSTLLKALANR   56 (202)
T ss_pred             CcEEEEECCCCCCHHHHHHHhccc
Confidence            368999999999999999999864

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG4240 Predicted kinase [General function prediction only]

Probab=91.20  E-value=0.67  Score=47.65  Aligned_cols=83  Identities=18%  Similarity=0.139  Sum_probs=50.8

Q ss_pred             CCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhc----CCCCCCcccHHHHHHHH
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVA----SDQCKDKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~----~~~~~~~~~~~~~~~~l  286 (1472)
                      +++-+++|.|+-|.||||+|..+++....+.- ..++-.+..+-+-...-...++++..    ........+..-....+
T Consensus        48 grPli~gisGpQGSGKStls~~i~~~L~~kg~-ert~~lSLDDlYlthadrl~La~q~npllq~RGlpGTHD~tlglnVL  126 (300)
T COG4240          48 GRPLIVGISGPQGSGKSTLSALIVRLLAAKGL-ERTATLSLDDLYLTHADRLRLARQVNPLLQTRGLPGTHDPTLGLNVL  126 (300)
T ss_pred             CCceEEEeecCCCCchhhHHHHHHHHHHHhcc-cceEEeehhhhhcchHHHHHHHHhcCchhcccCCCCCCchHHHHHHH
Confidence            45789999999999999999999984332222 34555554443333333344455531    12222456677777777


Q ss_pred             HhhhCCCe
Q 000471          287 KKQLSGNK  294 (1472)
Q Consensus       287 ~~~l~~k~  294 (1472)
                      ....+++.
T Consensus       127 nai~~g~~  134 (300)
T COG4240         127 NAIARGGP  134 (300)
T ss_pred             HHHhcCCC
Confidence            77766663

>cd03285 ABC_MSH2_euk MutS2 homolog in eukaryotes

Probab=91.13  E-value=0.26  Score=53.13  Aligned_cols=174  Identities=13%  Similarity=0.098  Sum_probs=78.9

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCC--CcccHHHHHHHHHhhh
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK--DKDDLNLLQEKLKKQL  290 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~--~~~~~~~~~~~l~~~l  290 (1472)
                      .+++.|+|+.|.||||+.+.+.... +-  +....+|.+...  .......++..++.....  .......-...+...+
T Consensus        30 ~~~~~l~G~n~~GKstll~~i~~~~-~l--a~~g~~vpa~~~--~~~~~~~il~~~~l~d~~~~~lS~~~~e~~~~a~il  104 (222)
T cd03285          30 SRFLIITGPNMGGKSTYIRQIGVIV-LM--AQIGCFVPCDSA--DIPIVDCILARVGASDSQLKGVSTFMAEMLETAAIL  104 (222)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHHH-HH--HHhCCCcCcccE--EEeccceeEeeeccccchhcCcChHHHHHHHHHHHH
Confidence            5799999999999999998876321 11  111112222110  001122222222221110  1111111112222223


Q ss_pred             --CCCeEEEEEeCCCC---CC---HhhHHhhcccccCCCCCcEEEEEcCChHHHHhhCCCCc---eeCCCCChH--hHHH
Q 000471          291 --SGNKFLLVLDDVWN---EN---YIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPV---YQLKELSDD--DCLC  357 (1472)
Q Consensus       291 --~~k~~LlVlDdv~~---~~---~~~~~~l~~~l~~~~~~s~iivTtR~~~v~~~~~~~~~---~~l~~L~~~--~~~~  357 (1472)
                        ...+-|+++|....   ..   ...|..+ ..+.. ..|+.+|+||-..++...+.....   .++.....+  +.+.
T Consensus       105 ~~~~~~sLvLLDEp~~gT~~lD~~~~~~~il-~~l~~-~~~~~vlisTH~~el~~~~~~~~~i~~g~~~~~~~~~~~~~~  182 (222)
T cd03285         105 KSATENSLIIIDELGRGTSTYDGFGLAWAIA-EYIAT-QIKCFCLFATHFHELTALADEVPNVKNLHVTALTDDASRTLT  182 (222)
T ss_pred             HhCCCCeEEEEecCcCCCChHHHHHHHHHHH-HHHHh-cCCCeEEEEechHHHHHHhhcCCCeEEEEEEEEEeCCCCcEe
Confidence              35688999999932   11   1122222 22222 246789999988777665432221   122111111  1111


Q ss_pred             HHHhhhcCCCCCCCCccHHHHHHHHHHHhCCChhHHHHHHhhhc
Q 000471          358 VLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLR  401 (1472)
Q Consensus       358 lf~~~a~~~~~~~~~~~~~~~~~~i~~~~~glPLal~~~~~~L~  401 (1472)
                       |..+. ..+.  .   -...|-++++++ |+|-.+..-|..+.
T Consensus       183 -~~Y~l-~~G~--~---~~s~a~~~a~~~-g~p~~vi~~A~~~~  218 (222)
T cd03285         183 -MLYKV-EKGA--C---DQSFGIHVAELA-NFPKEVIEMAKQKA  218 (222)
T ss_pred             -EEEEE-eeCC--C---CCcHHHHHHHHh-CcCHHHHHHHHHHH
Confidence             11111 1110  0   124466677666 88888777776554

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>PRK09099 type III secretion system ATPase; Provisional

Probab=91.10  E-value=0.54  Score=55.54  Aligned_cols=89  Identities=17%  Similarity=0.185  Sum_probs=49.0

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCC------CCCcccHH-----H
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQ------CKDKDDLN-----L  281 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~~~-----~  281 (1472)
                      -..++|.|..|+|||||++.++.....   -..+++..-.+...+.++.+.+...-....      ..+.....     .
T Consensus       163 Gq~~~I~G~sG~GKTtLl~~ia~~~~~---d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~  239 (441)
T PRK09099        163 GQRMGIFAPAGVGKSTLMGMFARGTQC---DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAY  239 (441)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC---CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHH
Confidence            468899999999999999999864322   123344333344455555555543311110      00111111     1


Q ss_pred             HHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          282 LQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       282 ~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      ....+.+++  +++++|+++||+-.
T Consensus       240 ~a~tiAEyfrd~G~~VLl~~DslTr  264 (441)
T PRK09099        240 VATAIAEYFRDRGLRVLLMMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhH
Confidence            112233444  48899999999933

>PRK03846 adenylylsulfate kinase; Provisional

Probab=91.05  E-value=0.19  Score=53.33  Aligned_cols=24  Identities=29%  Similarity=0.394  Sum_probs=22.0

Q ss_pred             CcEEEEEEccCCCcHHHHHHHHhc
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      ...+|+|+|++|+||||+|+.+..
T Consensus        23 ~~~~i~i~G~~GsGKSTla~~l~~   46 (198)
T PRK03846         23 KGVVLWFTGLSGSGKSTVAGALEE   46 (198)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            467999999999999999999986

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=91.04  E-value=0.89  Score=46.51  Aligned_cols=21  Identities=29%  Similarity=0.531  Sum_probs=18.5

Q ss_pred             EEEEccCCCcHHHHHHHHhcC
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      |.|+|++|+||||+|+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999863

This model represents a subfamily of proteins that includes thermoresistant and thermosensitve isozymes of gluconate kinase (gluconokinase) in E. coli and other related proteins; members of this family are often named by similarity to the thermostable isozyme. These proteins show homology to shikimate kinases and adenylate kinases but not to gluconate kinases from the FGGY family of carbohydrate kinases.

>PRK06217 hypothetical protein; Validated

Probab=91.00  E-value=0.15  Score=53.36  Aligned_cols=22  Identities=36%  Similarity=0.504  Sum_probs=20.0

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      .|.|.|++|.||||+|+++...
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999874

>PRK13949 shikimate kinase; Provisional

Probab=90.95  E-value=0.16  Score=52.17  Aligned_cols=22  Identities=36%  Similarity=0.480  Sum_probs=19.8

Q ss_pred             EEEEEccCCCcHHHHHHHHhcC
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~~  236 (1472)
                      -|.|+|++|+||||+|+.++..
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999863

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=90.94  E-value=1.1  Score=45.63  Aligned_cols=79  Identities=16%  Similarity=0.188  Sum_probs=44.3

Q ss_pred             EEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhh--cCCCCCCcccHHHHHHHHHhhhCCC
Q 000471          216 ISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSV--ASDQCKDKDDLNLLQEKLKKQLSGN  293 (1472)
Q Consensus       216 v~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l--~~~~~~~~~~~~~~~~~l~~~l~~k  293 (1472)
                      +.|.|.+|+|||++|.++...     ....++++.-.+.++.+ +.+.|....  .............+.+.+.+. + +
T Consensus         2 ~li~G~~~sGKS~~a~~~~~~-----~~~~~~y~at~~~~d~e-m~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~-~-~   73 (169)
T cd00544           2 ILVTGGARSGKSRFAERLAAE-----LGGPVTYIATAEAFDDE-MAERIARHRKRRPAHWRTIETPRDLVSALKEL-D-P   73 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHh-----cCCCeEEEEccCcCCHH-HHHHHHHHHHhCCCCceEeecHHHHHHHHHhc-C-C
Confidence            678999999999999998753     22356677666666543 333333322  222221112222333444222 2 2


Q ss_pred             eEEEEEeCC
Q 000471          294 KFLLVLDDV  302 (1472)
Q Consensus       294 ~~LlVlDdv  302 (1472)
                      .-.+++|.+
T Consensus        74 ~~~VLIDcl   82 (169)
T cd00544          74 GDVVLIDCL   82 (169)
T ss_pred             CCEEEEEcH
Confidence            337999987

CobU is bifunctional cobalbumin biosynthesis enzymes which display adenosylcobinamide kinase and adenosylcobinamide phosphate guanyltransferase activity. This enzyme is a homotrimer with a propeller-like shape.

>TIGR01818 ntrC nitrogen regulation protein NR(I)

Probab=90.92  E-value=1  Score=55.35  Aligned_cols=134  Identities=16%  Similarity=0.112  Sum_probs=69.4

Q ss_pred             ceeechhHHHHHHHHHhcCCCCCCCCcEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHH
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~  266 (1472)
                      .++|......++.+.+....    .....+.|.|..|+||+++|+.+.....  ......+-+++..-  ..+.+...+ 
T Consensus       135 ~lig~s~~~~~v~~~i~~~a----~~~~~vli~Ge~GtGK~~~A~~ih~~~~--~~~~~~~~~~c~~~--~~~~~~~~l-  205 (463)
T TIGR01818       135 ELIGEAPAMQEVFRAIGRLS----RSDITVLINGESGTGKELVARALHRHSP--RANGPFIALNMAAI--PKDLIESEL-  205 (463)
T ss_pred             ceeecCHHHHHHHHHHHHHh----CcCCeEEEECCCCCCHHHHHHHHHHhCC--CCCCCeEEEeCCCC--CHHHHHHHh-
Confidence            48888877777777765421    1223578999999999999999986321  11222333444433  223333222 


Q ss_pred             hhcCCCCCCcccHHHHHHHHHhhhCCCeEEEEEeCCCCCCHhhHHhhcccccCC-----------CCCcEEEEEcCCh
Q 000471          267 SVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAG-----------AAGSKIVVTTRNL  333 (1472)
Q Consensus       267 ~l~~~~~~~~~~~~~~~~~l~~~l~~k~~LlVlDdv~~~~~~~~~~l~~~l~~~-----------~~~s~iivTtR~~  333 (1472)
                       ++.... .......  ......-....-.|+||+|..........+...+..+           ..+.|||.||...
T Consensus       206 -fg~~~~-~~~~~~~--~~~g~~~~a~~gtl~l~ei~~l~~~~q~~ll~~l~~~~~~~~~~~~~~~~~~rii~~~~~~  279 (463)
T TIGR01818       206 -FGHEKG-AFTGANT--RRQGRFEQADGGTLFLDEIGDMPLDAQTRLLRVLADGEFYRVGGRTPIKVDVRIVAATHQN  279 (463)
T ss_pred             -cCCCCC-CCCCccc--CCCCcEEECCCCeEEEEchhhCCHHHHHHHHHHHhcCcEEECCCCceeeeeeEEEEeCCCC
Confidence             111110 0000000  0000001112334889999887666666665544322           1245888888643

This model represents NtrC, a DNA-binding response regulator that is phosphorylated by NtrB and interacts with sigma-54. NtrC usually controls the expression of glutamine synthase, GlnA, and may be called GlnL, GlnG, etc.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=90.90  E-value=0.54  Score=45.82  Aligned_cols=98  Identities=20%  Similarity=0.225  Sum_probs=48.9

Q ss_pred             cccCCCCCccEEeeccCCCccccCC-CCCCCCCccEEecccccccccccccCCCCCcccEeeecCCCCCccCCCC--CCC
Q 000471         1259 ADLHNLHHLQKIWINYCPNLESFPE-EGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFP 1335 (1472)
Q Consensus      1259 ~~l~~l~~L~~L~Ls~~~~l~~l~~-~~~~l~~L~~L~Ls~c~~l~~lp~~l~~l~~L~~L~L~~n~~l~~~p~~--~~~ 1335 (1472)
                      ..|.++++|+.+++.++  +..++. .+..+++|+.+.+.+ .....-...|..+++|+.+++..+  +..++..  ...
T Consensus        29 ~~F~~~~~l~~i~~~~~--~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~~~~--~~~i~~~~f~~~  103 (129)
T PF13306_consen   29 NAFSNCTSLKSINFPNN--LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNIDIPSN--ITEIGSSSFSNC  103 (129)
T ss_dssp             TTTTT-TT-SEEEESST--TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEEETTT---BEEHTTTTTT-
T ss_pred             hhccccccccccccccc--ccccceeeeecccccccccccc-cccccccccccccccccccccCcc--ccEEchhhhcCC
Confidence            45788888888888773  555443 456666889998865 322233346677889999998664  4455443  344


Q ss_pred             CCcceeEeccccCCCCCCccccccccccc
Q 000471         1336 TNLQSLEVRGLKISKPLPEWGFNRFTSLR 1364 (1472)
Q Consensus      1336 ~~L~~L~l~~n~~~~~~~~~~l~~l~~L~ 1364 (1472)
                       +|+.+.+.. .+.. ++...|.++++|+
T Consensus       104 -~l~~i~~~~-~~~~-i~~~~F~~~~~l~  129 (129)
T PF13306_consen  104 -NLKEINIPS-NITK-IEENAFKNCTKLK  129 (129)
T ss_dssp             -T--EEE-TT-B-SS-----GGG------
T ss_pred             -CceEEEECC-CccE-ECCccccccccCC
Confidence             888888775 3333 3334788877764

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=90.90  E-value=0.69  Score=54.37  Aligned_cols=89  Identities=18%  Similarity=0.188  Sum_probs=47.5

Q ss_pred             cEEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCCCCHHHHHHHHHHhhcCCC------CCCcccHH-----H
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQ------CKDKDDLN-----L  281 (1472)
Q Consensus       213 ~~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~------~~~~~~~~-----~  281 (1472)
                      -..++|+|..|+|||||++.+....+.   ...++.....+.-.+.++..+.+..-....      ..+.....     .
T Consensus       140 Gq~i~I~G~sG~GKTtLl~~I~~~~~~---~~gvi~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~  216 (418)
T TIGR03498       140 GQRLGIFAGSGVGKSTLLSMLARNTDA---DVVVIALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAY  216 (418)
T ss_pred             CcEEEEECCCCCChHHHHHHHhCCCCC---CEEEEEEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHH
Confidence            357899999999999999999864321   222222222233344455554433321110      00111111     1


Q ss_pred             HHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          282 LQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       282 ~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      ....+.+++  +++++|+++||+-.
T Consensus       217 ~a~~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       217 TATAIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhH
Confidence            122234444  48899999999833

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK05922 type III secretion system ATPase; Validated

Probab=90.86  E-value=0.77  Score=53.95  Aligned_cols=87  Identities=14%  Similarity=0.223  Sum_probs=47.5

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcchhccCcceEEEEecCC-CCHHHHHHHHHHhhcCCCC------CCccc-H----HH
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-FDVFRISKSILNSVASDQC------KDKDD-L----NL  281 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-~~~~~~~~~i~~~l~~~~~------~~~~~-~----~~  281 (1472)
                      ..++|+|..|+|||||.+.+....    ..+....+-+++. ......+.+..........      .+... .    ..
T Consensus       158 qrigI~G~nG~GKSTLL~~Ia~~~----~~d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~  233 (434)
T PRK05922        158 QRIGVFSEPGSGKSSLLSTIAKGS----KSTINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGR  233 (434)
T ss_pred             cEEEEECCCCCChHHHHHHHhccC----CCCceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHH
Confidence            468999999999999999998642    1233344334433 2333444444332221110      01111 1    11


Q ss_pred             HHHHHHhhh--CCCeEEEEEeCCCC
Q 000471          282 LQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       282 ~~~~l~~~l--~~k~~LlVlDdv~~  304 (1472)
                      ..-.+.+++  +++++|+++||+-.
T Consensus       234 ~a~tiAEyfrd~G~~VLl~~DslTR  258 (434)
T PRK05922        234 AAMTIAEYFRDQGHRVLFIMDSLSR  258 (434)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhH
Confidence            122234444  48899999999943

>cd02020 CMPK Cytidine monophosphate kinase (CMPK) catalyzes the reversible phosphorylation of cytidine monophosphate (CMP) to produce cytidine diphosphate (CDP), using ATP as the preferred phosphoryl donor

Probab=90.85  E-value=0.16  Score=51.05  Aligned_cols=21  Identities=43%  Similarity=0.771  Sum_probs=19.4

Q ss_pred             EEEEEccCCCcHHHHHHHHhc
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gGiGKTtLa~~v~~  235 (1472)
                      +|.|.|++|+||||+|+.+..
T Consensus         1 ~I~i~G~~GsGKst~a~~la~   21 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAK   21 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999999986

>PRK10875 recD exonuclease V subunit alpha; Provisional

Probab=90.83  E-value=0.66  Score=57.71  Aligned_cols=118  Identities=15%  Similarity=0.111  Sum_probs=59.6

Q ss_pred             EEEEEEccCCCcHHHHHHHHhcCcch-hccCcceEEEEecCCCCHHHHHHHHHHhhcCCCCCC------cccHHHHHHHH
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRV-QRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKD------KDDLNLLQEKL  286 (1472)
Q Consensus       214 ~vv~I~G~gGiGKTtLa~~v~~~~~~-~~~f~~~~wv~~~~~~~~~~~~~~i~~~l~~~~~~~------~~~~~~~~~~l  286 (1472)
                      ++..|.|.+|.||||+++.+...... ...=...+.+......-...+...+-..+..-...+      ......+.+.+
T Consensus       168 ~~~vItGgpGTGKTt~v~~ll~~l~~~~~~~~~~i~l~APTgkAA~rL~e~~~~~~~~~~~~~~~~~~~~~~a~TiHrlL  247 (615)
T PRK10875        168 RISVISGGPGTGKTTTVAKLLAALIQLADGERCRIRLAAPTGKAAARLTESLGKALRQLPLTDEQKKRIPEEASTLHRLL  247 (615)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHHHHHhcCCCCcEEEEECCcHHHHHHHHHHHHhhhhccccchhhhhcCCCchHHHHHHh
Confidence            58899999999999999888753211 111113444444443333344433332221100000      01111222222


Q ss_pred             HhhhCC--------Ce---EEEEEeCCCCCCHhhHHhhcccccCCCCCcEEEEEcCChH
Q 000471          287 KKQLSG--------NK---FLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV  334 (1472)
Q Consensus       287 ~~~l~~--------k~---~LlVlDdv~~~~~~~~~~l~~~l~~~~~~s~iivTtR~~~  334 (1472)
                      .....+        .+   -++|+|.+.-.+......+..+++   .++|+|+---..+
T Consensus       248 g~~~~~~~~~~~~~~~l~~dvlIvDEaSMvd~~lm~~ll~al~---~~~rlIlvGD~~Q  303 (615)
T PRK10875        248 GAQPGSQRLRYHAGNPLHLDVLVVDEASMVDLPMMARLIDALP---PHARVIFLGDRDQ  303 (615)
T ss_pred             CcCCCccchhhccccCCCCCeEEEChHhcccHHHHHHHHHhcc---cCCEEEEecchhh
Confidence            111111        11   289999987766555666666665   4678887655433

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	1472
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		4e-07
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		4e-07
4fcg_A	328	Structure Of The Leucine-Rich Repeat Domain Of The		2e-04
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		6e-04

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-07,   Method: Compositional matrix adjust.
 Identities = 61/234 (26%), Positives = 104/234 (44%), Gaps = 41/234 (17%)
Query: 296 LLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAER-MGADPVYQLKE-LSDD 353
           LL+LDDVW+   ++  + +C         +I++TTR+  V +  MG   V  ++  L  +
Sbjct: 239 LLILDDVWDSWVLKAFDSQC---------QILLTTRDKSVTDSVMGPKYVVPVESSLGKE 289
Query: 354 DCLCVLTQ-ISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFV 412
             L +L+  +++   D      L E    I+ +C G PL    +G LL  RD P  WE+ 
Sbjct: 290 KGLEILSLFVNMKKAD------LPEQAHSIIKECKGSPLVVSLIGALL--RDFPNRWEYY 341
Query: 413 LK----TDIWNLRDSD------ILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEII 462
           LK         +R S       +  A+ +S   L   +K  +   S+  KD +   + + 
Sbjct: 342 LKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLC 401
Query: 463 LLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDL 516
           +LW  E          ++ED+ +EFV   +   LF   +  + R+ +HDL  D 
Sbjct: 402 ILWDME--------TEEVEDILQEFV---NKSLLFCDRNGKSFRYYLHDLQVDF 444

>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii Effector Xcv3220 (Xopl) Length = 328

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 46/152 (30%), Positives = 69/152 (45%), Gaps = 26/152 (17%)
Query: 1196 LEHLQVRFCSNLAFLSRNGNLPQALKYLRV----EDCSKLESLAERLDNTSLEEITISV- 1250
            L  L +R C  L        LP+ L         +    L+SL  RL+ T +  +  S+ 
Sbjct: 152  LRELSIRACPELT------ELPEPLASTDASGEHQGLVNLQSL--RLEWTGIRSLPASIA 203
Query: 1251 -LENLKSL-----------PADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYD 1298
             L+NLKSL           PA +H+L  L+++ +  C  L ++P        L  L + D
Sbjct: 204  NLQNLKSLKIRNSPLSALGPA-IHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKD 262
Query: 1299 CENLKALPNCMHNLTSLLILEIRGCPSVVSFP 1330
            C NL  LP  +H LT L  L++RGC ++   P
Sbjct: 263  CSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 44.3 bits (103), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 57/234 (24%), Positives = 101/234 (43%), Gaps = 41/234 (17%)
Query: 296 LLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAER-MGADPVYQLKE-LSDD 353
           LL+LDDVW+   ++  + +C         +I++TTR+  V +  MG   V  ++  L  +
Sbjct: 239 LLILDDVWDPWVLKAFDNQC---------QILLTTRDKSVTDSVMGPKHVVPVESGLGRE 289
Query: 354 DCLCVLTQ-ISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFV 412
             L +L+  +++   D      L      I+ +C G PL    +G LL  RD P  W + 
Sbjct: 290 KGLEILSLFVNMKKED------LPAEAHSIIKECKGSPLVVSLIGALL--RDFPNRWAYY 341
Query: 413 LK----TDIWNLRDSD------ILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEEEII 462
           L+         +R S       +  A+ +S   L   +K  +   S+  KD +   + + 
Sbjct: 342 LRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLC 401
Query: 463 LLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDASRFVMHDLINDL 516
           +LW  E          ++ED+ +EFV +     LF   +  +  + +HDL  D 
Sbjct: 402 VLWDLE--------TEEVEDILQEFVNK---SLLFCNRNGKSFCYYLHDLQVDF 444

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1472
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	1e-126
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	1e-108
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-60
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	5e-16
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-06
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-28
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-22
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-21
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-17
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-14
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-12
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	6e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	9e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-08
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	4e-08
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	4e-23
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	6e-21
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-19
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-14
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-11
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	7e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-08
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-07
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-06
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	8e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-14
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-12
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-06
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	6e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-15
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	3e-13
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-12
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-07
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-05
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-14
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	3e-14
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-08
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-06
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-04
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-14
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-12
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-11
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	1e-06
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	9e-14
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-11
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-04
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	8e-14
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-08
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-13
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-11
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	6e-13
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	7e-13
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-12
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-09
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	9e-09
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-07
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-05
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-05
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-13
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	8e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-11
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-12
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	8e-08
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-04
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-12
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-11
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-10
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	6e-06
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-11
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	9e-09
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-05
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-04
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	6e-10
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-06
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-10
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-08
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-04
3qfl_A	115	MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-	4e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	4e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	7e-10
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-05
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-05
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-09
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-05
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-04
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-09
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	6e-05
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	5e-04
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	8e-04
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-09
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-07
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-06
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	5e-05
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	3e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-09
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-05
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-05
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	5e-07
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	1e-04
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-04
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-08
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-04
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-08
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-05
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	4e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-07
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	5e-06
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	6e-06
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	6e-08
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-07
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-05
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-04
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-07
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	8e-06
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	1e-05
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-05
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	1e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-06
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	3e-04
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-04
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-06
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-04
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	3e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	5e-06
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	9e-06
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-05
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-04
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-04
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	9e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	7e-05
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-05
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	2e-05
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	4e-05
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	4e-04
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	8e-04
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	4e-04
3e6j_A	229	Variable lymphocyte receptor diversity region; var	6e-04
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	6e-04
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	8e-04
3goz_A	362	Leucine-rich repeat-containing protein; LEGL7, NES	8e-04

>1z6t_A APAF-1, apoptotic protease activating factor 1; caspase activation, ADP, nucleotide binding, CARD, apoptosis; HET: ADP; 2.21A {Homo sapiens} Length = 591

 Score =  404 bits (1039), Expect = e-126
 Identities = 95/620 (15%), Positives = 203/620 (32%), Gaps = 84/620 (13%)

Query: 44  MLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAA 103
           M    +  L    +   KD      +D +      ++  L   E E +R E  +Q     
Sbjct: 1   MDAKARNCLLQHREALEKDIKTSYIMDHMI-----SDGFLTISEEEKVRNEPTQQ----- 50

Query: 104 DQPSSSANTSKFRKLIPTCCTNFSPRSIQF-ESKMASQIEEVTARLQSIISTQKDLLKLK 162
                     +   LI       +   + F  + +    +++ A L   I          
Sbjct: 51  ---------QRAAMLIKMILKKDNDSYVSFYNALLHEGYKDLAALLHDGIPVVSSSSGKD 101

Query: 163 NVISDGKSRNIRQRLPTTSLVNEAKVY-GREKEKEEIIELLLNDDLRGDDGFSVISINGM 221
           +V   G +  +R  L    +     V+  R+K    I + L             ++I+GM
Sbjct: 102 SV--SGITSYVRTVLCEGGVPQRPVVFVTRKKLVNAIQQKLSKLK----GEPGWVTIHGM 155

Query: 222 GGVGKTTLAQLVYNDDRVQRHY--EIKAWTCVSEDFDVFRISK-----SILNSVASDQCK 274
            G GK+ LA     D  +          W  V +      + K     + L+   S   +
Sbjct: 156 AGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDESFSQR 215

Query: 275 DKDDLNLLQEKLKKQLS--GNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRN 332
              ++   +++L+  +     + LL+LDDVW+   ++            +  +I++TTR+
Sbjct: 216 LPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKA---------FDSQCQILLTTRD 266

Query: 333 LVVAERMGAD--PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP 390
             V + +      V     L  +  L +L+          +   L E    I+ +C G P
Sbjct: 267 KSVTDSVMGPKYVVPVESSLGKEKGLEILSLFV-----NMKKADLPEQAHSIIKECKGSP 321

Query: 391 LAAKTLGGLLRGRDD-PRDWEFVLKTDIW-------NLRDSDILPALRVSYHFLPPQLKQ 442
           L    +G LLR   +    +   L+   +       +     +  A+ +S   L   +K 
Sbjct: 322 LVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLREDIKD 381

Query: 443 CFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSK 502
            +   S+  KD +   + + +LW  E             +   + ++E  ++SL      
Sbjct: 382 YYTDLSILQKDVKVPTKVLCILWDME------------TEEVEDILQEFVNKSLLFCDRN 429

Query: 503 D-ASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLE 561
             + R+ +HDL  D                L+  +++  ++  R+        D +  + 
Sbjct: 430 GKSFRYYLHDLQVDFLTEKNCS-------QLQDLHKKIITQFQRYHQPHTLSPDQEDCMY 482

Query: 562 FICD-VQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFS-LRGCGNIFNLPNEIG 619
           +      H+ +       +      +   ++     +    +        +I +  +   
Sbjct: 483 WYNFLAYHMASAK--MHKELCALMFSLDWIKAKTELVGPAHLIHEFVEYRHILDEKDCAV 540

Query: 620 NLKHLRCLNLSRTRIQILPE 639
           +      L+L+   +   P 
Sbjct: 541 SENFQEFLSLNGHLLGRQPF 560

>2a5y_B CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis elegans} SCOP: a.4.5.80 a.77.1.3 c.37.1.20 PDB: 3lqq_A* 3lqr_A* Length = 549

 Score =  353 bits (907), Expect = e-108
 Identities = 78/579 (13%), Positives = 171/579 (29%), Gaps = 66/579 (11%)

Query: 49  KAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSS 108
              L+ A  R   D   +  L  L+      ED  + +   + R E +            
Sbjct: 7   CRALSTAHTRLIHDFEPRDALTYLEGKNIFTEDHSELISKMSTRLERIA----------- 55

Query: 109 SANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKLKNVISDG 168
                 F ++     +   P    F     S + +           + DLL+   +    
Sbjct: 56  -----NFLRIYRRQASELGPLIDFFNYNNQSHLADFLEDYIDFAINEPDLLRPVVIAPQF 110

Query: 169 KSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTT 228
             + + ++L   ++  +   Y RE   + +I+ L       D     + ++G  G GK+ 
Sbjct: 111 SRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEM---CDLDSFFLFLHGRAGSGKSV 167

Query: 229 LAQLVYNDDR--VQRHYEIKAWTCVSEDF---------DVFRISKSILNSVASDQCKDKD 277
           +A    +     +  +Y+   W   S            D+  + KS  + +     +   
Sbjct: 168 IASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVT 227

Query: 278 DLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAE 337
            + L +      +     L V DDV  E  IRW        A     + +VTTR++ ++ 
Sbjct: 228 SVVLKRMICNALIDRPNTLFVFDDVVQEETIRW--------AQELRLRCLVTTRDVEISN 279

Query: 338 RMGAD-PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL 396
                    ++  L  D+C   L    +           ++V  + +    G P      
Sbjct: 280 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPV---GEKEEDVLNKTIELSSGNPATLMMF 336

Query: 397 GGLLRGRDDPRDWEFVLK------TDIWNLRDSD---ILPALRVSYHFLPPQLKQCFAYC 447
                 +   +  +   K        +  +       +  AL+     L  + +   A+ 
Sbjct: 337 FKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEVLSDEDRSALAFA 396

Query: 448 SLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQQSSKDA-SR 506
            + P   +   +    +   +   ++E    +++D   + ++ L  R       +     
Sbjct: 397 VVMPPGVDIPVKLWSCVIPVDICSNEE---EQLDDEVADRLKRLSKRGALLSGKRMPVLT 453

Query: 507 FVMHDLINDLARWAAGELYFR-----MEGTLKGENQQKFSESLRHFSYICGEYDGDTRLE 561
           F +  +I+   +              +E  L        S   RH      ++   +  E
Sbjct: 454 FKIDHIIHMFLKHVVDAQTIANGISILEQRLLEIGNNNVSVPERHIPSHFQKFRRSSASE 513

Query: 562 FICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRL 600
                       P +   +   +      Q+  + L   
Sbjct: 514 MYPKTTEETVIRPEDFPKFMQLH------QKFYDSLKNF 546

>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 =  227 bits (580), Expect = 1e-60
 Identities = 123/678 (18%), Positives = 221/678 (32%), Gaps = 173/678 (25%)

Query: 49  KAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDEL-----ETEALRR--ELLRQEPA 101
           K +L+  ED    +   K   D  +++    E  +D +           R    L  +  
Sbjct: 19  KDILSVFEDAFVDNFDCKDVQDMPKSILSKEE--IDHIIMSKDAVSGTLRLFWTLLSKQE 76

Query: 102 AADQPSSSANTSKFRKLIPTCCTNFSPRSIQFESKMASQIEEVTARLQSIISTQKDLLKL 161
              Q        KF + +      F    I+ E +  S +         +   Q+D  +L
Sbjct: 77  EMVQ--------KFVEEVLRINYKFLMSPIKTEQRQPSMMTR-------MYIEQRD--RL 119

Query: 162 KNVISDGKSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGM 221
            N        N+                 R +   ++ + LL   LR       + I+G+
Sbjct: 120 YNDNQVFAKYNVS----------------RLQPYLKLRQALLE--LRPAKN---VLIDGV 158

Query: 222 GGVGKTTLAQLVYNDDRVQRHYEIKA-W----TCVSEDFDVFRISKSILNSVASDQCKDK 276
            G GKT +A  V    +VQ   + K  W     C S +  V  + + +L  +  +     
Sbjct: 159 LGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPE-TVLEMLQKLLYQIDPNWTSRS 217

Query: 277 D-------DLNLLQEKLKKQLSGNKF---LLVLDDVWNENYIRWSELRCPFVAGAAGSKI 326
           D        ++ +Q +L++ L    +   LLVL +V N        L C         KI
Sbjct: 218 DHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSC---------KI 268

Query: 327 VVTTRNLVVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVG------- 379
           ++TTR   V + + A        +S D     LT       D  + L LK +        
Sbjct: 269 LLTTRFKQVTDFLSAATT---THISLDHHSMTLTP------DEVKSLLLKYLDCRPQDLP 319

Query: 380 EQIVIKCGGLPLAAKTLGGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFL-PP 438
            ++       P     +   +  RD    W+     +   L        +  S + L P 
Sbjct: 320 REV---LTTNPRRLSIIAESI--RDGLATWDNWKHVNCDKLTT-----IIESSLNVLEPA 369

Query: 439 QLKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSLFQ 498
           + ++ F   S+FP         + L+W      D               V +LH  SL +
Sbjct: 370 EYRKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVM-----------VVVNKLHKYSLVE 418

Query: 499 QSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQ--QKFSESLRHFSYICGEYDG 556
           +  K+ S   +              +Y  ++  L+ E    +     + H++     +D 
Sbjct: 419 KQPKE-STISIPS------------IYLELKVKLENEYALHRSI---VDHYNIPKT-FDS 461

Query: 557 DTRLEFICD-------VQHLR--------TFLPVNLSDY-------RHNYLAWSVLQRLL 594
           D  +    D         HL+        T   +   D+       RH+  AW+    +L
Sbjct: 462 DDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSIL 521

Query: 595 NHLPRLRVFSLRGCGN-----------IFNLPNEIGNLKHLRCLNLSRTRIQILPESINS 643
           N L +L+ +    C N           +  LP    NL   +  +L    ++I      +
Sbjct: 522 NTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDL----LRI------A 571

Query: 644 LYNLHTILLEDCH-QLKK 660
           L      + E+ H Q+++
Sbjct: 572 LMAEDEAIFEEAHKQVQR 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 = 83.4 bits (205), Expect = 5e-16
 Identities = 77/533 (14%), Positives = 144/533 (27%), Gaps = 147/533 (27%)

Query: 560 LEFICDVQHL--RTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNE 617
           ++F         +  L V    +  N+    V     +      + S     +I    + 
Sbjct: 7   MDFETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKS------ILSKEEIDHIIMSKDA 60

Query: 618 IGNLKHL-RCLNLSRTRI--QILPESINSLYN--------------LHTILLEDCHQLKK 660
           +     L   L   +  +  + + E +   Y               + T +  +     +
Sbjct: 61  VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRD--R 118

Query: 661 LCKDMGNLRKLHHLRNSTANSLKE---------------MPKGFGKLTSL---------- 695
           L  D     K +  R      L++               +  G GK T +          
Sbjct: 119 LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGV-LGSGK-TWVALDVCLSYKV 176

Query: 696 ----------LTLGRFVVGKDSGSGLRELKSLTHL---QGTLRISKLENVKDVGDASEAQ 742
                     L L          + L  L+ L +      T R     N+K    + +A+
Sbjct: 177 QCKMDFKIFWLNLKNC---NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE 233

Query: 743 LNN----KVNLEALL-LK--WSARDVQNLD-QCEFETHVLSVLKPHRDVQELT-ITGYGG 793
           L      K     LL L    +A+     +  C+    + +     R  Q    ++    
Sbjct: 234 LRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCK--ILLTT-----RFKQVTDFLSAATT 286

Query: 794 TKFPIWLGDSSFSKLARLEL-RRCTSTS---LPS--VGQLPFL-----KELR--ISGMDG 840
           T   +     + +      L  +        LP   +   P       + +R  ++  D 
Sbjct: 287 THISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDN 346

Query: 841 VKSVGSEFYGNSRSVPFPSLETLSFFDMRE----------------------WEEWIPCG 878
            K V  +           SL  L   + R+                      W + I   
Sbjct: 347 WKHVNCDKLTTIIES---SLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVIK-- 401

Query: 879 AGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLV-IKSCQQL---IVT----IQCL 930
              +V  V  KL K SL      + T+    + LE  V +++   L   IV      +  
Sbjct: 402 --SDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTF 459

Query: 931 P--ALSELQIDG--CKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNR 979
               L    +D      +     HL +  +  +   F      +  D R L +
Sbjct: 460 DSDDLIPPYLDQYFYSHIGH---HLKNIEHPERMTLF----RMVFLDFRFLEQ 505

>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 = 74.1 bits (181), Expect = 3e-13
 Identities = 84/503 (16%), Positives = 153/503 (30%), Gaps = 144/503 (28%)

Query: 672  HHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLEN 731
            HH  +       E    +  + S+     FV   D        KS+        +SK E 
Sbjct: 1    HHHHHHMDFETGEHQYQYKDILSVF-EDAFVDNFDCKDVQDMPKSI--------LSK-EE 50

Query: 732  VKDVGDASEAQLNNKVNLEAL-LLKWSARDVQNLDQCEFETHVLSVLKPH---------- 780
            +  +       + +K  +     L W+    Q     +F   V  VL+ +          
Sbjct: 51   IDHI-------IMSKDAVSGTLRLFWTLLSKQEEMVQKF---VEEVLRINYKFLMSPIKT 100

Query: 781  RDVQ-ELTITGYGGTKFPIWLGDSSFSKL--ARLE----LRRCTSTSLPSVGQLPFLKEL 833
               Q  +    Y   +  ++  +  F+K   +RL+    LR+              L EL
Sbjct: 101  EQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQA-------------LLEL 147

Query: 834  R------ISGMDGV-KSVGSEFYGNSRSVPFPSL--ETLSFFDMREWEE----WIPCGAG 880
            R      I G+ G  K+                +  +    + ++   +    W+     
Sbjct: 148  RPAKNVLIDGVLGSGKTW---------------VALDVCLSYKVQCKMDFKIFWLNLKNC 192

Query: 881  EEVDEVFPKLRKLSL-----------------FHCHKLQGTL---------PKRLLLLET 914
               + V   L+KL                      H +Q  L            LL+L  
Sbjct: 193  NSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLN 252

Query: 915  L----VIK----SCQQLIVT-----IQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQA 961
            +           SC+ L+ T        L A +   I     +   S  L          
Sbjct: 253  VQNAKAWNAFNLSCKILLTTRFKQVTDFLSAATTTHI----SLDHHSMTLTPDEVKSLLL 308

Query: 962  -YFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLT 1020
             Y       LP+++ + N       P+ LS++ E   D             K   C+ LT
Sbjct: 309  KYLDCRPQDLPREVLTTN-------PRRLSIIAESIRDG-----LATWDNWKHVNCDKLT 356

Query: 1021 RLPQALLTLSSLTEMRISGC-ASLVSFPQAA-LPSHLRTVKIEDCNALESLPEAWMHN-S 1077
             + ++ L +    E R       L  FP +A +P+    + +   + ++S     ++   
Sbjct: 357  TIIESSLNVLEPAEYR--KMFDRLSVFPPSAHIPTI--LLSLIWFDVIKSDVMVVVNKLH 412

Query: 1078 NSSLESLKIRNCNSLVSFPEVAL 1100
              SL  ++ +   S +S P + L
Sbjct: 413  KYSL--VEKQPKESTISIPSIYL 433

>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 = 50.6 bits (120), Expect = 4e-06
 Identities = 50/317 (15%), Positives = 90/317 (28%), Gaps = 98/317 (30%)

Query: 1183 LTYFSSENELPTM-----LEHLQVRFCSNLAFLSRN-------GNLPQALKYLRVED--- 1227
            ++   +E   P+M     +E     +  N  F   N         L QAL  LR      
Sbjct: 95   MSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVL 154

Query: 1228 ------CSKLESLA-ERLDNTSLEE--------ITISVLENLKSLPADLHNLHHLQKIWI 1272
                    K   +A +   +  ++         + +    + +++   L  L +  +I  
Sbjct: 155  IDGVLGSGK-TWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY--QIDP 211

Query: 1273 NYCPNLESFPEEGLPSTKL-TELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPE 1331
            N+    +      L    +  EL        K   NC      LL+L             
Sbjct: 212  NWTSRSDHSSNIKLRIHSIQAELRRLLKS--KPYENC------LLVL------------- 250

Query: 1332 DGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWIS 1391
                 N+Q+ +                       F +   C  L++       +T+   +
Sbjct: 251  L----NVQNAKA-------------------WNAFNL--SCKILLTTRF--KQVTDFLSA 283

Query: 1392 DMPDLESISSIGENLTSLETLRLFNCPKLKYF--PEQGLPKSLSRLSIHNCPL----IEK 1445
                  S+      LT  E   L     LKY     Q LP+ +  L+ +  P     I +
Sbjct: 284  ATTTHISLDHHSMTLTPDEVKSLL----LKYLDCRPQDLPREV--LTTN--PRRLSIIAE 335

Query: 1446 RCRKDEG--KYWPMISH 1460
              R        W  ++ 
Sbjct: 336  SIRDGLATWDNWKHVNC 352

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score =  115 bits (289), Expect = 9e-28
 Identities = 75/339 (22%), Positives = 127/339 (37%), Gaps = 50/339 (14%)

Query: 1008 LQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALE 1067
             + L       L      L           +   S          S+   ++     AL+
Sbjct: 14   RENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQAN----SNNPQIETRTGRALK 69

Query: 1068 SLPEAWMHNSNSSLESLKIRNCNSLVSFP-EVALPSQLRTVKIEYCNALISLPEAWMQNS 1126
            +  +     +     +L++R+   L  FP +    S L+ + I     L+ LP+  MQ  
Sbjct: 70   ATADLLEDATQPGRVALELRS-VPLPQFPDQAFRLSHLQHMTI-DAAGLMELPDT-MQQF 126

Query: 1127 NTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYF 1186
               LE+L +     L+      LP S+  L       LR L     I    R C  LT  
Sbjct: 127  -AGLETLTLARN-PLR-----ALPASIASLN-----RLREL----SI----RACPELT-- 164

Query: 1187 SSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDN-TSLEE 1245
                ELP  L        ++      +  L   L+ LR+ + + + SL   + N  +L+ 
Sbjct: 165  ----ELPEPL--------ASTDASGEHQGLVN-LQSLRL-EWTGIRSLPASIANLQNLKS 210

Query: 1246 ITISVLEN-LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKA 1304
            + I    + L +L   +H+L  L+++ +  C  L ++P        L  L + DC NL  
Sbjct: 211  LKIR--NSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLT 268

Query: 1305 LPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEV 1343
            LP  +H LT L  L++RGC ++   P       L +  +
Sbjct: 269  LPLDIHRLTQLEKLDLRGCVNLSRLPSL--IAQLPANCI 305

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 98.9 bits (247), Expect = 2e-22
 Identities = 66/378 (17%), Positives = 121/378 (32%), Gaps = 90/378 (23%)

Query: 1079 SSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGC 1138
            S  E+L  +   +L           L   +  Y NA  +   +  + +N++   +  +  
Sbjct: 12   SGRENLYFQGSTALRP-----YHDVLSQWQRHY-NADRNRWHSAWRQANSNNPQIETRTG 65

Query: 1139 DSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEH 1198
             +LK          L+            L    ++         L       + P     
Sbjct: 66   RALK-----ATADLLEDATQP---GRVAL----EL-----RSVPLP------QFPDQAFR 102

Query: 1199 LQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDN-TSLEEITISVLEN-LKS 1256
            L                    L+++ + D + L  L + +     LE +T++   N L++
Sbjct: 103  L------------------SHLQHMTI-DAAGLMELPDTMQQFAGLETLTLA--RNPLRA 141

Query: 1257 LPADLHNLHHLQKIWINYCPNLESFPEE----GLPS-----TKLTELTIYDCENLKALPN 1307
            LPA + +L+ L+++ I  CP L   PE                L  L +     +++LP 
Sbjct: 142  LPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPA 200

Query: 1308 CMHNLTSLLILEIRGCPSVVSFPED-GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRF 1366
             + NL +L  L+IR    + +          L+ L++RG    +  P      F      
Sbjct: 201  SIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYPPI----FGGRA-- 253

Query: 1367 TICGGCPDLVSPPPFPASLTNLWISDMPDLESI-SSIGENLTSLETLRLFNCPKLKYFPE 1425
                              L  L + D  +L ++   I   LT LE L L  C  L   P 
Sbjct: 254  -----------------PLKRLILKDCSNLLTLPLDIH-RLTQLEKLDLRGCVNLSRLPS 295

Query: 1426 Q-GLPKSLSRLSIHNCPL 1442
                  +   + +     
Sbjct: 296  LIAQLPANCIILVPPHLQ 313

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 95.4 bits (238), Expect = 4e-21
 Identities = 60/286 (20%), Positives = 94/286 (32%), Gaps = 31/286 (10%)

Query: 1178 RGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQ-ALKYLRVEDCSKLESLAE 1236
            +G T+L           +L   Q  + ++                 +       L++ A+
Sbjct: 20   QGSTALR------PYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATAD 73

Query: 1237 RLDNTSLEEITISVLEN--LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTEL 1294
             L++ +        L +  L   P     L HLQ + I+    L   P+       L  L
Sbjct: 74   LLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAA-GLMELPDTMQQFAGLETL 132

Query: 1295 TIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED----------GFPTNLQSLEVR 1344
            T+     L+ALP  + +L  L  L IR CP +   PE               NLQSL + 
Sbjct: 133  TLARN-PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLE 191

Query: 1345 GLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNL---WISDMPDLESI-S 1400
               I   LP        +L+   I    P L +  P    L  L    +     L +   
Sbjct: 192  WTGIRS-LPA-SIANLQNLKSLKI-RNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPP 247

Query: 1401 SIGENLTSLETLRLFNCPKLKYFPEQ-GLPKSLSRLSIHNCPLIEK 1445
              G     L+ L L +C  L   P        L +L +  C  + +
Sbjct: 248  IFG-GRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSR 292

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 84.2 bits (209), Expect = 2e-17
 Identities = 27/105 (25%), Positives = 43/105 (40%), Gaps = 1/105 (0%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
              L  L+   L     I +LP  I NL++L+ L +  + +  L  +I+ L  L  + L 
Sbjct: 179 HQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLR 237

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
            C  L+      G    L  L     ++L  +P    +LT L  L
Sbjct: 238 GCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKL 282

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 81.9 bits (203), Expect = 1e-16
 Identities = 46/250 (18%), Positives = 88/250 (35%), Gaps = 52/250 (20%)

Query: 597 LPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCH 656
            P      LR    +   P++   L HL+ + +    +  LP+++     L T+ L    
Sbjct: 80  QPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARN- 137

Query: 657 QLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELKS 716
            L+ L   + +L +L  L       L E+P+      +                   L +
Sbjct: 138 PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQ-------------GLVN 184

Query: 717 LTHLQGTLRISKLENV-KDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFET---- 771
           L  L+  L  + + ++   + +          NL++L           +           
Sbjct: 185 LQSLR--LEWTGIRSLPASIANLQ--------NLKSL----------KIRNSPLSALGPA 224

Query: 772 -HVLSVLKPHRDVQELTITGYGG-TKFPIWLGDSSFSKLARLELRRCTS-TSLP-SVGQL 827
            H L  L      +EL + G      +P   G    + L RL L+ C++  +LP  + +L
Sbjct: 225 IHHLPKL------EELDLRGCTALRNYPPIFGG--RAPLKRLILKDCSNLLTLPLDIHRL 276

Query: 828 PFLKELRISG 837
             L++L + G
Sbjct: 277 TQLEKLDLRG 286

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 79.2 bits (196), Expect = 9e-16
 Identities = 27/119 (22%), Positives = 49/119 (41%), Gaps = 5/119 (4%)

Query: 584 YLAWSVLQRL---LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSR-TRIQILPE 639
            L W+ ++ L   + +L  L+   +R    +  L   I +L  L  L+L   T ++  P 
Sbjct: 189 RLEWTGIRSLPASIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYPP 247

Query: 640 SINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
                  L  ++L+DC  L  L  D+  L +L  L      +L  +P    +L +   +
Sbjct: 248 IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCII 306

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 75.4 bits (186), Expect = 2e-14
 Identities = 22/111 (19%), Positives = 44/111 (39%), Gaps = 9/111 (8%)

Query: 596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDC 655
            L  L+  ++     +  LP+ +     L  L L+R  ++ LP SI SL  L  + +  C
Sbjct: 102 RLSHLQHMTIDAA-GLMELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRAC 160

Query: 656 HQLKKLCKDMGNLRKLHHLRNST--------ANSLKEMPKGFGKLTSLLTL 698
            +L +L + + +       +              ++ +P     L +L +L
Sbjct: 161 PELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSL 211

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 74.6 bits (184), Expect = 3e-14
 Identities = 42/220 (19%), Positives = 76/220 (34%), Gaps = 27/220 (12%)

Query: 1241 TSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCE 1300
            +  E +       L+     L           N   +         P     ++      
Sbjct: 12   SGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNP-----QIETRTGR 66

Query: 1301 NLKALPNCMHNLTS--LLILEIRGCPSVVSFPED-GFPTNLQSLEVRGLKISKPLPEWGF 1357
             LKA  + + + T    + LE+R    +  FP+     ++LQ + +    + + LP+   
Sbjct: 67   ALKATADLLEDATQPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAAGLME-LPDT-M 123

Query: 1358 NRFTSLRRFTICGGCPDLVSPPPFPASLTNL---WISDMPDLESI-SSIG--------EN 1405
             +F  L   T+      L + P   ASL  L    I   P+L  +   +         + 
Sbjct: 124  QQFAGLETLTL-ARN-PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQG 181

Query: 1406 LTSLETLRLFNCPKLKYFPEQ-GLPKSLSRLSIHNCPLIE 1444
            L +L++LRL     ++  P      ++L  L I N PL  
Sbjct: 182  LVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSPLSA 220

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 67.7 bits (166), Expect = 6e-12
 Identities = 61/393 (15%), Positives = 108/393 (27%), Gaps = 122/393 (31%)

Query: 588 SVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSR---------------- 631
                  +H         +G   +    + +   +     + +R                
Sbjct: 2   GSSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANSNNPQIE 61

Query: 632 ----TRIQILPESINSLY--NLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEM 685
                 ++   + +          + L     L +       L  L H+    A  L E+
Sbjct: 62  TRTGRALKATADLLEDATQPGRVALELRSV-PLPQFPDQAFRLSHLQHMTID-AAGLMEL 119

Query: 686 PKGFGKLTSLLTLGRFVVGKD-SGSGLREL----KSLTHLQGTLRIS---KLENV-KDVG 736
           P    +   L TL         + + LR L     SL  L+  L I    +L  + + + 
Sbjct: 120 PDTMQQFAGLETL-------TLARNPLRALPASIASLNRLR-ELSIRACPELTELPEPLA 171

Query: 737 DASEAQLNNK-VNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTK 795
               +  +   VNL++L           L+                              
Sbjct: 172 STDASGEHQGLVNLQSL----------RLEWTGI------------------------RS 197

Query: 796 FPIWLGDSSFSKLARLELRRCTSTSLP-SVGQLPFLKELRISGMDGVKSVGSEFYGNSRS 854
            P  +   +   L  L++R    ++L  ++  LP L+EL +              G +  
Sbjct: 198 LPASIA--NLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLR-------------GCTAL 242

Query: 855 VPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPK---RLLL 911
             +P      F                        L++L L  C  L  TLP    RL  
Sbjct: 243 RNYPP----IFGGRA-------------------PLKRLILKDCSNLL-TLPLDIHRLTQ 278

Query: 912 LETLVIKSCQQLIV---TIQCLPALSELQIDGC 941
           LE L ++ C  L      I  LPA   + +   
Sbjct: 279 LEKLDLRGCVNLSRLPSLIAQLPANCIILVPPH 311

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 64.6 bits (158), Expect = 6e-11
 Identities = 32/204 (15%), Positives = 62/204 (30%), Gaps = 20/204 (9%)

Query: 1254 LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLT 1313
            + S     H+    + ++      L  + +      +          +     N   N  
Sbjct: 1    MGSSHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQAN--SNNP 58

Query: 1314 SLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCP 1373
             +     R   +     ED       +LE+R + + +  P+    R + L+  TI     
Sbjct: 59   QIETRTGRALKATADLLEDATQPGRVALELRSVPLPQ-FPD-QAFRLSHLQHMTI--DAA 114

Query: 1374 DLVSPPPFPASLTNLWISDMPD--LESI-SSIGENLTSLETLRLFNCPKLKYFPE----- 1425
             L+  P        L    +    L ++ +SI  +L  L  L +  CP+L   PE     
Sbjct: 115  GLMELPDTMQQFAGLETLTLARNPLRALPASIA-SLNRLRELSIRACPELTELPEPLAST 173

Query: 1426 -----QGLPKSLSRLSIHNCPLIE 1444
                      +L  L +    +  
Sbjct: 174  DASGEHQGLVNLQSLRLEWTGIRS 197

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 64.2 bits (157), Expect = 9e-11
 Identities = 50/209 (23%), Positives = 86/209 (41%), Gaps = 45/209 (21%)

Query: 968  TRLPQDI---RSLNRLQISRCPQLLSLVTEEEHDQQQPESPCR---LQFLKLSKCEGLTR 1021
              LP  +     L  L ++R   L +L          P S      L+ L +  C  LT 
Sbjct: 117  MELPDTMQQFAGLETLTLARN-PLRAL----------PASIASLNRLRELSIRACPELTE 165

Query: 1022 LP---------QALLTLSSLTEMRISGCASLVSFPQA-ALPSHLRTVKIEDCNALESLPE 1071
            LP              L +L  +R+     + S P + A   +L+++KI   + L +L  
Sbjct: 166  LPEPLASTDASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKI-RNSPLSALGP 223

Query: 1072 AWMHNSN-SSLESLKIRNCNSLVSFPEV--ALPSQLRTVKIEYCNALISLPEAWMQNSN- 1127
            A     +   LE L +R C +L ++P +       L+ + ++ C+ L++LP         
Sbjct: 224  AI---HHLPKLEELDLRGCTALRNYPPIFGGRAP-LKRLILKDCSNLLTLPLDI---HRL 276

Query: 1128 TSLESLRIKGCDSLKYIARIQLPPSLKRL 1156
            T LE L ++GC +L      +LP  + +L
Sbjct: 277  TQLEKLDLRGCVNLS-----RLPSLIAQL 300

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 56.5 bits (137), Expect = 2e-08
 Identities = 55/405 (13%), Positives = 93/405 (22%), Gaps = 99/405 (24%)

Query: 637  LPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLL 696
                 +       +  +    L+     +   ++ ++   +                +  
Sbjct: 4    SHHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRN----RWHSAWRQANSNNPQ 59

Query: 697  TLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKW 756
                           R  ++L      L  +                       AL    
Sbjct: 60   IE------------TRTGRALKATADLLEDATQPG-----------------RVAL---- 86

Query: 757  SARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRC 816
                   L                  +Q +TI   G  + P  +    F+ L  L L R 
Sbjct: 87   ------ELRSVPL-PQFPDQAFRLSHLQHMTIDAAGLMELPDTMQ--QFAGLETLTLARN 137

Query: 817  TSTSLP-SVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWE-EW 874
               +LP S+  L  L+EL I     +  +         S     L  L    +       
Sbjct: 138  PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRS 197

Query: 875  IPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPK---RLLLLETLVIKSCQQLIV---TIQ 928
            +P             L+ L + +   L   L      L  LE L ++ C  L        
Sbjct: 198  LPASIAN-----LQNLKSLKIRNS-PLS-ALGPAIHHLPKLEELDLRGCTALRNYPPIFG 250

Query: 929  CLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDI---RSLNRLQISRC 985
                L  L +  C  +                         LP DI     L +L +  C
Sbjct: 251  GRAPLKRLILKDCSNL-----------------------LTLPLDIHRLTQLEKLDLRGC 287

Query: 986  PQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEG--LTRLPQALLT 1028
              L  L          P    +L    +         +L Q    
Sbjct: 288  VNLSRL----------PSLIAQLPANCIILVPPHLQAQLDQHRPV 322

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 56.5 bits (137), Expect = 3e-08
 Identities = 18/67 (26%), Positives = 26/67 (38%), Gaps = 1/67 (1%)

Query: 596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSR-TRIQILPESINSLYNLHTILLED 654
               L+   L+ C N+  LP +I  L  L  L+L     +  LP  I  L     IL+  
Sbjct: 251 GRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPP 310

Query: 655 CHQLKKL 661
             Q +  
Sbjct: 311 HLQAQLD 317

>4fcg_A Uncharacterized protein; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, LRR, N- and C-terminal helices; 2.00A {Xanthomonas campestris PV} Length = 328

 Score = 55.7 bits (135), Expect = 4e-08
 Identities = 66/363 (18%), Positives = 108/363 (29%), Gaps = 97/363 (26%)

Query: 743  LNNKVNLEAL---LLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIW 799
                  L      L +W      + ++               + Q  T TG         
Sbjct: 19   FQGSTALRPYHDVLSQWQRHYNADRNRWHS----AWRQANSNNPQIETRTGRALKATADL 74

Query: 800  LGDSSFSKLARLELRRCTSTSLP-SVGQLPFLKELRISGMDGVKSVGSEFYGNS-RSVP- 856
            L D++      LELR       P    +L  L+ + I                    +P 
Sbjct: 75   LEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDA-------------AGLMELPD 121

Query: 857  ----FPSLETLSFFD--MREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPK--- 907
                F  LETL+     +R     +P            +LR+LS+  C +L   LP+   
Sbjct: 122  TMQQFAGLETLTLARNPLRA----LPASIAS-----LNRLRELSIRACPELT-ELPEPLA 171

Query: 908  ---------RLLLLETLVIKSCQ--QLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVN 956
                      L+ L++L ++      L  +I  L  L  L+I                  
Sbjct: 172  STDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPL------------- 218

Query: 957  VRKQAYFWRSETRLPQDIRSLNRLQ---ISRCPQLLSLVTEEEHDQQQPESPCRLQFLK- 1012
                       + L   I  L +L+   +  C  L +           P        LK 
Sbjct: 219  -----------SALGPAIHHLPKLEELDLRGCTALRNY----------PPIFGGRAPLKR 257

Query: 1013 --LSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQ--AALPSHLRTVKIEDCNALES 1068
              L  C  L  LP  +  L+ L ++ + GC +L   P   A LP+    + +   +    
Sbjct: 258  LILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA-NCIILVPP-HLQAQ 315

Query: 1069 LPE 1071
            L +
Sbjct: 316  LDQ 318

>3sfz_A APAF-1, apoptotic peptidase activating factor 1; apoptosis, caspase activation, cytochrome C, procaspase-9, A nucleotide, cytosol; HET: ADP; 3.00A {Mus musculus} PDB: 3shf_A* 3iyt_A* 3iza_A* Length = 1249

 Score =  106 bits (266), Expect = 4e-23
 Identities = 106/623 (17%), Positives = 205/623 (32%), Gaps = 109/623 (17%)

Query: 44  MLKMIKAVLADAEDRQTKDESVKTWLDDLQNLAYDAEDVLDELETEALRRELLRQEPAAA 103
           M    +  L    +   KD      +D +      +  VL  +E E ++ +  + + AA 
Sbjct: 1   MDAKARNCLLQHREALEKDIKTSYIMDHMI-----SNGVLSVIEEEKVKSQATQYQRAA- 54

Query: 104 DQPSSSANTSKFRKLIPTCCTNFSPRSIQ--FESKMASQIEEVTARLQSIISTQKDLLKL 161
                        K+I          +    + + +    +++ A LQS +         
Sbjct: 55  ----------ALIKMILNK----DNCAYISFYNALLHEGYKDLAALLQSGLPLVSSSSGK 100

Query: 162 KNVISDGKSRNIRQRLPTTSLVNEAKV-YGREKEKEEIIELLLNDDLRGDDGFSVISING 220
                 G +  +R  L    +     +   R+K    I + L   +         ++I G
Sbjct: 101 DT--DGGITSFVRTVLCEGGVPQRPVIFVTRKKLVHAIQQKLWKLN----GEPGWVTIYG 154

Query: 221 MGGVGKTTLAQ-LVYNDDRVQRHYEIKA-W-----TCVSEDFDVFRISKSILNSVASDQC 273
           M G GK+ LA   V +   ++  +     W        S      +     L+   S   
Sbjct: 155 MAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQ 214

Query: 274 KDKDDLNLLQEKLKKQLSGN--KFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTR 331
           +   ++   +++L+  +     + LL+LDDVW+   ++  + +C         +I++TTR
Sbjct: 215 RLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFDNQC---------QILLTTR 265

Query: 332 NLVVAERMGADP--VYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGL 389
           +  V + +      V     L  +  L +L+      ++      L      I+ +C G 
Sbjct: 266 DKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKE-----DLPAEAHSIIKECKGS 320

Query: 390 PLAAKTLGGLLRGRDDPRDWEFVL----KTDIWNLRDS------DILPALRVSYHFLPPQ 439
           PL    +G LL  RD P  W + L          +R S       +  A+ +S   L   
Sbjct: 321 PLVVSLIGALL--RDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED 378

Query: 440 LKQCFAYCSLFPKDYEFQEEEIILLWTAEGLLDQEYNGRKMEDLGREFVRELHSRSL-FQ 498
           +K  +   S+  KD +   + + +LW        +    ++ED+ +EFV     +SL F 
Sbjct: 379 IKDYYTDLSILQKDVKVPTKVLCVLW--------DLETEEVEDILQEFVN----KSLLFC 426

Query: 499 QSSKDASRFVMHDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICG---EYD 555
             +  +  + +HDL  D                     + +      H   +      Y 
Sbjct: 427 NRNGKSFCYYLHDLQVDFLT-----------------EKNRSQLQDLHRKMVTQFQRYYQ 469

Query: 556 GDTRLEFICDVQHLRTFLPVNLSDYRHNYLA--WSVLQRLLNHLPRLRVFSLRGCGNIFN 613
             T      D  +   FL        H   A     L  L+  L  ++  +        +
Sbjct: 470 PHTLSPDQEDCMYWYNFLA------YHMASANMHKELCALMFSLDWIKAKTE--LVGPAH 521

Query: 614 LPNEIGNLKHLRCLNLSRTRIQI 636
           L +E    +H+            
Sbjct: 522 LIHEFVAYRHILDEKDCAVCENF 544

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 96.6 bits (241), Expect = 6e-21
 Identities = 99/450 (22%), Positives = 149/450 (33%), Gaps = 86/450 (19%)

Query: 1004 SPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDC 1063
            S   LQ         LT +P     + S TE   +      + P              + 
Sbjct: 9    SNTFLQEPLRH-SSNLTEMPVEAENVKSKTEYYNAWSEWERNAPP------------GNG 55

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWM 1123
               E          +     L++ N   L S PE  LP  L ++    CN+L  LPE   
Sbjct: 56   EQREMAVSRLRDCLDRQAHELELNN-LGLSSLPE--LPPHLESLVA-SCNSLTELPE--- 108

Query: 1124 QNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSL 1183
                 SL+SL     D+    A   LPP L+ L VS    L  L          +  + L
Sbjct: 109  --LPQSLKSLL---VDNNNLKALSDLPPLLEYLGVSNN-QLEKL-------PELQNSSFL 155

Query: 1184 TYFS-SEN---ELPTMLEHLQVRFCSN--LAFLSRNGNLPQALKYLRVEDCSKLESLAER 1237
                   N   +LP +   L+     N  L  L    NLP  L  +  ++   L+ L + 
Sbjct: 156  KIIDVDNNSLKKLPDLPPSLEFIAAGNNQLEELPELQNLPF-LTAIYADNN-SLKKLPDL 213

Query: 1238 LDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIY 1297
                SLE I      N+     +L NL  L  I+ +    L++ P+       L  L + 
Sbjct: 214  P--LSLESIVAG--NNILEELPELQNLPFLTTIYADNN-LLKTLPDL---PPSLEALNVR 265

Query: 1298 DCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWG- 1356
            D   L  LP    +LT L + E           E   P NL  L     +I         
Sbjct: 266  DN-YLTDLPELPQSLTFLDVSENIFS----GLSE--LPPNLYYLNASSNEIRSLCDLPPS 318

Query: 1357 -------FNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSL 1409
                    N+   L               P  P  L  L  S       ++ + E   +L
Sbjct: 319  LEELNVSNNKLIEL---------------PALPPRLERLIASF----NHLAEVPELPQNL 359

Query: 1410 ETLRLFNCPKLKYFPEQGLPKSLSRLSIHN 1439
            + L +     L+ FP+  +P+S+  L +++
Sbjct: 360  KQLHVEYN-PLREFPD--IPESVEDLRMNS 386

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 91.2 bits (227), Expect = 4e-19
 Identities = 99/456 (21%), Positives = 154/456 (33%), Gaps = 97/456 (21%)

Query: 968  TRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLS--KCEGLTRLPQA 1025
            + LP+    L  L  S    L  L          PE P  L+ L +     + L+ LP  
Sbjct: 84   SSLPELPPHLESLVASCN-SLTEL----------PELPQSLKSLLVDNNNLKALSDLP-- 130

Query: 1026 LLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLK 1085
                  L  + +S    L   P+    S L+ + + D N+L+ LP+        SLE + 
Sbjct: 131  ----PLLEYLGVSNN-QLEKLPELQNSSFLKIIDV-DNNSLKKLPD-----LPPSLEFIA 179

Query: 1086 IRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIA 1145
              N N L   PE+     L  +  +  N+L  LP+        SLES+       L+ + 
Sbjct: 180  AGN-NQLEELPELQNLPFLTAIYADN-NSLKKLPD-----LPLSLESIVAGNN-ILEELP 231

Query: 1146 RIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS----SENELPTMLEHLQV 1201
             +Q  P L  +       L+TL              SL   +       +LP + + L  
Sbjct: 232  ELQNLPFLTTIYADNN-LLKTL---------PDLPPSLEALNVRDNYLTDLPELPQSLTF 281

Query: 1202 RFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLEN-LKSLPAD 1260
               S     S    LP  L YL      ++ SL +     SLEE+ +S   N L  LPA 
Sbjct: 282  LDVSEN-IFSGLSELPPNLYYLNASSN-EIRSLCDLP--PSLEELNVS--NNKLIELPAL 335

Query: 1261 LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEI 1320
               L  L     ++  +L   PE       L +L +     L+  P+   ++  L +   
Sbjct: 336  PPRLERL---IASFN-HLAEVPEL---PQNLKQLHVEYN-PLREFPDIPESVEDLRM--- 384

Query: 1321 RGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP 1380
                 +   PE   P NL+ L V              N                    P 
Sbjct: 385  --NSHLAEVPE--LPQNLKQLHVET------------NPLREF---------------PD 413

Query: 1381 FPASLTNLWISDMPDLESISSIGENLTSLETLRLFN 1416
             P S+ +L ++    ++      E    LE     +
Sbjct: 414  IPESVEDLRMNSERVVDPYEFAHETTDKLEDDVFEH 449

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 75.4 bits (186), Expect = 4e-14
 Identities = 100/526 (19%), Positives = 162/526 (30%), Gaps = 136/526 (25%)

Query: 605  LRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQ-ILPESINSLYNLHTILLEDCH------- 656
            LR   N+  +P E  N+K       + +  +   P        +    L DC        
Sbjct: 17   LRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHEL 76

Query: 657  -----QLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGL 711
                  L  L +   +L  L     ++ NSL E+P+    L SLL            + L
Sbjct: 77   ELNNLGLSSLPELPPHLESL----VASCNSLTELPELPQSLKSLLVD---------NNNL 123

Query: 712  RELKSLTHLQGTLRIS--KLENVKDVGDASEAQL----NNK--------VNLEALLLKWS 757
            + L  L  L   L +S  +LE + ++ ++S  ++    NN          +LE +     
Sbjct: 124  KALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEFI----- 178

Query: 758  ARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT 817
                      + E   L  L+    +  +        K P          L  +      
Sbjct: 179  -----AAGNNQLEE--LPELQNLPFLTAIYADNNSLKKLP-----DLPLSLESIVAGNNI 226

Query: 818  STSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNS-RSVP--FPSLETLSFFDMREWEEW 874
               LP +  LPFL  +                 N  +++P   PSLE L+  D       
Sbjct: 227  LEELPELQNLPFLTTIYAD-------------NNLLKTLPDLPPSLEALNVRDNY----- 268

Query: 875  IPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALS 934
                   ++ E+   L  L +         L +    L  L   S  ++       P+L 
Sbjct: 269  -----LTDLPELPQSLTFLDVSENIFSG--LSELPPNLYYLNASSN-EIRSLCDLPPSLE 320

Query: 935  ELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTE 994
            EL +   K        L                  LP     L RL  S    L  +   
Sbjct: 321  ELNVSNNK--------L----------------IELPALPPRLERLIASFN-HLAEV--- 352

Query: 995  EEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSH 1054
                   PE P  L+ L +     L   P    ++  L        + L   P   LP +
Sbjct: 353  -------PELPQNLKQLHVEYNP-LREFPDIPESVEDLRM-----NSHLAEVP--ELPQN 397

Query: 1055 LRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVAL 1100
            L+ + + + N L   P+        S+E L++ N   +V   E A 
Sbjct: 398  LKQLHV-ETNPLREFPD-----IPESVEDLRM-NSERVVDPYEFAH 436

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 65.8 bits (161), Expect = 5e-11
 Identities = 48/247 (19%), Positives = 80/247 (32%), Gaps = 47/247 (19%)

Query: 1227 DCSKLESLAERLDN-TSLEEITISVLENLKSLPADLHNLHHLQKIWINYCP--------- 1276
              S L  +    +N  S  E   +  E  ++ P        +    +  C          
Sbjct: 19   HSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDRQAHELEL 78

Query: 1277 ---NLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDG 1333
                L S PE       L  L    C +L  LP    +L SLL+          +  +  
Sbjct: 79   NNLGLSSLPEL---PPHLESLVA-SCNSLTELPELPQSLKSLLVDNNNLK----ALSD-- 128

Query: 1334 FPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISD- 1392
             P  L+ L V   ++ K LPE      + L+   +      L   P  P SL  +   + 
Sbjct: 129  LPPLLEYLGVSNNQLEK-LPE--LQNSSFLKIIDV--DNNSLKKLPDLPPSLEFIAAGNN 183

Query: 1393 ----MPDLES-------------ISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRL 1435
                +P+L++             +  + +   SLE++   N   L+  PE      L+ +
Sbjct: 184  QLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNN-ILEELPELQNLPFLTTI 242

Query: 1436 SIHNCPL 1442
               N  L
Sbjct: 243  YADNNLL 249

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 65.0 bits (159), Expect = 8e-11
 Identities = 47/235 (20%), Positives = 77/235 (32%), Gaps = 49/235 (20%)

Query: 1240 NTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEE-------------GL 1286
            NT L+E  +    NL  +P +  N+    + +  +     + P                 
Sbjct: 10   NTFLQEP-LRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDC 68

Query: 1287 PSTKLTELTIYDCE-------------------NLKALPNCMHNLTSLLILEIRGCPSVV 1327
               +  EL + +                     +L  LP    +L SLL+          
Sbjct: 69   LDRQAHELELNNLGLSSLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLK---- 124

Query: 1328 SFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTN 1387
            +  +   P  L+ L V   ++ K LPE      + L+   +      L   P  P SL  
Sbjct: 125  ALSD--LPPLLEYLGVSNNQLEK-LPE--LQNSSFLKIIDV--DNNSLKKLPDLPPSLEF 177

Query: 1388 LWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPL 1442
            +   +   LE +  +  NL  L  +   N   LK  P+  LP SL  +   N  L
Sbjct: 178  IAAGNN-QLEELPELQ-NLPFLTAIYADNN-SLKKLPD--LPLSLESIVAGNNIL 227

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 60.8 bits (148), Expect = 2e-09
 Identities = 91/543 (16%), Positives = 153/543 (28%), Gaps = 143/543 (26%)

Query: 614  LPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH 673
            +     +   L+      + +  +P    ++ +            +      G  R++  
Sbjct: 3    INPRNVSNTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAV 62

Query: 674  LRNSTA------------NSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL----KSL 717
             R                  L  +P+    L SL+          S + L EL    +SL
Sbjct: 63   SRLRDCLDRQAHELELNNLGLSSLPELPPHLESLVA---------SCNSLTELPELPQSL 113

Query: 718  THLQ-GTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSV 776
              L      +  L ++                LE L           +   + E   L  
Sbjct: 114  KSLLVDNNNLKALSDLPP-------------LLEYL----------GVSNNQLEK--LPE 148

Query: 777  LKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRIS 836
            L+    ++ + +      K P          L  +         LP +  LPFL  +   
Sbjct: 149  LQNSSFLKIIDVDNNSLKKLP-----DLPPSLEFIAAGNNQLEELPELQNLPFLTAIYAD 203

Query: 837  GMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWE-EWIPCGAGEEVDEVFPKLRKLSL 895
                          NS         +L          E +P             L  L+ 
Sbjct: 204  -------------NNSLKKLPDLPLSLESIVAGNNILEELP---------ELQNLPFLTT 241

Query: 896  FHCHKLQ-GTLPKRLLLLETLVIKSCQ--QLIVTIQCLPALSELQIDGCKRVVFSSPHLV 952
             +       TLP     LE L ++      L    Q L  L   +               
Sbjct: 242  IYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSEN-------------- 287

Query: 953  HAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLK 1012
                           + L +   +L  L  S   ++ SL           + P  L+ L 
Sbjct: 288  -------------IFSGLSELPPNLYYLNASSN-EIRSL----------CDLPPSLEELN 323

Query: 1013 LSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEA 1072
            +S  + L  LP        L  +  S    L   P   LP +L+ + +E  N L   P+ 
Sbjct: 324  VSNNK-LIELPA---LPPRLERLIASFN-HLAEVP--ELPQNLKQLHVEY-NPLREFPD- 374

Query: 1073 WMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLES 1132
                   S+E L++   + L   PE  LP  L+ + +E  N L   P+        S+E 
Sbjct: 375  ----IPESVEDLRM--NSHLAEVPE--LPQNLKQLHVE-TNPLREFPD-----IPESVED 420

Query: 1133 LRI 1135
            LR+
Sbjct: 421  LRM 423

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 58.9 bits (143), Expect = 7e-09
 Identities = 37/185 (20%), Positives = 61/185 (32%), Gaps = 24/185 (12%)

Query: 1258 PADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLI 1317
            P ++ N    +   + +  NL   P E       TE      E  +  P        + +
Sbjct: 5    PRNVSNTFLQE--PLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAV 62

Query: 1318 LEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVS 1377
              +R C                 LE+  L +S  LPE        L        C  L  
Sbjct: 63   SRLRDCL----------DRQAHELELNNLGLSS-LPEL----PPHLESLVA--SCNSLTE 105

Query: 1378 PPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSI 1437
             P  P SL +L + +     ++ ++ +    LE L + N  +L+  PE      L  + +
Sbjct: 106  LPELPQSLKSLLVDNN----NLKALSDLPPLLEYLGVSNN-QLEKLPELQNSSFLKIIDV 160

Query: 1438 HNCPL 1442
             N  L
Sbjct: 161  DNNSL 165

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 55.4 bits (134), Expect = 8e-08
 Identities = 96/503 (19%), Positives = 156/503 (31%), Gaps = 134/503 (26%)

Query: 800  LGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVP--F 857
            L D    +   LEL     +SLP     P L+ L  S              +   +P   
Sbjct: 65   LRDCLDRQAHELELNNLGLSSLPE--LPPHLESLVASCN------------SLTELPELP 110

Query: 858  PSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLP--KRLLLLETL 915
             SL++L   +             + + ++ P L  L + +  +L+  LP  +    L+ +
Sbjct: 111  QSLKSLLVDNNN----------LKALSDLPPLLEYLGVSNN-QLE-KLPELQNSSFLKII 158

Query: 916  VIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQ--D 973
             + +   L       P+L  +     +        L                  LP+  +
Sbjct: 159  DVDNN-SLKKLPDLPPSLEFIAAGNNQ--------L----------------EELPELQN 193

Query: 974  IRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLT 1033
            +  L  +       L  L          P+ P  L+ +       L  LP+ L  L  LT
Sbjct: 194  LPFLTAIYADNN-SLKKL----------PDLPLSLESIVAGNNI-LEELPE-LQNLPFLT 240

Query: 1034 EMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLV 1093
             +       L + P   LP  L  + + D N L  LPE        SL  L +   N   
Sbjct: 241  TIYADNN-LLKTLPD--LPPSLEALNVRD-NYLTDLPE-----LPQSLTFLDVSE-NIFS 290

Query: 1094 SFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARI-QLPPS 1152
               E  LP  L  +     N + SL +        SLE L +        +  +  LPP 
Sbjct: 291  GLSE--LPPNLYYLNASS-NEIRSLCDLP-----PSLEELNVSNN----KLIELPALPPR 338

Query: 1153 LKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SEN---ELPTMLEHLQVRFCSNLA 1208
            L+RLI S   +L  +              +L       N   E P + E ++    ++  
Sbjct: 339  LERLIASFN-HLAEVPEL---------PQNLKQLHVEYNPLREFPDIPESVEDLRMNSH- 387

Query: 1209 FLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQ 1268
             L+    LPQ LK L VE                           L+  P    ++  L 
Sbjct: 388  -LAEVPELPQNLKQLHVETN------------------------PLREFPDIPESVEDL- 421

Query: 1269 KIWINYCPNLESFPEEGLPSTKL 1291
            ++      +   F  E     + 
Sbjct: 422  RMNSERVVDPYEFAHETTDKLED 444

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 53.5 bits (129), Expect = 4e-07
 Identities = 35/152 (23%), Positives = 52/152 (34%), Gaps = 30/152 (19%)

Query: 565 DVQHLRTFLPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLK 622
            V  LR  L       +  +  L  S L  L  HL  L       C ++  LP    +LK
Sbjct: 61  AVSRLRDCLDRQAHELELNNLGL--SSLPELPPHLESLVA----SCNSLTELPELPQSLK 114

Query: 623 HLRCLNLSRTRIQILPESINSLY----------------NLHTILLEDCHQLKKLCKDMG 666
            L   N +   +  LP  +  L                  L  I +++   LKKL     
Sbjct: 115 SLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNN-SLKKLPDLPP 173

Query: 667 NLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
           +L  +    N   N L+E+P+    L  L  +
Sbjct: 174 SLEFI-AAGN---NQLEELPE-LQNLPFLTAI 200

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 52.3 bits (126), Expect = 8e-07
 Identities = 23/106 (21%), Positives = 43/106 (40%), Gaps = 12/106 (11%)

Query: 590 LQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHT 649
           L+ L +  P L   ++R    + +LP    +L  L       + +  LP ++  L     
Sbjct: 249 LKTLPDLPPSLEALNVRDN-YLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSN 307

Query: 650 ILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSL 695
                  +++ LC    +L +L ++ N   N L E+P    +L  L
Sbjct: 308 -------EIRSLCDLPPSLEEL-NVSN---NKLIELPALPPRLERL 342

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 51.5 bits (124), Expect = 1e-06
 Identities = 27/118 (22%), Positives = 42/118 (35%), Gaps = 7/118 (5%)

Query: 576 NLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQ 635
           NL      Y   + L++L +    L         NI     E+ NL  L  +      ++
Sbjct: 193 NLPFLTAIYADNNSLKKLPDLPLSLESIVAGN--NILEELPELQNLPFLTTIYADNNLLK 250

Query: 636 ILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLT 693
            LP+   SL  L+   + D   L  L +   +L  L    N   + L E+P     L 
Sbjct: 251 TLPDLPPSLEALN---VRDN-YLTDLPELPQSLTFLDVSENI-FSGLSELPPNLYYLN 303

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 51.5 bits (124), Expect = 1e-06
 Identities = 36/151 (23%), Positives = 64/151 (42%), Gaps = 14/151 (9%)

Query: 571 TFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLS 630
           T LP      +   +  + L+ L +  P L    +     +  LP E+ N   L+ +++ 
Sbjct: 104 TELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNN-QLEKLP-ELQNSSFLKIIDVD 161

Query: 631 RTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFG 690
              ++ LP+   SL  +      +  QL++L  ++ NL  L  +     NSLK++P    
Sbjct: 162 NNSLKKLPDLPPSLEFIA---AGNN-QLEEL-PELQNLPFLTAIYADN-NSLKKLPDLPL 215

Query: 691 KLTSLLTLGRFVVGKDSGSGLRELKSLTHLQ 721
            L S+      V G +    L EL++L  L 
Sbjct: 216 SLESI------VAGNNILEELPELQNLPFLT 240

>1jl5_A Outer protein YOPM; leucine-rich repeat, molecular pathogenesis, effector protein, virulence factor, toxin; 2.10A {Yersinia pestis} SCOP: c.10.2.6 PDB: 1g9u_A Length = 454

 Score = 50.8 bits (122), Expect = 2e-06
 Identities = 23/106 (21%), Positives = 41/106 (38%), Gaps = 13/106 (12%)

Query: 590 LQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHT 649
           L  L    PRL         ++  +P    NLK L   ++    ++  P+   S+ +L  
Sbjct: 329 LIELPALPPRLERLIASFN-HLAEVPELPQNLKQL---HVEYNPLREFPDIPESVEDLRM 384

Query: 650 ILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSL 695
                   L ++ +   NL++LH +     N L+E P     +  L
Sbjct: 385 -----NSHLAEVPELPQNLKQLH-VET---NPLREFPDIPESVEDL 421

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 82.2 bits (203), Expect = 8e-16
 Identities = 77/594 (12%), Positives = 173/594 (29%), Gaps = 114/594 (19%)

Query: 889  KLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSEL-----QIDGCKR 943
            ++  LSL      +G +P                    I  L  L  L           R
Sbjct: 324  RVTGLSL-AGFGAKGRVPD------------------AIGQLTELKVLSFGTHSETVSGR 364

Query: 944  VVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPE 1003
            +             RK       +       + LN   + +     ++    E    + +
Sbjct: 365  LFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQ----DAINRNPEMKPIKKD 420

Query: 1004 SPCRLQFLKLSKCE-GLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIED 1062
            S   L+  ++      +T + +A+  L+ L  +  +            +         + 
Sbjct: 421  SRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANS-PFTYDN---IAVDWEDANSDY 476

Query: 1063 CNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEV--ALPSQLRTVKIEYCNALISLPE 1120
                E+   +W +  +  L  +++ NC ++   P+    LP  L+++ I   N  IS  +
Sbjct: 477  AKQYENEELSWSNLKD--LTDVELYNCPNMTQLPDFLYDLPE-LQSLNIAC-NRGISAAQ 532

Query: 1121 AWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGC 1180
                 +  + +                   P ++   +    NL        +       
Sbjct: 533  LKADWTRLADD---------------EDTGPKIQIFYMGYN-NLEEFPASASLQK----M 572

Query: 1181 TSLTYFS-SENELPTMLEHLQVRFCSNLA--FLSRN---------GNLPQALKYLRVEDC 1228
              L       N++   LE         L    L  N               ++ L     
Sbjct: 573  VKLGLLDCVHNKV-RHLEAFG--TNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHN 629

Query: 1229 SKLESLAERLDNTSLEEITISVLEN--LKSLPADL------HNLHHLQKIWINYCPNLES 1280
             KL+ +    +  S+  +         + S   ++      +   +   + ++Y   ++ 
Sbjct: 630  -KLKYIPNIFNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYN-EIQK 687

Query: 1281 FPEEGLPS-TKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQ 1339
            FP E   + + ++ + + +   + ++P    N         +                L 
Sbjct: 688  FPTELFATGSPISTIILSNN-LMTSIPE---NSLKPKDGNYKNT------------YLLT 731

Query: 1340 SLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLW---ISDMPDL 1396
            ++++R  K++    ++       L    +   C    S P  P + + L    I    D 
Sbjct: 732  TIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNC--FSSFPTQPLNSSQLKAFGIRHQRDA 789

Query: 1397 ESISSIGE------NLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIE 1444
            E    + +         SL  L++ +   ++   E+  P  L  L I + P I 
Sbjct: 790  EGNRILRQWPTGITTCPSLIQLQIGSN-DIRKVDEKLTP-QLYILDIADNPNIS 841

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 77.2 bits (190), Expect = 3e-14
 Identities = 66/428 (15%), Positives = 133/428 (31%), Gaps = 65/428 (15%)

Query: 968  TRLPQDIRSLNRLQI---------SRCPQLLSLVTEEEHDQQQPESPC------RLQFLK 1012
            T + + I+ L +LQI              +       ++ +Q             L  ++
Sbjct: 438  TFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVE 497

Query: 1013 LSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDC--------- 1063
            L  C  +T+LP  L  L  L  + I+     +S  Q            +           
Sbjct: 498  LYNCPNMTQLPDFLYDLPELQSLNIACN-RGISAAQLKADWTRLADDEDTGPKIQIFYMG 556

Query: 1064 -NALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAW 1122
             N LE  P +        L  L   + N +          +L  +K++Y N +  +PE +
Sbjct: 557  YNNLEEFPASASLQKMVKLGLLDCVH-NKVRHLEAFGTNVKLTDLKLDY-NQIEEIPEDF 614

Query: 1123 MQNSNTSLESLRIKGCD--SLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGC 1180
               ++  +E L         +  I   +    +  +  S    + +              
Sbjct: 615  CAFTD-QVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYN-KIGSEGRNISCSMDDYKG 672

Query: 1181 TSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGN----LPQALKYLRVEDCSKLESLA 1235
             + +  + S NE+      L     S ++ +  + N    +P+     +  +      L 
Sbjct: 673  INASTVTLSYNEIQKFPTEL-FATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLL- 730

Query: 1236 ERLD---N--TSL-EEITISVLENLK----------SLPADLHNLHHLQKIWINYCPNL- 1278
              +D   N  TSL ++   + L  L           S P    N   L+   I +  +  
Sbjct: 731  TTIDLRFNKLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAE 790

Query: 1279 -----ESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDG 1333
                   +P        L +L I    +++ +   +     L IL+I   P+ +S     
Sbjct: 791  GNRILRQWPTGITTCPSLIQLQIGSN-DIRKVDEKL--TPQLYILDIADNPN-ISIDVTS 846

Query: 1334 FPTNLQSL 1341
                +++ 
Sbjct: 847  VCPYIEAG 854

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 70.7 bits (173), Expect = 3e-12
 Identities = 65/494 (13%), Positives = 142/494 (28%), Gaps = 75/494 (15%)

Query: 993  TEEEHDQQQPESPC-RLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAAL 1051
             E+  + Q P++   +   + ++ C+    LP     + + T    SG          ++
Sbjct: 181  KEDSKEHQNPDNANDKYMDIGVATCDSAVWLPAGTYQVVAYTTYSQSGI-KRSELETQSV 239

Query: 1052 PSHLRTVKIEDCNALESLPEAWMHNSNS---------SLESLKIRNCNSLVSFPEVALPS 1102
                 TV         ++P      +             E+L  +N           + S
Sbjct: 240  RGESFTVIDNKLTKDANVPIQLKETAEYIKDYKALKAIWEALDGKNWRYYSGTINNTIHS 299

Query: 1103 QLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCW 1162
                   E    +         ++N  +  L + G  +       ++P ++ +L      
Sbjct: 300  LNWNFNKELD--MWGDQPGVDLDNNGRVTGLSLAGFGAKG-----RVPDAIGQLT----- 347

Query: 1163 NLRTL------IGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNL 1216
             L+ L                   T       ++ +    + + + +   L       + 
Sbjct: 348  ELKVLSFGTHSETVSGRLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDA 407

Query: 1217 PQALKYLRVEDCSKLESLAERLDNTSLEEITISVLEN-LKSLPADLHNLHHLQKIWI--- 1272
                   R  +   ++  +      SL++  I  L N +  +   +  L  LQ I+    
Sbjct: 408  -----INRNPEMKPIKKDSR----ISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANS 458

Query: 1273 ----------------NYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLL 1316
                            +Y    E+          LT++ +Y+C N+  LP+ +++L  L 
Sbjct: 459  PFTYDNIAVDWEDANSDYAKQYENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQ 518

Query: 1317 IL-----EIRGCPSVVSF-----PEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRF 1366
             L            + +       ++     +Q   +    + +        +   L   
Sbjct: 519  SLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLL 578

Query: 1367 TICGGCPDLVSPPPF--PASLTNLWISDMPDLESI-SSIGENLTSLETLRLFNCPKLKYF 1423
                    +     F     LT+L +     +E I          +E L   +  KLKY 
Sbjct: 579  DCVHN--KVRHLEAFGTNVKLTDLKLDYN-QIEEIPEDFCAFTDQVEGLGFSHN-KLKYI 634

Query: 1424 PEQGLPKSLSRLSI 1437
            P     KS+  +  
Sbjct: 635  PNIFNAKSVYVMGS 648

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 64.1 bits (156), Expect = 3e-10
 Identities = 97/598 (16%), Positives = 180/598 (30%), Gaps = 113/598 (18%)

Query: 594  LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
            L++  R+   SL G G    +P+ IG L  L+ L+       +             +  E
Sbjct: 319  LDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEE 378

Query: 654  DCHQLKKLCKDM--GNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGL 711
              H+++   K M     ++L+       +++   P+    +     +             
Sbjct: 379  RKHRIRMHYKKMFLDYDQRLNLSDLLQ-DAINRNPE-MKPIKKDSRI------------- 423

Query: 712  RELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFET 771
              LK       T RI+ +             +     L+ +                F  
Sbjct: 424  -SLKDTQIGNLTNRITFI----------SKAIQRLTKLQII----------YFANSPFTY 462

Query: 772  HVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLP-SVGQLPF 829
              ++V     +               +     +   L  +EL  C   T LP  +  LP 
Sbjct: 463  DNIAVDWEDANSDYAKQYE----NEELSWS--NLKDLTDVELYNCPNMTQLPDFLYDLPE 516

Query: 830  LKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWE-EWIPCGAGEEVDEVFP 888
            L+ L I+   G+ +   +      +    +   +  F M     E  P            
Sbjct: 517  LQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIFYMGYNNLEEFP------ASASLQ 570

Query: 889  KLRKLSLFHCH--KLQGTLP--KRLLLLETLVIKSCQQLIVTI-----QCLPALSELQID 939
            K+ KL L  C   K++  L      + L  L +   Q  I  I          +  L   
Sbjct: 571  KMVKLGLLDCVHNKVR-HLEAFGTNVKLTDLKLDYNQ--IEEIPEDFCAFTDQVEGLGFS 627

Query: 940  GCKRVVFSS-PHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHD 998
              K       P++ +A +                 +  +  +  S     +         
Sbjct: 628  HNK---LKYIPNIFNAKS-----------------VYVMGSVDFSYNK--IGSEGRNISC 665

Query: 999  QQQPESPCRLQFLKLSKCEGLTRLPQALL-TLSSLTEMRISGCASLVSFPQAALP----- 1052
                        + LS  E + + P  L  T S ++ + +S    + S P+ +L      
Sbjct: 666  SMDDYKGINASTVTLSYNE-IQKFPTELFATGSPISTIILSNN-LMTSIPENSLKPKDGN 723

Query: 1053 ----SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFP-EVALPSQLRTV 1107
                  L T+ +   N L SL + +   +   L ++ +   N   SFP +    SQL+  
Sbjct: 724  YKNTYLLTTIDLRF-NKLTSLSDDFRATTLPYLSNMDVSY-NCFSSFPTQPLNSSQLKAF 781

Query: 1108 KIEYC------NALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVS 1159
             I +         L   P         SL  L+I   D ++ +   +L P L  L ++
Sbjct: 782  GIRHQRDAEGNRILRQWPTGITT--CPSLIQLQIGSND-IRKVDE-KLTPQLYILDIA 835

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 52.2 bits (125), Expect = 1e-06
 Identities = 20/157 (12%), Positives = 46/157 (29%), Gaps = 25/157 (15%)

Query: 558 TRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPN- 616
             LE       L       L    +N +   + +       ++          +  +PN 
Sbjct: 586 RHLEAFGTNVKLTDL---KLD---YNQIE-EIPEDFCAFTDQVEGLGFSHN-KLKYIPNI 637

Query: 617 -EIGNLKHLRCLNLSRTRIQILPESINS------LYNLHTILLEDCHQLKKL----CKDM 665
               ++  +  ++ S  +I     +I+         N  T+ L    +++K         
Sbjct: 638 FNAKSVYVMGSVDFSYNKIGSEGRNISCSMDDYKGINASTVTLSYN-EIQKFPTELFATG 696

Query: 666 GNLRKLH----HLRNSTANSLKEMPKGFGKLTSLLTL 698
             +  +      + +   NSLK     +     L T+
Sbjct: 697 SPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTI 733

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 49.9 bits (119), Expect = 6e-06
 Identities = 16/115 (13%), Positives = 31/115 (26%), Gaps = 21/115 (18%)

Query: 586 AWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEI--GNLKHLRCLNLSRTRIQILPESINS 643
           +         +   L    LR    + +L ++     L +L  +++S       P    +
Sbjct: 716 SLKPKDGNYKNTYLLTTIDLRFN-KLTSLSDDFRATTLPYLSNMDVSYNCFSSFPTQPLN 774

Query: 644 LYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
              L    +                   H         L++ P G     SL+ L
Sbjct: 775 SSQLKAFGI------------------RHQRDAEGNRILRQWPTGITTCPSLIQL 811

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 43.3 bits (102), Expect = 6e-04
 Identities = 15/101 (14%), Positives = 31/101 (30%), Gaps = 14/101 (13%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRI-------QILPESINSLYN 646
              LP L    +       + P +  N   L+   +   R        +  P  I +  +
Sbjct: 749 ATTLPYLSNMDVSYN-CFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCPS 807

Query: 647 LHTILLEDCHQLKKL-CKDMGNLRKLHHLRNSTANSLKEMP 686
           L  + +     ++K+  K    L  L  + +   N    + 
Sbjct: 808 LIQLQIGSN-DIRKVDEKLTPQLYIL-DIAD---NPNISID 843

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 78.6 bits (194), Expect = 6e-15
 Identities = 67/450 (14%), Positives = 150/450 (33%), Gaps = 59/450 (13%)

Query: 1007 RLQFLKLSKCEGLTRLPQALLT-LSSLTEMRISGCASLVSFPQAALPSH---LRTVKIED 1062
             L+ L LS    L+ L  +    LSSL  + + G     +    +L  +   L+T++I +
Sbjct: 75   SLEHLDLSDNH-LSSLSSSWFGPLSSLKYLNLMGN-PYQTLGVTSLFPNLTNLQTLRIGN 132

Query: 1063 CNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPS--QLRTVKIEYCNALISLPE 1120
                  +         +SL  L+I+   SL ++   +L S   +  + +   +    L E
Sbjct: 133  VETFSEIRRIDFAGL-TSLNELEIKA-LSLRNYQSQSLKSIRDIHHLTLHL-SESAFLLE 189

Query: 1121 AWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGE---QDICSSS 1177
                +  +S+  L ++   +L       LP       + +     +++ +    ++    
Sbjct: 190  I-FADILSSVRYLELRDT-NLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLL 247

Query: 1178 RGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAER 1237
            R    L+    ++     L          ++ L +   +   ++ L +        L+  
Sbjct: 248  RYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETV--TIRRLHIPQFYLFYDLSTV 305

Query: 1238 LDN-TSLEEITISVLEN-LKSLPAD-LHNLHHLQKIWINYCPNLESFPEEGLPS---TKL 1291
                  ++ IT+    + +  +P     +L  L+ + ++    +E + +          L
Sbjct: 306  YSLLEKVKRITVE--NSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSL 363

Query: 1292 TELTIYDC--ENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKIS 1349
              L +      +++     +  L +L  L+I    +    P D      + +    L +S
Sbjct: 364  QTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRN-TFHPMP-DSC-QWPEKMRF--LNLS 418

Query: 1350 KPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSL 1409
                         +                  P +L  L +S+     ++ S    L  L
Sbjct: 419  -------STGIRVV--------------KTCIPQTLEVLDVSNN----NLDSFSLFLPRL 453

Query: 1410 ETLRLFNCPKLKYFPEQGLPKSLSRLSIHN 1439
            + L +    KLK  P+  L   L  + I  
Sbjct: 454  QELYISRN-KLKTLPDASLFPVLLVMKISR 482

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 73.2 bits (180), Expect = 3e-13
 Identities = 85/576 (14%), Positives = 184/576 (31%), Gaps = 130/576 (22%)

Query: 610  NIFNLPNE-IGNLKHLRCLNLSRTRIQILPESI--------------NSLYNLHTILLED 654
             I  + +  +    +L+ L L  +RI  +                  N L +L +     
Sbjct: 37   KITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGP 96

Query: 655  CHQLKKL------------CKDMGNLRKLHHLRNSTANSLKEMPKG-FGKLTSL--LTLG 699
               LK L                 NL  L  LR     +  E+ +  F  LTSL  L + 
Sbjct: 97   LSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIK 156

Query: 700  RFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSAR 759
               +       L+ ++ + HL  TL +S+   + ++        +   ++  L       
Sbjct: 157  ALSLRNYQSQSLKSIRDIHHL--TLHLSESAFLLEI------FADILSSVRYL------- 201

Query: 760  DVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTST 819
            ++++ +   F+   L V +    +++L   G         L D SF++L +L       +
Sbjct: 202  ELRDTNLARFQFSPLPVDEVSSPMKKLAFRG-------SVLTDESFNELLKLLRYILELS 254

Query: 820  SLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGA 879
             +          +  ++G+       S+       V   ++  L       +        
Sbjct: 255  EVE-------FDDCTLNGLGDFNPSESDVVSELGKVETVTIRRLHIPQFYLFY--DLSTV 305

Query: 880  GEEVDEVFPKLRKLSLFHCH--KLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQ 937
                     K++++++ +     +  +  + L  LE L +               + E  
Sbjct: 306  YSL----LEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENL-----------MVEEY 350

Query: 938  IDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQ-ISRCPQLLSLVTEEE 996
            +         +   +  + + +                  N L+ + +  ++L  +    
Sbjct: 351  LKNS--ACKGAWPSLQTLVLSQ------------------NHLRSMQKTGEILLTLK--- 387

Query: 997  HDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLR 1056
                       L  L +S+      +P +      +  + +S    +       +P  L 
Sbjct: 388  ----------NLTSLDISRNT-FHPMPDSCQWPEKMRFLNLSST-GIRVVK-TCIPQTLE 434

Query: 1057 TVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALI 1116
             + + + N L+S            L+ L I   N L + P+ +L   L  +KI   N L 
Sbjct: 435  VLDVSN-NNLDSFSL-----FLPRLQELYISR-NKLKTLPDASLFPVLLVMKISR-NQLK 486

Query: 1117 SLPEAWMQNSNTSLESLRIKG------CDSLKYIAR 1146
            S+P+       TSL+ + +        C  + Y++R
Sbjct: 487  SVPDGIFDR-LTSLQKIWLHTNPWDCSCPRIDYLSR 521

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 71.3 bits (175), Expect = 1e-12
 Identities = 63/399 (15%), Positives = 138/399 (34%), Gaps = 55/399 (13%)

Query: 1007 RLQFLKLSKCEGLTRLP-QALLTLSSLTEMRISGCASLVSFPQAALPS--HLRTVKIEDC 1063
             LQ L++   E  + +       L+SL E+ I    SL ++   +L S   +  + +   
Sbjct: 124  NLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKAL-SLRNYQSQSLKSIRDIHHLTLHL- 181

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPS------------QLRTVKIEY 1111
            +    L E    +  SS+  L++R+  +L  F    LP             +   +  E 
Sbjct: 182  SESAFLLEI-FADILSSVRYLELRD-TNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDES 239

Query: 1112 CNALISLPEAWMQNSNTSLESLRIKGCDSLKY--IARIQLPPSLKRLIVSRCWNLRTLIG 1169
             N L+ L    ++ S    +   + G           +     ++ + + R  ++     
Sbjct: 240  FNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETVTIRRL-HIPQFYL 298

Query: 1170 EQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFL--SRN------------- 1213
              D+ +       +   +   +++  ++     +   +L FL  S N             
Sbjct: 299  FYDLSTVYSLLEKVKRITVENSKV-FLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACK 357

Query: 1214 GNLPQALKYLRVEDC--SKLESLAERLDN-TSLEEITISVLEN-LKSLPADLHNLHHLQK 1269
            G  P  L+ L +       ++   E L    +L  + IS   N    +P        ++ 
Sbjct: 358  GAWPS-LQTLVLSQNHLRSMQKTGEILLTLKNLTSLDIS--RNTFHPMPDSCQWPEKMRF 414

Query: 1270 IWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSF 1329
            + ++    +         +  L  L + +  NL +       L  L  L I     + + 
Sbjct: 415  LNLSST-GIRVVKTCIPQT--LEVLDVSNN-NLDSFSL---FLPRLQELYISRN-KLKTL 466

Query: 1330 PEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTI 1368
            P+      L  +++   ++   +P+  F+R TSL++  +
Sbjct: 467  PDASLFPVLLVMKISRNQLKS-VPDGIFDRLTSLQKIWL 504

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 54.7 bits (132), Expect = 2e-07
 Identities = 53/380 (13%), Positives = 121/380 (31%), Gaps = 43/380 (11%)

Query: 1080 SLESLKIRNC--NSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKG 1137
            S ++  + +    S  S P   L + ++++ + + N +  +    ++    +L+ L +K 
Sbjct: 3    SCDASGVCDGRSRSFTSIPS-GLTAAMKSLDLSF-NKITYIGHGDLRAC-ANLQVLILKS 59

Query: 1138 CDSLKYIAR--IQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPT 1194
               +  I         SL+ L +S   +L +L       S     +SL Y +   N   T
Sbjct: 60   S-RINTIEGDAFYSLGSLEHLDLSDN-HLSSLS-----SSWFGPLSSLKYLNLMGNPYQT 112

Query: 1195 MLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAE-RLDN---TSLEEITISV 1250
            +         +NL  L       +    +R  D + L SL E  +      + +  ++  
Sbjct: 113  LGVTSLFPNLTNLQTLRIGNV--ETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKS 170

Query: 1251 LENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMH 1310
            + ++  L   L     L +I+ +   ++           +     +   E    +     
Sbjct: 171  IRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAF 230

Query: 1311 NLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICG 1370
              + L          ++ +  +          + GL    P      +    +       
Sbjct: 231  RGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVETV---- 286

Query: 1371 GCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPE---QG 1427
                         ++  L I        +S++   L  ++ + + N  K+   P    Q 
Sbjct: 287  -------------TIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS-KVFLVPCSFSQH 332

Query: 1428 LPKSLSRLSIHNCPLIEKRC 1447
            L  SL  L +    ++E+  
Sbjct: 333  LK-SLEFLDLSENLMVEEYL 351

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 48.6 bits (116), Expect = 1e-05
 Identities = 26/134 (19%), Positives = 50/134 (37%), Gaps = 13/134 (9%)

Query: 567 QHLRTFLPVNLSDYRHNYLAWSVLQ--RLLNHLPRLRVFSLRGCGNIFNLPNEIG---NL 621
           QHL++   ++LS    N +    L+        P L+   L    ++ ++         L
Sbjct: 331 QHLKSLEFLDLS---ENLMVEEYLKNSACKGAWPSLQTLVLSQN-HLRSMQKTGEILLTL 386

Query: 622 KHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANS 681
           K+L  L++SR     +P+S      +  + L     ++ +       + L  L  S  N+
Sbjct: 387 KNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSST-GIRVV--KTCIPQTLEVLDVS-NNN 442

Query: 682 LKEMPKGFGKLTSL 695
           L        +L  L
Sbjct: 443 LDSFSLFLPRLQEL 456

>2z81_A CD282 antigen, TOLL-like receptor 2, variable lymphocyte recepto; TLR2, PAM3CSK4, lipopeptide, innate immunity, cytoplasmic VE glycoprotein; HET: NAG BMA MAN PCJ; 1.80A {Mus musculus} PDB: 2z82_A* 3a7c_A* 3a79_A* 3a7b_A* 2z7x_A* Length = 549

 Score = 44.7 bits (106), Expect = 2e-04
 Identities = 16/133 (12%), Positives = 39/133 (29%), Gaps = 31/133 (23%)

Query: 596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPES--------------- 640
               +R   +      ++L      L+ ++ + +  +++ ++P S               
Sbjct: 284 ETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSE 343

Query: 641 --INSLYNLHTILLEDCHQLKKL-------------CKDMGNLRKLHHLRNSTANSLKEM 685
             +   Y  ++        L+ L              + +  L+ L  L  S  N+   M
Sbjct: 344 NLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDIS-RNTFHPM 402

Query: 686 PKGFGKLTSLLTL 698
           P        +  L
Sbjct: 403 PDSCQWPEKMRFL 415

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 77.7 bits (192), Expect = 2e-14
 Identities = 80/512 (15%), Positives = 169/512 (33%), Gaps = 79/512 (15%)

Query: 1007 RLQFLKLSKCEGLTRL-PQALLTLSSLTEMRISGCASLVSFPQAAL--PSHLRTVKIEDC 1063
            +L  L +     +++L P+    L  L  + +     L           ++L  + +   
Sbjct: 50   QLTSLDVGFNT-ISKLEPELCQKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELHL-MS 106

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEA 1121
            N+++ +          +L +L + + N L S           L+ + +   N + +L   
Sbjct: 107  NSIQKIKNNPFVKQ-KNLITLDLSH-NGLSSTKLGTQVQLENLQELLLSN-NKIQALKSE 163

Query: 1122 WMQN-SNTSLESLRIKGCDSLKYIAR--IQLPPSLKRLIVSRCWNLRTLIGEQDICSSSR 1178
             +   +N+SL+ L +     +K  +         L  L ++    L   +   +      
Sbjct: 164  ELDIFANSSLKKLELSSN-QIKEFSPGCFHAIGRLFGLFLNNV-QLGPSL--TEKLCLEL 219

Query: 1179 GCTSLTYFS-SENEL----PTMLEHLQVRFCSNLAFL--SRN---GNLPQALKYLRVEDC 1228
              TS+   S S ++L     T    L+    +NL  L  S N        +  +L     
Sbjct: 220  ANTSIRNLSLSNSQLSTTSNTTFLGLK---WTNLTMLDLSYNNLNVVGNDSFAWL----- 271

Query: 1229 SKLESLAERLDNTSLEEITISVLENLKSLPA-DLHNLHHLQKIWINYCPNLESFPEEGLP 1287
             +LE     L+  +++ +    L  L ++   +L      Q I +   P ++ F  + L 
Sbjct: 272  PQLEYF--FLEYNNIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLK 329

Query: 1288 STKLTELTIYDCENLKAL-PNCMHNLTSLLIL-------EIRGCPSVV------------ 1327
               L  L + D  ++  +  N    L +L  L        +R   +              
Sbjct: 330  C--LEHLNMEDN-DIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHIL 386

Query: 1328 --------SFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVS 1377
                        D F    +L+ L++   +I + L    +    ++    +       ++
Sbjct: 387  NLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLT 446

Query: 1378 PPPFPA--SLTNLWISD--MPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLP--KS 1431
               F    SL  L +    + +++S  S  + L +L  L L N   +    +  L   + 
Sbjct: 447  RNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNN-NIANINDDMLEGLEK 505

Query: 1432 LSRLSIHNCPLIEKRCRKDEGKYWPMISHLPR 1463
            L  L + +  L       + G     +  L  
Sbjct: 506  LEILDLQHNNLARLWKHANPGGPIYFLKGLSH 537

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 77.0 bits (190), Expect = 3e-14
 Identities = 80/504 (15%), Positives = 173/504 (34%), Gaps = 96/504 (19%)

Query: 1007 RLQFLKLSKCEGLTRLPQ---ALLTLSSLTEMRISGCASLVSFPQAALPS--HLRTVKIE 1061
             LQ L LS  + +  L      +   SSL ++ +S    +  F      +   L  + + 
Sbjct: 146  NLQELLLSNNK-IQALKSEELDIFANSSLKKLELSSN-QIKEFSPGCFHAIGRLFGLFLN 203

Query: 1062 DCNALESLPEAW-MHNSNSSLESLKIRNCNSLVSFPEVAL----PSQLRTVKIEYCNALI 1116
            +     SL E   +  +N+S+ +L + N + L +           + L  + + Y N L 
Sbjct: 204  NVQLGPSLTEKLCLELANTSIRNLSLSN-SQLSTTSNTTFLGLKWTNLTMLDLSY-NNLN 261

Query: 1117 SLPEAWMQNSNTSLESLRIKGCDSLKYI--ARIQLPPSLKRLIVSRCWNLRTLIGE---- 1170
             +           LE   ++   +++++    +    +++ L + R  +           
Sbjct: 262  VVGNDSFAWL-PQLEYFFLEYN-NIQHLFSHSLHGLFNVRYLNLKR--SFTKQSISLASL 317

Query: 1171 -QDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAF--LSRNGNLPQAL--KYLR 1224
             +    S +    L + +  +N++P +  ++      NL +  LS +    + L  +   
Sbjct: 318  PKIDDFSFQWLKCLEHLNMEDNDIPGIKSNM-FTGLINLKYLSLSNSFTSLRTLTNETFV 376

Query: 1225 VEDCSKLESLAERLDNTSLEEI---TISVLENLKSL------------PADLHNLHHLQK 1269
                S L  L   L    + +I     S L +L+ L              +   L ++ +
Sbjct: 377  SLAHSPLHIL--NLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFE 434

Query: 1270 IWINYCPNLESFPEEGLPS-TKLTELTIYDC--ENLKALPNCMHNLTSLLILEIRGCPSV 1326
            I+++Y                 L  L +     +N+ + P+    L +L IL++    ++
Sbjct: 435  IYLSYN-KYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNN-NI 492

Query: 1327 VSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLT 1386
             +  +D     L+ LE+  L +         N    L +    GG    +        L 
Sbjct: 493  ANINDDMLE-GLEKLEI--LDLQ-------HNNLARLWKHANPGGPIYFLKGLS---HLH 539

Query: 1387 NLWIS-------------DMPDLES-----------ISSIGENLTSLETLRL-FNCPKLK 1421
             L +              D+ +L+             +S+  N  SL++L L  N   + 
Sbjct: 540  ILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKN--LIT 597

Query: 1422 YFPEQ---GLPKSLSRLSIHNCPL 1442
               ++      ++L+ L +   P 
Sbjct: 598  SVEKKVFGPAFRNLTELDMRFNPF 621

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 56.9 bits (138), Expect = 4e-08
 Identities = 84/589 (14%), Positives = 176/589 (29%), Gaps = 93/589 (15%)

Query: 594  LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQ-ILPESINSLYNLHTILL 652
                 +L    +         P     L  L+ LNL    +  +  ++     NL  + L
Sbjct: 45   FTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHL 104

Query: 653  EDCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPKG-FGKLTSLLTLG----RFVVGKD 706
                 ++K+  +     + L  L + + N L     G   +L +L  L     +    K 
Sbjct: 105  MSN-SIQKIKNNPFVKQKNLITL-DLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKS 162

Query: 707  SGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQ 766
                +    SL  L+  L  ++++        S    +    L  L           L+ 
Sbjct: 163  EELDIFANSSLKKLE--LSSNQIKEF------SPGCFHAIGRLFGL----------FLNN 204

Query: 767  CEFETHV---LSVLKPHRDVQELTITGYGGTKF-PIWLGDSSFSKLARLELRRC--TSTS 820
             +    +   L +   +  ++ L+++    +           ++ L  L+L         
Sbjct: 205  VQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVG 264

Query: 821  LPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAG 880
              S   LP L+   +   +         +G        ++  L+       +        
Sbjct: 265  NDSFAWLPQLEYFFLEYNNIQHLFSHSLHG------LFNVRYLNLKRSFTKQSISLASLP 318

Query: 881  EEVDEVF---PKLRKLSLFHCH--KLQGTLPKRLLLLETLVIKSCQQLIVTIQ------- 928
            +  D  F     L  L++       ++  +   L+ L+ L + +    + T+        
Sbjct: 319  KIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSL 378

Query: 929  CLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDI--------RSLNRL 980
                L  L +   K     S       ++            + Q++         ++  +
Sbjct: 379  AHSPLHILNLTKNKISKIESDAFSWLGHLE---VLDLGLNEIGQELTGQEWRGLENIFEI 435

Query: 981  QISRCPQLLSLVTEEEHDQQQPESPCRL---QFLKLS--KCEGLTRLPQALLTLSSLTEM 1035
             +S   + L L            S   +   Q L L     + +   P     L +LT +
Sbjct: 436  YLSYN-KYLQL---------TRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTIL 485

Query: 1036 RISGCASLVSFPQAALPS--HLRTVKIEDCNALESLPEAWMHNSN-------SSLESLKI 1086
             +S   ++ +     L     L  + ++  N L  L +              S L  L +
Sbjct: 486  DLSNN-NIANINDDMLEGLEKLEILDLQH-NNLARLWKHANPGGPIYFLKGLSHLHILNL 543

Query: 1087 RNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEAWMQNSNTSLESL 1133
             + N     P        +L+ + +   N L +LP +   N   SL+SL
Sbjct: 544  ES-NGFDEIPVEVFKDLFELKIIDLGL-NNLNTLPASVFNN-QVSLKSL 589

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 56.2 bits (136), Expect = 6e-08
 Identities = 71/410 (17%), Positives = 141/410 (34%), Gaps = 71/410 (17%)

Query: 1083 SLKIRNC--NSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDS 1140
            S ++ +C    L   P+  LP+ +  + + + N L  LP A      + L SL +     
Sbjct: 5    SHEVADCSHLKLTQVPD-DLPTNITVLNLTH-NQLRRLPAANFTRY-SQLTSLDVGFNT- 60

Query: 1141 LKYIARIQLP-----PSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPT 1194
               I++++       P LK L +     L  L  +     +   CT+LT      N +  
Sbjct: 61   ---ISKLEPELCQKLPMLKVLNLQHN-ELSQLSDK-----TFAFCTNLTELHLMSNSI-Q 110

Query: 1195 MLEHLQVRFCSNLAFL--SRN----------GNLPQALKYLRVEDCSKLESLAER----L 1238
             +++       NL  L  S N            L   L+ L + +  K+++L        
Sbjct: 111  KIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLEN-LQELLLSNN-KIQALKSEELDIF 168

Query: 1239 DNTSLEEITISVLEN-LKSL-PADLHNLHHLQKIWINYCPNLESFPEE---GLPSTKLTE 1293
             N+SL+++ +S   N +K   P   H +  L  +++N      S  E+    L +T +  
Sbjct: 169  ANSSLKKLELS--SNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRN 226

Query: 1294 LTIYDCENLKALPNCM---HNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKI 1348
            L++ +   L    N        T+L +L++    ++     D F     L+   +    I
Sbjct: 227  LSLSNS-QLSTTSNTTFLGLKWTNLTMLDLSYN-NLNVVGNDSFAWLPQLEYFFLEYNNI 284

Query: 1349 SKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLES---------- 1398
                     +   ++R   +                + +     +  LE           
Sbjct: 285  QHLFSHS-LHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPG 343

Query: 1399 -ISSIGENLTSLETLRL-FNCPKLKYFPEQGLP----KSLSRLSIHNCPL 1442
              S++   L +L+ L L  +   L+    +         L  L++    +
Sbjct: 344  IKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKI 393

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 51.9 bits (125), Expect = 1e-06
 Identities = 67/574 (11%), Positives = 157/574 (27%), Gaps = 117/574 (20%)

Query: 592  RLLNHLPRLRVFSLRGCGNIFNLPNEIG---NLKHLRCLNLSRTRIQILPESINS---LY 645
               + + RL    L       +L  ++        +R L+LS +++     +        
Sbjct: 189  GCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWT 248

Query: 646  NLHTILLEDCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPKG-FGKLTSLLTLGRFVV 703
            NL  + L     L  +  D    L +L +      N+++ +       L ++  L     
Sbjct: 249  NLTMLDLSYN-NLNVVGNDSFAWLPQLEYFFLE-YNNIQHLFSHSLHGLFNVRYL----- 301

Query: 704  GKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQN 763
                           +L+ +     +     +    +        LE L          N
Sbjct: 302  ---------------NLKRSFTKQSISLAS-LPKIDDFSFQWLKCLEHL----------N 335

Query: 764  LDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPI---WLGDSSFSKLARLELRRC--TS 818
            ++  +      ++     +++ L+++    +   +        + S L  L L +   + 
Sbjct: 336  MEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISK 395

Query: 819  TSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCG 878
                +   L  L+ L +          +E         +  LE +    +          
Sbjct: 396  IESDAFSWLGHLEVLDLGL--------NEIGQELTGQEWRGLENIFEIYLSY------NK 441

Query: 879  AGEEVDEVF---PKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSE 935
              +     F   P L++L L                     +K+        Q L  L+ 
Sbjct: 442  YLQLTRNSFALVPSLQRLMLRRVA-----------------LKNVDSSPSPFQPLRNLTI 484

Query: 936  LQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCP-QLLSLVTE 994
            L +        ++                     + + +  L  L +       L     
Sbjct: 485  LDLSNNN---IAN-----------------INDDMLEGLEKLEILDLQHNNLARLWKHAN 524

Query: 995  EEHDQQQPESPCRLQFLKLSKCEGLTRL-PQALLTLSSLTEMRISGCASLVSFPQAALP- 1052
                    +    L  L L    G   +  +    L  L  + +    +L + P +    
Sbjct: 525  PGGPIYFLKGLSHLHILNLESN-GFDEIPVEVFKDLFELKIIDLGLN-NLNTLPASVFNN 582

Query: 1053 -SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRN------CNSLVSFPEVALPSQLR 1105
               L+++ ++  N + S+ +     +  +L  L +R       C S+  F      +   
Sbjct: 583  QVSLKSLNLQK-NLITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTN 641

Query: 1106 TVKIEYCNALISLPEAWMQNSNTSLESLRIKGCD 1139
              ++   + L + P  +       +       C 
Sbjct: 642  IPELSS-HYLCNTPPHY---HGFPVRLFDTSSCK 671

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 45.8 bits (109), Expect = 1e-04
 Identities = 57/357 (15%), Positives = 116/357 (32%), Gaps = 58/357 (16%)

Query: 1008 LQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALP--SHLRTVKIEDCNA 1065
                 +S          +   L  L  + +     +            +L+ + + + + 
Sbjct: 307  FTKQSISLASLPKIDDFSFQWLKCLEHLNMEDN-DIPGIKSNMFTGLINLKYLSLSN-SF 364

Query: 1066 LESL---PEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPE 1120
                    E ++  ++S L  L +   N +      A      L  + +   N +     
Sbjct: 365  TSLRTLTNETFVSLAHSPLHILNLTK-NKISKIESDAFSWLGHLEVLDLGL-NEIGQELT 422

Query: 1121 AWMQNSNTSLESLRIKGCDSLKYIARIQLP--PSLKRLIVSRCWNLRTLIGEQDICSSSR 1178
                    ++  + +        + R      PSL+RL++ R   L+ +       S  +
Sbjct: 423  GQEWRGLENIFEIYLSYN-KYLQLTRNSFALVPSLQRLMLRRV-ALKNVD---SSPSPFQ 477

Query: 1179 GCTSLTYFS-SENEL----------PTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVED 1227
               +LT    S N +             LE L ++   NLA L ++ N    + +L+   
Sbjct: 478  PLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHN-NLARLWKHANPGGPIYFLK--G 534

Query: 1228 CSKLESLAERLDNTSLEEITISVLENLKSL--------------PADLHNLHHLQKIWIN 1273
             S L  L   L++   +EI + V ++L  L               +  +N   L+ + + 
Sbjct: 535  LSHLHIL--NLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQ 592

Query: 1274 YCPNLESFPEEGLPS--TKLTELTIY------DCENLKALPNCMHNLTSLLILEIRG 1322
                + S  ++        LTEL +        CE++    N + N T   I E+  
Sbjct: 593  KN-LITSVEKKVFGPAFRNLTELDMRFNPFDCTCESIAWFVNWI-NETHTNIPELSS 647

>1ziw_A TOLL-like receptor 3; innate immunity, immune system; HET: NDG NAG; 2.10A {Homo sapiens} PDB: 2a0z_A* 3cig_A* 3ciy_A* Length = 680

 Score = 43.5 bits (103), Expect = 6e-04
 Identities = 25/136 (18%), Positives = 45/136 (33%), Gaps = 18/136 (13%)

Query: 576 NLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQ 635
           +L     N +   +  +    L  +    L     +    N    +  L+ L L R  ++
Sbjct: 411 DLG---LNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALK 467

Query: 636 IL---PESINSLYNLHTILLEDCHQLKKLCKD-MGNLRKLHHLRNSTANSLKEMPKG--- 688
            +   P     L NL  + L +   +  +  D +  L KL  L +   N+L  + K    
Sbjct: 468 NVDSSPSPFQPLRNLTILDLSNN-NIANINDDMLEGLEKLEIL-DLQHNNLARLWKHANP 525

Query: 689 ------FGKLTSLLTL 698
                    L+ L  L
Sbjct: 526 GGPIYFLKGLSHLHIL 541

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 77.2 bits (190), Expect = 2e-14
 Identities = 83/506 (16%), Positives = 162/506 (32%), Gaps = 92/506 (18%)

Query: 966  SETRLPQDIRSLNRLQISRCPQL--LSLVTEEEHDQQQP-----ESPCR-LQFLKLSKC- 1016
            S   + +    +  +++   P     +LV +       P      S    L+ ++L +  
Sbjct: 57   SPATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMV 116

Query: 1017 ---EGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSH---LRTVKIEDCNALESLP 1070
               + L  + ++      L    +S C    +   AA+ +    L+ + + + +  +   
Sbjct: 117  VTDDCLELIAKSFKNFKVLV---LSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSG 173

Query: 1071 EAWMH--NSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNT 1128
                H  ++ +SL SL I    S VSF                 +AL  L          
Sbjct: 174  HWLSHFPDTYTSLVSLNISCLASEVSF-----------------SALERLVTRC-----P 211

Query: 1129 SLESLRIKGCDSLKYIARI-QLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS 1187
            +L+SL++     L+ +A + Q  P L+ L                +  +  GC  L   S
Sbjct: 212  NLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLS 271

Query: 1188 SENEL-PTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEI 1246
               +  P  L  +    CS L  L+        L Y  V+    L  L  +     L+ +
Sbjct: 272  GFWDAVPAYLPAV-YSVCSRLTTLN--------LSYATVQS-YDLVKLLCQCPK--LQRL 319

Query: 1247 TISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALP 1306
             +        L         L+++ +         P   L    L  +++  C  L+++ 
Sbjct: 320  WVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMG-CPKLESVL 378

Query: 1307 NCMHNLTSLLILEI-RGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRR 1365
                 +T+  ++ I R  P            N+    +  ++   P  ++       +  
Sbjct: 379  YFCRQMTNAALITIARNRP------------NMTRFRLCIIEPKAP--DYLTLEPLDIGF 424

Query: 1366 FTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPE 1425
              I   C            L  L +S +   +    IG     +E L +          +
Sbjct: 425  GAIVEHCK----------DLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAG----DSD 470

Query: 1426 QGLP------KSLSRLSIHNCPLIEK 1445
             G+        SL +L I +CP  +K
Sbjct: 471  LGMHHVLSGCDSLRKLEIRDCPFGDK 496

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 70.7 bits (173), Expect = 2e-12
 Identities = 85/554 (15%), Positives = 165/554 (29%), Gaps = 91/554 (16%)

Query: 810  RLELRRCTSTSLPSVGQ-LPFLKELRISGMDGVKSVGSEFYGNSRSV---------PFPS 859
            ++ +  C + S  +V +  P ++ + + G            G    V          +  
Sbjct: 47   KVFIGNCYAVSPATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTW 106

Query: 860  LETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKS 919
            LE +    M      +     E + + F   + L L  C                    S
Sbjct: 107  LEEIRLKRMV-----VTDDCLELIAKSFKNFKVLVLSSCEGF-----------------S 144

Query: 920  CQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNR 979
               L         L EL +        S   L H                 P    SL  
Sbjct: 145  TDGLAAIAATCRNLKELDLRESDVDDVSGHWLSH----------------FPDTYTSLVS 188

Query: 980  LQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISG 1039
            L IS     +S    E    + P     L+ LKL++   L +L   L     L E+   G
Sbjct: 189  LNISCLASEVSFSALERLVTRCP----NLKSLKLNRAVPLEKLATLLQRAPQLEELGTGG 244

Query: 1040 CASLVSFPQAALPS-------HLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCN-- 1090
              + V     +  S        LR +          LP   +++  S L +L +      
Sbjct: 245  YTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPA--VYSVCSRLTTLNLSYATVQ 302

Query: 1091 --SLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQ 1148
               LV    +    +L+ + +        L    + ++   L  LR+   +       + 
Sbjct: 303  SYDLVKL--LCQCPKLQRLWVLDYIEDAGL--EVLASTCKDLRELRVFPSEPFVMEPNVA 358

Query: 1149 LPPSLKRLIVSRCWNLRTL------IGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVR 1202
            L       +   C  L ++      +    + + +R   ++T F      P   ++L + 
Sbjct: 359  LTEQGLVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAPDYLTLE 418

Query: 1203 FCSN-LAFLSRNGNLPQALKYLRVEDC---SKLESLAERLDNTSLEEITIS-VLENLKSL 1257
                    +  +    + L+ L +         E +        +E ++++   ++   +
Sbjct: 419  PLDIGFGAIVEHC---KDLRRLSLSGLLTDKVFEYIGTYA--KKMEMLSVAFAGDSDLGM 473

Query: 1258 PADLHNLHHLQKIWINYCPNL-ESFPEEGLPSTKLTELTIYDC----ENLKALPNCMHNL 1312
               L     L+K+ I  CP   ++          +  L +  C       K L   M  L
Sbjct: 474  HHVLSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMSSCSVSFGACKLLGQKMPKL 533

Query: 1313 TSLLILEIRGCPSV 1326
             ++ +++ RG P  
Sbjct: 534  -NVEVIDERGAPDS 546

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 68.0 bits (166), Expect = 2e-11
 Identities = 66/398 (16%), Positives = 116/398 (29%), Gaps = 81/398 (20%)

Query: 1072 AWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYC----------NALISLPEA 1121
            +W          + I NC ++     +    ++R+V+++            +        
Sbjct: 36   SWYEIERWCRRKVFIGNCYAVSPATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYP 95

Query: 1122 WMQ---NSNTSLESLRIKGC----DSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDIC 1174
            W++   +S T LE +R+K      D L+ IA+     + K L++S C           + 
Sbjct: 96   WIEAMSSSYTWLEEIRLKRMVVTDDCLELIAKSF--KNFKVLVLSSCEG----FSTDGLA 149

Query: 1175 SSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESL 1234
            + +  C +L            L    V   S              L  L +   +     
Sbjct: 150  AIAATCRNLKELD--------LRESDVDDVSGHWLSHFPDTYTS-LVSLNISCLAS---- 196

Query: 1235 AERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTEL 1294
                      E++ S LE L      +    +L+ + +N    LE        + +L EL
Sbjct: 197  ----------EVSFSALERL------VTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEEL 240

Query: 1295 TIYDCEN------LKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKI 1348
                            L   +     L  L   G    V        +    L    L +
Sbjct: 241  GTGGYTAEVRPDVYSGLSVALSGCKELRCL--SGFWDAVPAYLPAVYSVCSRLTT--LNL 296

Query: 1349 SKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTS 1408
            S       +    S     +   CP           L  LW+ D  +   +  +      
Sbjct: 297  S-------YATVQSYDLVKLLCQCP----------KLQRLWVLDYIEDAGLEVLASTCKD 339

Query: 1409 LETLRLFNCPKLKYFPEQGL-PKSLSRLSIHNCPLIEK 1445
            L  LR+F        P   L  + L  +S   CP +E 
Sbjct: 340  LRELRVFPSEPFVMEPNVALTEQGLVSVS-MGCPKLES 376

>2p1m_B Transport inhibitor response 1 protein; F-BOX, leucine rich repeat, signaling protein; HET: IHP; 1.80A {Arabidopsis thaliana} PDB: 2p1n_B* 2p1o_B* 2p1p_B* 2p1q_B* 3c6n_B* 3c6o_B* 3c6p_B* Length = 594

 Score = 51.8 bits (124), Expect = 1e-06
 Identities = 91/552 (16%), Positives = 174/552 (31%), Gaps = 98/552 (17%)

Query: 590  LQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHT 649
               ++   P++R   L+G  +  +      NL            I+ +  S   L  +  
Sbjct: 58   PATVIRRFPKVRSVELKGKPHFADF-----NLVPDGWGGYVYPWIEAMSSSYTWLEEIR- 111

Query: 650  ILLEDC----HQLKKLCKDMGNLRKL--HHLRNSTANSLKEMPKGFGKLTSLLTLGRFVV 703
              L+        L+ + K   N + L        + + L  +      L   L L    V
Sbjct: 112  --LKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKE-LDLRESDV 168

Query: 704  GKDSGSGLREL-KSLTHLQGTLRISKLENVKDVGDASEAQL-NNKVNLEALLLKWSARDV 761
               SG  L     + T L  +L IS L +  +V  ++  +L     NL++L         
Sbjct: 169  DDVSGHWLSHFPDTYTSLV-SLNISCLAS--EVSFSALERLVTRCPNLKSL--------- 216

Query: 762  QNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRC----- 816
              L++      + ++L+    ++EL   GY     P      S +     ELR       
Sbjct: 217  -KLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFWD 275

Query: 817  -TSTSLPSVGQ-LPFLKELRISG----MDGVKSVGSEFYGNSRSVPFPSLETLSFFDMRE 870
                 LP+V      L  L +S        +  +  +          P L+ L   D   
Sbjct: 276  AVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQ---------CPKLQRLWVLDY-- 324

Query: 871  WEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQQLIVTIQCL 930
                I     E +      LR+L +F            L         + Q L+      
Sbjct: 325  ----IEDAGLEVLASTCKDLRELRVFPSEPFVMEPNVAL---------TEQGLVSVSMGC 371

Query: 931  PALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRC-PQLL 989
            P L  + +  C+++  ++  L+                 + ++  ++ R ++    P+  
Sbjct: 372  PKLESV-LYFCRQMTNAA--LIT----------------IARNRPNMTRFRLCIIEPKAP 412

Query: 990  SLVTEEEHD---QQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGC----AS 1042
              +T E  D       E    L+ L LS                 +  + ++        
Sbjct: 413  DYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKKMEMLSVAFAGDSDLG 472

Query: 1043 LVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEV-ALP 1101
            +      +    LR ++I DC   +    A       ++ SL + +C+  VSF     L 
Sbjct: 473  MHHV--LSGCDSLRKLEIRDCPFGDKALLANASKL-ETMRSLWMSSCS--VSFGACKLLG 527

Query: 1102 SQLRTVKIEYCN 1113
             ++  + +E  +
Sbjct: 528  QKMPKLNVEVID 539

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 75.6 bits (186), Expect = 8e-14
 Identities = 114/574 (19%), Positives = 199/574 (34%), Gaps = 88/574 (15%)

Query: 582  HNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPES 640
             NY+  +V       L +L++  L        +  E   NL +LR L+L  ++I  L   
Sbjct: 33   FNYIR-TVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPD 91

Query: 641  I-NSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLR--NSTANSLKEMPKG--FGKLTSL 695
                L++L  + L  C  L       G  R L  L   + + N ++ +     FGKL SL
Sbjct: 92   AFQGLFHLFELRLYFC-GLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSL 150

Query: 696  --LTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALL 753
              +      +       L  L+  T    +L  + L +   V           + LE L 
Sbjct: 151  KSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILD 210

Query: 754  L---KWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLAR 810
            +    W+     N      ++   S++  H     +   G+G          ++F+ LAR
Sbjct: 211  VSGNGWTVDITGNFSNAISKSQAFSLILAHH----IMGAGFGFHNIKD-PDQNTFAGLAR 265

Query: 811  -----LELRRCTSTSLPSV--GQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETL 863
                 L+L      SL S     L  LK L ++     K     FYG        +L+ L
Sbjct: 266  SSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYG------LDNLQVL 319

Query: 864  --SFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCH--KLQGTLPKRLLLLETLVIKS 919
              S+  + E    +            PK+  + L   H   +Q    K L  L+TL ++ 
Sbjct: 320  NLSYNLLGE----LYSSNFYG----LPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRD 371

Query: 920  CQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNR 979
                + TI  +P++ ++ + G K                           LP+   + N 
Sbjct: 372  NA--LTTIHFIPSIPDIFLSGNKL------------------------VTLPKINLTANL 405

Query: 980  LQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLT-LSSLTEMRIS 1038
            + +S   +L +L                LQ L L++    +       +   SL ++ + 
Sbjct: 406  IHLSEN-RLENL-----DILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLG 459

Query: 1039 GCASLVSFPQAALP-------SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNS 1091
                L    +  L        SHL+ + +   N L SLP   + +  ++L  L + + N 
Sbjct: 460  EN-MLQLAWETELCWDVFEGLSHLQVLYLNH-NYLNSLPPG-VFSHLTALRGLSLNS-NR 515

Query: 1092 LVSFPEVALPSQLRTVKIEYCNALISLPEAWMQN 1125
            L       LP+ L  + I   N L++       +
Sbjct: 516  LTVLSHNDLPANLEILDISR-NQLLAPNPDVFVS 548

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 68.3 bits (167), Expect = 1e-11
 Identities = 80/518 (15%), Positives = 164/518 (31%), Gaps = 61/518 (11%)

Query: 968  TRLPQDIRSLNRLQISRC-------------PQLLSLVTEEEHDQQQPESPC-----RLQ 1009
            T++PQ + +  RL +S                QL  L    ++     +         L+
Sbjct: 17   TQVPQVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLR 76

Query: 1010 FLKLSKCEGLTRLP-QALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIED--CNAL 1066
             L L   + +  L   A   L  L E+R+  C    +  +     +L+ +   D   N +
Sbjct: 77   ILDLGSSK-IYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQI 135

Query: 1067 ESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPS----QLRTVKIEYCNALISLPEAW 1122
             SL         +SL+S+   + N +    E  L       L    +   N+L S     
Sbjct: 136  RSLYLHPSFGKLNSLKSIDFSS-NQIFLVCEHELEPLQGKTLSFFSLAA-NSLYSRVSVD 193

Query: 1123 MQNSNTSLESLRIKGCD-SLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCT 1181
                     ++ ++  D S               +  S+ ++L                 
Sbjct: 194  WGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIK 253

Query: 1182 SLTYFSSENELPTMLEHLQVRFCSNLAFLSRN--GNLPQALKYLRVEDCSKLESLAERL- 1238
                 +      + + HL +     +  L+      L   LK L +    K+  +A+   
Sbjct: 254  DPDQNTFAGLARSSVRHLDLSHG-FVFSLNSRVFETLKD-LKVLNLAYN-KINKIADEAF 310

Query: 1239 -DNTSLEEITISVLENLKSLPAD-LHNLHHLQKIWINYCPNLESFPEEGLPS-TKLTELT 1295
                +L+ + +S    L  L +   + L  +  I +    ++    ++      KL  L 
Sbjct: 311  YGLDNLQVLNLSYN-LLGELYSSNFYGLPKVAYIDLQKN-HIAIIQDQTFKFLEKLQTLD 368

Query: 1296 IYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEW 1355
            + D          +H + S+  + + G   +V+ P+         + +   ++      +
Sbjct: 369  LRDNAL-----TTIHFIPSIPDIFLSGNK-LVTLPKINL--TANLIHLSENRLENLDILY 420

Query: 1356 GFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLW--------ISDMPDLESISSIGENLT 1407
               R   L+   +        S    P+   +L         +    + E    + E L+
Sbjct: 421  FLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLS 480

Query: 1408 SLETLRLFNCPKLKYFPE---QGLPKSLSRLSIHNCPL 1442
             L+ L L +   L   P      L  +L  LS+++  L
Sbjct: 481  HLQVLYLNHN-YLNSLPPGVFSHLT-ALRGLSLNSNRL 516

>3j0a_A TOLL-like receptor 5; membrane protein, leucine-rich repeat, asymmetric homodimer, glycoprotein, immune system; HET: NAG FUC; 26.00A {Homo sapiens} Length = 844

 Score = 58.7 bits (142), Expect = 1e-08
 Identities = 76/510 (14%), Positives = 157/510 (30%), Gaps = 77/510 (15%)

Query: 888  PKLRKLSLFHCH----KLQGTLPKRLLLLETLVIKSCQ----QLIVTIQCLPALSELQID 939
              L +L L+ C      L+    + L  L  L +   Q     L  +   L +L  +   
Sbjct: 97   FHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFS 156

Query: 940  GCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQ 999
              +  +     L                   P   ++L+   ++    L S V+ +    
Sbjct: 157  SNQIFLVCEHEL------------------EPLQGKTLSFFSLAAN-SLYSRVSVDWGKC 197

Query: 1000 QQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVK 1059
              P     L+ L +S               +       S   S        L  H+    
Sbjct: 198  MNPFRNMVLEILDVSGNG-----------WTVDITGNFSNAISKSQAFSLILAHHIMGAG 246

Query: 1060 IEDCNALESLPE-AWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALI 1116
                + ++   +  +   + SS+  L + +   + S           L+ + + Y N + 
Sbjct: 247  FGF-HNIKDPDQNTFAGLARSSVRHLDLSH-GFVFSLNSRVFETLKDLKVLNLAY-NKIN 303

Query: 1117 SLPEAWMQNSNTSLESLRIKGC--DSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDIC 1174
             + +        +L+ L +       L       LP  +  + + +  ++  +       
Sbjct: 304  KIADEAFYG-LDNLQVLNLSYNLLGELYSSNFYGLP-KVAYIDLQKN-HIAIIQ-----D 355

Query: 1175 SSSRGCTSLTYFS-SENELPT--MLEHLQVRFCS--NLAFLSRNGNLPQALKYLRVEDCS 1229
             + +    L      +N L T   +  +   F S   L  L +       + +L      
Sbjct: 356  QTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLI-HLSENRLE 414

Query: 1230 KLESLAERLDNTSLEEITISVLENLKSLPAD--LHNLHHLQKIWINYCPNLESFPEEGLP 1287
             L+ L   L    L+ + ++      S   D        L+++++     L+   E  L 
Sbjct: 415  NLDILYFLLRVPHLQILILN-QNRFSSCSGDQTPSENPSLEQLFLGEN-MLQLAWETELC 472

Query: 1288 S------TKLTELTIYDCENLKALPNCM-HNLTSLLILEIRGCPSVVSFPEDGFPTNLQS 1340
                   + L  L +     L +LP  +  +LT+L  L +     +     +  P NL+ 
Sbjct: 473  WDVFEGLSHLQVLYLNHN-YLNSLPPGVFSHLTALRGLSLNSN-RLTVLSHNDLPANLEI 530

Query: 1341 LEVRGLKISKPLPEWGFNRFTSLRRFTICG 1370
            L++   ++  P P+     F SL    I  
Sbjct: 531  LDISRNQLLAPNPDV----FVSLSVLDITH 556

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 73.8 bits (181), Expect = 2e-13
 Identities = 70/499 (14%), Positives = 149/499 (29%), Gaps = 110/499 (22%)

Query: 1009 QFLKLSKCEGLTRLPQALLTLSSLTEMRISGC-----ASLVSFPQAALPSHLRTVKIEDC 1063
            + + ++ C   T   +      +L  +++ G       +L+        +   T    + 
Sbjct: 53   EHVTMALCYTAT-PDRLSRRFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNL 111

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCNSLVS--------FPEVALPS------QLRTVKI 1109
              L+S+    M  S+  L+ L     + L +        F    L S      +++T+ +
Sbjct: 112  RQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLM 171

Query: 1110 EYCNALISLPEAWMQ---NSNTSLESLRIKGCD-------SLKYIARIQLPPSLKRLIVS 1159
            E  +        W+      NTSLE L     +        L+ IAR     SL  + V 
Sbjct: 172  EESS-FSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIAR--NCRSLVSVKVG 228

Query: 1160 RCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNL----------AF 1209
                    +       ++         S   ++    +++ + F   L            
Sbjct: 229  DFEI----LELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNE 284

Query: 1210 LSRNGNLPQALKYLRVEDCSKL-ESLAERLDN-TSLEEITISVLENLKSLPADLHNLHHL 1267
            +         ++ L +       E     +    +LE +    +   + L         L
Sbjct: 285  MPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQL 344

Query: 1268 QKIWINYCPNLESFPEEGLPST------------KLTELTIYDC----ENLKALPNCMHN 1311
            +++ I    + +   +E    +            +L  + +Y      E+L+++   + N
Sbjct: 345  KRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVYVSDITNESLESIGTYLKN 404

Query: 1312 LTSLLILEIRGCPSVVSFPED-GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICG 1370
            L    ++ +     +   P D G  + L                        LRRF    
Sbjct: 405  LCDFRLVLLDREERITDLPLDNGVRSLLIGC-------------------KKLRRFAFYL 445

Query: 1371 GCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPK----LKYFPEQ 1426
                               ++D      +S IG+   ++  + L    +    L  F  +
Sbjct: 446  RQG---------------GLTD----LGLSYIGQYSPNVRWMLLGYVGESDEGLMEF-SR 485

Query: 1427 GLPKSLSRLSIHNCPLIEK 1445
            G P  L +L +  C   E+
Sbjct: 486  GCPN-LQKLEMRGCCFSER 503

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 68.4 bits (167), Expect = 1e-11
 Identities = 51/394 (12%), Positives = 104/394 (26%), Gaps = 74/394 (18%)

Query: 1072 AWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYC----------NALISLPEA 1121
             W    + + E + +  C +            LR++K++                     
Sbjct: 43   RWFKIDSETREHVTMALCYTATPDRLSRRFPNLRSLKLKGKPRAAMFNLIPENWGGYVTP 102

Query: 1122 WMQ---NSNTSLESLRIKGC----DSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDIC 1174
            W+    N+   L+S+  +        L  +A+      L+ L + +C           + 
Sbjct: 103  WVTEISNNLRQLKSVHFRRMIVSDLDLDRLAK-ARADDLETLKLDKCSG----FTTDGLL 157

Query: 1175 SSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESL 1234
            S    C  +             + L +   S            + L  L  +  + LE L
Sbjct: 158  SIVTHCRKI-------------KTLLMEESSFSE------KDGKWLHEL-AQHNTSLEVL 197

Query: 1235 AERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTEL 1294
                  T   +I+   LE +        N   L  + +     L         +  L E 
Sbjct: 198  --NFYMTEFAKISPKDLETI------ARNCRSLVSVKVGDFEIL-ELVGFFKAAANLEEF 248

Query: 1295 TIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPE 1354
                      +P    NL     L   G   +              +    L +      
Sbjct: 249  CGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRK--LDLL----- 301

Query: 1355 WGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRL 1414
              +    +    T+   CP          +L  L   ++     +  + +    L+ LR+
Sbjct: 302  --YALLETEDHCTLIQKCP----------NLEVLETRNVIGDRGLEVLAQYCKQLKRLRI 349

Query: 1415 FNCPKLKYFPEQGLP---KSLSRLSIHNCPLIEK 1445
                  +   ++      + L  L+   C  +E 
Sbjct: 350  ERGADEQGMEDEEGLVSQRGLIALA-QGCQELEY 382

>3ogk_B Coronatine-insensitive protein 1; leucine rich repeat, ubiquitin ligase, SCF, protein binding; HET: OGK; 2.80A {Arabidopsis thaliana} PDB: 3ogl_B* 3ogm_B* Length = 592

 Score = 54.9 bits (132), Expect = 1e-07
 Identities = 81/572 (14%), Positives = 159/572 (27%), Gaps = 109/572 (19%)

Query: 570  RTFLPVNLSDYRHNYLAWS---VLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRC 626
            R +  ++     H  +A        RL    P LR   L+G            NL     
Sbjct: 42   RRWFKIDSETREHVTMALCYTATPDRLSRRFPNLRSLKLKGKPRAAMF-----NLIPENW 96

Query: 627  LNLSRTRIQILPESINSLYNLH------------TILLEDCHQLKKLCKDMGNLRKLHHL 674
                   +  +  ++  L ++H             +       L+ L        KL   
Sbjct: 97   GGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETL--------KLDKC 148

Query: 675  RNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL-KSLTHLQGTLRISKLENVK 733
               T + L  +     K+ + L +      +  G  L EL +  T L+  L    +    
Sbjct: 149  SGFTTDGLLSIVTHCRKIKT-LLMEESSFSEKDGKWLHELAQHNTSLE-VLNFY-MTEFA 205

Query: 734  DVGDAS-EAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYG 792
             +     E    N  +L ++           +   E    V    K   +++E       
Sbjct: 206  KISPKDLETIARNCRSLVSV----------KVGDFEILELV-GFFKAAANLEEFCGGSLN 254

Query: 793  GT--KFPIWLGDSSFSKLARLELRRCTSTSLPSVGQL-PFLKELRISGMDGVKSVGSEFY 849
                    ++      KL RL L       +P +      +++L +              
Sbjct: 255  EDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLI 314

Query: 850  GNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRL 909
                    P+LE L   ++      I     E + +   +L++L +      QG   +  
Sbjct: 315  QK-----CPNLEVLETRNV------IGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEG 363

Query: 910  LL--------------LETLVIKSCQQ-----LIVTIQCLPALSELQIDGCKRVV-FSSP 949
            L+              LE + +          L      L  L + ++    R    +  
Sbjct: 364  LVSQRGLIALAQGCQELEYMAV-YVSDITNESLESIGTYLKNLCDFRLVLLDREERITDL 422

Query: 950  HLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQ 1009
             L + V              L    + L R         L+ +      Q  P     ++
Sbjct: 423  PLDNGV------------RSLLIGCKKLRRFAFYLRQGGLTDLGLSYIGQYSP----NVR 466

Query: 1010 FLKLSKC----EGLTRLPQALLTLSSLTEMRISGC----ASLVSFPQAALPSHLRTVKIE 1061
            ++ L       EGL           +L ++ + GC     ++ +         LR + ++
Sbjct: 467  WMLLGYVGESDEGLMEF---SRGCPNLQKLEMRGCCFSERAIAAA--VTKLPSLRYLWVQ 521

Query: 1062 DCNA-LESLPEAWMHNSNSSLESLKIRNCNSL 1092
               A +       M     ++E +  R    +
Sbjct: 522  GYRASMTGQDLMQMARPYWNIELIPSRRVPEV 553

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 72.2 bits (177), Expect = 6e-13
 Identities = 95/407 (23%), Positives = 138/407 (33%), Gaps = 73/407 (17%)

Query: 1008 LQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALE 1067
               L + +  GLT LP  L     +T + I    +L S P  ALP  LRT+++   N L 
Sbjct: 42   NAVLNVGES-GLTTLPDCLPA--HITTLVIPDN-NLTSLP--ALPPELRTLEVSG-NQLT 94

Query: 1068 SLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSN 1127
            SLP          L  L I + N L   P   LPS L  + I   N L SLP        
Sbjct: 95   SLPV-----LPPGLLELSIFS-NPLTHLPA--LPSGLCKLWIFG-NQLTSLPV-----LP 140

Query: 1128 TSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS 1187
              L+ L      S+       LP     L     +N +                 LT   
Sbjct: 141  PGLQEL------SVSDNQLASLPALPSELCKLWAYNNQ-----------------LT--- 174

Query: 1188 SENELPTMLEHLQVRFCSN--LAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEE 1245
                LP +   LQ    S+  LA L     LP  L  L   +  +L SL      + L+E
Sbjct: 175  ---SLPMLPSGLQELSVSDNQLASLP---TLPSELYKLWAYNN-RLTSLPALP--SGLKE 225

Query: 1246 ITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKAL 1305
            + +S    L SLP     L  L    ++    L S P      + L  L++Y    L  L
Sbjct: 226  LIVSGNR-LTSLPVLPSELKEL---MVSGN-RLTSLPML---PSGLLSLSVYRN-QLTRL 276

Query: 1306 PNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRR 1365
            P  + +L+S   + + G P  +S         + S       I +   +          R
Sbjct: 277  PESLIHLSSETTVNLEGNP--LSERTLQALREITSAPGYSGPIIR--FDMAGASAPRETR 332

Query: 1366 FTICGGCPDLVSPPPFPASLTNLW--ISDMPDLESISSIGENLTSLE 1410
                     LV       +  + W       + ++ S   + L+  E
Sbjct: 333  ALHLAAADWLVPAREGEPAPADRWHMFGQEDNADAFSLFLDRLSETE 379

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 72.2 bits (177), Expect = 7e-13
 Identities = 41/230 (17%), Positives = 76/230 (33%), Gaps = 40/230 (17%)

Query: 1215 NLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINY 1274
                 ++ +R    +    L   +  + L  +   +  ++ +L      +          
Sbjct: 26   GRAAVVQKMRACLNNGNAVL--NVGESGLTTLPDCLPAHITTL-----VIPDNN------ 72

Query: 1275 CPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGF 1334
               L S P       +L  L +     L +LP     L  L I            P    
Sbjct: 73   ---LTSLPALP---PELRTLEVSGN-QLTSLPVLPPGLLELSIFSNPLT----HLPA--L 119

Query: 1335 PTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMP 1394
            P+ L  L + G +++  LP         L+  ++      L S P  P+ L  LW  +  
Sbjct: 120  PSGLCKLWIFGNQLTS-LPV----LPPGLQELSVSD--NQLASLPALPSELCKLWAYNN- 171

Query: 1395 DLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIE 1444
                ++S+    + L+ L + +  +L   P   LP  L +L  +N  L  
Sbjct: 172  ---QLTSLPMLPSGLQELSVSDN-QLASLPT--LPSELYKLWAYNNRLTS 215

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 70.3 bits (172), Expect = 3e-12
 Identities = 84/394 (21%), Positives = 132/394 (33%), Gaps = 90/394 (22%)

Query: 1056 RTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNAL 1115
            R    E+     ++ +      N+    L +   + L + P+  LP+ + T+ I   N L
Sbjct: 17   RAAPAEESRGRAAVVQKMRACLNNGNAVLNVGE-SGLTTLPD-CLPAHITTLVI-PDNNL 73

Query: 1116 ISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICS 1175
             SLP          L +L + G   L       LP     L                   
Sbjct: 74   TSLPA-----LPPELRTLEVSGN-QLT-----SLPVLPPGL------------------- 103

Query: 1176 SSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESL 1234
                   L+ FS     LP +   L   +      L+    LP  L+ L V D  +L SL
Sbjct: 104  -----LELSIFSNPLTHLPALPSGLCKLWIFGNQ-LTSLPVLPPGLQELSVSDN-QLASL 156

Query: 1235 AERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTEL 1294
                    L ++       L SLP     L  L    ++    L S P      ++L +L
Sbjct: 157  PALPSE--LCKLWAYNN-QLTSLPMLPSGLQEL---SVSDN-QLASLPTL---PSELYKL 206

Query: 1295 TIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPE 1354
              Y+   L +LP     L  L++   R    + S P    P+ L+ L V G         
Sbjct: 207  WAYNN-RLTSLPALPSGLKELIVSGNR----LTSLPV--LPSELKELMVSG--------- 250

Query: 1355 WGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESI-SSIGENLTSLETLR 1413
               NR TSL               P  P+ L +L +     L  +  S+  +L+S  T+ 
Sbjct: 251  ---NRLTSL---------------PMLPSGLLSLSVYR-NQLTRLPESLI-HLSSETTVN 290

Query: 1414 LFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRC 1447
            L   P L     Q   + ++    ++ P+I    
Sbjct: 291  LEGNP-LSERTLQ-ALREITSAPGYSGPIIRFDM 322

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 60.7 bits (147), Expect = 3e-09
 Identities = 55/262 (20%), Positives = 89/262 (33%), Gaps = 43/262 (16%)

Query: 584 YLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINS 643
            +  + L  L    P LR   + G   + +LP     L  L   +   T +  LP  +  
Sbjct: 67  VIPDNNLTSLPALPPELRTLEVSGN-QLTSLPVLPPGLLELSIFSNPLTHLPALPSGLCK 125

Query: 644 LYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLG-RFV 702
           L+           QL  L      L++L  + +   N L  +P    +L  L     +  
Sbjct: 126 LWIFGN-------QLTSLPVLPPGLQEL-SVSD---NQLASLPALPSELCKLWAYNNQLT 174

Query: 703 VGKDSGSGLRELK----SLTHLQGTLRISKLENVKDVGDASEAQLNNKVN-LEALLLKWS 757
                 SGL+EL      L  L      S+L  +           NN++  L AL     
Sbjct: 175 SLPMLPSGLQELSVSDNQLASL--PTLPSELYKLW--------AYNNRLTSLPALP---- 220

Query: 758 ARDVQNLDQCEFETHVLSVLKPH-RDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRC 816
                 L +     + L+ L     +++EL ++G   T  P+         L  L + R 
Sbjct: 221 ----SGLKELIVSGNRLTSLPVLPSELKELMVSGNRLTSLPMLPS-----GLLSLSVYRN 271

Query: 817 TSTSLP-SVGQLPFLKELRISG 837
             T LP S+  L     + + G
Sbjct: 272 QLTRLPESLIHLSSETTVNLEG 293

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 59.1 bits (143), Expect = 9e-09
 Identities = 81/331 (24%), Positives = 109/331 (32%), Gaps = 88/331 (26%)

Query: 802  DSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVP--FPS 859
            D   + +  L +     TSLP+    P L+ L +SG                S+P   P 
Sbjct: 57   DCLPAHITTLVIPDNNLTSLPA--LPPELRTLEVSGN------------QLTSLPVLPPG 102

Query: 860  LETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKS 919
            L  LS F                +  +   L KL +F   +L  +LP     L+ L +  
Sbjct: 103  LLELSIFSNP----------LTHLPALPSGLCKLWIFGN-QLT-SLPVLPPGLQELSVSD 150

Query: 920  CQQLIVTIQCLPA----LSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIR 975
             Q     +  LPA    L +L     +                         T LP    
Sbjct: 151  NQ-----LASLPALPSELCKLWAYNNQL------------------------TSLPMLPS 181

Query: 976  SLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEM 1035
             L  L +S   QL SL          P  P  L  L       LT LP      S L E+
Sbjct: 182  GLQELSVSDN-QLASL----------PTLPSELYKLWAYNNR-LTSLPA---LPSGLKEL 226

Query: 1036 RISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSF 1095
             +SG   L S P   LPS L+ + +   N L SLP        S L SL +   N L   
Sbjct: 227  IVSGN-RLTSLP--VLPSELKELMVSG-NRLTSLPM-----LPSGLLSLSVYR-NQLTRL 276

Query: 1096 P-EVALPSQLRTVKIEYCNALISLPEAWMQN 1125
            P  +   S   TV +E  N L       ++ 
Sbjct: 277  PESLIHLSSETTVNLE-GNPLSERTLQALRE 306

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 55.7 bits (134), Expect = 1e-07
 Identities = 28/145 (19%), Positives = 45/145 (31%), Gaps = 26/145 (17%)

Query: 571 TFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLN-- 628
             LP   S+    +   + L  L      L+  S+     + +LP     L  L   N  
Sbjct: 154 ASLPALPSELCKLWAYNNQLTSLPMLPSGLQELSVSDN-QLASLPTLPSELYKLWAYNNR 212

Query: 629 ---------------LSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH 673
                          +S  R+  LP   + L  L    +    +L  L      L  L  
Sbjct: 213 LTSLPALPSGLKELIVSGNRLTSLPVLPSELKELM---VSGN-RLTSLPMLPSGLLSL-S 267

Query: 674 LRNSTANSLKEMPKGFGKLTSLLTL 698
           +     N L  +P+    L+S  T+
Sbjct: 268 VYR---NQLTRLPESLIHLSSETTV 289

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 54.1 bits (130), Expect = 3e-07
 Identities = 29/131 (22%), Positives = 50/131 (38%), Gaps = 18/131 (13%)

Query: 571 TFLPV---NLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCL 627
           T LPV    L +        + L  L + L +L +F  +    + +LP     L+ L   
Sbjct: 94  TSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQ----LTSLPVLPPGLQEL--- 146

Query: 628 NLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPK 687
           ++S  ++  LP   + L  L        +QL  L      L++L  + +   N L  +P 
Sbjct: 147 SVSDNQLASLPALPSELCKLWA----YNNQLTSLPMLPSGLQELS-VSD---NQLASLPT 198

Query: 688 GFGKLTSLLTL 698
              +L  L   
Sbjct: 199 LPSELYKLWAY 209

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 49.1 bits (117), Expect = 1e-05
 Identities = 27/194 (13%), Positives = 58/194 (29%), Gaps = 9/194 (4%)

Query: 571 TFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLS 630
           T LP   S  +   ++ + L  L      L+   + G   + +LP     L  L   ++ 
Sbjct: 214 TSLPALPSGLKELIVSGNRLTSLPVLPSELKELMVSGN-RLTSLPMLPSGLLSL---SVY 269

Query: 631 RTRIQILPESINSLYNLHTILLEDCHQLKKL----CKDMGNLRKLHHLRNSTANSLKEMP 686
           R ++  LPES+  L +  T+ LE    L +      +++ +             +    P
Sbjct: 270 RNQLTRLPESLIHLSSETTVNLEGN-PLSERTLQALREITSAPGYSGPIIRFDMAGASAP 328

Query: 687 KGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNK 746
           +    L            +   +                 S   +     +        K
Sbjct: 329 RETRALHLAAADWLVPAREGEPAPADRWHMFGQEDNADAFSLFLDRLSETENFIKDAGFK 388

Query: 747 VNLEALLLKWSARD 760
             + + L + +  +
Sbjct: 389 AQISSWLAQLAEDE 402

>3g06_A SSPH2 (leucine-rich repeat protein); E3 ubiquitin ligase, leucine rich repeat domain, type three effector, salmonella virulence factor; 1.90A {Salmonella typhimurium} Length = 622

 Score = 49.1 bits (117), Expect = 1e-05
 Identities = 24/107 (22%), Positives = 39/107 (36%), Gaps = 9/107 (8%)

Query: 588 SVLQRLLNHLPR-LRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYN 646
           +V+Q++   L     V ++   G +  LP+ +    H+  L +    +  LP     L  
Sbjct: 29  AVVQKMRACLNNGNAVLNVGESG-LTTLPDCLP--AHITTLVIPDNNLTSLPALPPELRT 85

Query: 647 LHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLT 693
           L    +    QL  L      L +L    N     L  +P G  KL 
Sbjct: 86  LE---VSGN-QLTSLPVLPPGLLELSIFSNP-LTHLPALPSGLCKLW 127

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 72.4 bits (178), Expect = 7e-13
 Identities = 80/745 (10%), Positives = 182/745 (24%), Gaps = 220/745 (29%)

Query: 594  LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQI-----LPESINSLYNLH 648
            LN   R+   SL G G    +P+ IG L  L  L L     ++      P+ I++  +  
Sbjct: 77   LNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSDE 136

Query: 649  TILLEDCHQLKKLCKDMGNLR--KLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKD 706
                   H  K             L     ++    K + K          +G       
Sbjct: 137  QKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIG------Q 190

Query: 707  SGSGLREL-KSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLD 765
              + +  + K++  L                            L              + 
Sbjct: 191  LSNNITFVSKAVMRLT--------------------------KLRQF----------YMG 214

Query: 766  QCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCT-STSLP-S 823
               F    +     + + +             +     +   L  +E+  C   T LP  
Sbjct: 215  NSPFVAENICEAWENENSEYAQQYKT----EDLKWD--NLKDLTDVEVYNCPNLTKLPTF 268

Query: 824  VGQLPFLKELRISG--MDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGE 881
            +  LP ++ + ++       + +  ++   + +     ++ +           +     +
Sbjct: 269  LKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYNNLKTFPVETSLQK 328

Query: 882  EVDEVFPKLRKLSLFHCHKLQGTLP--KRLLLLETLVIKSCQ--QLIVTI-QCLPALSEL 936
                   KL  L   +  +L+G LP     + L +L +   Q  ++          +  L
Sbjct: 329  -----MKKLGMLECLYN-QLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENL 382

Query: 937  QIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEE 996
                 K                           +P      N         + ++     
Sbjct: 383  SFAHNK---LKY---------------------IP------NIFDAKSVSVMSAI----- 407

Query: 997  HDQQQPESPCRLQFLKLSK--CEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSH 1054
                         + ++     +    L        +++ + +S                
Sbjct: 408  ----------DFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSN--------------- 442

Query: 1055 LRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNA 1114
                     N +   P+       S L S+ +                          N 
Sbjct: 443  ---------NQISKFPKELFSTG-SPLSSINLMG------------------------NM 468

Query: 1115 LISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDIC 1174
            L  +P+  +++ N + ++                    L  + +     L  L  +    
Sbjct: 469  LTEIPKNSLKDENENFKNT-----------------YLLTSIDLRFN-KLTKLSDDFRAT 510

Query: 1175 SSSRGCTSLTYFS-SEN---ELPT---MLEHLQVRFCSNLAFLSRN---GNLPQALKYLR 1224
            +       L     S N   + PT       L+     N      N      P+ +    
Sbjct: 511  T----LPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGIT--- 563

Query: 1225 VEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEE 1284
               C  L  L  ++ +  + ++   +  N+  L  D+ +         N      S    
Sbjct: 564  --LCPSLTQL--QIGSNDIRKVNEKITPNISVL--DIKD---------N---PNISIDLS 605

Query: 1285 GLPSTKLTELTIYDCENLKALPNCM 1309
             +       + +   +  + +  C 
Sbjct: 606  YVCPYIEAGMYMLFYDKTQDIRGCD 630

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 70.5 bits (173), Expect = 2e-12
 Identities = 67/502 (13%), Positives = 142/502 (28%), Gaps = 126/502 (25%)

Query: 971  PQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLS 1030
             +D   L +  I+  PQ  S+        +          +       +T + +A++ L+
Sbjct: 155  REDFSDLIKDCINSDPQQKSIKKSSRITLK-------DTQIGQLSNN-ITFVSKAVMRLT 206

Query: 1031 SLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCN 1090
             L +  +        F    +         E     ++    W  ++   L  +++ NC 
Sbjct: 207  KLRQFYMGNS----PFVAENICEAWENENSEYAQQYKTEDLKW--DNLKDLTDVEVYNCP 260

Query: 1091 SLVSFPEVALPSQLRTVKIEYCNALISLPEAWM-QNSNTSLESLRIKGCDSLKYIARIQL 1149
            +L   P            ++    +  +    +  N   S E L+    D  + +A   +
Sbjct: 261  NLTKLPTF----------LKALPEMQLI---NVACNRGISGEQLK----DDWQALADAPV 303

Query: 1150 PPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENEL---PTMLEHLQVRFCS 1205
               ++ + +    NL+T   E  +         L       N+L                
Sbjct: 304  GEKIQIIYIGYN-NLKTFPVETSLQK----MKKLGMLECLYNQLEGKLPAFGSE-----I 353

Query: 1206 NLAFL--SRN----------GNLPQALKYLRVEDCSKLESLAERLDN---TSLEEITIS- 1249
             LA L  + N          G   Q ++ L      KL+ +    D    + +  I  S 
Sbjct: 354  KLASLNLAYNQITEIPANFCGFTEQ-VENLSFAHN-KLKYIPNIFDAKSVSVMSAIDFSY 411

Query: 1250 ------VLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPS-TKLTELTIYDC--- 1299
                    +N   L        ++  I ++    +  FP+E   + + L+ + +      
Sbjct: 412  NEIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKFPKELFSTGSPLSSINLMGNMLT 470

Query: 1300 ----ENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEW 1355
                 +LK       N   L  +++R    +    +D   T L  L    + +S      
Sbjct: 471  EIPKNSLKDENENFKNTYLLTSIDLRFN-KLTKLSDDFRATTLPYLVG--IDLSY----- 522

Query: 1356 GFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLF 1415
              N F+                 P                         N ++L+   + 
Sbjct: 523  --NSFSKF---------------PT--------------------QPL-NSSTLKGFGIR 544

Query: 1416 NCPKLKYFPEQG-LPKSLSRLS 1436
            N    +        P+ ++   
Sbjct: 545  NQRDAQGNRTLREWPEGITLCP 566

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 68.9 bits (169), Expect = 8e-12
 Identities = 50/397 (12%), Positives = 111/397 (27%), Gaps = 52/397 (13%)

Query: 1079 SSLESLKIRNCNSLVSFPEVALPSQ------LRTVKIEYCNALISLPEAWMQNSNTSLES 1132
            + LE L + + +       +  P            +    +   +  +   +   + L  
Sbjct: 105  TELEVLALGS-HGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIK 163

Query: 1133 LRIKGCDSLKYIAR-IQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SEN 1190
              I      K I +  ++     ++      N+        +  +    T L  F    +
Sbjct: 164  DCINSDPQQKSIKKSSRITLKDTQIGQLSN-NITF------VSKAVMRLTKLRQFYMGNS 216

Query: 1191 ELPTMLEHLQVRFCSNLAFLSRNGNLP------QALKYLRVEDCSKLESLAERLDN-TSL 1243
                     +     N  +  +           + L  + V +C  L  L   L     +
Sbjct: 217  PF-VAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEM 275

Query: 1244 EEI--------TISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPS--TKLTE 1293
            + I        +   L++     AD      +Q I+I Y  NL++FP E       KL  
Sbjct: 276  QLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NLKTFPVETSLQKMKKLGM 334

Query: 1294 LTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFPTNLQSLEVRGLKISKP 1351
            L       L+       +   L  L +     +   P +  GF   +++L     K+   
Sbjct: 335  LECLYN-QLEGKLPAFGSEIKLASLNLAYN-QITEIPANFCGFTEQVENLSFAHNKLKYI 392

Query: 1352 LPEWGFNRFTSLRRFTICG------GCPDLVSPPPFPASLTNLWISDMPD--LES-ISSI 1402
               +     + +                +     P P    N+   ++ +  +      +
Sbjct: 393  PNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKEL 452

Query: 1403 GENLTSLETLRLFNCPKLKYFPE---QGLPKSLSRLS 1436
                + L ++ L     L   P+   +   ++     
Sbjct: 453  FSTGSPLSSINLMGN-MLTEIPKNSLKDENENFKNTY 488

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 67.4 bits (165), Expect = 2e-11
 Identities = 48/358 (13%), Positives = 106/358 (29%), Gaps = 74/358 (20%)

Query: 1125 NSNTSLESLRIKGCDSLKYIARIQLPPS------LKRLIVSRCWNLRTLIGEQDICSSSR 1178
            NSN  +  L ++G       A  ++P +      L+ L +    +   +           
Sbjct: 78   NSNGRVTGLSLEGFG-----ASGRVPDAIGQLTELEVLALGS--HGEKVNERLFGPKGIS 130

Query: 1179 GCTSLTYF--SSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAE 1236
               S         +   T +++      S+L     N +                +   +
Sbjct: 131  ANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSD--------------PQQKSIK 176

Query: 1237 RLDNTSLEEITISVLEN-LKSLPADLHNLHHLQKIWIN-------------------YCP 1276
            +    +L++  I  L N +  +   +  L  L++ ++                    Y  
Sbjct: 177  KSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQ 236

Query: 1277 NLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGC---------PSVV 1327
              ++   +      LT++ +Y+C NL  LP  +  L  + ++ +                
Sbjct: 237  QYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQ 296

Query: 1328 SFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDL-----VSPPPFP 1382
            +  +      +Q + +    +     E    +   L          +          P  
Sbjct: 297  ALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGML-------ECLYNQLEGKLPAF 349

Query: 1383 ASLTNLWISDMPD--LESI-SSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSI 1437
             S   L   ++    +  I ++       +E L   +  KLKY P     KS+S +S 
Sbjct: 350  GSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHN-KLKYIPNIFDAKSVSVMSA 406

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 54.7 bits (132), Expect = 2e-07
 Identities = 19/173 (10%), Positives = 40/173 (23%), Gaps = 27/173 (15%)

Query: 576 NLSDYRHNYLAWSVLQRL-LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRI 634
                   +   + +          L    +       ++            +      I
Sbjct: 136 EQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNI 195

Query: 635 QILPESINSLYNLHTI-------------------LLEDCHQLKKLCKDMGNLRKLHHLR 675
             + +++  L  L                        E   Q K       NL+ L  + 
Sbjct: 196 TFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVE 255

Query: 676 NSTANSLKEMPKGFGKLTSLLTLG----RFVVG---KDSGSGLRELKSLTHLQ 721
                +L ++P     L  +  +     R + G   KD    L +      +Q
Sbjct: 256 VYNCPNLTKLPTFLKALPEMQLINVACNRGISGEQLKDDWQALADAPVGEKIQ 308

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 52.7 bits (127), Expect = 7e-07
 Identities = 61/481 (12%), Positives = 141/481 (29%), Gaps = 99/481 (20%)

Query: 888  PKLRKLSLFHCHKLQGTLPKRLLLLETL-VIKSCQQLIVTIQCLPALSELQIDGCKRVVF 946
             KLR+  + +               E     +  +   +    L  L+++++  C  +  
Sbjct: 206  TKLRQFYMGNS-PFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYNCPNL-- 262

Query: 947  SSPHLVHAVNVRKQAYFWRSETRLPQDI---RSLNRLQISRCPQLLSLVTEEEHDQQQPE 1003
                                 T+LP  +     +  + ++   + +S    ++  Q   +
Sbjct: 263  ---------------------TKLPTFLKALPEMQLINVACN-RGISGEQLKDDWQALAD 300

Query: 1004 SPC--RLQFLKLSKCEGLTRL--PQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVK 1059
            +P   ++Q + +     L       +L  +  L  +                        
Sbjct: 301  APVGEKIQIIYIGYNN-LKTFPVETSLQKMKKLGMLECLY-------------------- 339

Query: 1060 IEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPE--VALPSQLRTVKIEYCNALIS 1117
                N LE    A+       L SL +   N +   P        Q+  +   + N L  
Sbjct: 340  ----NQLEGKLPAFGSEIK--LASLNLAY-NQITEIPANFCGFTEQVENLSFAH-NKLKY 391

Query: 1118 LPEAWMQNSNTSLESLRIKGC--DSLKYIARIQLPP------SLKRLIVSRCWNLRTLIG 1169
            +P  +   S + + ++        S+       L P      ++  + +S    +     
Sbjct: 392  IPNIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QISKFPK 450

Query: 1170 EQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDC 1228
            E          + L+  +   N L  + ++       N        N    L  + +   
Sbjct: 451  E-----LFSTGSPLSSINLMGNMLTEIPKNSLKDENENF------KNTYL-LTSIDLRFN 498

Query: 1229 SKLESLAERLDNTSLEEITISVLEN--LKSLPADLHNLHHLQKIWINYCPNLESFPEEG- 1285
             KL  L++    T+L  +    L        P    N   L+   I    + +       
Sbjct: 499  -KLTKLSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLRE 557

Query: 1286 LPS-----TKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQS 1340
             P        LT+L I    +++ +   +    ++ +L+I+  P+ +S         +++
Sbjct: 558  WPEGITLCPSLTQLQIGSN-DIRKVNEKI--TPNISVLDIKDNPN-ISIDLSYVCPYIEA 613

Query: 1341 L 1341
             
Sbjct: 614  G 614

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 71.2 bits (175), Expect = 1e-12
 Identities = 67/460 (14%), Positives = 145/460 (31%), Gaps = 54/460 (11%)

Query: 1008 LQFLKLSKCEGLTRLP-QALLTLSSLTEMRISGCASLVSFPQAALP--SHLRTVKIEDCN 1064
             + + LS    L  L   +    S L  + +S C  + +    A     HL  + +   N
Sbjct: 34   TKNIDLSFNP-LKILKSYSFSNFSELQWLDLSRC-EIETIEDKAWHGLHHLSNLILTG-N 90

Query: 1065 ALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEAW 1122
             ++S          +SLE+L       L S     +     L+ + + + N + S     
Sbjct: 91   PIQSFSPGSFSG-LTSLENLVAVE-TKLASLESFPIGQLITLKKLNVAH-NFIHSCKLPA 147

Query: 1123 MQNSNTSLESLRIKGCDSLKYIAR------IQLPPSLKRLIVSRCWNLRTLIGEQDICSS 1176
              ++ T+L  + +     ++ I         + P     L +S    +        I   
Sbjct: 148  YFSNLTNLVHVDLSYN-YIQTITVNDLQFLRENPQVNLSLDMSLN-PIDF------IQDQ 199

Query: 1177 SRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLA 1235
            +     L   +   N   + +    ++  + L          +  + L + + S +E L 
Sbjct: 200  AFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGL- 258

Query: 1236 ERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELT 1295
                + +++E  ++   +        H L ++  + +        + E+     K   L+
Sbjct: 259  ---CDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAG--VSIKYLEDVPKHFKWQSLS 313

Query: 1296 IYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEW 1355
            I  C  LK  P    +L  L  L +      +SF +   P +L  L++    +S      
Sbjct: 314  IIRC-QLKQFPT--LDLPFLKSLTLTMNKGSISFKKVALP-SLSYLDLSRNALSF-SGCC 368

Query: 1356 GFNRFTSLRRFTICGGCPDLVSPPPFPASLTNL--------WISDMPDLESISSIGENLT 1407
             ++   +     +       +        L  L         +  + +  +      +L 
Sbjct: 369  SYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFL----SLE 424

Query: 1408 SLETLRLFNCPKLKYFPE---QGLPKSLSRLSIHNCPLIE 1444
             L  L +      K   +    GL  SL+ L +      +
Sbjct: 425  KLLYLDISYT-NTKIDFDGIFLGLT-SLNTLKMAGNSFKD 462

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 65.1 bits (159), Expect = 1e-10
 Identities = 90/592 (15%), Positives = 187/592 (31%), Gaps = 94/592 (15%)

Query: 573  LPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNE-IGNLKHLRCLNL 629
            +P +    D   N L   +     ++   L+   L  C  I  + ++    L HL  L L
Sbjct: 30   IPSSTKNIDLSFNPLK-ILKSYSFSNFSELQWLDLSRC-EIETIEDKAWHGLHHLSNLIL 87

Query: 630  SRTRIQ-ILPESINSLYNLHTILLEDCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPK 687
            +   IQ   P S + L +L  ++  +  +L  L     G L  L  L  +  N +     
Sbjct: 88   TGNPIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLITLKKLNVAH-NFIHSCKL 145

Query: 688  G--FGKLTSL--LTLGRFVVGKDSGSGLRELKSLTHLQGTLRIS--KLENVKDVGDASEA 741
               F  LT+L  + L    +   + + L+ L+    +  +L +S   ++ +       + 
Sbjct: 146  PAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFI-------QD 198

Query: 742  QLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLG 801
            Q    + L  L L+ +      +  C      L V +       L +  +   +      
Sbjct: 199  QAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHR-------LILGEFKDERNLEIFE 251

Query: 802  DSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLE 861
             S    L  + +                  E R++  +       +F+         ++ 
Sbjct: 252  PSIMEGLCDVTI-----------------DEFRLTYTNDFSDDIVKFHC------LANVS 288

Query: 862  TLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLLLETLVIKSCQ 921
             +S   +    +++             K + LS+  C  L+      L  L++L +   +
Sbjct: 289  AMSLAGVSI--KYLEDVPK------HFKWQSLSIIRCQ-LKQFPTLDLPFLKSLTLTMNK 339

Query: 922  -QLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSE---TRLPQDIRSL 977
              +      LP+LS L +     + FS       +      +   S      +  +   L
Sbjct: 340  GSISFKKVALPSLSYLDLSRN-ALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGL 398

Query: 978  NRLQ--------ISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTL 1029
              LQ        + R  +  +             S  +L +L +S            L L
Sbjct: 399  EELQHLDFQHSTLKRVTEFSAF-----------LSLEKLLYLDISYTNTKIDFDGIFLGL 447

Query: 1030 SSLTEMRISGCASLVSFPQAAL--PSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIR 1087
            +SL  ++++G +   +         ++L  + +     LE +           L+ L + 
Sbjct: 448  TSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSK-CQLEQISWGVFDTL-HRLQLLNMS 505

Query: 1088 NCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKG 1137
            + N+L+            L T+   + N + +           SL    +  
Sbjct: 506  H-NNLLFLDSSHYNQLYSLSTLDCSF-NRIETSKGILQHF-PKSLAFFNLTN 554

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 56.2 bits (136), Expect = 6e-08
 Identities = 63/365 (17%), Positives = 116/365 (31%), Gaps = 39/365 (10%)

Query: 970  LPQDIRSLNRLQISRCP--QLLSLVTEEEHDQQQPESPCRLQF--LKLSKCEGLTRLPQA 1025
            +   +++L  L + R    +       E  +    E  C +     +L+     +     
Sbjct: 221  MKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVK 280

Query: 1026 LLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLK 1085
               L++++ M ++G  S+            +++ I  C  L+  P   +      L+SL 
Sbjct: 281  FHCLANVSAMSLAGV-SIKYLEDVPKHFKWQSLSIIRCQ-LKQFPTLDL----PFLKSLT 334

Query: 1086 IRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPE-AWMQNSNTSLESLRIKGCDSLKYI 1144
            +      +SF +VALPS L  + +   NAL      ++      SL  L +    ++   
Sbjct: 335  LTMNKGSISFKKVALPS-LSYLDLSR-NALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMS 392

Query: 1145 ARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRF 1203
            A       L+ L       L+ +       S+      L Y   S      +        
Sbjct: 393  ANFMGLEELQHLDFQHS-TLKRVTE----FSAFLSLEKLLYLDISYTNT-KIDFDGIFLG 446

Query: 1204 CSNLAFL--SRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADL 1261
             ++L  L  + N +           + + L  L   L    LE+I+  V + L  L   L
Sbjct: 447  LTSLNTLKMAGN-SFKDNTLSNVFANTTNLTFL--DLSKCQLEQISWGVFDTLHRL-QLL 502

Query: 1262 HNLHHLQKIWINYCPNLESFPEEGLPS-TKLTELTIYDCENLKALPNC-MHNLTSLLILE 1319
             N+ H      N   NL             L+ L       ++       H   SL    
Sbjct: 503  -NMSH------N---NLLFLDSSHYNQLYSLSTLDCSFN-RIETSKGILQHFPKSLAFFN 551

Query: 1320 IRGCP 1324
            +    
Sbjct: 552  LTNNS 556

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 55.8 bits (135), Expect = 8e-08
 Identities = 67/471 (14%), Positives = 142/471 (30%), Gaps = 80/471 (16%)

Query: 1008 LQFLKLSKCEGLTRLPQALLT-LSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDC--N 1064
            L+ L   +   L  L    +  L +L ++ ++    + S    A  S+L  +   D   N
Sbjct: 106  LENLVAVET-KLASLESFPIGQLITLKKLNVAHN-FIHSCKLPAYFSNLTNLVHVDLSYN 163

Query: 1065 ALESLPE---AWMHNSNSSLESLKIRNCNSLVSFPEVAL-PSQLRTVKIEYCNALISLPE 1120
             ++++      ++  +     SL +   N +    + A    +L  + +       ++ +
Sbjct: 164  YIQTITVNDLQFLRENPQVNLSLDMSL-NPIDFIQDQAFQGIKLHELTLRGNFNSSNIMK 222

Query: 1121 AWMQN-SNTSLESLRIKGCDSLKYIARIQ--LPPSLKRLIVSRCWNLRTLIGEQDICSSS 1177
              +QN +   +  L +      + +   +  +   L  + +     L       D     
Sbjct: 223  TCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEF-RLTYTNDFSDDIVKF 281

Query: 1178 RGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNL-----PQALKYLRVED---- 1227
                +++  S +   +  + +            LS             L +L+       
Sbjct: 282  HCLANVSAMSLAGVSIKYLEDV---PKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMN 338

Query: 1228 ----------CSKLESLAERLDNTSLEEITISVLENLK---------------SLPADLH 1262
                         L  L   L   +L         +L                 + A+  
Sbjct: 339  KGSISFKKVALPSLSYL--DLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFM 396

Query: 1263 NLHHLQKIWINYCPNLESFPEEGL--PSTKLTELTIYDCENLKALPNCM-HNLTSLLILE 1319
             L  LQ +   +   L+   E        KL  L I    N K   + +   LTSL  L+
Sbjct: 397  GLEELQHLDFQHS-TLKRVTEFSAFLSLEKLLYLDISYT-NTKIDFDGIFLGLTSLNTLK 454

Query: 1320 IRGCPSVVSFPEDGF--PTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDL-- 1375
            + G     +   + F   TNL  L++   ++ + +    F+    L+         ++  
Sbjct: 455  MAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQ-ISWGVFDTLHRLQLL-------NMSH 506

Query: 1376 -----VSPPPFP--ASLTNLWISDMPDLESI-SSIGENLTSLETLRLFNCP 1418
                 +    +    SL+ L  S    +E+    +     SL    L N  
Sbjct: 507  NNLLFLDSSHYNQLYSLSTLDCSFN-RIETSKGILQHFPKSLAFFNLTNNS 556

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 55.0 bits (133), Expect = 2e-07
 Identities = 86/546 (15%), Positives = 157/546 (28%), Gaps = 101/546 (18%)

Query: 594  LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPE-SINSLYNLHTILL 652
             + L  L    L G       P     L  L  L    T++  L    I  L  L  + +
Sbjct: 76   WHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNV 135

Query: 653  EDCH----QLKKLCKDMGNLRKLH---------------HLRNSTA---------NSLKE 684
                    +L     ++ NL  +                 LR +           N +  
Sbjct: 136  AHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDF 195

Query: 685  MPKGFGKLTSLLTL---GRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEA 741
            +     +   L  L   G F       + L+ L  L   +  L + + ++ +++     +
Sbjct: 196  IQDQAFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHR--LILGEFKDERNLEIFEPS 253

Query: 742  QLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLG 801
             +    ++              L      +  +       +V  +++ G           
Sbjct: 254  IMEGLCDVTIDEF--------RLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLE---D 302

Query: 802  DSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLE 861
                 K   L + RC     P++  LPFLK L ++         ++   + + V  PSL 
Sbjct: 303  VPKHFKWQSLSIIRCQLKQFPTLD-LPFLKSLTLT--------MNKGSISFKKVALPSLS 353

Query: 862  TLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCH-KLQGTLPKRLLLLETLVIKSC 920
             L             C +  ++      LR L L      +       L  L+ L  +  
Sbjct: 354  YLDLSRNALSF--SGCCSYSDLG--TNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHS 409

Query: 921  QQLIVTI------QCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDI 974
               +  +        L  L  L I                               +   +
Sbjct: 410  T--LKRVTEFSAFLSLEKLLYLDISYTN--------------------TKIDFDGIFLGL 447

Query: 975  RSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLP-QALLTLSSLT 1033
             SLN L+++      + ++    +         L FL LSKC  L ++      TL  L 
Sbjct: 448  TSLNTLKMAGNSFKDNTLSNVFANTTN------LTFLDLSKC-QLEQISWGVFDTLHRLQ 500

Query: 1034 EMRISGCASLVSFPQAALP--SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNS 1091
             + +S   +L+    +       L T+     N +E+      H    SL    + N NS
Sbjct: 501  LLNMSHN-NLLFLDSSHYNQLYSLSTLDCSF-NRIETSKGILQHF-PKSLAFFNLTN-NS 556

Query: 1092 LVSFPE 1097
            +    E
Sbjct: 557  VACICE 562

>3vq2_A TLR4, TOLL-like receptor 4; leucine rich repeat MD-2 related lipid recognition, receptor immunity, lipid binding, glycosylation, secreted, immune SY; HET: NAG LP4 LP5 DAO MYR; 2.48A {Mus musculus} PDB: 3vq1_A* 2z64_A* Length = 606

 Score = 44.3 bits (105), Expect = 3e-04
 Identities = 32/138 (23%), Positives = 47/138 (34%), Gaps = 9/138 (6%)

Query: 568 HLRTFLPVNLSDYRHNYLAWSVLQRLLN--HLPRLRVFSLRGC--GNIFNLPNEIGNLKH 623
            L+ F  ++L   +   L  +          LP L    L                    
Sbjct: 318 QLKQFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNS 377

Query: 624 LRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKL--CKDMGNLRKLHHLRNSTANS 681
           LR L+LS     I+  +   L  L  +  +    LK++       +L KL +L  S   +
Sbjct: 378 LRHLDLSFNGAIIMSANFMGLEELQHLDFQHS-TLKRVTEFSAFLSLEKLLYLDIS-YTN 435

Query: 682 LKEMPKG-FGKLTSLLTL 698
            K    G F  LTSL TL
Sbjct: 436 TKIDFDGIFLGLTSLNTL 453

>3bz5_A Internalin-J, INLJ; leucine rich repeat (LRR), cysteine ladder, asparagine ladder, virulence factor, solenoid, cell WALL; 2.70A {Listeria monocytogenes} Length = 457

 Score = 70.1 bits (172), Expect = 2e-12
 Identities = 63/390 (16%), Positives = 122/390 (31%), Gaps = 66/390 (16%)

Query: 1078 NSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQN------SNTSLE 1131
             ++L SL   N +S+     +   + L  +     N + +L  +   N       +  L 
Sbjct: 41   LATLTSLDCHN-SSITDMTGIEKLTGLTKLICTS-NNITTLDLSQNTNLTYLACDSNKLT 98

Query: 1132 SLRIKGCDSLKYI---------ARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTS 1182
            +L +     L Y+           +   P L  L  +R   L  +             T 
Sbjct: 99   NLDVTPLTKLTYLNCDTNKLTKLDVSQNPLLTYLNCARN-TLTEI--------DVSHNTQ 149

Query: 1183 LTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNT 1241
            LT      N+    +  L V   + L  L  + N    +  L V     L  L    D  
Sbjct: 150  LTELDCHLNKK---ITKLDVTPQTQLTTLDCSFNK---ITELDVSQNKLLNRL--NCDTN 201

Query: 1242 SLEEITISVLENLKSLPA--------DLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTE 1293
            ++ ++ ++    L  L          D+  L  L     +    L       L  +KLT 
Sbjct: 202  NITKLDLNQNIQLTFLDCSSNKLTEIDVTPLTQLTYFDCSVN-PLTELDVSTL--SKLTT 258

Query: 1294 LTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLP 1353
            L      +L  +     + T L+  +  GC   +   +    T L  L+ +   I++ L 
Sbjct: 259  LHCIQT-DLLEIDLT--HNTQLIYFQAEGCRK-IKELDVTHNTQLYLLDCQAAGITE-LD 313

Query: 1354 EWGFNRFTSLRRFTICGGCP----DLVSPPPFPASLTNLWISDMPDLESISSIGENLTSL 1409
                ++   L              D+         L +L   +   ++  SS+G  + +L
Sbjct: 314  ---LSQNPKLVYL-YLNNTELTELDVSHNT----KLKSLSCVNAH-IQDFSSVG-KIPAL 363

Query: 1410 ETLRLFNCPKLKYFPEQGLPKSLSRLSIHN 1439
                     +    P++ L  +   +++  
Sbjct: 364  NNNFEAE-GQTITMPKETLTNNSLTIAVSP 392

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 67.3 bits (165), Expect = 2e-11
 Identities = 63/395 (15%), Positives = 128/395 (32%), Gaps = 63/395 (15%)

Query: 1080 SLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCD 1139
             L S  I     +         ++     +   N   ++ +  +      + +L+     
Sbjct: 2    PLGSATITQDTPINQIFTDTALAEKMKTVLGKTNVTDTVSQTDL----DQVTTLQADRL- 56

Query: 1140 SLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELP----- 1193
             +K I  ++   +L ++  S    L  +       +  +  T L     + N++      
Sbjct: 57   GIKSIDGVEYLNNLTQINFSNN-QLTDI-------TPLKNLTKLVDILMNNNQIADITPL 108

Query: 1194 ---TMLEHLQVRFCSNLAFLSRNGNLPQALKYLR-----------VEDCSKLESLAERLD 1239
               T L  L +     +  +    NL   L  L            +   + L+ L     
Sbjct: 109  ANLTNLTGLTLFNN-QITDIDPLKNLTN-LNRLELSSNTISDISALSGLTSLQQL--SFG 164

Query: 1240 NTSLEEITISVLENLKSL---------PADLHNLHHLQKIWINYCPNLESFPE-EGLPST 1289
            N   +   ++ L  L+ L          + L  L +L+ +       +        L  T
Sbjct: 165  NQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN-QISDITPLGIL--T 221

Query: 1290 KLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKIS 1349
             L EL++     LK +   + +LT+L  L++     + +       T L  L++   +IS
Sbjct: 222  NLDELSLNGN-QLKDIGT-LASLTNLTDLDLANNQ-ISNLAPLSGLTKLTELKLGANQIS 278

Query: 1350 KPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPA--SLTNLWISDMPDLESISSIGENLT 1407
               P       T+L           L    P     +LT L +     +  IS +  +LT
Sbjct: 279  NISP---LAGLTALTNL-ELNENQ-LEDISPISNLKNLTYLTLYFNN-ISDISPVS-SLT 331

Query: 1408 SLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPL 1442
             L+ L  +N  K+          +++ LS  +  +
Sbjct: 332  KLQRLFFYNN-KVSDVSSLANLTNINWLSAGHNQI 365

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 63.1 bits (154), Expect = 4e-10
 Identities = 77/445 (17%), Positives = 144/445 (32%), Gaps = 77/445 (17%)

Query: 1008 LQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALE 1067
                 L K   +T    +   L  +T ++                       I+  + +E
Sbjct: 26   KMKTVLGKTN-VTDTV-SQTDLDQVTTLQADRL------------------GIKSIDGVE 65

Query: 1068 SLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSN 1127
             L          +L  +   N N L     +   ++L  + +   N +  +       + 
Sbjct: 66   YLN---------NLTQINFSN-NQLTDITPLKNLTKLVDILMNN-NQIADITP---LANL 111

Query: 1128 TSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS 1187
            T+L  L +     +  I  ++   +L RL +S    +  +       S+  G TSL   S
Sbjct: 112  TNLTGLTLFNN-QITDIDPLKNLTNLNRLELSSN-TISDI-------SALSGLTSLQQLS 162

Query: 1188 SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEIT 1247
              N++  +     +   + L  L  + N    +  L     + LESL     N  + +IT
Sbjct: 163  FGNQVTDLKP---LANLTTLERLDISSNKVSDISVL--AKLTNLESL--IATNNQISDIT 215

Query: 1248 -ISVLENLKSL---------PADLHNLHHLQKIWINYCPNLESFPE-EGLPSTKLTELTI 1296
             + +L NL  L            L +L +L  + +     + +     GL  TKLTEL +
Sbjct: 216  PLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANN-QISNLAPLSGL--TKLTELKL 272

Query: 1297 YDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWG 1356
                 +  +   +  LT+L  LE+     +          NL  L +    IS   P   
Sbjct: 273  GAN-QISNISP-LAGLTALTNLELNENQ-LEDISPISNLKNLTYLTLYFNNISDISP--- 326

Query: 1357 FNRFTSLRRFTICGGCPDLVSPPPF--PASLTNLWISDMPDLESISSIGENLTSLETLRL 1414
             +  T L+R         +          ++  L       +  ++ +  NLT +  L L
Sbjct: 327  VSSLTKLQRLFFYNN--KVSDVSSLANLTNINWLSAGHNQ-ISDLTPLA-NLTRITQLGL 382

Query: 1415 FNCPKLKYFPEQGLPKSLSRLSIHN 1439
             +       P           ++ N
Sbjct: 383  NDQ-AWTNAPVNYKANVSIPNTVKN 406

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 51.1 bits (123), Expect = 2e-06
 Identities = 46/249 (18%), Positives = 92/249 (36%), Gaps = 43/249 (17%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
           L +L +L    +     I ++   + NL +L  L L   +I  +   + +L NL+ + L 
Sbjct: 86  LKNLTKLVDILMNNN-QIADITP-LANLTNLTGLTLFNNQITDID-PLKNLTNLNRLELS 142

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
               +  +   +  L  L  L     N + +  K    LT+L  L    +  +  S +  
Sbjct: 143 SN-TISDI-SALSGLTSLQQLSFG--NQVTD-LKPLANLTTLERLD---ISSNKVSDISV 194

Query: 714 LKSLTHLQGTL-----RISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCE 768
           L  LT+L+ +L     +IS +             L    NL+ L          +L+  +
Sbjct: 195 LAKLTNLE-SLIATNNQISDITP-----------LGILTNLDEL----------SLNGNQ 232

Query: 769 FETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLP 828
            +   +  L    ++ +L +     +        S  +KL  L+L     +++  +  L 
Sbjct: 233 LKD--IGTLASLTNLTDLDLANNQISNLA---PLSGLTKLTELKLGANQISNISPLAGLT 287

Query: 829 FLKELRISG 837
            L  L ++ 
Sbjct: 288 ALTNLELNE 296

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 50.7 bits (122), Expect = 3e-06
 Identities = 50/246 (20%), Positives = 94/246 (38%), Gaps = 37/246 (15%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
           L+ L  L+  S      + +L   + NL  L  L++S  ++  +   +  L NL +++  
Sbjct: 152 LSGLTSLQQLSFGN--QVTDLKP-LANLTTLERLDISSNKVSDIS-VLAKLTNLESLIAT 207

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
           +  Q+  +   +G L  L  L  +  N LK++      LT+L  L    +  +  S L  
Sbjct: 208 NN-QISDI-TPLGILTNLDELSLN-GNQLKDIG-TLASLTNLTDLD---LANNQISNLAP 260

Query: 714 LKSLTHLQGTLRIS--KLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFET 771
           L  LT L   L++   ++ N+          L     L  L           L++ + E 
Sbjct: 261 LSGLTKLT-ELKLGANQISNISP--------LAGLTALTNL----------ELNENQLED 301

Query: 772 HVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLK 831
             +S +   +++  LT+     +        SS +KL RL       + + S+  L  + 
Sbjct: 302 --ISPISNLKNLTYLTLYFNNISDIS---PVSSLTKLQRLFFYNNKVSDVSSLANLTNIN 356

Query: 832 ELRISG 837
            L    
Sbjct: 357 WLSAGH 362

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 49.6 bits (119), Expect = 6e-06
 Identities = 84/533 (15%), Positives = 166/533 (31%), Gaps = 136/533 (25%)

Query: 801  GDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSL 860
             D++ ++  +  L +   T   S   L  +  L+   +                     +
Sbjct: 19   TDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRL--------------------GI 58

Query: 861  ETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLP-KRLLLLETLVIKS 919
            +++                     E    L +++  +  +L    P K L  L  +++ +
Sbjct: 59   KSIDGV------------------EYLNNLTQINFSNN-QLTDITPLKNLTKLVDILMNN 99

Query: 920  CQ-QLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLN 978
             Q   I  +  L  L+ L +   +  +     L +  N+           RL      L+
Sbjct: 100  NQIADITPLANLTNLTGLTLFNNQ--ITDIDPLKNLTNL----------NRL-----ELS 142

Query: 979  RLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRIS 1038
               IS    L  L                LQ L       +T L   L  L++L  + IS
Sbjct: 143  SNTISDISALSGLT--------------SLQQLSFGNQ--VTDLK-PLANLTTLERLDIS 185

Query: 1039 GCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEV 1098
                                K+ D + L  L          +LESL   N N +     +
Sbjct: 186  SN------------------KVSDISVLAKLT---------NLESLIATN-NQISDITPL 217

Query: 1099 ALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIV 1158
             + + L  + +   N L  +       S T+L  L +     +  +A +     L  L +
Sbjct: 218  GILTNLDELSLNG-NQLKDIGT---LASLTNLTDLDLANN-QISNLAPLSGLTKLTELKL 272

Query: 1159 SRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLP 1217
                 +  +       S   G T+LT    +EN+L   +  +      NL +L+   N  
Sbjct: 273  GAN-QISNI-------SPLAGLTALTNLELNENQL-EDISPIS--NLKNLTYLTLYFNNI 321

Query: 1218 QALKYLRVEDCSKLESLAERLDNTSLEEIT-ISVLENLKSL---------PADLHNLHHL 1267
              +  +     +KL+ L     N  + +++ ++ L N+  L            L NL  +
Sbjct: 322  SDISPV--SSLTKLQRL--FFYNNKVSDVSSLANLTNINWLSAGHNQISDLTPLANLTRI 377

Query: 1268 QKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEI 1320
             ++ +N      + P     +  +    + +       P  + +  S    +I
Sbjct: 378  TQLGLNDQA-WTNAPVNYKANVSIPNT-VKNVTGALIAPATISDGGSYTEPDI 428

>1o6v_A Internalin A; bacterial infection, extracellular recognition, cell WALL attached, leucine rich repeat; 1.5A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 1o6s_A* 1o6t_A 2omz_A 2omy_A 2omw_A 2omv_A 2omt_A 2omx_A 2omu_A Length = 466

 Score = 48.0 bits (115), Expect = 2e-05
 Identities = 44/245 (17%), Positives = 84/245 (34%), Gaps = 35/245 (14%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
              L ++          I ++   +  L +L  +N S  ++  +   + +L  L  IL+ 
Sbjct: 42  QTDLDQVTTLQADRL-GIKSIDG-VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMN 98

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSG-SGLR 712
           +  Q+  +   + NL  L  L     N + ++      LT+L  L        S  S L 
Sbjct: 99  NN-QIADI-TPLANLTNLTGL-TLFNNQITDID-PLKNLTNLNRL-ELSSNTISDISALS 153

Query: 713 ELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETH 772
            L SL  L    +++ L+            L N   LE L          ++   +    
Sbjct: 154 GLTSLQQLSFGNQVTDLKP-----------LANLTTLERL----------DISSNKVSD- 191

Query: 773 VLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKE 832
            +SVL    +++ L  T    +           + L  L L       + ++  L  L +
Sbjct: 192 -ISVLAKLTNLESLIATNNQISDIT---PLGILTNLDELSLNGNQLKDIGTLASLTNLTD 247

Query: 833 LRISG 837
           L ++ 
Sbjct: 248 LDLAN 252

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 67.0 bits (164), Expect = 3e-11
 Identities = 96/605 (15%), Positives = 183/605 (30%), Gaps = 122/605 (20%)

Query: 573  LPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNL-PNEIGNLKHLRCLNL 629
            LP +    D   N L   +        P L+V  L  C  I  +      +L HL  L L
Sbjct: 26   LPFSTKNLDLSFNPL-RHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLIL 83

Query: 630  SRTRIQ-ILPESINSLYNLHTILLEDCHQLKKL-CKDMGNLRKLHHLRNSTANSLKEM-- 685
            +   IQ +   + + L +L  ++  + + L  L    +G+L+ L  L  +  N ++    
Sbjct: 84   TGNPIQSLALGAFSGLSSLQKLVAVETN-LASLENFPIGHLKTLKELNVAH-NLIQSFKL 141

Query: 686  PKGFGKLTSL--LTLGRFVVGKDSGSGLRELKSLTHLQGTLRISK--------------- 728
            P+ F  LT+L  L L    +     + LR L  +  L  +L +S                
Sbjct: 142  PEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIR 201

Query: 729  -----LENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHR-- 781
                 L N  D  +  +  +     LE   L       +  ++   E    S L+     
Sbjct: 202  LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLG----EFRNEGNLEKFDKSALEGLCNL 257

Query: 782  DVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGV 841
             ++E  +         I    +  + ++   L   T   +         + L +      
Sbjct: 258  TIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCK-- 315

Query: 842  KSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCH-K 900
                   +G   ++   SL+ L+F   +        G     +   P L  L L      
Sbjct: 316  -------FGQFPTLKLKSLKRLTFTSNK--------GGNAFSEVDLPSLEFLDLSRNGLS 360

Query: 901  LQGTLP---KRLLLLETLVIKSCQ--QLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAV 955
             +G           L+ L +       +      L  L  L                   
Sbjct: 361  FKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQH--------------- 405

Query: 956  NVRKQAYFWRSETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSK 1015
                                  + L+      +   +               L +L +S 
Sbjct: 406  ----------------------SNLKQMSEFSVFLSLR-------------NLIYLDISH 430

Query: 1016 CEGLTRL-PQALLTLSSLTEMRISGCASLVSFPQAALP--SHLRTVKIEDCNALESLPEA 1072
                          LSSL  ++++G +   +F         +L  + +     LE L   
Sbjct: 431  TH-TRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ-CQLEQLSPT 488

Query: 1073 WMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEAWMQNSNTSL 1130
              ++  SSL+ L + + N+  S         + L+ +     N +++  +  +Q+  +SL
Sbjct: 489  AFNSL-SSLQVLNMSH-NNFFSLDTFPYKCLNSLQVLDYSL-NHIMTSKKQELQHFPSSL 545

Query: 1131 ESLRI 1135
              L +
Sbjct: 546  AFLNL 550

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 62.0 bits (151), Expect = 1e-09
 Identities = 79/513 (15%), Positives = 145/513 (28%), Gaps = 93/513 (18%)

Query: 1007 RLQFLKLSKCEGLTRL-PQALLTLSSLTEMRISGCASLVSFPQAAL--PSHLRTVKIEDC 1063
             LQ L LS+CE +  +   A  +LS L+ + ++G   + S    A    S L+ +   + 
Sbjct: 53   ELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVET 110

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCNSLVSFP---EVALPSQLRTVKIEYCNALISLPE 1120
            N L SL    + +   +L+ L + + N + SF      +  + L  + +   N + S+  
Sbjct: 111  N-LASLENFPIGH-LKTLKELNVAH-NLIQSFKLPEYFSNLTNLEHLDLSS-NKIQSIYC 166

Query: 1121 AW---MQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSS 1177
                 +        SL +                 L +L +    N  +L   +      
Sbjct: 167  TDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRN--NFDSLNVMKTCIQGL 224

Query: 1178 RGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGN--------------LPQALKYL 1223
             G         E      LE         L  L+                  L   L  +
Sbjct: 225  AGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNV 284

Query: 1224 RVEDCS--KLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESF 1281
                     +E + +   N   + + +         P     L  L+++         +F
Sbjct: 285  SSFSLVSVTIERVKDFSYNFGWQHLELVNC-KFGQFPT--LKLKSLKRLTFTSNKGGNAF 341

Query: 1282 PEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSL 1341
             E  LPS +  +L+                 TSL  L++     +           L+ L
Sbjct: 342  SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHL 401

Query: 1342 EVRGLKISKPLPEWGFNRFTSLRRF------------TICGGCPDLVS------------ 1377
            + +   + +      F    +L                I  G   L              
Sbjct: 402  DFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF 461

Query: 1378 PPPFPASLTNL----------------WISDMPDLES-----------ISSIGENLTSLE 1410
             P     L NL                  + +  L+             +   + L SL+
Sbjct: 462  LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQ 521

Query: 1411 TLRL-FNCPKLKYFPE---QGLPKSLSRLSIHN 1439
             L    N   +    +   Q  P SL+ L++  
Sbjct: 522  VLDYSLN--HIMTSKKQELQHFPSSLAFLNLTQ 552

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 58.9 bits (143), Expect = 9e-09
 Identities = 99/533 (18%), Positives = 162/533 (30%), Gaps = 115/533 (21%)

Query: 582  HNYLAWSVLQRLLNHLPRLRVFSLRGCG-NIFNLPNEIGNLKHLRCLNLSRTRIQ-ILPE 639
               LA S+    + HL  L+  ++       F LP    NL +L  L+LS  +IQ I   
Sbjct: 109  ETNLA-SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCT 167

Query: 640  SINSLYNLHTILLE---DCHQLKKLCKDMGNLRKLHHLR-NSTANSLKEMPKGFGKLTSL 695
             +  L+ +  + L      + +  +        +LH L   +  +SL  M      L  L
Sbjct: 168  DLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGL 227

Query: 696  ----LTLGRFV----VGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKV 747
                L LG F     + K   S L  L +LT  +   R++ L+      D      N   
Sbjct: 228  EVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEE--FRLAYLDY---YLDDIIDLFNCLT 282

Query: 748  NLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSK 807
            N+ +           +L     E   +     +   Q L +      +FP          
Sbjct: 283  NVSSF----------SLVSVTIER--VKDFSYNFGWQHLELVNCKFGQFP----TLKLKS 326

Query: 808  LARLELRRCTSTSLPSVGQLPFLKELRISG--MDGVKSVGSEFYGNSRSVPFPSLETLSF 865
            L RL        +  S   LP L+ L +S   +          +G        SL+ L  
Sbjct: 327  LKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGT------TSLKYLDL 380

Query: 866  FDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLPKRLLL----LETLVIKSCQ 921
                     +             +L  L   H   L+      + L    L  L I    
Sbjct: 381  SFNG--VITMSSNFLG-----LEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTH 432

Query: 922  --QLIV-TIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRSETRLPQDIRSLN 978
                       L +L  L++ G                                     N
Sbjct: 433  TRVAFNGIFNGLSSLEVLKMAG-------------------------------------N 455

Query: 979  RLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRL-PQALLTLSSLTEMRI 1037
              Q +  P + + +               L FL LS+C  L +L P A  +LSSL  + +
Sbjct: 456  SFQENFLPDIFTELR-------------NLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNM 501

Query: 1038 SGCASLVSFPQAALP--SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRN 1088
            S   +  S         + L+ +     N + +  +  + +  SSL  L +  
Sbjct: 502  SHN-NFFSLDTFPYKCLNSLQVLDYSL-NHIMTSKKQELQHFPSSLAFLNLTQ 552

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 49.3 bits (118), Expect = 8e-06
 Identities = 27/136 (19%), Positives = 43/136 (31%), Gaps = 8/136 (5%)

Query: 568 HLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIF--NLPNEIGNLKHLR 625
              T    +L                ++ LP L    L   G  F             L+
Sbjct: 318 QFPTLKLKSLKRLTFTSNKGGNAFSEVD-LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLK 376

Query: 626 CLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKL--CKDMGNLRKLHHLRNSTANSLK 683
            L+LS   +  +  +   L  L  +  +    LK++       +LR L +L  S     +
Sbjct: 377 YLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISH-THTR 434

Query: 684 EMPKG-FGKLTSLLTL 698
               G F  L+SL  L
Sbjct: 435 VAFNGIFNGLSSLEVL 450

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 48.9 bits (117), Expect = 1e-05
 Identities = 47/275 (17%), Positives = 81/275 (29%), Gaps = 51/275 (18%)

Query: 1196 LEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLK 1255
            + ++    C  L F     NLP + K L              L    L  +      +  
Sbjct: 7    VPNITY-QCMELNFYKIPDNLPFSTKNLD-------------LSFNPLRHLGSYSFFSFP 52

Query: 1256 SL--------------PADLHNLHHLQKIWINYCPNLESFPEEGL-PSTKLTELTIYDCE 1300
             L                   +L HL  + +     ++S         + L +L   +  
Sbjct: 53   ELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGN-PIQSLALGAFSGLSSLQKLVAVETN 111

Query: 1301 NLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFN 1358
                    + +L +L  L +           + F   TNL+ L++   KI          
Sbjct: 112  LASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD--- 168

Query: 1359 RFTSLRRFTICGGCPDL-------VSPPPFPA-SLTNLWISD-MPDLESISSIGENLTSL 1409
                L +  +     DL       + P  F    L  L + +    L  + +  + L  L
Sbjct: 169  -LRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGL 227

Query: 1410 ETLRL-----FNCPKLKYFPEQGLPKSLSRLSIHN 1439
            E  RL      N   L+ F +  L + L  L+I  
Sbjct: 228  EVHRLVLGEFRNEGNLEKFDKSAL-EGLCNLTIEE 261

>3fxi_A TLR4, htoll, TOLL-like receptor 4; leucine rich repeat, glycoprotein, immune response, inflamma response, innate immunity, membrane, receptor; HET: PA1 KDO GMH FTT DAO MYR NAG GCS; 3.10A {Homo sapiens} Length = 605

 Score = 43.9 bits (104), Expect = 5e-04
 Identities = 68/382 (17%), Positives = 124/382 (32%), Gaps = 46/382 (12%)

Query: 1004 SPCRLQFLKLSKCEGLTRLPQAL------LTLSSLTEMRISGCASLVSFPQAALPSHLRT 1057
               RL  L L        + +        L +  L         +L  F ++AL   L  
Sbjct: 198  KEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEG-LCN 256

Query: 1058 VKIEDCNALESLPEAW-----MHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYC 1112
            + IE+   L  L         + N  +++ S  + +  ++    + +     + +++   
Sbjct: 257  LTIEE-FRLAYLDYYLDDIIDLFNCLTNVSSFSLVS-VTIERVKDFSYNFGWQHLELVN- 313

Query: 1113 NALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQD 1172
                  P         SL+ L           + + LP SL+ L +SR  N  +  G   
Sbjct: 314  CKFGQFPT----LKLKSLKRLTFTSNKGGNAFSEVDLP-SLEFLDLSR--NGLSFKGC-- 364

Query: 1173 ICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRV-EDCSK 1230
               S  G TSL Y   S N + TM  +        L  L    +  + +    V      
Sbjct: 365  CSQSDFGTTSLKYLDLSFNGVITMSSNF--LGLEQLEHLDFQHSNLKQMSEFSVFLSLRN 422

Query: 1231 LESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPS-T 1289
            L  L   + +T                    + L  L+ + +      E+F  +      
Sbjct: 423  LIYL--DISHTHTRVA----------FNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELR 470

Query: 1290 KLTELTIYDCENLKAL-PNCMHNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGL 1346
             LT L +  C  L+ L P   ++L+SL +L +    +  S     +    +LQ L+    
Sbjct: 471  NLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLDYSLN 528

Query: 1347 KISKPLPEWGFNRFTSLRRFTI 1368
             I     +   +  +SL    +
Sbjct: 529  HIMTSKKQELQHFPSSLAFLNL 550

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 64.7 bits (158), Expect = 1e-10
 Identities = 74/460 (16%), Positives = 153/460 (33%), Gaps = 54/460 (11%)

Query: 1007 RLQFLKLSKCEGLTRLP-QALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDC-- 1063
             LQ L   +   L  L    +  L +L E+ ++    + SF      S+L  ++  D   
Sbjct: 101  SLQKLVAVET-NLASLENFPIGHLKTLKELNVAHN-LIQSFKLPEYFSNLTNLEHLDLSS 158

Query: 1064 NALESLPE---AWMHNSNSSLESLKIRNCNSLVSFPEVALPS-QLRTVKIEYCNALISLP 1119
            N ++S+       +H       SL +   N +      A    +L  + +      +++ 
Sbjct: 159  NKIQSIYCTDLRVLHQMPLLNLSLDLSL-NPMNFIQPGAFKEIRLHKLTLRNNFDSLNVM 217

Query: 1120 EAWMQN-SNTSLESLRIKGCDSLKYIARIQLP--PSLKRLIVSRCWNLRTLIGEQDICSS 1176
            +  +Q  +   +  L +    +   + +        L  L +             DI   
Sbjct: 218  KTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDL 277

Query: 1177 SRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQA--LKYLRVEDCS--KL 1231
                T+++ FS     +  + +        +L  ++          LK L+    +  K 
Sbjct: 278  FNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKG 337

Query: 1232 ESLAERLDNTSLEEITIS--VLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPST 1289
             +    +D  SLE + +S   L               L+ + +++   + +     L   
Sbjct: 338  GNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNFLGLE 396

Query: 1290 KLTELTIYDCENLKALPN--CMHNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRG 1345
            +L  L      NLK +       +L +L+ L+I             F   ++L+ L++ G
Sbjct: 397  QLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTH-TRVAFNGIFNGLSSLEVLKMAG 454

Query: 1346 LKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESIS-SIGE 1404
                +      F    +L                        L +S    LE +S +   
Sbjct: 455  NSFQENFLPDIFTELRNLTF----------------------LDLSQC-QLEQLSPTAFN 491

Query: 1405 NLTSLETLRLFNCPKLKYFPEQGLP--KSLSRLSIHNCPL 1442
            +L+SL+ L + +  +LK  P+       SL ++ +H  P 
Sbjct: 492  SLSSLQVLNMASN-QLKSVPDGIFDRLTSLQKIWLHTNPW 530

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 62.8 bits (153), Expect = 6e-10
 Identities = 98/601 (16%), Positives = 178/601 (29%), Gaps = 124/601 (20%)

Query: 573  LPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNE-IGNLKHLRCLNL 629
            LP +    D   N L   +        P L+V  L  C  I  + +    +L HL  L L
Sbjct: 26   LPFSTKNLDLSFNPLR-HLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLIL 83

Query: 630  SRTRIQILPESI-NSLYNLHTILLEDCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPK 687
            +   IQ L     + L +L  ++  +   L  L     G+L+ L  L  +  N ++    
Sbjct: 84   TGNPIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAH-NLIQSFKL 141

Query: 688  G--FGKLTSL--LTLGRFVVGKDSGSGLRELKSLTHLQGTLRISK--------------- 728
               F  LT+L  L L    +     + LR L  +  L  +L +S                
Sbjct: 142  PEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIR 201

Query: 729  -----LENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDV 783
                 L N  D  +  +  +     LE   L       +  ++   E    S L+   ++
Sbjct: 202  LHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLG----EFRNEGNLEKFDKSALEGLCNL 257

Query: 784  QELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPF---LKELRISGMDG 840
                        +   +    F+ L  +      S ++  V    +    + L +     
Sbjct: 258  TIEEFRLAYLDYYLDDI-IDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCK- 315

Query: 841  VKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHK 900
                    +G   ++   SL+ L+F   +                  P L  L L     
Sbjct: 316  --------FGQFPTLKLKSLKRLTFTSNKGGN--AFSEVD------LPSLEFLDLSRNG- 358

Query: 901  LQGTLPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQ 960
                       L      S      +     +L  L +                      
Sbjct: 359  -----------LSFKGCCSQ-----SDFGTTSLKYLDLSFNG------------------ 384

Query: 961  AYFWRSETRLPQDIRSLNRLQ---ISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCE 1017
                     +  +   L +L+         L  +      +     S   L +L +S   
Sbjct: 385  ------VITMSSNFLGLEQLEHLDFQHS-NLKQM-----SEFSVFLSLRNLIYLDISHTH 432

Query: 1018 GLTRLPQALLT-LSSLTEMRISGCASLVSFPQAALPSHLRTVKIED--CNALESLPEAWM 1074
                    +   LSSL  ++++G  S        + + LR +   D     LE L     
Sbjct: 433  -TRVAFNGIFNGLSSLEVLKMAGN-SFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAF 490

Query: 1075 HNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEY------CNALISLPEAWMQNS 1126
            ++  SSL+ L + + N L S P+      + L+ + +        C  +  L   W+  +
Sbjct: 491  NSL-SSLQVLNMAS-NQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSR-WLNKN 547

Query: 1127 N 1127
            +
Sbjct: 548  S 548

>2z63_A TOLL-like receptor 4, variable lymphocyte recepto; TLR4, MD-2, LPS, immune system; HET: NAG FUL; 2.00A {Homo sapiens} Length = 570

 Score = 51.3 bits (123), Expect = 2e-06
 Identities = 65/366 (17%), Positives = 114/366 (31%), Gaps = 66/366 (18%)

Query: 1149 LPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNL 1207
            LP S K L +S    LR L        S      L     S  E+   +E    +  S+L
Sbjct: 26   LPFSTKNLDLSFN-PLRHLGS-----YSFFSFPELQVLDLSRCEI-QTIEDGAYQSLSHL 78

Query: 1208 AFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSL---------- 1257
            + L   GN  Q+L        S L+ L      T+L  +    + +LK+L          
Sbjct: 79   STLILTGNPIQSLALGAFSGLSSLQKL--VAVETNLASLENFPIGHLKTLKELNVAHNLI 136

Query: 1258 -----PADLHNLHHLQKIWINYCP---------------------------NLESFPEEG 1285
                 P    NL +L+ + ++                               +       
Sbjct: 137  QSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGA 196

Query: 1286 LPSTKLTELTIYDCEN-LKALPNCMHNLTSLLIL-----EIRGCPSVVSFPEDGFP---- 1335
                +L +LT+ +  + L  +  C+  L  L +      E R   ++  F +        
Sbjct: 197  FKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCN 256

Query: 1336 TNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPD 1395
              ++   +  L          FN  T++  F++     + V    +     +L + +   
Sbjct: 257  LTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCK- 315

Query: 1396 LESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPLIEKRCRKDEGKYW 1455
                 ++   L SL+ L   +      F E  LP SL  L +    L  K C        
Sbjct: 316  FGQFPTL--KLKSLKRLTFTSNKGGNAFSEVDLP-SLEFLDLSRNGLSFKGCCSQSDFGT 372

Query: 1456 PMISHL 1461
              + +L
Sbjct: 373  TSLKYL 378

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 64.7 bits (158), Expect = 1e-10
 Identities = 81/466 (17%), Positives = 153/466 (32%), Gaps = 67/466 (14%)

Query: 1008 LQFLKLSKCEGLTRL-PQALLTLSSLTEMRISGCASLVSFPQAAL--PSHLRTVKIEDCN 1064
            L FL L++C+ +  +      +   L  + ++    L+   + AL  P  L+ +      
Sbjct: 59   LTFLDLTRCQ-IYWIHEDTFQSQHRLDTLVLTAN-PLIFMAETALSGPKALKHLFFIQ-T 115

Query: 1065 ALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEAW 1122
             + S+    +HN   +LESL + + N + S          +L+ +  +  NA+  L +  
Sbjct: 116  GISSIDFIPLHNQ-KTLESLYLGS-NHISSIKLPKGFPTEKLKVLDFQN-NAIHYLSKED 172

Query: 1123 MQN-SNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCT 1181
            M +    +  SL + G D              + L      NL  +         +    
Sbjct: 173  MSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKG----LKNSTIQ 228

Query: 1182 SLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL--D 1239
            SL   +         E +     S   F    G    +++ + ++      +++      
Sbjct: 229  SLWLGT--------FEDMDDEDISPAVF---EGLCEMSVESINLQKH-YFFNISSNTFHC 276

Query: 1240 NTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPE---EGLPSTKLTELTI 1296
             + L+E+ ++   +L  LP+ L  L  L+K+ ++     E+  +      PS  LT L+I
Sbjct: 277  FSGLQELDLTAT-HLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPS--LTHLSI 332

Query: 1297 YDCENLKAL-PNCMHNLTSLLILEIRGCP-SVVSFPEDGFP--TNLQSLEVRGLKISKPL 1352
                    L   C+ NL +L  L++                  ++LQSL +   +    L
Sbjct: 333  KGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLS-L 391

Query: 1353 PEWGFNRFTSLR-------RFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGE- 1404
                F     L        R  +        +       L  L +S       +    E 
Sbjct: 392  KTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLH----LLKVLNLSHS----LLDISSEQ 443

Query: 1405 ---NLTSLETLRLFNCPKLKYFPEQGLP-----KSLSRLSIHNCPL 1442
                L +L+ L L           Q          L  L +  C L
Sbjct: 444  LFDGLPALQHLNLQGN-HFPKGNIQKTNSLQTLGRLEILVLSFCDL 488

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 56.6 bits (137), Expect = 4e-08
 Identities = 78/603 (12%), Positives = 174/603 (28%), Gaps = 107/603 (17%)

Query: 573  LPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNE-IGNLKHLRCLNL 629
            LP +    ++  N L  ++     + L  L    L  C  I+ +  +   +   L  L L
Sbjct: 31   LPNSTECLEFSFNVL-PTIQNTTFSRLINLTFLDLTRC-QIYWIHEDTFQSQHRLDTLVL 88

Query: 630  SRTRIQILP-ESINSLYNLHTILLEDCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPK 687
            +   +  +   +++    L  +       +  +      N + L  L   + N +  +  
Sbjct: 89   TANPLIFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGS-NHISSIKL 146

Query: 688  G-FGKLTSL--LTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLN 744
                    L  L      +   S   +  L+  T+L  +L ++                N
Sbjct: 147  PKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNL--SLNLNG---------------N 189

Query: 745  NKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTKF----PIWL 800
            +   +E      +     N    +    +   LK +  +Q L +  +         P   
Sbjct: 190  DIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLK-NSTIQSLWLGTFEDMDDEDISPAVF 248

Query: 801  GDSSFSKLARLELRRCTSTSLP--SVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFP 858
                   +  + L++    ++   +      L+EL ++    +  + S   G        
Sbjct: 249  EGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTA-THLSELPSGLVG------LS 301

Query: 859  SLETLSF----FDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTLP---KRLLL 911
            +L+ L      F+       +   +       FP L  LS+    K         + L  
Sbjct: 302  TLKKLVLSANKFEN------LCQISASN----FPSLTHLSIKGNTKRLELGTGCLENLEN 351

Query: 912  LETL-----VIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFWRS 966
            L  L      I++     + ++ L  L  L +   +                        
Sbjct: 352  LRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNE--------------------PLSL 391

Query: 967  ETRLPQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQAL 1026
            +T   ++   L  L ++   +L          Q   ++   L+ L LS    L    + L
Sbjct: 392  KTEAFKECPQLELLDLAFT-RLKVK-----DAQSPFQNLHLLKVLNLSHSL-LDISSEQL 444

Query: 1027 LT-LSSLTEMRISGCASLVSFPQAALP-----SHLRTVKIEDCNALESLPEAWMHNSNSS 1080
               L +L  + + G                    L  + +     L S+ +    +    
Sbjct: 445  FDGLPALQHLNLQGN-HFPKGNIQKTNSLQTLGRLEILVLSF-CDLSSIDQHAFTSL-KM 501

Query: 1081 LESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKG--- 1137
            +  + + + N L S    AL            N +  +  + +    +   ++ ++    
Sbjct: 502  MNHVDLSH-NRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPI-LSQQRTINLRQNPL 559

Query: 1138 -CD 1139
             C 
Sbjct: 560  DCT 562

>3t6q_A CD180 antigen; protein-protein complex, leucine rich repeat, MD-2 related L recognition, receptor, innate immunity, glycosylation, IMMU; HET: NAG BMA MAN; 1.90A {Mus musculus} PDB: 3b2d_A* 3rg1_A* Length = 606

 Score = 43.9 bits (104), Expect = 4e-04
 Identities = 52/291 (17%), Positives = 97/291 (33%), Gaps = 33/291 (11%)

Query: 1007 RLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALP--SHLRTVKIEDCN 1064
             LQ L L+    L+ LP  L+ LS+L ++ +S      +  Q +      L  + I+   
Sbjct: 279  GLQELDLTATH-LSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKGNT 336

Query: 1065 ALESLPEAWMHNSNSSLESLKIRNCN-SLVSFPEVALP--SQLRTVKIEYCNALISLPEA 1121
                L    + N   +L  L + + +        + L   S L+++ + Y N  +SL   
Sbjct: 337  KRLELGTGCLEN-LENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSY-NEPLSLKTE 394

Query: 1122 WMQNSNTSLESL-----RIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSS 1176
              +     LE L     R+K  D+            LK L +S    L     +      
Sbjct: 395  AFKEC-PQLELLDLAFTRLKVKDAQSPFQN---LHLLKVLNLSHS-LLDISSEQ-----L 444

Query: 1177 SRGCTSLTYFS-SENELPTMLEHLQVRF--CSNLAFLSRNGNLPQALKYLRVEDCSKLES 1233
              G  +L + +   N  P               L  L  +      L  +     + L+ 
Sbjct: 445  FDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFC---DLSSIDQHAFTSLKM 501

Query: 1234 LAE-RLDNTSLEEITISVLENLKSLPADLHN--LHHLQKIWINYCPNLESF 1281
            +    L +  L   +I  L +LK +  +L +  +  +    +       + 
Sbjct: 502  MNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTI 552

>3qfl_A MLA10; coiled-coil, (CC) domain, NLRS, nucleotide-binding domain, L rich repeat containing receptors, protein binding; 2.00A {Hordeum vulgare} Length = 115

 Score = 57.9 bits (140), Expect = 4e-10
 Identities = 29/139 (20%), Positives = 54/139 (38%), Gaps = 30/139 (21%)

Query: 11  ASVELLIEKLASKGLELFTRHKKLEADFIKWKRMLKMIKAVLADAEDRQTK--DESVKTW 68
           A++  LI KL     E F  HK ++ +     + L+ + A L    +   +  D   K W
Sbjct: 1   AAISNLIPKLGELLTEEFKLHKGVKKNIEDLGKELESMNAALIKIGEVPREQLDSQDKLW 60

Query: 69  LDDLQNLAYDAEDVLDELETEALRRELLRQEPAAADQPSSSANTSKFRKLIPTCCTNFSP 128
            D+++ L+Y  EDV+D+   +              D   S  N +KF+ L+         
Sbjct: 61  ADEVRELSYVIEDVVDKFLVQ-------------VDGIKSDDNNNKFKGLM--------- 98

Query: 129 RSIQFESKMASQIEEVTAR 147
                  +    +++V  +
Sbjct: 99  ------KRTTELLKKVKHK 111

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 62.1 bits (151), Expect = 4e-10
 Identities = 52/282 (18%), Positives = 98/282 (34%), Gaps = 41/282 (14%)

Query: 1192 LPTMLEHLQVRFCSNLAFLSRN--GNLPQALKYLRVEDCSKLESLAERL--DNTSLEEIT 1247
            L   ++ L +   + + ++S +        L+ L +     + ++ E       SLE + 
Sbjct: 50   LTEAVKSLDLSN-NRITYISNSDLQRCVN-LQALVLTSN-GINTIEEDSFSSLGSLEHLD 106

Query: 1248 ISVLEN-LKSLPADL-HNLHHLQKIWINYCPNLESFPEEGLPS--TKLTELTIYDCENLK 1303
            +S   N L +L +     L  L  + +   P  ++  E  L S  TKL  L + + +   
Sbjct: 107  LS--YNYLSNLSSSWFKPLSSLTFLNLLGNP-YKTLGETSLFSHLTKLQILRVGNMDTFT 163

Query: 1304 ALP-NCMHNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRF 1360
             +       LT L  LEI     + S+         N+  L +   +    L E   +  
Sbjct: 164  KIQRKDFAGLTFLEELEIDASD-LQSYEPKSLKSIQNVSHLILHMKQHIL-LLEIFVDVT 221

Query: 1361 TSLRRFTICGGCPDLVSPPPFPA----------SLTNLWISDMPDLESISSIGENLTSLE 1410
            +S+    +     D                   +  N+ I+D   L  +  +   ++ L 
Sbjct: 222  SSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDES-LFQVMKLLNQISGLL 280

Query: 1411 TLRLFNCPKLKYFPE---QGLPKSLSRLSIHN------CPLI 1443
             L      +LK  P+     L  SL ++ +H       CP I
Sbjct: 281  ELEFSRN-QLKSVPDGIFDRLT-SLQKIWLHTNPWDCSCPRI 320

>2z80_A TOLL-like receptor 2, variable lymphocyte recepto; TLR2, lipopeptide, innate immunity, glycoprotein, immune RES inflammatory response; HET: NAG; 1.80A {Homo sapiens} Length = 353

 Score = 46.7 bits (111), Expect = 3e-05
 Identities = 56/291 (19%), Positives = 104/291 (35%), Gaps = 31/291 (10%)

Query: 563 ICDVQHLR-TFLPVNLS------DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLP 615
           IC         +P  L+      D  +N +   +    L     L+   L     I  + 
Sbjct: 35  ICKGSSGSLNSIPSGLTEAVKSLDLSNNRIT-YISNSDLQRCVNLQALVLTSN-GINTIE 92

Query: 616 NEI-GNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQLKKLCKDM--GNLRKL 671
            +   +L  L  L+LS   +  L  S    L +L  + L      K L +     +L KL
Sbjct: 93  EDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGN-PYKTLGETSLFSHLTKL 151

Query: 672 HHLRNSTANSLKEMPKG-FGKLTSL--LTLGRFVVGKDSGSGLRELKSLTHLQGTLRISK 728
             LR    ++  ++ +  F  LT L  L +    +       L+ +++++HL   L + +
Sbjct: 152 QILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHL--ILHMKQ 209

Query: 729 LENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTI 788
              +       E  ++   ++E L L+ +  D  +    E  T   + L      + + I
Sbjct: 210 HILL------LEIFVDVTSSVECLELRDTDLDTFHF--SELSTGETNSLIKKFTFRNVKI 261

Query: 789 TGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPS--VGQLPFLKELRISG 837
           T     +    L     S L  LE  R    S+P     +L  L+++ +  
Sbjct: 262 TDESLFQVMKLLNQ--ISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLHT 310

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 61.2 bits (149), Expect = 7e-10
 Identities = 48/265 (18%), Positives = 96/265 (36%), Gaps = 44/265 (16%)

Query: 1192 LPTMLEHLQVRFCSNLAFLSRN--GNLPQALKYLRVEDC--SKLESLAERLDN-TSLEEI 1246
            +P+    L++     L  L       L Q L  L +     S     ++     TSL+ +
Sbjct: 26   IPSSATRLELESN-KLQSLPHGVFDKLTQ-LTKLSLSSNGLSFKGCCSQSDFGTTSLKYL 83

Query: 1247 TISVLEN-LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPS--TKLTELTIYDCENLK 1303
             +S   N + ++ ++   L  L+ +   +  NL+   E  +      L  L I    + +
Sbjct: 84   DLS--FNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHT-HTR 139

Query: 1304 ALPNCM-HNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRF 1360
               N + + L+SL +L++ G     +F  D F    NL  L++   ++ + L    FN  
Sbjct: 140  VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQ-LSPTAFNSL 198

Query: 1361 TSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKL 1420
            +SL+                   ++++     +          + L SL+ L       +
Sbjct: 199  SSLQVL-----------------NMSHNNFFSLDT-----FPYKCLNSLQVLDYSLN-HI 235

Query: 1421 KYFPE---QGLPKSLSRLSIHNCPL 1442
                +   Q  P SL+ L++     
Sbjct: 236  MTSKKQELQHFPSSLAFLNLTQNDF 260

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 45.8 bits (109), Expect = 6e-05
 Identities = 26/142 (18%), Positives = 55/142 (38%), Gaps = 14/142 (9%)

Query: 1007 RLQFLKLSKCEGLTRLPQALLT-LSSLTEMRISGCASLVSFPQAALP--SHLRTVKIEDC 1063
             L +L +S           +   LSSL  ++++G +   +F         +L  + +   
Sbjct: 127  NLIYLDISHTH-TRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ- 184

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEA 1121
              LE L     ++  SSL+ L + + N+  S         + L+ +     N +++  + 
Sbjct: 185  CQLEQLSPTAFNSL-SSLQVLNMSH-NNFFSLDTFPYKCLNSLQVLDYSL-NHIMTSKKQ 241

Query: 1122 WMQNSNTSLESLRIKG----CD 1139
             +Q+  +SL  L +      C 
Sbjct: 242  ELQHFPSSLAFLNLTQNDFACT 263

>2z66_A Variable lymphocyte receptor B, TOLL-like recepto; TLR4, TOLL-like receptor, MD-2, LPS, leucine-rich repeat, glycoprotein, immune response; HET: NAG BMA FUL; 1.90A {Eptatretus burgeri} Length = 306

 Score = 45.8 bits (109), Expect = 6e-05
 Identities = 28/148 (18%), Positives = 53/148 (35%), Gaps = 19/148 (12%)

Query: 564 CDVQHLRTF---LPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCG--NIFNLPN 616
           C+ + L +    +P + +  +   N L  S+   + + L +L   SL   G         
Sbjct: 14  CNSKGLTSVPTGIPSSATRLELESNKLQ-SLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQ 72

Query: 617 EIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKL-----CKDMGNLRKL 671
                  L+ L+LS   +  +  +   L  L  +  +    LK++        + NL  L
Sbjct: 73  SDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYL 131

Query: 672 HHLRNSTANSLKEMPKG-FGKLTSLLTL 698
             + +      +    G F  L+SL  L
Sbjct: 132 -DISH---THTRVAFNGIFNGLSSLEVL 155

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 61.4 bits (149), Expect = 1e-09
 Identities = 69/460 (15%), Positives = 141/460 (30%), Gaps = 41/460 (8%)

Query: 1007 RLQFLKLSKCEGLTRLP-QALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNA 1065
            +L+ L +S    +  L          L  + +S    LV        + L+ + +   NA
Sbjct: 46   KLRILIISHNR-IQYLDISVFKFNQELEYLDLSHN-KLVKISCHPTVN-LKHLDL-SFNA 101

Query: 1066 LESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQN 1125
             ++LP      + S L+ L +     L     + +     +  +          E     
Sbjct: 102  FDALPICKEFGNMSQLKFLGLST-THLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGL 160

Query: 1126 SNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTY 1185
             + + ESL I             L  S+K +      N++ ++      +      S+  
Sbjct: 161  QDFNTESLHIV--FPTNKEFHFILDVSVKTVANLELSNIKCVL----EDNKCSYFLSILA 214

Query: 1186 FSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAER---LDNTS 1242
                N   + L    +    N             + Y  + +      L  R      TS
Sbjct: 215  KLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQLDFRDFDYSGTS 274

Query: 1243 LEEITISVLEN--LKSLPADL-HNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDC 1299
            L+ ++I  + +       + +     ++                  L  +K++     D 
Sbjct: 275  LKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVS-GTRMVHM--LCPSKISPFLHLDF 331

Query: 1300 EN--LKALP-NCMHNLTSLLILEIRGCPSVVSFPEDGFP----TNLQSLEVRGLKISKPL 1352
             N  L         +LT L  L ++    +    +         +LQ L++    +S   
Sbjct: 332  SNNLLTDTVFENCGHLTELETLILQMN-QLKELSKIAEMTTQMKSLQQLDISQNSVSYDE 390

Query: 1353 PEWGFNRFTSLRRFTICG-GCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLET 1411
             +   +   SL    +      D +     P  +  L +     ++SI      L +L+ 
Sbjct: 391  KKGDCSWTKSLLSLNMSSNILTDTI-FRCLPPRIKVLDLHS-NKIKSIPKQVVKLEALQE 448

Query: 1412 LRLFNCPKLKYFPEQGLP--KSLSRLSIHN------CPLI 1443
            L + +  +LK  P+       SL ++ +H       CP I
Sbjct: 449  LNVASN-QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRI 487

>2z7x_B TOLL-like receptor 1, variable lymphocyte recepto; TLR2, TLR1, lipopeptide, innate immunity, glycoPro immune response, inflammatory response, leucine-rich repeat membrane, receptor; HET: NAG NDG MAN BMA PCJ; 2.10A {Homo sapiens} Length = 520

 Score = 46.8 bits (111), Expect = 5e-05
 Identities = 76/457 (16%), Positives = 144/457 (31%), Gaps = 46/457 (10%)

Query: 615  PNEIGNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH 673
             ++I +L  LR L +S  RIQ L  S+      L  + L    +L K+         L H
Sbjct: 38   TSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHN-KLVKI--SCHPTVNLKH 94

Query: 674  LRNSTANSLKEMPKG--FGKLTSLLTLGRFVVGKDSGSGLRE--LKSLTHLQGTLRISKL 729
            L  S  N+   +P    FG ++ L  LG       S + L +  +  + HL    ++  +
Sbjct: 95   LDLSF-NAFDALPICKEFGNMSQLKFLGL------STTHLEKSSVLPIAHLN-ISKVLLV 146

Query: 730  ENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTIT 789
                         L +       ++  + ++   +     +T     L   + V E    
Sbjct: 147  LGETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLEDNKC 206

Query: 790  GYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRISGMDGVKSVGSEFY 849
             Y  +       +   S L  L     T  S   + QL +   +    +  VK  G    
Sbjct: 207  SYFLSILAKLQTNPKLSNL-TLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQ-LD 264

Query: 850  GNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGTL---P 906
                     SL+ LS   +       P      + E+F  +   +       +      P
Sbjct: 265  FRDFDYSGTSLKALSIHQVVSDVFGFP---QSYIYEIFSNMNIKNF-TVSGTRMVHMLCP 320

Query: 907  KRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSS-PHLVHAV-NVRKQAYFW 964
             ++     L   +        +    L+EL+    +         +      ++      
Sbjct: 321  SKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLD 380

Query: 965  RSETRLPQDI--------RSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKC 1016
             S+  +  D         +SL  L +S    L   +            P R++ L L   
Sbjct: 381  ISQNSVSYDEKKGDCSWTKSLLSLNMSSN-ILTDTIFRCL--------PPRIKVLDLHSN 431

Query: 1017 EGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPS 1053
            + +  +P+ ++ L +L E+ ++    L S P      
Sbjct: 432  K-IKSIPKQVVKLEALQELNVASN-QLKSVPDGIFDR 466

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 60.8 bits (148), Expect = 1e-09
 Identities = 57/347 (16%), Positives = 115/347 (33%), Gaps = 50/347 (14%)

Query: 989  LSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLT-LSSLTEMRISGCASLVSFP 1047
            + + T++ +   +  +    + +       + +LP ALL     +  + ++    +    
Sbjct: 28   IDMQTQDVYFGFEDITLNNQKIVTFKNST-MRKLPAALLDSFRQVELLNLNDL-QIEEID 85

Query: 1048 QAALP--SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQ 1103
              A      ++ + +   NA+  LP     N    L  L +   N L S P        +
Sbjct: 86   TYAFAYAHTIQKLYMGF-NAIRYLPPHVFQN-VPLLTVLVLER-NDLSSLPRGIFHNTPK 142

Query: 1104 LRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWN 1163
            L T+ +   N L  + +   Q   TSL++L++     L ++  + L PSL    VS    
Sbjct: 143  LTTLSMSN-NNLERIEDDTFQA-TTSLQNLQLSSN-RLTHVD-LSLIPSLFHANVSYN-L 197

Query: 1164 LRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKY 1222
            L TL              ++     S N +      ++      L  L    N      +
Sbjct: 198  LSTL----------AIPIAVEELDASHNSI----NVVRGPVNVELTILKLQHNNLTDTAW 243

Query: 1223 LRVEDCSKLESLAERLDNTSLEEITISVLENLKSL-------------PADLHNLHHLQK 1269
            L   +   L  +   L    LE+I       ++ L                   +  L+ 
Sbjct: 244  LL--NYPGLVEV--DLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKV 299

Query: 1270 IWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALP-NCMHNLTSL 1315
            + +++  +L           +L  L +    ++  L  +  H L +L
Sbjct: 300  LDLSHN-HLLHVERNQPQFDRLENLYLDHN-SIVTLKLSTHHTLKNL 344

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 45.8 bits (109), Expect = 8e-05
 Identities = 37/242 (15%), Positives = 85/242 (35%), Gaps = 32/242 (13%)

Query: 610 NIFNLPNEIGNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQLKKLCKDM-GN 667
           +++    +I  L + + +    + ++ LP ++ +S   +  + L D  Q++++       
Sbjct: 34  DVYFGFEDI-TLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDL-QIEEIDTYAFAY 91

Query: 668 LRKLHHLRNSTANSLKEMPKG-FGKLTSL--LTLGR---FVVGKDSGSGLRELKSLTHLQ 721
              +  L     N+++ +P   F  +  L  L L R     + +       +L +L  + 
Sbjct: 92  AHTIQKL-YMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTL-SMS 149

Query: 722 GTLRISKLENVKDVGDASEAQLNNKVNLEALLLKW------SARDVQNLDQCEFETHVLS 775
               + ++E         +       +L+ L L            + +L       ++LS
Sbjct: 150 NN-NLERIE---------DDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYNLLS 199

Query: 776 VLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKELRI 835
            L     V+EL  +                 +L  L+L+    T    +   P L E+ +
Sbjct: 200 TLAIPIAVEELDASHNSINVVR----GPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDL 255

Query: 836 SG 837
           S 
Sbjct: 256 SY 257

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 45.0 bits (107), Expect = 1e-04
 Identities = 14/94 (14%), Positives = 32/94 (34%), Gaps = 5/94 (5%)

Query: 582 HNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESI 641
           +N L   ++      + RL    +     +  L      +  L+ L+LS   +  +  + 
Sbjct: 257 YNELE-KIMYHPFVKMQRLERLYISNN-RLVALNLYGQPIPTLKVLDLSHNHLLHVERNQ 314

Query: 642 NSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLR 675
                L  + L+  + +  L   +     L +L 
Sbjct: 315 PQFDRLENLYLDH-NSIVTL--KLSTHHTLKNLT 345

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 44.3 bits (105), Expect = 2e-04
 Identities = 17/103 (16%), Positives = 35/103 (33%), Gaps = 5/103 (4%)

Query: 597 LPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDC 655
              L +  L+   N       + N   L  ++LS   ++ +       +  L  + + + 
Sbjct: 225 NVELTILKLQH--NNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISN- 281

Query: 656 HQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
           ++L  L      +  L  L  S  N L  + +   +   L  L
Sbjct: 282 NRLVALNLYGQPIPTLKVLDLSH-NHLLHVERNQPQFDRLENL 323

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 58.5 bits (142), Expect = 2e-09
 Identities = 32/201 (15%), Positives = 67/201 (33%), Gaps = 36/201 (17%)

Query: 1253 NLKSLPAD-LHNLHHLQKIWINYCPNLESFPE---EGLPSTKLTELTIYDCENLKALP-N 1307
            +L+++P+    NL ++ +I+++    L+         L    +T + I +  NL  +  +
Sbjct: 42   HLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSK--VTHIEIRNTRNLTYIDPD 99

Query: 1308 CMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFT 1367
             +  L  L  L I     +  FP+     +     +  L+I+           TS+    
Sbjct: 100  ALKELPLLKFLGIFNTG-LKMFPDLTKVYSTDIFFI--LEIT------DNPYMTSIPVNA 150

Query: 1368 ICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGE---NLTSLETLRLFNCPKLKYFP 1424
              G                 L + +       +S+     N T L+ + L     L    
Sbjct: 151  FQG----------LCNETLTLKLYNN----GFTSVQGYAFNGTKLDAVYLNKNKYLTVID 196

Query: 1425 E---QGLPKSLSRLSIHNCPL 1442
            +    G+    S L +    +
Sbjct: 197  KDAFGGVYSGPSLLDVSQTSV 217

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 45.4 bits (108), Expect = 6e-05
 Identities = 34/173 (19%), Positives = 65/173 (37%), Gaps = 20/173 (11%)

Query: 1007 RLQFLKLSKCEGLTRLP-QALLTLSSLTEMRISGCASLVSFPQAA---LPSHLRTVKIED 1062
             +  + +S    L +L   +   LS +T + I    +L      A   LP  L+ + I +
Sbjct: 56   NISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPL-LKFLGIFN 114

Query: 1063 CNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVA---LPSQLRTVKIEYCNALISLP 1119
               L+  P+     S      L+I +   + S P  A   L ++  T+K+   N   S+ 
Sbjct: 115  -TGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYN-NGFTSVQ 172

Query: 1120 EAWMQN--SNTSLESLRIKGCDSLKYIAR---IQLPPSLKRLIVSRCWNLRTL 1167
                    + T L+++ +     L  I +     +      L VS+  ++  L
Sbjct: 173  G----YAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQT-SVTAL 220

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 42.7 bits (101), Expect = 4e-04
 Identities = 23/124 (18%), Positives = 43/124 (34%), Gaps = 30/124 (24%)

Query: 1323 CPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFP 1382
            C  +   P    P + Q+L++    +   +P   F+   ++ R                 
Sbjct: 20   CKDIQRIP--SLPPSTQTLKLIETHLRT-IPSHAFSNLPNISR----------------- 59

Query: 1383 ASLTNLWISDMPDLESISS-IGENLTSLETLRLFNCPKLKYFPE---QGLPKSLSRLSIH 1438
                 +++S    L+ + S    NL+ +  + + N   L Y      + LP  L  L I 
Sbjct: 60   -----IYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPL-LKFLGIF 113

Query: 1439 NCPL 1442
            N  L
Sbjct: 114  NTGL 117

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 42.3 bits (100), Expect = 5e-04
 Identities = 16/111 (14%), Positives = 38/111 (34%), Gaps = 10/111 (9%)

Query: 595 NHLPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPE--SINSLYNLHTIL 651
            +L ++    +R   N+  +  +    L  L+ L +  T +++ P+   + S      + 
Sbjct: 77  YNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILE 136

Query: 652 LEDCHQLKKL----CKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
           + D   +  +     + + N      L N   N    +       T L  +
Sbjct: 137 ITDNPYMTSIPVNAFQGLCNETLTLKLYN---NGFTSVQGYAFNGTKLDAV 184

>2xwt_C Thyrotropin receptor; signaling protein-immune system complex, GPCR, graves' disea autoimmunity, receptor-autoantibody complex; HET: NAG BMA MAN; 1.90A {Homo sapiens} PDB: 3g04_C* Length = 239

 Score = 41.9 bits (99), Expect = 8e-04
 Identities = 42/277 (15%), Positives = 78/277 (28%), Gaps = 75/277 (27%)

Query: 1002 PESPCRLQFLKLSKCEGLTRLPQ-ALLTLSSLTEMRISGCASLVSFPQAA---LPSHLRT 1057
            P  P   Q LKL +   L  +P  A   L +++ + +S   +L      +   L   +  
Sbjct: 27   PSLPPSTQTLKLIET-HLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSK-VTH 84

Query: 1058 VKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVA---LPSQLRTVKIEYCNA 1114
            ++I +   L  +    +      L+ L I N   L  FP++           ++I     
Sbjct: 85   IEIRNTRNLTYIDPDALKE-LPLLKFLGIFN-TGLKMFPDLTKVYSTDIFFILEITDNPY 142

Query: 1115 LISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQ----LPPSLKRLIVSRCWNLRTLIGE 1170
            + S+P    Q       +L++           +Q        L  + +++   L  +   
Sbjct: 143  MTSIPVNAFQGLCNETLTLKLYNNG----FTSVQGYAFNGTKLDAVYLNKNKYLTVI--- 195

Query: 1171 QDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSK 1230
                                                 AF      +      L       
Sbjct: 196  ----------------------------------DKDAFG----GVYSGPSLLD------ 211

Query: 1231 LESLAERLDNTSLEEITISVLENLKSLPADLHNLHHL 1267
                   +  TS+  +    LE+LK L     N   L
Sbjct: 212  -------VSQTSVTALPSKGLEHLKEL--IARNTWTL 239

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 60.1 bits (146), Expect = 3e-09
 Identities = 58/320 (18%), Positives = 107/320 (33%), Gaps = 67/320 (20%)

Query: 1149 LPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNL 1207
            +P   + L + +  N    + + +          L     +EN + + +E        NL
Sbjct: 30   IPTETRLLDLGK--NRIKTLNQDEF----ASFPHLEELELNENIV-SAVEPGAFNNLFNL 82

Query: 1208 AFLSRNGNLPQALKYLRVEDCSKLESLAE-RLDNTSLEEITISVLENLKSL--------- 1257
              L    N    LK + +   + L +L +  +    +  +   + ++L +L         
Sbjct: 83   RTLGLRSNR---LKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDND 139

Query: 1258 -----PADLHNLHHLQKIWINYCPNLESFPEEGLPS-TKLTELTIYDCENLKALPNCM-H 1310
                       L+ L+++ +  C NL S P E L     L  L +    N+ A+ +    
Sbjct: 140  LVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHL-NINAIRDYSFK 197

Query: 1311 NLTSLLILEIRGCPSVVSFPEDGF-PTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTIC 1369
             L  L +LEI   P + +   +     NL SL +    ++  +P         LR     
Sbjct: 198  RLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTA-VPYLAVRHLVYLRF---- 252

Query: 1370 GGCPDLVSPPPFPASLTNLWISDMPDLESISSIGE----NLTSLETLRLFNCPKLKYFPE 1425
                              L +S  P    IS+I       L  L+ ++L    +L     
Sbjct: 253  ------------------LNLSYNP----ISTIEGSMLHELLRLQEIQLVGG-QLAVVEP 289

Query: 1426 ---QGLPKSLSRLSIHNCPL 1442
               +GL   L  L++    L
Sbjct: 290  YAFRGLN-YLRVLNVSGNQL 308

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 54.3 bits (131), Expect = 2e-07
 Identities = 46/252 (18%), Positives = 98/252 (38%), Gaps = 22/252 (8%)

Query: 1204 CSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL--DNTSLEEITISVLEN-LKSLPAD 1260
            C    F++    +P   + L +    ++++L +        LEE+ ++  EN + ++   
Sbjct: 18   CHRKRFVAVPEGIPTETRLLDLGKN-RIKTLNQDEFASFPHLEELELN--ENIVSAVEPG 74

Query: 1261 -LHNLHHLQKIWINYCPNLESFPEEGLPS-TKLTELTIYDCENLKALP-NCMHNLTSLLI 1317
              +NL +L+ + +     L+  P       + LT+L I +   +  L      +L +L  
Sbjct: 75   AFNNLFNLRTLGLRSN-RLKLIPLGVFTGLSNLTKLDISEN-KIVILLDYMFQDLYNLKS 132

Query: 1318 LEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDL 1375
            LE+     +V      F    +L+ L +    ++  +P    +    L    +     + 
Sbjct: 133  LEVGDND-LVYISHRAFSGLNSLEQLTLEKCNLTS-IPTEALSHLHGLIVLRLRHLNINA 190

Query: 1376 VSPPPFP--ASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPE---QGLPK 1430
            +    F     L  L IS  P L++++       +L +L + +C  L   P    + L  
Sbjct: 191  IRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLV- 248

Query: 1431 SLSRLSIHNCPL 1442
             L  L++   P+
Sbjct: 249  YLRFLNLSYNPI 260

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 49.7 bits (119), Expect = 5e-06
 Identities = 40/185 (21%), Positives = 71/185 (38%), Gaps = 26/185 (14%)

Query: 564 CDVQHLRTFLPVNLS------DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNE 617
           C  +     +P  +       D   N +  ++ Q      P L    L     +  +   
Sbjct: 18  CHRKRF-VAVPEGIPTETRLLDLGKNRIK-TLNQDEFASFPHLEELELNEN-IVSAVEPG 74

Query: 618 I-GNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCH--QLKKLC-KDMGNLRKLH 672
              NL +LR L L   R++++P  +   L NL  + + +     L     +D+ NL+ L 
Sbjct: 75  AFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSL- 133

Query: 673 HLRNSTANSLKEMPKG-FGKLTSL--LTLGR---FVVGKDSGSGLRELKSLTHLQGTLRI 726
            + +   N L  +    F  L SL  LTL +     +  ++ S L  L  L  L+  L I
Sbjct: 134 EVGD---NDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVL-RLRH-LNI 188

Query: 727 SKLEN 731
           + + +
Sbjct: 189 NAIRD 193

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 46.6 bits (111), Expect = 5e-05
 Identities = 32/141 (22%), Positives = 62/141 (43%), Gaps = 14/141 (9%)

Query: 1007 RLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALP--SHLRTVKIEDCN 1064
            RL+ L++S    L  +    L   +LT + I+ C +L + P  A+    +LR + +   N
Sbjct: 201  RLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSY-N 258

Query: 1065 ALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQLRTVKIEYCNALISLPEAW 1122
             + ++  + +H     L+ +++     L      A    + LR + +   N L +L E+ 
Sbjct: 259  PISTIEGSMLHE-LLRLQEIQLVG-GQLAVVEPYAFRGLNYLRVLNVSG-NQLTTLEESV 315

Query: 1123 MQNSNTSLESLRIKG----CD 1139
               S  +LE+L +      CD
Sbjct: 316  FH-SVGNLETLILDSNPLACD 335

>2id5_A Lingo-1, leucine rich repeat neuronal 6A; CNS-specific LRR-IG containing, ligand binding protein,membr protein; HET: NAG MAN; 2.70A {Homo sapiens} Length = 477

 Score = 44.3 bits (105), Expect = 3e-04
 Identities = 19/124 (15%), Positives = 43/124 (34%), Gaps = 12/124 (9%)

Query: 581 RHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPE- 639
           RH  +  ++       L RL+V  +     +  +        +L  L+++   +  +P  
Sbjct: 184 RHLNIN-AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYL 242

Query: 640 SINSLYNLHTILLEDCHQLKKLC----KDMGNLRKLHHLRNSTANSLKEMPKG-FGKLTS 694
           ++  L  L  + L     +  +      ++  L+++  L       L  +    F  L  
Sbjct: 243 AVRHLVYLRFLNLSYN-PISTIEGSMLHELLRLQEI-QLVG---GQLAVVEPYAFRGLNY 297

Query: 695 LLTL 698
           L  L
Sbjct: 298 LRVL 301

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 59.2 bits (143), Expect = 7e-09
 Identities = 58/393 (14%), Positives = 120/393 (30%), Gaps = 52/393 (13%)

Query: 989  LSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLT-LSSLTEMRISGCASLVSFP 1047
            + + T++ +   +  +    + +       + +LP ALL     +  + ++    +    
Sbjct: 34   IDMQTQDVYFGFEDITLNNQKIVTFKNST-MRKLPAALLDSFRQVELLNLNDLQ-IEEID 91

Query: 1048 QAALP--SHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALP--SQ 1103
              A      ++ + +   NA+  LP     N    L  L +   N L S P        +
Sbjct: 92   TYAFAYAHTIQKLYMGF-NAIRYLPPHVFQN-VPLLTVLVLER-NDLSSLPRGIFHNTPK 148

Query: 1104 LRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWN 1163
            L T+ +   N L  + +   Q   TSL++L++     L ++  + L PSL    VS    
Sbjct: 149  LTTLSMSN-NNLERIEDDTFQA-TTSLQNLQLSSN-RLTHVD-LSLIPSLFHANVSYN-L 203

Query: 1164 LRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKY 1222
            L TL              ++     S N +      ++      L  L    N      +
Sbjct: 204  LSTL----------AIPIAVEELDASHNSI----NVVRGPVNVELTILKLQHNNLTDTAW 249

Query: 1223 LRVEDCSKLESLAERLDNTSLEEITISVLENLKSL-------------PADLHNLHHLQK 1269
            L   +   L  +   L    LE+I       ++ L                   +  L+ 
Sbjct: 250  LL--NYPGLVEV--DLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKV 305

Query: 1270 IWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSF 1329
            + +++  +L           +L  L +    ++  L   +    +L  L +         
Sbjct: 306  LDLSHN-HLLHVERNQPQFDRLENLYLDHN-SIVTLK--LSTHHTLKNLTLSHND-WDCN 360

Query: 1330 PEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTS 1362
                   N+    V        +     +    
Sbjct: 361  SLRALFRNVARPAVDDADQHCKIDYQLEHGLCC 393

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 48.0 bits (114), Expect = 2e-05
 Identities = 41/251 (16%), Positives = 85/251 (33%), Gaps = 45/251 (17%)

Query: 596 HLPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLE 653
            L   ++ + +    +  LP  +  + + +  LNL+  +I+ +        + +  + + 
Sbjct: 49  TLNNQKIVTFKNS-TMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMG 107

Query: 654 DCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPKG-FGKLTSL--LTLGR---FVVGKD 706
               ++ L   +  N+  L  L     N L  +P+G F     L  L++       +  D
Sbjct: 108 FN-AIRYLPPHVFQNVPLLTVLVLE-RNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDD 165

Query: 707 SGSGLRELKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQ 766
           +      L++L  L    R++ ++            L+   +L    +        NL  
Sbjct: 166 TFQATTSLQNL-QLSSN-RLTHVD------------LSLIPSLFHANVS------YNL-- 203

Query: 767 CEFETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQ 826
                  LS L     V+EL  +                 +L  L+L+    T    +  
Sbjct: 204 -------LSTLAIPIAVEELDASHNSINVVR----GPVNVELTILKLQHNNLTDTAWLLN 252

Query: 827 LPFLKELRISG 837
            P L E+ +S 
Sbjct: 253 YPGLVEVDLSY 263

>3oja_B Anopheles plasmodium-responsive leucine-rich REPE 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 597

 Score = 46.8 bits (111), Expect = 4e-05
 Identities = 14/94 (14%), Positives = 32/94 (34%), Gaps = 5/94 (5%)

Query: 582 HNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESI 641
           +N L   ++      + RL    +     +  L      +  L+ L+LS   +  +  + 
Sbjct: 263 YNELE-KIMYHPFVKMQRLERLYISNN-RLVALNLYGQPIPTLKVLDLSHNHLLHVERNQ 320

Query: 642 NSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLR 675
                L  + L+  + +  L   +     L +L 
Sbjct: 321 PQFDRLENLYLDH-NSIVTL--KLSTHHTLKNLT 351

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 57.5 bits (139), Expect = 1e-08
 Identities = 48/251 (19%), Positives = 85/251 (33%), Gaps = 32/251 (12%)

Query: 1088 NCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGCDSLKYIAR- 1146
              + +   P   LP     ++      L  + +         LE + I   D L+ I   
Sbjct: 17   QESKVTEIPS-DLPRNAIELRFVL-TKLRVIQKGAFSG-FGDLEKIEISQNDVLEVIEAD 73

Query: 1147 --IQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENEL----------P 1193
                LP  L  + + +  NL  +    +     +   +L Y   S   +           
Sbjct: 74   VFSNLP-KLHEIRIEKANNLLYI--NPEAF---QNLPNLQYLLISNTGIKHLPDVHKIHS 127

Query: 1194 TMLEHLQVRFCSNLAFLSRN--GNLPQALKYLRVEDCSKLESLAER-LDNTSLEEITISV 1250
                 L ++   N+  + RN    L      L +     ++ +     + T L+E+ +S 
Sbjct: 128  LQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKN-GIQEIHNSAFNGTQLDELNLSD 186

Query: 1251 LENLKSLPAD-LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCM 1309
              NL+ LP D  H       + I+    + S P  GL    L +L      NLK LP  +
Sbjct: 187  NNNLEELPNDVFHGASGPVILDISRTR-IHSLPSYGL--ENLKKLRARSTYNLKKLPT-L 242

Query: 1310 HNLTSLLILEI 1320
              L +L+   +
Sbjct: 243  EKLVALMEASL 253

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 52.5 bits (126), Expect = 5e-07
 Identities = 37/199 (18%), Positives = 62/199 (31%), Gaps = 16/199 (8%)

Query: 1253 NLKSLPAD-LHNLHHLQKIWINYCPNLESFPEE---GLPSTKLTELTIYDCENLKALPNC 1308
             L+ +          L+KI I+    LE    +    LP  KL E+ I    NL  +   
Sbjct: 41   KLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLP--KLHEIRIEKANNLLYINPE 98

Query: 1309 M-HNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRFTSLRR 1365
               NL +L  L I     +   P+           L+++       +    F   +    
Sbjct: 99   AFQNLPNLQYLLISNTG-IKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESV 157

Query: 1366 FTICGGCP-DLVSPPPFPA-SLTNLWISDMPDLESISS-IGENLTSLETLRLFNCPKLKY 1422
                       +    F    L  L +SD  +LE + + +    +    L +     +  
Sbjct: 158  ILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTR-IHS 216

Query: 1423 FPEQGLPK--SLSRLSIHN 1439
             P  GL     L   S +N
Sbjct: 217  LPSYGLENLKKLRARSTYN 235

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 45.2 bits (107), Expect = 1e-04
 Identities = 22/111 (19%), Positives = 41/111 (36%), Gaps = 11/111 (9%)

Query: 595 NHLPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILL 652
           ++LP+L    +    N+  +  E   NL +L+ L +S T I+ LP+           + +
Sbjct: 76  SNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDI 135

Query: 653 EDCHQLKKL-----CKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
           +D   +  +              L  L     N ++E+       T L  L
Sbjct: 136 QDNINIHTIERNSFVGLSFESVIL-WLNK---NGIQEIHNSAFNGTQLDEL 182

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 44.8 bits (106), Expect = 1e-04
 Identities = 27/140 (19%), Positives = 47/140 (33%), Gaps = 14/140 (10%)

Query: 596 HLPRLRVFSLRGCGNIFNLPNEI--GNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
           H  +  +  ++   NI  +      G       L L++  IQ +  S  +   L  + L 
Sbjct: 126 HSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLS 185

Query: 654 DCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPKG-FGKLTSLLTLGRFVVGKDSGSGL 711
           D + L++L  D+         L  S    +  +P      L  L           S   L
Sbjct: 186 DNNNLEELPNDVFHGASGPVILDISR-TRIHSLPSYGLENLKKLRAR--------STYNL 236

Query: 712 RELKSLTHLQGTLRISKLEN 731
           ++L +L  L   L  + L  
Sbjct: 237 KKLPTLEKLVA-LMEASLTY 255

>4ay9_X Follicle-stimulating hormone receptor; hormone-receptor complex, leucine-rich repeats, LRR, GPCR; HET: TYS NAG; 2.50A {Homo sapiens} PDB: 1xwd_C* Length = 350

 Score = 44.4 bits (105), Expect = 2e-04
 Identities = 23/118 (19%), Positives = 47/118 (39%), Gaps = 9/118 (7%)

Query: 622 KHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQLKKLCKDM-GNLRKLHHLRNSTA 679
           ++   L    T+++++ +   +   +L  I +     L+ +  D+  NL KLH +R   A
Sbjct: 30  RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA 89

Query: 680 NSLKEMPKG-FGKLTSL--LTLGR---FVVGKDSGSGLRELKSLTHLQGTLRISKLEN 731
           N+L  +    F  L +L  L +       +         +   L  +Q  + I  +E 
Sbjct: 90  NNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLL-DIQDNINIHTIER 146

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 57.4 bits (139), Expect = 2e-08
 Identities = 47/261 (18%), Positives = 88/261 (33%), Gaps = 39/261 (14%)

Query: 1203 FCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERL--DNTSLEEITISVLEN-LKSLPA 1259
             C+          +P   +YL + + + ++ +          LE + +    N ++ +  
Sbjct: 60   VCTRRGLSEVPQGIPSNTRYLNLME-NNIQMIQADTFRHLHHLEVLQLG--RNSIRQIEV 116

Query: 1260 D-LHNLHHLQKIWINYCPNLESFPEE---GLPSTKLTELTIYDCENLKALPNCM-HNLTS 1314
               + L  L  + +     L   P      L    L EL + +   ++++P+   + + S
Sbjct: 117  GAFNGLASLNTLELFDN-WLTVIPSGAFEYLSK--LRELWLRNN-PIESIPSYAFNRVPS 172

Query: 1315 LLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGC 1372
            L+ L++     +    E  F    NL+ L +    I   +P         L    + G  
Sbjct: 173  LMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKD-MPN--LTPLVGLEELEMSGN- 228

Query: 1373 PDLVSPPPFP----ASLTNLWISDMPDLESISSIGE----NLTSLETLRLFNCPKLKYFP 1424
                   P      +SL  LW+ +      +S I       L SL  L L +   L   P
Sbjct: 229  -HFPEIRPGSFHGLSSLKKLWVMNS----QVSLIERNAFDGLASLVELNLAHN-NLSSLP 282

Query: 1425 E---QGLPKSLSRLSIHNCPL 1442
                  L   L  L +H+ P 
Sbjct: 283  HDLFTPLR-YLVELHLHHNPW 302

>3zyi_A Leucine-rich repeat-containing protein 4; cell adhesion, LRRC4 complex, synapse; HET: NAG; 2.60A {Homo sapiens} PDB: 3zyo_A* 3zyn_A* 2dl9_A Length = 452

 Score = 45.5 bits (108), Expect = 1e-04
 Identities = 25/124 (20%), Positives = 50/124 (40%), Gaps = 13/124 (10%)

Query: 581 RHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPE 639
           R+N +  S+     N +P L    L     +  +       L +L+ LNL    I+ +P 
Sbjct: 155 RNNPIE-SIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMP- 212

Query: 640 SINSLYNLHTILLEDCHQLKKLC----KDMGNLRKLHHLRNSTANSLKEMPKG-FGKLTS 694
           ++  L  L  + +       ++       + +L+KL  + N   + +  + +  F  L S
Sbjct: 213 NLTPLVGLEELEMSGN-HFPEIRPGSFHGLSSLKKL-WVMN---SQVSLIERNAFDGLAS 267

Query: 695 LLTL 698
           L+ L
Sbjct: 268 LVEL 271

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 57.1 bits (138), Expect = 2e-08
 Identities = 45/259 (17%), Positives = 91/259 (35%), Gaps = 35/259 (13%)

Query: 1203 FCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAER-LDN-TSLEEITISVLEN-LKSLPA 1259
             C           +    + L + +  +++ +      +   LE + +S   N ++++  
Sbjct: 49   ICVRKNLREVPDGISTNTRLLNLHEN-QIQIIKVNSFKHLRHLEILQLS--RNHIRTIEI 105

Query: 1260 D-LHNLHHLQKIWINYCPNLESFPEE---GLPSTKLTELTIYDCENLKALPNCM-HNLTS 1314
               + L +L  + +     L + P      L    L EL + +   ++++P+   + + S
Sbjct: 106  GAFNGLANLNTLELFDN-RLTTIPNGAFVYLSK--LKELWLRNN-PIESIPSYAFNRIPS 161

Query: 1315 LLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGC 1372
            L  L++     +    E  F   +NL+ L +    + + +P         L    + G  
Sbjct: 162  LRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLRE-IPN--LTPLIKLDELDLSGNH 218

Query: 1373 PDLVSPPPFP--ASLTNLWISDMPDLESISSIGE----NLTSLETLRLFNCPKLKYFPE- 1425
               + P  F     L  LW+        I  I      NL SL  + L +   L   P  
Sbjct: 219  LSAIRPGSFQGLMHLQKLWMIQS----QIQVIERNAFDNLQSLVEINLAHN-NLTLLPHD 273

Query: 1426 --QGLPKSLSRLSIHNCPL 1442
                L   L R+ +H+ P 
Sbjct: 274  LFTPLH-HLERIHLHHNPW 291

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 47.4 bits (113), Expect = 3e-05
 Identities = 26/121 (21%), Positives = 48/121 (39%), Gaps = 7/121 (5%)

Query: 581 RHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPE 639
           R+N +  S+     N +P LR   L     +  +       L +LR LNL+   ++ +P 
Sbjct: 144 RNNPIE-SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREIP- 201

Query: 640 SINSLYNLHTILLEDCHQLKKLCKDM-GNLRKLHHLRNSTANSLKEMPKG-FGKLTSLLT 697
           ++  L  L  + L     L  +       L  L  L     + ++ + +  F  L SL+ 
Sbjct: 202 NLTPLIKLDELDLSGN-HLSAIRPGSFQGLMHLQKLWMIQ-SQIQVIERNAFDNLQSLVE 259

Query: 698 L 698
           +
Sbjct: 260 I 260

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 56.9 bits (137), Expect = 4e-08
 Identities = 66/308 (21%), Positives = 105/308 (34%), Gaps = 66/308 (21%)

Query: 1019 LTRLPQALLT-LSSLTEMRISGC--ASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMH 1075
            ++       +      +  + G      VS  +  L +    +++     L SLP+    
Sbjct: 22   ISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNR-LNLSSLPD---- 76

Query: 1076 NSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRI 1135
            N    +  L+I   N+L+S PE  LP+ L  +     N L +LPE        SL+ L +
Sbjct: 77   NLPPQITVLEITQ-NALISLPE--LPASLEYLDACD-NRLSTLPELP-----ASLKHLDV 127

Query: 1136 KGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTM 1195
                 L  +   +LP  L+ +       L  L                       ELPT 
Sbjct: 128  DNN-QLTMLP--ELPALLEYINADNN-QLTML----------------------PELPTS 161

Query: 1196 LEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAE---RLDNTSLEEITISVLE 1252
            LE L VR    L FL     LP++L+ L V     LESL     R  ++   EI     E
Sbjct: 162  LEVLSVRNN-QLTFLP---ELPESLEALDVSTN-LLESLPAVPVRNHHSEETEIFFRCRE 216

Query: 1253 N-LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHN 1311
            N +  +P ++ +L     I +   P              L+           A P+    
Sbjct: 217  NRITHIPENILSLDPTCTIILEDNP--------------LSSRIRESLSQQTAQPDYHGP 262

Query: 1312 LTSLLILE 1319
                 + +
Sbjct: 263  RIYFSMSD 270

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 55.0 bits (132), Expect = 1e-07
 Identities = 53/255 (20%), Positives = 83/255 (32%), Gaps = 63/255 (24%)

Query: 1192 LPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLA--ERLDNTSLEEITIS 1249
            +  ML        S  +F +                  K E  A      N ++  +   
Sbjct: 1    MSIMLPINNNFSLSQNSFYNTISGTYADYF----SAWDKWEKQALPGENRNEAVSLLKEC 56

Query: 1250 VLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCM 1309
            ++     L      L+ L          L S P+   P   +T L I     L +LP   
Sbjct: 57   LINQFSEL-----QLNRLN---------LSSLPDNLPPQ--ITVLEITQN-ALISLPELP 99

Query: 1310 HNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTIC 1369
             +L  L   + R    + + PE   P +L+ L+V              N+ T L      
Sbjct: 100  ASLEYLDACDNR----LSTLPEL--PASLKHLDVDN------------NQLTML------ 135

Query: 1370 GGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLP 1429
                     P  PA L  +   +      ++ + E  TSLE L + N  +L + PE  LP
Sbjct: 136  ---------PELPALLEYINADN----NQLTMLPELPTSLEVLSVRNN-QLTFLPE--LP 179

Query: 1430 KSLSRLSIHNCPLIE 1444
            +SL  L +    L  
Sbjct: 180  ESLEALDVSTNLLES 194

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 51.9 bits (124), Expect = 1e-06
 Identities = 52/204 (25%), Positives = 82/204 (40%), Gaps = 44/204 (21%)

Query: 968  TRLPQDI-RSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQAL 1026
            + LP ++   +  L+I++   L+SL          PE P  L++L       L+ LP+  
Sbjct: 72   SSLPDNLPPQITVLEITQN-ALISL----------PELPASLEYLDACDNR-LSTLPE-- 117

Query: 1027 LTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKI 1086
               +SL  + +     L   P   LP+ L  +  ++ N L  LPE       +SLE L +
Sbjct: 118  -LPASLKHLDVDNN-QLTMLP--ELPALLEYINADN-NQLTMLPELP-----TSLEVLSV 167

Query: 1087 RNCNSLVSFPEVALPSQLRTVKIEYCNALISLPE--AWMQNSNTSLESLRIKGCDSLKYI 1144
            RN N L   PE  LP  L  + +   N L SLP       +S  +    R +        
Sbjct: 168  RN-NQLTFLPE--LPESLEALDVST-NLLESLPAVPVRNHHSEETEIFFRCREN------ 217

Query: 1145 ARI-QLPPSLKRLIVSRCWNLRTL 1167
             RI  +P ++  L         T+
Sbjct: 218  -RITHIPENILSL-----DPTCTI 235

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 51.5 bits (123), Expect = 2e-06
 Identities = 23/125 (18%), Positives = 40/125 (32%), Gaps = 24/125 (19%)

Query: 590 LQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLH- 648
           L  L      L          +  LP    +LKHL   ++   ++ +LPE    L  ++ 
Sbjct: 92  LISLPELPASLEYLDACDN-RLSTLPELPASLKHL---DVDNNQLTMLPELPALLEYINA 147

Query: 649 -----TILLEDCHQLKKLC----------KDMGNLRKLHHLRNSTANSLKEMPKGFGKLT 693
                T+L E    L+ L           +   +L  L  +     N L+ +P    +  
Sbjct: 148 DNNQLTMLPELPTSLEVLSVRNNQLTFLPELPESLEAL-DVST---NLLESLPAVPVRNH 203

Query: 694 SLLTL 698
                
Sbjct: 204 HSEET 208

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 50.0 bits (119), Expect = 5e-06
 Identities = 17/112 (15%), Positives = 38/112 (33%), Gaps = 8/112 (7%)

Query: 590 LQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHT 649
           L  L      L V S+R    +  LP    +L+    L++S   ++ LP      ++   
Sbjct: 152 LTMLPELPTSLEVLSVRNN-QLTFLPELPESLEA---LDVSTNLLESLPAVPVRNHHSEE 207

Query: 650 ILLE-DCH--QLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
             +   C   ++  + +++ +L     +     N L    +      +    
Sbjct: 208 TEIFFRCRENRITHIPENILSLDPTCTIILE-DNPLSSRIRESLSQQTAQPD 258

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 50.0 bits (119), Expect = 5e-06
 Identities = 71/356 (19%), Positives = 121/356 (33%), Gaps = 83/356 (23%)

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWM 1123
             A+  L E  ++        L++    +L S P+  LP Q+  ++I   NALISLPE   
Sbjct: 48   EAVSLLKECLINQ----FSELQLNR-LNLSSLPD-NLPPQITVLEI-TQNALISLPE--- 97

Query: 1124 QNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSL 1183
                                     LP SL+ L       L TL                
Sbjct: 98   -------------------------LPASLEYLDACDN-RLSTL---------------- 115

Query: 1184 TYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSL 1243
                   ELP  L+HL V        L+    LP  L+Y+  ++  +L  L E    TSL
Sbjct: 116  ------PELPASLKHLDVDNNQ----LTMLPELPALLEYINADNN-QLTMLPELP--TSL 162

Query: 1244 EEITISVLEN-LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIY-DCEN 1301
            E +++    N L  LP    +L  L    ++    LES P   + +    E  I+  C  
Sbjct: 163  EVLSVR--NNQLTFLPELPESLEAL---DVSTN-LLESLPAVPVRNHHSEETEIFFRCRE 216

Query: 1302 --LKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNR 1359
              +  +P  + +L     + +   P + S   +         +  G +I   + +   N 
Sbjct: 217  NRITHIPENILSLDPTCTIILEDNP-LSSRIRESLSQQTAQPDYHGPRIYFSMSDGQQNT 275

Query: 1360 FTSLRRFTICGGCPDLVSPPPFPASLTNLW--ISDMPDLESISSIGENLTSLETLR 1413
                    +    P+        + ++ +W          + S+  + L+   + R
Sbjct: 276  LHRPLADAVTAWFPENK-----QSDVSQIWHAFEHEEHANTFSAFLDRLSDTVSAR 326

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 49.6 bits (118), Expect = 6e-06
 Identities = 23/103 (22%), Positives = 44/103 (42%), Gaps = 14/103 (13%)

Query: 593 LLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILL 652
           L+N    L++  L    N+ +LP+ +     +  L +++  +  LPE   SL      L 
Sbjct: 57  LINQFSELQLNRL----NLSSLPDNLP--PQITVLEITQNALISLPELPASL----EYLD 106

Query: 653 EDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSL 695
              ++L  L +   +L+ L  + N   N L  +P+    L  +
Sbjct: 107 ACDNRLSTLPELPASLKHL-DVDN---NQLTMLPELPALLEYI 145

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 55.0 bits (133), Expect = 6e-08
 Identities = 14/127 (11%), Positives = 38/127 (29%), Gaps = 4/127 (3%)

Query: 597 LPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCH 656
             +L+   L     +  +  E  +   +  ++L   ++ ++ +++    NL    L    
Sbjct: 190 FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGN- 247

Query: 657 QLKKLCKD--MGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
                         +++  +   T   L    +    + +L   G +            L
Sbjct: 248 GFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRL 307

Query: 715 KSLTHLQ 721
            +L H  
Sbjct: 308 IALGHHH 314

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 52.7 bits (127), Expect = 4e-07
 Identities = 16/106 (15%), Positives = 32/106 (30%), Gaps = 4/106 (3%)

Query: 594 LNHLPRLRVFSLRGCG-NIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILL 652
                R++   L+    +  N      +   L  LNL    I  +   +     L T+ L
Sbjct: 140 EGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDL 198

Query: 653 EDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
               +L  +  +  +   +  +     N L  + K      +L   
Sbjct: 199 SSN-KLAFMGPEFQSAAGVTWISLR-NNKLVLIEKALRFSQNLEHF 242

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 46.5 bits (111), Expect = 4e-05
 Identities = 51/337 (15%), Positives = 103/337 (30%), Gaps = 58/337 (17%)

Query: 1007 RLQFLKLSKCEGLTRLPQALLT-LSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNA 1065
            R +  K++    L +   +L     ++ E+ +SG                        N 
Sbjct: 11   RYKIEKVTDSS-LKQALASLRQSAWNVKELDLSG------------------------NP 45

Query: 1066 LESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQN 1125
            L  +  A +    + LE L + + N L    ++   S LRT+ +   N +  L       
Sbjct: 46   LSQISAADLAP-FTKLELLNLSS-NVLYETLDLESLSTLRTLDLNN-NYVQELLV----- 97

Query: 1126 SNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTY 1185
               S+E+L      ++  +         K + ++   N  T++ + D        + + Y
Sbjct: 98   -GPSIETLHAANN-NISRV-SCSRGQGKKNIYLAN--NKITMLRDLDE----GCRSRVQY 148

Query: 1186 FS-SENELPTMLEHLQVRFCSNLAFLSRNGN----LPQA--LKYLRVEDCS--KLESLAE 1236
                 NE+ T+           L  L+   N    +        L+  D S  KL  +  
Sbjct: 149  LDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGP 208

Query: 1237 RLDN-TSLEEITISVLEN-LKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTEL 1294
               +   +  I++    N L  +   L    +L+   +                +K   +
Sbjct: 209  EFQSAAGVTWISLR--NNKLVLIEKALRFSQNLEHFDLRGNG-FHCGTLRDF-FSKNQRV 264

Query: 1295 TIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPE 1331
                 + +K L        ++  L   G       P 
Sbjct: 265  QTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPA 301

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 43.4 bits (103), Expect = 3e-04
 Identities = 19/108 (17%), Positives = 33/108 (30%), Gaps = 12/108 (11%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
           L  L  LR   L       N   E+     +  L+ +   I  +  S         I L 
Sbjct: 76  LESLSTLRTLDLNN-----NYVQELLVGPSIETLHAANNNISRVSCSR--GQGKKNIYLA 128

Query: 654 DCHQLKKL-CKDMGNLRKLHHLRNSTANSLKEMPKG--FGKLTSLLTL 698
           +  ++  L   D G   ++ +L     N +  +          +L  L
Sbjct: 129 NN-KITMLRDLDEGCRSRVQYLDLK-LNEIDTVNFAELAASSDTLEHL 174

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 53.4 bits (128), Expect = 2e-07
 Identities = 47/300 (15%), Positives = 91/300 (30%), Gaps = 38/300 (12%)

Query: 971  PQDIRSLNRLQISRCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLS 1030
            P    + N L  +         + E   ++        QF  + K   L RL    +  +
Sbjct: 22   PDWSSAFNCLGAADVELYGGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRL---TVRAA 78

Query: 1031 SLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMHNSNSSLESLKIRNCN 1090
             +    + G   ++        S L+ + +E+     + P   +  +   L  L +RN +
Sbjct: 79   RIPSRILFGALRVLGI------SGLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVS 132

Query: 1091 SLVSFPEVA-----LPSQLRTVKIEYCNALISLPEAWMQNSNTSLESL-----RIKGCDS 1140
                   +A     L   L+ + I      ++     ++    +L +L        G   
Sbjct: 133  WATRDAWLAELQQWLKPGLKVLSIAQ-AHSLNFSCEQVRVF-PALSTLDLSDNPELGERG 190

Query: 1141 LKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHL 1199
            L         P+L+ L +     + T  G     + +     L     S N L       
Sbjct: 191  LISALCPLKFPTLQVLALRNA-GMETPSGV--CSALAAARVQLQGLDLSHNSLRDAAGAP 247

Query: 1200 QVRFCSNLAFL--SRN------GNLPQALKYLRVEDCS--KLESLAERLDNTSLEEITIS 1249
               + S L  L  S          LP  L  L   D S  +L+      +   +  +++ 
Sbjct: 248  SCDWPSQLNSLNLSFTGLKQVPKGLPAKLSVL---DLSYNRLDRNPSPDELPQVGNLSLK 304

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 53.3 bits (129), Expect = 3e-07
 Identities = 43/249 (17%), Positives = 85/249 (34%), Gaps = 41/249 (16%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
           + +L  L   +L G   I ++   + NL  L  L +   +I  +  ++ +L NL  + L 
Sbjct: 62  IEYLTNLEYLNLNGN-QITDISP-LSNLVKLTNLYIGTNKITDIS-ALQNLTNLRELYLN 118

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
           +   +  +   + NL K++ L    AN           +T L  L    V +     +  
Sbjct: 119 ED-NISDI-SPLANLTKMYSLNLG-ANHNLSDLSPLSNMTGLNYLT---VTESKVKDVTP 172

Query: 714 LKSLTHLQGTL-----RISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCE 768
           + +LT L  +L     +I  +             L +  +L                  +
Sbjct: 173 IANLTDLY-SLSLNYNQIEDISP-----------LASLTSLHYF----------TAYVNQ 210

Query: 769 FETHVLSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLP 828
                ++ +     +  L I     T        ++ S+L  LE+     + + +V  L 
Sbjct: 211 ITD--ITPVANMTRLNSLKIGNNKITDLS---PLANLSQLTWLEIGTNQISDINAVKDLT 265

Query: 829 FLKELRISG 837
            LK L +  
Sbjct: 266 KLKMLNVGS 274

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 52.9 bits (128), Expect = 4e-07
 Identities = 55/328 (16%), Positives = 115/328 (35%), Gaps = 62/328 (18%)

Query: 1151 PSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAF 1209
                R ++ +  ++  ++ +++         S+T    +  ++   ++ ++  + +NL +
Sbjct: 22   AEGIRAVLQKA-SVTDVVTQEE-------LESITKLVVAGEKV-ASIQGIE--YLTNLEY 70

Query: 1210 LSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEIT-ISVLENLKSL---------PA 1259
            L+ NGN    +  L   +  KL +L   +    + +I+ +  L NL+ L          +
Sbjct: 71   LNLNGNQITDISPL--SNLVKLTNL--YIGTNKITDISALQNLTNLRELYLNEDNISDIS 126

Query: 1260 DLHNLHHLQKIWINYCPNLESFPE-EGLPSTKLTELTIYDCENLKALPNCMHNLTSLLIL 1318
             L NL  +  + +    NL        +  T L  LT+ +   +K +   + NLT L  L
Sbjct: 127  PLANLTKMYSLNLGANHNLSDLSPLSNM--TGLNYLTVTES-KVKDVTP-IANLTDLYSL 182

Query: 1319 EIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTI---------- 1368
             +     +         T+L        +I+   P       T L    I          
Sbjct: 183  SLNYN-QIEDISPLASLTSLHYFTAYVNQITDITP---VANMTRLNSLKIGNNKITDLSP 238

Query: 1369 CGGCPDLV----------SPPPFPASLTNLWISDMPD--LESISSIGENLTSLETLRLFN 1416
                  L                   LT L + ++    +  IS +  NL+ L +L L N
Sbjct: 239  LANLSQLTWLEIGTNQISDINAV-KDLTKLKMLNVGSNQISDISVLN-NLSQLNSLFLNN 296

Query: 1417 CPKLKYFPEQGLP--KSLSRLSIHNCPL 1442
              +L     + +    +L+ L +    +
Sbjct: 297  N-QLGNEDMEVIGGLTNLTTLFLSQNHI 323

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 50.6 bits (122), Expect = 2e-06
 Identities = 55/363 (15%), Positives = 123/363 (33%), Gaps = 59/363 (16%)

Query: 1008 LQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTV-----KIED 1062
                 L K   +T +      L S+T++ ++G   + S       ++L  +     +I D
Sbjct: 24   GIRAVLQKAS-VTDVV-TQEELESITKLVVAGE-KVASIQGIEYLTNLEYLNLNGNQITD 80

Query: 1063 CNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAW 1122
             + L +L           L +L I   N +     +   + LR + +   + +  +    
Sbjct: 81   ISPLSNLV---------KLTNLYIGT-NKITDISALQNLTNLRELYL-NEDNISDISPL- 128

Query: 1123 MQNSNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTS 1182
               + T + SL +    +L  ++ +     L  L V+    ++ +             T 
Sbjct: 129  --ANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTES-KVKDVTPIA-------NLTD 178

Query: 1183 LTYFS-SENELPTMLEHLQVRFCSNLA--FLSRN--------GNLPQALKYLRVEDC--S 1229
            L   S + N++   +  L     ++L       N         N+ + L  L++ +   +
Sbjct: 179  LYSLSLNYNQI-EDISPLA--SLTSLHYFTAYVNQITDITPVANMTR-LNSLKIGNNKIT 234

Query: 1230 KLESLAERLDNTSLEEITISVLEN-LKSLPADLHNLHHLQKIWINYCPNLESFPE-EGLP 1287
             L  LA     + L  + I    N +  + A + +L  L+ + +     +        L 
Sbjct: 235  DLSPLAN---LSQLTWLEIG--TNQISDINA-VKDLTKLKMLNVGSN-QISDISVLNNL- 286

Query: 1288 STKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLK 1347
             ++L  L + + +        +  LT+L  L +     +         + + S +     
Sbjct: 287  -SQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQNH-ITDIRPLASLSKMDSADFANQV 344

Query: 1348 ISK 1350
            I K
Sbjct: 345  IKK 347

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 48.7 bits (117), Expect = 8e-06
 Identities = 60/369 (16%), Positives = 121/369 (32%), Gaps = 79/369 (21%)

Query: 1079 SSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKGC 1138
            +      ++   S+           +  + +     + S+         T+LE L + G 
Sbjct: 22   AEGIRAVLQK-ASVTDVVTQEELESITKLVV-AGEKVASIQGI---EYLTNLEYLNLNGN 76

Query: 1139 DSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELP---- 1193
              +  I+ +     L  L +    N  T I      S+ +  T+L     +E+ +     
Sbjct: 77   -QITDISPLSNLVKLTNLYIG--TNKITDI------SALQNLTNLRELYLNEDNISDISP 127

Query: 1194 ----TMLEHLQVRFCSNLAFLSRNGNLPQALKYLRV-----------EDCSKLESLAERL 1238
                T +  L +    NL+ LS   N+   L YL V            + + L SL   L
Sbjct: 128  LANLTKMYSLNLGANHNLSDLSPLSNMTG-LNYLTVTESKVKDVTPIANLTDLYSL--SL 184

Query: 1239 DNTSLEEIT-ISVLENLKSL---------PADLHNLHHLQKIWINYCPNLESFPE-EGLP 1287
            +   +E+I+ ++ L +L               + N+  L  + I     +        L 
Sbjct: 185  NYNQIEDISPLASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNN-KITDLSPLANL- 242

Query: 1288 STKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLK 1347
             ++LT L I     +  +   + +LT L +L +     +         + L SL +   +
Sbjct: 243  -SQLTWLEIGTN-QISDINA-VKDLTKLKMLNVGSN-QISDISVLNNLSQLNSLFLNNNQ 298

Query: 1348 ISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLT 1407
            +     E        L                    +LT L++S    +  I  +  +L+
Sbjct: 299  LGNEDMEV----IGGLT-------------------NLTTLFLSQNH-ITDIRPLA-SLS 333

Query: 1408 SLETLRLFN 1416
             +++    N
Sbjct: 334  KMDSADFAN 342

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 47.9 bits (115), Expect = 1e-05
 Identities = 41/244 (16%), Positives = 90/244 (36%), Gaps = 31/244 (12%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
              L       L+   ++ ++      L+ +  L ++  ++  +   I  L NL  + L 
Sbjct: 18  DADLAEGIRAVLQKA-SVTDVVT-QEELESITKLVVAGEKVASIQG-IEYLTNLEYLNLN 74

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
              Q+  +   + NL KL +L     N + ++      LT+L  L    + +D+ S +  
Sbjct: 75  GN-QITDI-SPLSNLVKLTNL-YIGTNKITDIS-ALQNLTNLREL---YLNEDNISDISP 127

Query: 714 LKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHV 773
           L +LT +  +L +    N+ D+     + L+N   L  L           + + + +   
Sbjct: 128 LANLTKMY-SLNLGANHNLSDL-----SPLSNMTGLNYL----------TVTESKVKD-- 169

Query: 774 LSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKEL 833
           ++ +    D+  L++      +       +S + L          T +  V  +  L  L
Sbjct: 170 VTPIANLTDLYSLSL---NYNQIEDISPLASLTSLHYFTAYVNQITDITPVANMTRLNSL 226

Query: 834 RISG 837
           +I  
Sbjct: 227 KIGN 230

>4fmz_A Internalin; leucine rich repeat, structural genomic center for structural genomics, JCSG, protein structure INI PSI-biology; HET: MSE; 1.91A {Listeria monocytogenes serotype 4B} Length = 347

 Score = 46.0 bits (110), Expect = 7e-05
 Identities = 34/200 (17%), Positives = 69/200 (34%), Gaps = 20/200 (10%)

Query: 1251 LENLKSLPA------DLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKA 1304
               L +LPA         +L    +  +      +   +E L    +T+L +     + +
Sbjct: 2    AATLATLPAPINQIFPDADLAEGIRAVLQKASVTDVVTQEEL--ESITKLVVAGE-KVAS 58

Query: 1305 LPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLR 1364
            +   +  LT+L  L + G   +           L +L +   KI+           T+LR
Sbjct: 59   IQG-IEYLTNLEYLNLNGN-QITDISPLSNLVKLTNLYIGTNKITDISA---LQNLTNLR 113

Query: 1365 RFTICGGCPDLVSPPPFP--ASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKY 1422
               +     ++    P      + +L +    +L  +S +  N+T L  L +    K+K 
Sbjct: 114  ELYLNED--NISDISPLANLTKMYSLNLGANHNLSDLSPLS-NMTGLNYLTVTES-KVKD 169

Query: 1423 FPEQGLPKSLSRLSIHNCPL 1442
                     L  LS++   +
Sbjct: 170  VTPIANLTDLYSLSLNYNQI 189

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 50.8 bits (122), Expect = 1e-06
 Identities = 47/267 (17%), Positives = 84/267 (31%), Gaps = 73/267 (27%)

Query: 1203 FCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSL----- 1257
             C      +    +P A + +              L    +  +  +     ++L     
Sbjct: 17   SCPQQGLQAVPVGIPAASQRIF-------------LHGNRISHVPAASFRACRNLTILWL 63

Query: 1258 ---------PADLHNLHHLQKIWINYCPNLESFPEE---GLPSTKLTELTIYDCENLKAL 1305
                      A    L  L+++ ++    L S       GL   +L  L +  C  L+ L
Sbjct: 64   HSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLG--RLHTLHLDRC-GLQEL 120

Query: 1306 PNCM-HNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRFTS 1362
               +   L +L  L ++   ++ + P+D F    NL  L + G            NR +S
Sbjct: 121  GPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHG------------NRISS 167

Query: 1363 LRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGE----NLTSLETLRLFNCP 1418
            +      G    L S       L  L +        ++ +      +L  L TL LF   
Sbjct: 168  VPERAFRG----LHS-------LDRLLLHQN----RVAHVHPHAFRDLGRLMTLYLFAN- 211

Query: 1419 KLKYFPE---QGLPKSLSRLSIHNCPL 1442
             L   P      L  +L  L +++ P 
Sbjct: 212  NLSALPTEALAPLR-ALQYLRLNDNPW 237

>1ozn_A Reticulon 4 receptor; NOGO receptor, MAD, myelination inhibition, OMGP, MAG, NOGO- signal transduction, neuronal regeneration, ligand binding; HET: NDG MAN NAG BMA; 1.52A {Homo sapiens} SCOP: c.10.2.7 PDB: 1p8t_A* 3kj4_A* Length = 285

 Score = 44.2 bits (105), Expect = 2e-04
 Identities = 32/124 (25%), Positives = 47/124 (37%), Gaps = 13/124 (10%)

Query: 582 HNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEI-GNLKHLRCLNLSRTRIQILPES 640
            N LA  +       L  L    L     + ++       L  L  L+L R  +Q L   
Sbjct: 65  SNVLA-RIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPG 123

Query: 641 I-NSLYNLHTILLEDCHQLKKL----CKDMGNLRKLHHLRNSTANSLKEMPKG-FGKLTS 694
           +   L  L  + L+D   L+ L     +D+GNL  L  L     N +  +P+  F  L S
Sbjct: 124 LFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHL-FLHG---NRISSVPERAFRGLHS 178

Query: 695 LLTL 698
           L  L
Sbjct: 179 LDRL 182

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 51.8 bits (125), Expect = 1e-06
 Identities = 114/704 (16%), Positives = 197/704 (27%), Gaps = 205/704 (29%)

Query: 783  VQELTITGYG--GTKFPIWLGDSSFSKLARLELRRCT-STSLPSVGQLPFLKELRISGMD 839
            V  + ++          +     S + L  L L     + S+        L  L +S   
Sbjct: 52   VTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSR-- 109

Query: 840  GVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCH 899
                       NS S P  +L +L                          L+ L++    
Sbjct: 110  -----------NSLSGPVTTLTSLGSC---------------------SGLKFLNVSSNT 137

Query: 900  KLQGTLPKRLLL----LETLVIKSCQ------QLIVTIQCLPALSELQIDGCKRVVFSSP 949
             L         L    LE L + +           V       L  L I G K    S  
Sbjct: 138  -LDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNK---ISGD 193

Query: 950  HLVHAVNVRKQAYFWRSETRLP-QDIRSLNRLQISRC------PQLLSLVTEEEHDQQQP 1002
                                +      +L  L +S        P L              
Sbjct: 194  --------------------VDVSRCVNLEFLDVSSNNFSTGIPFLGDC----------- 222

Query: 1003 ESPCRLQFLKLSKCEGLT-RLPQALLTLSSLTEMRISGCASLV-SFPQAALPSHLRTVKI 1060
                 LQ L +S    L+    +A+ T + L  + IS     V   P   L S L+ + +
Sbjct: 223  ---SALQHLDISGN-KLSGDFSRAISTCTELKLLNISSN-QFVGPIPPLPLKS-LQYLSL 276

Query: 1061 EDCNALESLPEAWMHNSNSSLESLKIRNCNSLV-SFP-EVALPSQLRTVKIEYCNALISL 1118
             +      +P+ ++  +  +L  L +   N    + P      S L ++ +   N    L
Sbjct: 277  AENKFTGEIPD-FLSGACDTLTGLDLSG-NHFYGAVPPFFGSCSLLESLALSSNNFSGEL 334

Query: 1119 PEAWMQNSNTSLESL-----RIKGCDSLKYIARI-----QLPPSLKRLIVSRCWNLRTLI 1168
            P   +      L+ L        G         +      L  SL  L +S         
Sbjct: 335  PMDTLLK-MRGLKVLDLSFNEFSG--------ELPESLTNLSASLLTLDLSSN----NFS 381

Query: 1169 GE--QDICSSSRGCTSLTYFS-SEN----ELPTMLEHLQVRFCSNLAFL--SRN---GNL 1216
            G    ++C + +   +L       N    ++P  L +     CS L  L  S N   G +
Sbjct: 382  GPILPNLCQNPK--NTLQELYLQNNGFTGKIPPTLSN-----CSELVSLHLSFNYLSGTI 434

Query: 1217 PQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCP 1276
            P +L        SKL  L  +L    LE            +P +L  +  L+ + +++  
Sbjct: 435  PSSL-----GSLSKLRDL--KLWLNMLEG----------EIPQELMYVKTLETLILDFN- 476

Query: 1277 NLE-SFPEEGLPSTKLTELTIYDCENLKAL-----------PNCMHNLTSLLILEIRGCP 1324
            +L    P             + +C NL  +           P  +  L +L IL++    
Sbjct: 477  DLTGEIPSG-----------LSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNN- 524

Query: 1325 SVVSF-----PEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPP 1379
               SF      E G   +L  L++     +  +P   F +   +    I G         
Sbjct: 525  ---SFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAG--------- 572

Query: 1380 PFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYF 1423
                 + N  +         +        + + +L         
Sbjct: 573  KRYVYIKNDGMKKECHG---AGNLLEFQGIRSEQLNRLSTRNPC 613

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 49.9 bits (120), Expect = 5e-06
 Identities = 79/487 (16%), Positives = 145/487 (29%), Gaps = 115/487 (23%)

Query: 1007 RLQFLKLSKC---EGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDC 1063
            ++  + LS      G + +  +LL+L+ L  + +S      S       + L ++ +   
Sbjct: 51   KVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRN 110

Query: 1064 NALESLPEAWMHNSNSSLESLKIRNCN--SLVSFPEVALPSQLRTVKIEYCNALISLPEA 1121
            +    +       S S L+ L + +               + L  + +   +   +    
Sbjct: 111  SLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVG 170

Query: 1122 WMQNSN-TSLESLRIKGCDSLKYIARIQLP----PSLKRLIVSRCWNLRTLIGEQDICSS 1176
            W+ +     L+ L I G   +       +      +L+ L VS   N  T I        
Sbjct: 171  WVLSDGCGELKHLAISGN-KI----SGDVDVSRCVNLEFLDVSSN-NFSTGI------PF 218

Query: 1177 SRGCTSLTYFS-SENEL----PTMLEHLQVRFCSNLAFL--SRN---GNLPQALKYLRVE 1226
               C++L +   S N+L       +       C+ L  L  S N   G +P         
Sbjct: 219  LGDCSALQHLDISGNKLSGDFSRAIST-----CTELKLLNISSNQFVGPIPPLP------ 267

Query: 1227 DCSKLESLAERLDNTSLE-EITISVLENLKSL--------------PADLHNLHHLQKIW 1271
                L+ L   L       EI   +     +L              P    +   L+ + 
Sbjct: 268  -LKSLQYL--SLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLA 324

Query: 1272 INYCPNLE-SFPEEGLPS-TKLTELTIYDCENLK-ALPNCMHNLT-SLLILEIRGCPSVV 1327
            ++   N     P + L     L  L +         LP  + NL+ SLL L++       
Sbjct: 325  LSSN-NFSGELPMDTLLKMRGLKVLDLSFN-EFSGELPESLTNLSASLLTLDLSSNNFSG 382

Query: 1328 SFPED---GFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVS------- 1377
                +        LQ L ++    +  +P    N  + L           L         
Sbjct: 383  PILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSN-CSELVSL-------HLSFNYLSGTI 434

Query: 1378 PPPFPASLTNLW----------------ISDMPDLESI------------SSIGENLTSL 1409
            P     SL+ L                 +  +  LE++            S +  N T+L
Sbjct: 435  PSSL-GSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLS-NCTNL 492

Query: 1410 ETLRLFN 1416
              + L N
Sbjct: 493  NWISLSN 499

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 45.3 bits (108), Expect = 1e-04
 Identities = 29/142 (20%), Positives = 45/142 (31%), Gaps = 27/142 (19%)

Query: 594 LNHLPRLRVFSLRGC---GNIFNLPNEIGNLKHLRCLNLSRTRIQ-ILPESINSLYNLHT 649
           L     L+   + G    G+       I     L+ LN+S  +    +P     L +L  
Sbjct: 219 LGDCSALQHLDISGNKLSGDF---SRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQY 273

Query: 650 ILLEDCH-------QLKKLCKDMGNLRKLHHLRNSTANSLK-EMPKGFGKLTSL--LTLG 699
           + L +          L       G    L  L  S  N     +P  FG  + L  L L 
Sbjct: 274 LSLAENKFTGEIPDFL------SGACDTLTGLDLSG-NHFYGAVPPFFGSCSLLESLALS 326

Query: 700 R-FVVGKDSGSGLRELKSLTHL 720
                G+     L +++ L  L
Sbjct: 327 SNNFSGELPMDTLLKMRGLKVL 348

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 44.1 bits (105), Expect = 3e-04
 Identities = 30/122 (24%), Positives = 54/122 (44%), Gaps = 10/122 (8%)

Query: 582 HNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFN--LPNEIGNLKHLRCLNLSRTRIQ-ILP 638
           +N     +   L N    L    L    N  +  +P+ +G+L  LR L L    ++  +P
Sbjct: 403 NNGFTGKIPPTLSN-CSELVSLHLSF--NYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIP 459

Query: 639 ESINSLYNLHTILLEDCHQLK-KLCKDMGNLRKLHHLRNSTANSLK-EMPKGFGKLTSLL 696
           + +  +  L T++L+    L  ++   + N   L+ +  S  N L  E+PK  G+L +L 
Sbjct: 460 QELMYVKTLETLILDFN-DLTGEIPSGLSNCTNLNWISLSN-NRLTGEIPKWIGRLENLA 517

Query: 697 TL 698
            L
Sbjct: 518 IL 519

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 43.0 bits (102), Expect = 8e-04
 Identities = 25/128 (19%), Positives = 39/128 (30%), Gaps = 12/128 (9%)

Query: 576 NLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGC---GNIFNLPNEIGNLKHLRCLNLSRT 632
           N+S    N L +         L  L V  L      G              L+ L +S  
Sbjct: 132 NVS---SNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGN 188

Query: 633 RIQ-ILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLK-EMPKGFG 690
           +I   +   ++   NL  + +            +G+   L HL  S  N L  +  +   
Sbjct: 189 KISGDVD--VSRCVNLEFLDVSSN-NFSTGIPFLGDCSALQHLDIS-GNKLSGDFSRAIS 244

Query: 691 KLTSLLTL 698
             T L  L
Sbjct: 245 TCTELKLL 252

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 50.4 bits (121), Expect = 2e-06
 Identities = 49/293 (16%), Positives = 89/293 (30%), Gaps = 68/293 (23%)

Query: 1198 HLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSL 1257
            HL+V  CS+L   +    +      L              L N  + E+     + L+ L
Sbjct: 34   HLRVVQCSDLGLKAVPKEISPDTTLLD-------------LQNNDISELRKDDFKGLQHL 80

Query: 1258 --------------PADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLK 1303
                                L  LQK++I+   +L   P     S  L EL I+D   ++
Sbjct: 81   YALVLVNNKISKIHEKAFSPLRKLQKLYISKN-HLVEIPPNLPSS--LVELRIHDN-RIR 136

Query: 1304 ALP-NCMHNLTSLLILEIRGCP-SVVSFPEDGF----------------------PTNLQ 1339
             +P      L ++  +E+ G P     F    F                      P  L 
Sbjct: 137  KVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPETLN 196

Query: 1340 SLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFP--ASLTNLWISDMPDLE 1397
             L +   KI   +      R++ L R  +      ++         +L  L + +   L 
Sbjct: 197  ELHLDHNKIQA-IELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNK-LS 254

Query: 1398 SISSIGENLTSLETLRLFNCPKLKYFPE--------QGLPKSLSRLSIHNCPL 1442
             + +   +L  L+ + L     +                    + +S+ N P+
Sbjct: 255  RVPAGLPDLKLLQVVYLHTN-NITKVGVNDFCPVGFGVKRAYYNGISLFNNPV 306

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 43.9 bits (104), Expect = 3e-04
 Identities = 25/123 (20%), Positives = 44/123 (35%), Gaps = 13/123 (10%)

Query: 581 RHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPE- 639
             N L  S  +       +L    +     +  +P      + L  L+L   +IQ +   
Sbjct: 155 GGNPLENSGFEPGAFDGLKLNYLRISEA-KLTGIPK--DLPETLNELHLDHNKIQAIELE 211

Query: 640 SINSLYNLHTILLEDCHQLKKL----CKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSL 695
            +     L+ + L    Q++ +       +  LR+L HL N   N L  +P G   L  L
Sbjct: 212 DLLRYSKLYRLGLGHN-QIRMIENGSLSFLPTLREL-HLDN---NKLSRVPAGLPDLKLL 266

Query: 696 LTL 698
             +
Sbjct: 267 QVV 269

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 49.8 bits (120), Expect = 3e-06
 Identities = 22/109 (20%), Positives = 42/109 (38%), Gaps = 12/109 (11%)

Query: 596 HLPRLRVFSLRGCGNIF-NLPNEIGNLKHLRCLNLSRTRIQ-ILPESINSLYNLHTILLE 653
           +LP L    + G  N+   +P  I  L  L  L ++ T +   +P+ ++ +  L T+   
Sbjct: 74  NLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFS 133

Query: 654 DCHQLKKLC----KDMGNLRKLHHLRNSTANSLK-EMPKGFGKLTSLLT 697
                  L       + +L  L  +     N +   +P  +G  + L T
Sbjct: 134 YN----ALSGTLPPSISSLPNLVGITFDG-NRISGAIPDSYGSFSKLFT 177

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 50.6 bits (121), Expect = 3e-06
 Identities = 13/127 (10%), Positives = 38/127 (29%), Gaps = 4/127 (3%)

Query: 597 LPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCH 656
             +L+   L     +  +  E  +   +  ++L   ++ ++ +++    NL    L    
Sbjct: 190 FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGN- 247

Query: 657 QLKKLCKD--MGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLREL 714
                         +++  +   T   L    +    + +L   G +            L
Sbjct: 248 GFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRL 307

Query: 715 KSLTHLQ 721
            +L   +
Sbjct: 308 IALKRKE 314

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 49.8 bits (119), Expect = 5e-06
 Identities = 16/106 (15%), Positives = 33/106 (31%), Gaps = 4/106 (3%)

Query: 594 LNHLPRLRVFSLRGCG-NIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILL 652
                R++   L+    +  N      +   L  LNL    I  +   +     L T+ L
Sbjct: 140 EGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDL 198

Query: 653 EDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
               +L  +  +  +   +  + +   N L  + K      +L   
Sbjct: 199 SSN-KLAFMGPEFQSAAGVTWI-SLRNNKLVLIEKALRFSQNLEHF 242

>3oja_A Leucine-rich immune molecule 1; coiled-coil, helix-loop-helix, leucine-rich repeat, protein; HET: NAG MAN; 2.70A {Anopheles gambiae} Length = 487

 Score = 44.8 bits (106), Expect = 2e-04
 Identities = 56/423 (13%), Positives = 123/423 (29%), Gaps = 77/423 (18%)

Query: 1007 RLQFLKLSKCEGLTRLPQALLT-LSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNA 1065
            R +  K++    L +   +L     ++ E+ +SG                        N 
Sbjct: 11   RYKIEKVTDSS-LKQALASLRQSAWNVKELDLSG------------------------NP 45

Query: 1066 LESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQN 1125
            L  +  A +    + LE L + + N L    ++   S LRT+ +   N +  L       
Sbjct: 46   LSQISAADLAP-FTKLELLNLSS-NVLYETLDLESLSTLRTLDLNN-NYVQELLV----- 97

Query: 1126 SNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTY 1185
               S+E+L      ++  ++  +     K + ++   N  T++ + D        + + Y
Sbjct: 98   -GPSIETLHAANN-NISRVSCSRGQ-GKKNIYLAN--NKITMLRDLDEG----CRSRVQY 148

Query: 1186 FS-SENELPTMLEHLQVRFCSNLAFLSRNGN----LPQA--LKYLRVEDCS--KLESLAE 1236
                 NE+ T+           L  L+   N    +        L+  D S  KL  +  
Sbjct: 149  LDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGP 208

Query: 1237 RLDN-TSLEEITISVLEN-LKSLPADLHNLHHLQKIWINYCP-NLESFPEEGLPSTKLTE 1293
               +   +  I++    N L  +   L    +L+   +     +  +  +    + ++  
Sbjct: 209  EFQSAAGVTWISLR--NNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQT 266

Query: 1294 LTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLP 1353
            +     + L         + +L       C  +       F   L +L+ +   +     
Sbjct: 267  VAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDL----PAPFADRLIALKRKEHALLSGQ- 321

Query: 1354 EWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLR 1413
                +    L                   A    +          I  +     +  TL 
Sbjct: 322  ---GSETERLECEREN------------QARQREIDALKEQYRTVIDQVTLRKQAKITLE 366

Query: 1414 LFN 1416
               
Sbjct: 367  QKK 369

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 47.3 bits (113), Expect = 9e-06
 Identities = 29/188 (15%), Positives = 58/188 (30%), Gaps = 28/188 (14%)

Query: 1234 LAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTE 1293
            L   L  +S   IT + + +L  +      L ++    +     +E           + +
Sbjct: 26   LNGLLGQSSTANITEAQMNSLTYI-----TLANIN---VTDLTGIEYA-------HNIKD 70

Query: 1294 LTIYDCE--NLKALPNCMHNLTSLLILEIRGCPSVVSFPED-GFPTNLQSLEVRGLKISK 1350
            LTI +    N   +      L++L  L I G         +    T+L  L++       
Sbjct: 71   LTINNIHATNYNPI----SGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDD 126

Query: 1351 PLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTNLWISDMPD--LESISSIGENLTS 1408
             +     N    +    +      +    P   +L  L   ++    +     I E+   
Sbjct: 127  SILT-KINTLPKVNSIDL-SYNGAITDIMPL-KTLPELKSLNIQFDGVHDYRGI-EDFPK 182

Query: 1409 LETLRLFN 1416
            L  L  F+
Sbjct: 183  LNQLYAFS 190

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 46.5 bits (111), Expect = 2e-05
 Identities = 19/106 (17%), Positives = 39/106 (36%), Gaps = 4/106 (3%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQIL-PESINSLYNLHTILL 652
           ++ L  L    + G     +    +  L  L  L++S +         IN+L  +++I L
Sbjct: 84  ISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDL 143

Query: 653 EDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
                +  +   +  L +L  L N   + + +  +G      L  L
Sbjct: 144 SYNGAITDI-MPLKTLPELKSL-NIQFDGVHDY-RGIEDFPKLNQL 186

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 41.5 bits (98), Expect = 6e-04
 Identities = 23/161 (14%), Positives = 54/161 (33%), Gaps = 16/161 (9%)

Query: 596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDC 655
            +  L   +L    N+ +L   I    +++ L ++          I+ L NL  + +   
Sbjct: 42  QMNSLTYITLANI-NVTDLTG-IEYAHNIKDLTINNIHATNY-NPISGLSNLERLRIMGK 98

Query: 656 HQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRELK 715
                   ++  L  L  L  S +     +      L  + ++   +    + + +  LK
Sbjct: 99  DVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSI--DLSYNGAITDIMPLK 156

Query: 716 SLTHLQGTLRIS--KLENVKDVGDASEAQLNNKVNLEALLL 754
           +L  L+ +L I    + + +         + +   L  L  
Sbjct: 157 TLPELK-SLNIQFDGVHDYRG--------IEDFPKLNQLYA 188

>4ezg_A Putative uncharacterized protein; internalin-A, leucine-rich repeat protein, structural genomi center for structural genomics, JCSG; HET: MSE; 1.50A {Listeria monocytogenes} Length = 197

 Score = 41.5 bits (98), Expect = 6e-04
 Identities = 25/175 (14%), Positives = 57/175 (32%), Gaps = 17/175 (9%)

Query: 1205 SNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEIT-ISVLENLKSL------ 1257
            S             +   +     + L  +   L N ++ ++T I    N+K L      
Sbjct: 20   STFKAYLNGLLGQSSTANITEAQMNSLTYI--TLANINVTDLTGIEYAHNIKDLTINNIH 77

Query: 1258 ---PADLHNLHHLQKIWINYCPNLESFPEEGLPS-TKLTELTIYDCENLKALPNCMHNLT 1313
                  +  L +L+++ I    ++ S     L   T LT L I    +  ++   ++ L 
Sbjct: 78   ATNYNPISGLSNLERLRIMGK-DVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLP 136

Query: 1314 SLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTI 1368
             +  +++    ++           L+SL ++   +           F  L +   
Sbjct: 137  KVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDGVHDYRG---IEDFPKLNQLYA 188

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 49.1 bits (117), Expect = 9e-06
 Identities = 59/463 (12%), Positives = 135/463 (29%), Gaps = 68/463 (14%)

Query: 1008 LQFLKLSKCEGLTRLPQ-ALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNAL 1066
            L+ L+LS    +  L     L    L  + +S    L +     + S LR + +   N  
Sbjct: 78   LRVLRLSHNR-IRSLDFHVFLFNQDLEYLDVS-HNRLQNISCCPMAS-LRHLDL-SFNDF 133

Query: 1067 ESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQN- 1125
            + LP      + + L  L +           + + + L    I        +     ++ 
Sbjct: 134  DVLPVCKEFGNLTKLTFLGLSA-AKFRQLDLLPV-AHLHLSCILLDLVSYHIKGGETESL 191

Query: 1126 SNTSLESLRIKGCDSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTY 1185
               +   L +             L      + V+   +L  L   +    + +   +   
Sbjct: 192  QIPNTTVLHL-------VFHPNSLFSVQVNMSVNALGHL-QLSNIKLNDENCQRLMTFLS 243

Query: 1186 FSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAER-------- 1237
              +       +    +      +        P+ ++YL + + +  E +           
Sbjct: 244  ELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETA 303

Query: 1238 LDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTK------- 1290
            L +  +E +   V    K     +    +++ + I+  P +         S         
Sbjct: 304  LKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQN 363

Query: 1291 ------------LTELTIYDCEN--LKALPNCMHNLTSLLILEIRGCPSVVSFPEDGF-- 1334
                        L  L     +   LK          ++  LE     S+ S     +  
Sbjct: 364  VFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDV-SLNSLNSHAYDR 422

Query: 1335 ----PTNLQSLEVRGLKISKPLPEWGFNRFT-SLRRFTICGGCPDLVSPPPFPASLTNLW 1389
                  ++  L +    ++  +    F      ++   +      ++S P     L  L 
Sbjct: 423  TCAWAESILVLNLSSNMLTGSV----FRCLPPKVKVLDLHNN--RIMSIPKDVTHLQALQ 476

Query: 1390 ISDMPD--LESIS-SIGENLTSLETLRLFN------CPKLKYF 1423
              ++    L+S+   + + LTSL+ + L +      CP ++Y 
Sbjct: 477  ELNVASNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYL 519

>3a79_B TLR6, VLRB.59, TOLL-like receptor 6, variable lymphocyte recepto; diacyl lipopeptide, innate immunity, Leu repeat, cell membrane, cytoplasmic vesicle; HET: PXS NAG BMA NDG; 2.90A {Mus musculus} Length = 562

 Score = 46.0 bits (109), Expect = 7e-05
 Identities = 80/481 (16%), Positives = 148/481 (30%), Gaps = 62/481 (12%)

Query: 615  PNEIGNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH 673
              +I  L  LR L LS  RI+ L   +     +L  + +   ++L+ +      +  L H
Sbjct: 69   MPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDV-SHNRLQNI--SCCPMASLRH 125

Query: 674  LRNSTANSLKEMPKG--FGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLEN 731
            L  S  N    +P    FG LT L  LG       S +  R+L  L      L    L+ 
Sbjct: 126  LDLSF-NDFDVLPVCKEFGNLTKLTFLGL------SAAKFRQLDLLPVAHLHLSCILLDL 178

Query: 732  VKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGY 791
            V       E +     N   L L +    + ++        +  +      +  + +   
Sbjct: 179  VSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHL-----QLSNIKLNDE 233

Query: 792  GGTKFPIWLGDSSF-SKLARLELRRCTST-----SLPSVGQLPFLKELRISGMDGVKSVG 845
               +   +L + +    L  + L+   +T      L        ++ L I  +   + + 
Sbjct: 234  NCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERID 293

Query: 846  SEFYGNS-RSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKLSLFHCHKLQGT 904
             E +  S  ++    +E +        +E +     E        ++ LS+     +   
Sbjct: 294  REEFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEM------NIKMLSISDTPFIHMV 347

Query: 905  LPKRLLLLETLVIKSCQQLIVTIQCLPALSELQIDGCKRVVFSSPHLVHAVNVRKQAYFW 964
             P        L            Q    L  LQ    +R    +          K A   
Sbjct: 348  CPPSPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKN--------FFKVALMT 399

Query: 965  RSETRLPQDIRSLNRLQISRCPQLLSLVTEEE----HDQQQPES-----PCRLQFLKLSK 1015
            ++ + L     SLN L      +  +                 S     P +++ L L  
Sbjct: 400  KNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHN 459

Query: 1016 CEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNALESLPEAWMH 1075
               +  +P+ +  L +L E+ ++    L S P                  L SL   W+H
Sbjct: 460  N-RIMSIPKDVTHLQALQELNVAS-NQLKSVPDGVFDR------------LTSLQYIWLH 505

Query: 1076 N 1076
            +
Sbjct: 506  D 506

>1xku_A Decorin; proteoglycan, leucine-rich repeat, structural protein; HET: NAG; 2.15A {Bos taurus} SCOP: c.10.2.7 PDB: 1xec_A* 1xcd_A* Length = 330

 Score = 47.7 bits (114), Expect = 1e-05
 Identities = 45/261 (17%), Positives = 90/261 (34%), Gaps = 62/261 (23%)

Query: 1198 HLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSL 1257
            HL+V  CS+L       +LP     L              L N  + EI     +NLK+L
Sbjct: 32   HLRVVQCSDLGLEKVPKDLPPDTALLD-------------LQNNKITEIKDGDFKNLKNL 78

Query: 1258 --------------PADLHNLHHLQKIWINYCPN-LESFPEEGLPSTKLTELTIYDCENL 1302
                          P     L  L++++++   N L+  PE+   +  L EL +++   +
Sbjct: 79   HTLILINNKISKISPGAFAPLVKLERLYLSK--NQLKELPEKMPKT--LQELRVHEN-EI 133

Query: 1303 KALP-NCMHNLTSLLILEI---------------RGCPSVV---------SFPEDGFPTN 1337
              +  +  + L  ++++E+               +G   +          +    G P +
Sbjct: 134  TKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNITTIPQGLPPS 193

Query: 1338 LQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFP--ASLTNLWISDMPD 1395
            L  L + G KI+K +         +L +  +       V          L  L +++   
Sbjct: 194  LTELHLDGNKITK-VDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNK- 251

Query: 1396 LESISSIGENLTSLETLRLFN 1416
            L  +     +   ++ + L N
Sbjct: 252  LVKVPGGLADHKYIQVVYLHN 272

>2ast_B S-phase kinase-associated protein 2; SCF-substrate complex, LRR, cell cycle, protein turnover COM ligase-ligase inhibitor complex; HET: TPO; 2.30A {Homo sapiens} SCOP: a.158.1.1 c.10.1.3 PDB: 2ass_B 1fqv_A* 1fs2_A Length = 336

 Score = 47.6 bits (113), Expect = 2e-05
 Identities = 38/236 (16%), Positives = 75/236 (31%), Gaps = 52/236 (22%)

Query: 1007 RLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAALPSHLRTVKIEDCNAL 1066
            +LQ L L        +   L   S+L  + +SGC+    F    L S         C+ L
Sbjct: 119  KLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSS--------CSRL 170

Query: 1067 ESLPEAWMHN-SNSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALIS-LPEAWMQ 1124
            + L  +W  + +   ++                     +  + +      +     + + 
Sbjct: 171  DELNLSWCFDFTEKHVQVAVAHVS------------ETITQLNLSGYRKNLQKSDLSTLV 218

Query: 1125 NSNTSLESLRIKGC-----DSLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRG 1179
                +L  L +        D  +   +      L+ L +SRC+++               
Sbjct: 219  RRCPNLVHLDLSDSVMLKNDCFQEFFQ---LNYLQHLSLSRCYDI-----------IPET 264

Query: 1180 CTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLA 1235
               L    +       L+ LQV        L     L +AL +L++ +CS   ++A
Sbjct: 265  LLELGEIPT-------LKTLQVFGIVPDGTLQL---LKEALPHLQI-NCSHFTTIA 309

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A* Length = 567

 Score = 47.1 bits (111), Expect = 4e-05
 Identities = 43/313 (13%), Positives = 90/313 (28%), Gaps = 23/313 (7%)

Query: 400 LRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYCSLFPKDYEFQEE 459
           L GR +P D    +         S            +   L                   
Sbjct: 235 LLGRAEPHDVLCCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRN 294

Query: 460 EIILLWTAEGLL-----DQEYNGRKMEDLGREFVREL-----HSRSLFQQSSKDASRFVM 509
               +W  +            +  ++   G +  +E            + S+ D   F  
Sbjct: 295 RPSHVWLCDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQLFRC 354

Query: 510 HDLINDLARWAAGELYFRMEGTLKGENQQKFSESLRHFSYICGEYDGDTRLEFICDVQHL 569
              +       +     +    L+ EN+      +     +         L++   ++ +
Sbjct: 355 ELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV 414

Query: 570 RTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNL 629
              +     D   +         L      +RV  L    ++  L + +  L  +  L+L
Sbjct: 415 -DPMRAAYLDDLRSKFLLEN-SVLKMEYADVRVLHLAHK-DLTVLCH-LEQLLLVTHLDL 470

Query: 630 SRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLH--HLRNSTANSLKEMP- 686
           S  R++ LP ++ +L  L  +   D   L+ +   + NL +L    L N   N L++   
Sbjct: 471 SHNRLRALPPALAALRCLEVLQASDN-ALENV-DGVANLPRLQELLLCN---NRLQQSAA 525

Query: 687 -KGFGKLTSLLTL 698
            +       L+ L
Sbjct: 526 IQPLVSCPRLVLL 538

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 43.8 bits (104), Expect = 2e-04
 Identities = 43/175 (24%), Positives = 74/175 (42%), Gaps = 15/175 (8%)

Query: 1253 NLKSLPAD-LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCEN--LKALPNCM 1309
             L SLP+   H L  L+ +++N    L++ P  G+   +L  L      +  L+ALP  +
Sbjct: 48   KLSSLPSKAFHRLTKLRLLYLNDN-KLQTLPA-GIF-KELKNLETLWVTDNKLQALPIGV 104

Query: 1310 -HNLTSLLILEIRGCPSVVSFPEDGFP--TNLQSLEVRGLKISKPLPEWGFNRFTSLRRF 1366
               L +L  L +     + S P   F   T L  L +   ++   LP+  F++ TSL+  
Sbjct: 105  FDQLVNLAELRLDRNQ-LKSLPPRVFDSLTKLTYLSLGYNELQS-LPKGVFDKLTSLKEL 162

Query: 1367 TICGGCPDLVSPPPFPASLTNLWISDMPD--LESIS-SIGENLTSLETLRLFNCP 1418
             +       V    F   LT L    + +  L+ +     ++L  L+ L+L   P
Sbjct: 163  RLYNNQLKRVPEGAF-DKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQENP 216

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 43.1 bits (102), Expect = 4e-04
 Identities = 36/163 (22%), Positives = 64/163 (39%), Gaps = 21/163 (12%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
           + +L  L    L+    I +L   + NL  +  L LS   ++ +  +I  L ++ T+ L 
Sbjct: 59  VQYLNNLIGLELKDN-QITDLAP-LKNLTKITELELSGNPLKNV-SAIAGLQSIKTLDLT 115

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
              Q+  +   +  L  L  L     N +  +      LT+L  L    +G    S L  
Sbjct: 116 ST-QITDVT-PLAGLSNLQVL-YLDLNQITNIS-PLAGLTNLQYL---SIGNAQVSDLTP 168

Query: 714 LKSLTHLQGTLRIS--KLENVKDVGDASEAQLNNKVNLEALLL 754
           L +L+ L  TL+    K+ ++          L +  NL  + L
Sbjct: 169 LANLSKLT-TLKADDNKISDISP--------LASLPNLIEVHL 202

>1h6u_A Internalin H; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.8A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 Length = 308

 Score = 42.4 bits (100), Expect = 8e-04
 Identities = 44/237 (18%), Positives = 89/237 (37%), Gaps = 33/237 (13%)

Query: 1224 RVEDCSKLESLAE----RLDNTSLEEI-TISVLENLKSLPAD---------LHNLHHLQK 1269
             +       +LA         +++ +  T + L+ + +L A          +  L++L  
Sbjct: 8    AINVIFPDPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIG 67

Query: 1270 IWI--NYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVV 1327
            + +  N   +L     + L  TK+TEL +     LK +   +  L S+  L++     + 
Sbjct: 68   LELKDNQITDLAPL--KNL--TKITELELSGN-PLKNVSA-IAGLQSIKTLDLTST-QIT 120

Query: 1328 SFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPPFPASLTN 1387
                    +NLQ L +   +I+  +        T+L+  +I G    +    P  A+L+ 
Sbjct: 121  DVTPLAGLSNLQVLYLDLNQITN-IS--PLAGLTNLQYLSI-GNAQ-VSDLTPL-ANLSK 174

Query: 1388 LWISDMPD--LESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIHNCPL 1442
            L      D  +  IS +  +L +L  + L N       P       L  +++ N  +
Sbjct: 175  LTTLKADDNKISDISPL-ASLPNLIEVHLKNNQISDVSPLANTSN-LFIVTLTNQTI 229

>1z7x_W Ribonuclease inhibitor; leucine-rich repeat, enzyme- inhibitor complex, structural genomics, protein structure initiative, PSI, CESG; HET: CIT; 1.95A {Homo sapiens} SCOP: c.10.1.1 PDB: 2q4g_W* 2bex_A 1a4y_A 2bnh_A 1dfj_I Length = 461

 Score = 43.4 bits (103), Expect = 4e-04
 Identities = 67/317 (21%), Positives = 107/317 (33%), Gaps = 68/317 (21%)

Query: 1006 CRLQFLKLSKC----EGLTRLPQALLTLSSLTEMRISGC----ASLVSFPQAALPSH--L 1055
            C++Q L L  C     G   L   L TL +L E+ +S      A L    +  L     L
Sbjct: 85   CKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRL 144

Query: 1056 RTVKIEDCN----ALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVAL--------PSQ 1103
              +++E C+    + E L        +   + L + N +  ++   V +        P Q
Sbjct: 145  EKLQLEYCSLSAASCEPLASVLRAKPD--FKELTVSNND--INEAGVRVLCQGLKDSPCQ 200

Query: 1104 LRTVKIEYCNALISLPEAWMQN------SNTSLESLRIKGC----DSLKYIARIQLPP-- 1151
            L  +K+E C     +     ++      S  SL  L +         +  +    L P  
Sbjct: 201  LEALKLESCG----VTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSS 256

Query: 1152 SLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFL 1210
             L+ L +  C  + T  G  D+C   R   SL   S + N        L       L   
Sbjct: 257  RLRTLWIWEC-GI-TAKGCGDLCRVLRAKESLKELSLAGN-------ELGDEGARLLCET 307

Query: 1211 SRNGNLPQALKYLRVEDCS----KLESLAERLD-NTSLEEITISVLEN------LKSLPA 1259
                     L+ L V+ CS         +  L  N  L E+ IS   N      ++ L  
Sbjct: 308  LLEPGC--QLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQIS--NNRLEDAGVRELCQ 363

Query: 1260 DL-HNLHHLQKIWINYC 1275
             L      L+ +W+  C
Sbjct: 364  GLGQPGSVLRVLWLADC 380

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 42.0 bits (99), Expect = 6e-04
 Identities = 32/113 (28%), Positives = 44/113 (38%), Gaps = 10/113 (8%)

Query: 615 PNEIGNLKHLRCLNLSRTRIQILPESI-NSLYNLHTILLEDCHQLKKLCKDMG---NLRK 670
           P    +L +L+ L L   ++  LP  + +SL  L  + L   +QL  L         L  
Sbjct: 57  PGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGT-NQLTVL--PSAVFDRLVH 113

Query: 671 LHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDS--GSGLRELKSLTHLQ 721
           L  L     N L E+P+G  +LT L  L        S        L SLTH  
Sbjct: 114 LKELFMCC-NKLTELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAY 165

>3sb4_A Hypothetical leucine rich repeat protein; LRR, right-handed beta-alpha superhelix, leucine-rich repeat structural genomics; HET: MSE PG4; 1.99A {Bacteroides thetaiotaomicron} Length = 329

 Score = 42.8 bits (101), Expect = 6e-04
 Identities = 39/305 (12%), Positives = 83/305 (27%), Gaps = 58/305 (19%)

Query: 1168 IGEQDICSSSRGCTSLTYFS-SENELPTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRV- 1225
            +  +D         SL     S  E+                    N     A   +   
Sbjct: 36   LNAEDFRHLRDEFPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPAYAFSNVVNG 95

Query: 1226 --EDCSKLESLA-----ERLDN------TSLEEITISVLENLKSLPADLHNLHHLQKIWI 1272
              +    LE +      + +++       +L+   I   +              +  I+I
Sbjct: 96   VTKGKQTLEKVILSEKIKNIEDAAFKGCDNLKICQIR--KKTAPNLLPEALADSVTAIFI 153

Query: 1273 NYCPNLESFPEEGLPSTKLTELTIYDCENLK--------------ALPNCMHNLTSLLIL 1318
                + +++        +       + E L+               +   +     +  L
Sbjct: 154  P-LGSSDAYRF----KNRWEHFAFIEGEPLETTIQVGAMGKLEDEIMKAGL-QPRDINFL 207

Query: 1319 EIRGCPSVVSFPE-DGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTI--------- 1368
             I G      F     +  NL SL++     +  +P++ F +   L +  +         
Sbjct: 208  TIEGKLDNADFKLIRDYMPNLVSLDISKTNATT-IPDFTFAQKKYLLKIKLPHNLKTIGQ 266

Query: 1369 --CGGCPDLVSPPPFPASLTNLWISDM-----PDLESISSIGENLTSLETLRLFNCPKLK 1421
                 C  L      PAS+T   I         +L  + + G+ +T+L      N    K
Sbjct: 267  RVFSNCGRLAGTLELPASVTA--IEFGAFMGCDNLRYVLATGDKITTLGDELFGNGVPSK 324

Query: 1422 Y-FPE 1425
              + +
Sbjct: 325  LIYKK 329

>1m9s_A Internalin B; cell invasion, GW domains, SH3 domains, signaling protein; 2.65A {Listeria monocytogenes} SCOP: b.1.18.15 b.34.11.1 b.34.11.1 b.34.11.1 c.10.2.1 PDB: 2y5q_A Length = 605

 Score = 42.8 bits (100), Expect = 8e-04
 Identities = 22/87 (25%), Positives = 37/87 (42%), Gaps = 3/87 (3%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
           L+ L +L   SL     I ++   +  L  L+ L LS+  I  L  ++  L NL  + L 
Sbjct: 149 LSRLTKLDTLSLEDN-QISDIVP-LAGLTKLQNLYLSKNHISDL-RALAGLKNLDVLELF 205

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTAN 680
               L K      NL   + ++N+  +
Sbjct: 206 SQECLNKPINHQSNLVVPNTVKNTDGS 232

>3goz_A Leucine-rich repeat-containing protein; LEGL7, NESG, LGR148, structural genomics, PSI-2, protein structure initiative; 2.10A {Legionella pneumophila subsp} Length = 362

 Score = 42.4 bits (100), Expect = 8e-04
 Identities = 43/307 (14%), Positives = 103/307 (33%), Gaps = 48/307 (15%)

Query: 1003 ESPCRLQFLKLSKC----EGLTRLPQALLTL-SSLTEMRISGC------ASLVSFPQAAL 1051
             +P  +  L LS      +    L Q L  + +++T + +SG       +  +    AA+
Sbjct: 48   NTPASVTSLNLSGNSLGFKNSDELVQILAAIPANVTSLNLSGNFLSYKSSDELVKTLAAI 107

Query: 1052 PSHLRTVKIEDCN----ALESLPEAWMHNSNSSLESLKIRNCN----SLVSFPEV--ALP 1101
            P  +  + +   +    +     +A   N  +S+ SL +R  +    S     ++  A+P
Sbjct: 108  PFTITVLDLGWNDFSSKSSSEFKQA-FSNLPASITSLNLRGNDLGIKSSDELIQILAAIP 166

Query: 1102 SQLRTVKIEYCN----ALISLPEAWMQNSNTSLESLRIKGC----DSLKYIARI--QLPP 1151
            + + ++ +   N        L +  + +   S+ SL +        S   +A I   +P 
Sbjct: 167  ANVNSLNLRGNNLASKNCAELAKF-LASIPASVTSLDLSANLLGLKSYAELAYIFSSIPN 225

Query: 1152 SLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFS-SENEL----PTMLEHLQ--VRFC 1204
             +  L +    N       +++         L       + +        + L       
Sbjct: 226  HVVSLNLC--LNCLHGPSLENLKLLKDSLKHLQTVYLDYDIVKNMSKEQCKALGAAFPNI 283

Query: 1205 SNLAFL--SRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLH 1262
              +  +  +     P     +     + +  L+ + D  SL    +   +  ++   DL+
Sbjct: 284  QKIILVDKNGKEIHPSHSIPI----SNLIRELSGKADVPSLLNQCLIFAQKHQTNIEDLN 339

Query: 1263 NLHHLQK 1269
                L++
Sbjct: 340  IPDELRE 346

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	1472
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	1e-52
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-05
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	4e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	7e-05
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	4e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.001
d1w5sa2	287	c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-t	2e-04
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	2e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.001
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.002
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.004
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	0.001
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	0.004

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  184 bits (467), Expect = 1e-52
 Identities = 44/290 (15%), Positives = 90/290 (31%), Gaps = 28/290 (9%)

Query: 169 KSRNIRQRLPTTSLVNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTT 228
             + + ++L   ++  +   Y RE   + +I+ L       D     + ++G  G GK+ 
Sbjct: 3   SRQMLDRKLLLGNVPKQMTCYIREYHVDRVIKKLDEMC---DLDSFFLFLHGRAGSGKSV 59

Query: 229 LAQLVYNDDR--VQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLN------ 280
           +A    +     +  +Y+   W   S               +      D  +        
Sbjct: 60  IASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVT 119

Query: 281 ---LLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLVVAE 337
              L +      +     L V DDV  E  IRW        A     + +VTTR++ ++ 
Sbjct: 120 SVVLKRMICNALIDRPNTLFVFDDVVQEETIRW--------AQELRLRCLVTTRDVEISN 171

Query: 338 RMGAD-PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL 396
                    ++  L  D+C   L    +      +    ++V  + +    G P      
Sbjct: 172 AASQTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKE---EDVLNKTIELSSGNPATLMMF 228

Query: 397 GGLLRGRDDPRDWEFVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAY 446
                 +   +  +  L   + +     +      SY  L   L++C   
Sbjct: 229 FKSCEPKTFEKMAQ--LNNKLESRGLVGVECITPYSYKSLAMALQRCVEV 276

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 46.2 bits (108), Expect = 2e-05
 Identities = 24/137 (17%), Positives = 45/137 (32%), Gaps = 6/137 (4%)

Query: 564 CDVQHLRTF---LPVNLS--DYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEI 618
           C    L      LP + +  D ++N +   +      +L  L    L         P   
Sbjct: 17  CSDLGLEKVPKDLPPDTALLDLQNNKIT-EIKDGDFKNLKNLHTLILINNKISKISPGAF 75

Query: 619 GNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNST 678
             L  L  L LS+ +++ LPE +        +   +  +++K   +  N   +  L  + 
Sbjct: 76  APLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNP 135

Query: 679 ANSLKEMPKGFGKLTSL 695
             S       F  +  L
Sbjct: 136 LKSSGIENGAFQGMKKL 152

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]} Length = 305

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 45.0 bits (105), Expect = 4e-05
 Identities = 39/249 (15%), Positives = 77/249 (30%), Gaps = 21/249 (8%)

Query: 1204 CSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHN 1263
            CS+L       +LP     L +++             T +++     L+NL +L    + 
Sbjct: 17   CSDLGLEKVPKDLPPDTALLDLQNNKI----------TEIKDGDFKNLKNLHTLILINNK 66

Query: 1264 LHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNL--------TSL 1315
            +  +          LE          +L E      + L+   N +  +          +
Sbjct: 67   ISKISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQM 126

Query: 1316 LILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDL 1375
            +++E+   P   S  E+G    ++ L    +  +  +         SL    + G     
Sbjct: 127  IVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTN-ITTIPQGLPPSLTELHLDGNKITK 185

Query: 1376 VSPPPFP--ASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLS 1433
            V         +L  L +S        +    N   L  L L N   +K        K + 
Sbjct: 186  VDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQ 245

Query: 1434 RLSIHNCPL 1442
             + +HN  +
Sbjct: 246  VVYLHNNNI 254

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 44.4 bits (103), Expect = 7e-05
 Identities = 25/153 (16%), Positives = 49/153 (32%), Gaps = 8/153 (5%)

Query: 543 SLRHFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRV 602
            L               L    +  ++R     +L +   +     V + + + L  L  
Sbjct: 205 FLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPP 264

Query: 603 FSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLC 662
                  +   + +       L  LN+S  ++  LP     L  L        + L ++ 
Sbjct: 265 NLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPPRLERLIA----SFNHLAEVP 320

Query: 663 KDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSL 695
           +   NL++L H+     N L+E P     +  L
Sbjct: 321 ELPQNLKQL-HVEY---NPLREFPDIPESVEDL 349

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 42.1 bits (97), Expect = 4e-04
 Identities = 67/367 (18%), Positives = 110/367 (29%), Gaps = 55/367 (14%)

Query: 1078 NSSLESLKIRNCNSLVSFPEVALPSQLRTVKIEYCNALISLPEAWMQNSNTSLESLRIKG 1137
            +     L++ N   L S PE  LP  L ++    CN+L  LPE          +SL+   
Sbjct: 37   DRQAHELELNNLG-LSSLPE--LPPHLESLVAS-CNSLTELPE--------LPQSLKSLL 84

Query: 1138 CDSLKYIARIQLPPSLKRLIVSRCW-----NLRTLIGEQDICSSSRGCTSLTYFSSENEL 1192
             D+    A   LPP L+ L VS         L+     + I   +     L       E 
Sbjct: 85   VDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLPPSLEF 144

Query: 1193 PTMLEHLQVRFCSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDNTSLEEITISVLE 1252
                 +                         ++ D           +N   E   +  L 
Sbjct: 145  IAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNILEELPELQNLP 204

Query: 1253 NLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNL 1312
             L      ++  ++L K   +  P+LE+        T L EL         +        
Sbjct: 205  FLT----TIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLS 260

Query: 1313 TSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGC 1372
                 L      S         P +L+ L V              N+   L         
Sbjct: 261  ELPPNLYYLNASSNEIRSLCDLPPSLEELNVSN------------NKLIEL--------- 299

Query: 1373 PDLVSPPPFPASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSL 1432
                  P  P  L  L  S       ++ + E   +L+ L +   P L+ FP+  +P+S+
Sbjct: 300  ------PALPPRLERLIASFN----HLAEVPELPQNLKQLHVEYNP-LREFPD--IPESV 346

Query: 1433 SRLSIHN 1439
              L +++
Sbjct: 347  EDLRMNS 353

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 40.6 bits (93), Expect = 0.001
 Identities = 20/127 (15%), Positives = 47/127 (37%), Gaps = 8/127 (6%)

Query: 546 HFSYICGEYDGDTRLEFICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSL 605
             +Y+    +    L F+   +++ + L     +  +   + + ++ L +  P L   ++
Sbjct: 232 RDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNV 291

Query: 606 RGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDM 665
                +  LP     L+    L  S   +  +PE   +L  LH   +E    L++     
Sbjct: 292 SNN-KLIELPALPPRLE---RLIASFNHLAEVPELPQNLKQLH---VEYN-PLREFPDIP 343

Query: 666 GNLRKLH 672
            ++  L 
Sbjct: 344 ESVEDLR 350

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]} Length = 287

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

 Score = 42.4 bits (98), Expect = 2e-04
 Identities = 34/243 (13%), Positives = 62/243 (25%), Gaps = 25/243 (10%)

Query: 187 KVYGREKEKEEIIELLLNDDLRGDDGFS---VISINGMGGVGKTTLAQLVYN-------- 235
           ++  R  E E +  + LN  L G        +    G  G+GKTTLA+            
Sbjct: 17  ELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAK 76

Query: 236 DDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKF 295
           +    +   + A+   +    +  I +     +        D L  L + L  +      
Sbjct: 77  EGLTVKQAYVNAFNAPNLYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLV 136

Query: 296 LLVLDDVWNE----------NYIRWSELRCPFVAGAAGSKIVVTTRNLVVAERMGADPVY 345
           +L                    +R  E             ++V +    ++      P  
Sbjct: 137 ILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQV 196

Query: 346 QLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDD 405
           +    S       L                +      V +   L L +   G    G   
Sbjct: 197 E----SQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVYGEDKGGDGS 252

Query: 406 PRD 408
            R 
Sbjct: 253 ARR 255

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]} Length = 284

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 42.4 bits (98), Expect = 2e-04
 Identities = 34/244 (13%), Positives = 71/244 (29%), Gaps = 24/244 (9%)

Query: 1205 SNLAFLSRNGNLPQALKYLRVEDCS----KLESLAERLDNTSLEEITISVLENLKSLPAD 1260
            S +         P  ++++ + +       L  +  +     L+ +++  L     +   
Sbjct: 33   SFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSK--LQNLSLEGLRLSDPIVNT 90

Query: 1261 LHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEI 1320
            L    +L ++ ++ C     F  +           +  C  L  L        +    E 
Sbjct: 91   LAKNSNLVRLNLSGCSGFSEFALQT---------LLSSCSRLDELNLSWCFDFT----EK 137

Query: 1321 RGCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPDLVSPPP 1380
                +V    E     NL        K               L          D      
Sbjct: 138  HVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFF 197

Query: 1381 FPASLTNLWISDMPDL--ESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIH 1438
                L +L +S   D+  E++  +G  + +L+TL++F            L ++L  L I+
Sbjct: 198  QLNYLQHLSLSRCYDIIPETLLELG-EIPTLKTLQVFGIVPDGTLQL--LKEALPHLQIN 254

Query: 1439 NCPL 1442
                
Sbjct: 255  CSHF 258

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 40.8 bits (94), Expect = 0.001
 Identities = 31/197 (15%), Positives = 65/197 (32%), Gaps = 25/197 (12%)

Query: 1262 HNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIR 1321
                      +    N  S        T L EL++     LK +   + +LT+L  L++ 
Sbjct: 192  VLAKLTNLESLIATNNQISDITPLGILTNLDELSLNGN-QLKDIGT-LASLTNLTDLDLA 249

Query: 1322 GCPSVVSFPEDGFPTNLQSLEVRGLKISKPLPEWGFNRFTSLRRFTICGGCPD------- 1374
                + +       T L  L++   +IS   P  G    T+L                  
Sbjct: 250  NN-QISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKN 308

Query: 1375 ----------LVSPPPFPA--SLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKY 1422
                      +    P  +   L  L+ ++   +  +SS+  NLT++  L   +  ++  
Sbjct: 309  LTYLTLYFNNISDISPVSSLTKLQRLFFANNK-VSDVSSLA-NLTNINWLSAGHN-QISD 365

Query: 1423 FPEQGLPKSLSRLSIHN 1439
                     +++L +++
Sbjct: 366  LTPLANLTRITQLGLND 382

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 40.4 bits (93), Expect = 0.002
 Identities = 46/351 (13%), Positives = 99/351 (28%), Gaps = 30/351 (8%)

Query: 594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLE 653
              L ++        G I ++   +  L +L  +N S  ++  +   + +L  L  IL+ 
Sbjct: 40  QTDLDQVTTLQADRLG-IKSIDG-VEYLNNLTQINFSNNQLTDIT-PLKNLTKLVDILMN 96

Query: 654 DCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTLGRFVVGKDSGSGLRE 713
           +                   L N+    +  +          L+                
Sbjct: 97  NNQIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSL 156

Query: 714 LKSLTHLQGTLRISKLENVKDVGDASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHV 773
            +     Q T                 +   + +++ A L    +    N          
Sbjct: 157 QQLSFGNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQ-------- 208

Query: 774 LSVLKPHRDVQELTITGYGGTKFPIWLGDSSFSKLARLELRRCTSTSLPSVGQLPFLKEL 833
           +S + P   +  L      G +       +S + L  L+L     ++L  +  L  L EL
Sbjct: 209 ISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPLSGLTKLTEL 268

Query: 834 RISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDEVFPKLRKL 893
           ++                S   P   L  L+  ++ E +                 L  L
Sbjct: 269 KLGANQ-----------ISNISPLAGLTALTNLELNENQLEDIS-----PISNLKNLTYL 312

Query: 894 SLFHCHKLQGTLP-KRLLLLETLVIKSCQ-QLIVTIQCLPALSELQIDGCK 942
           +L+    +    P   L  L+ L   + +   + ++  L  ++ L     +
Sbjct: 313 TLYFN-NISDISPVSSLTKLQRLFFANNKVSDVSSLANLTNINWLSAGHNQ 362

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]} Length = 384

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.8 bits (89), Expect = 0.004
 Identities = 19/112 (16%), Positives = 43/112 (38%), Gaps = 8/112 (7%)

Query: 563 ICDVQHLRTFLPVNLSDYRHNYLAWSVLQRLLNHLPRLRVFSLRGCGNIFNLPNEIGNLK 622
           I ++  L     +   +   N L        L +L  L +       N  +  + + +L 
Sbjct: 275 ISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTL-----YFNNISDISPVSSLT 329

Query: 623 HLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHL 674
            L+ L  +  ++  +  S+ +L N++ +      Q+  L   + NL ++  L
Sbjct: 330 KLQRLFFANNKVSDVS-SLANLTNINWLSAGHN-QISDL-TPLANLTRITQL 378

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 124

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 38.2 bits (88), Expect = 0.001
 Identities = 18/98 (18%), Positives = 34/98 (34%), Gaps = 3/98 (3%)

Query: 601 RVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKK 660
           RV  L    ++  L + +  L  +  L+LS  R++ LP ++ +L  L  +   D      
Sbjct: 1   RVLHLAHK-DLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV 58

Query: 661 LCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLTL 698
                    +   L N+         +       L+ L
Sbjct: 59  DGVANLPRLQELLLCNNRLQQSAA-IQPLVSCPRLVLL 95

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 210

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.1 bits (87), Expect = 0.004
 Identities = 29/189 (15%), Positives = 56/189 (29%), Gaps = 8/189 (4%)

Query: 1232 ESLAERLDNTSL-EEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEEGLPSTK 1290
            E++ + L   S+ + +T + L ++  +    +N        I Y PN+      G   T 
Sbjct: 25   ETIKDNLKKKSVTDAVTQNELNSIDQI--IANNSDIKSVQGIQYLPNVTKLFLNGNKLTD 82

Query: 1291 LTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPEDGFPTNLQSLEVRGLKISK 1350
            +  L          L        S L    +     +          L  L         
Sbjct: 83   IKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLG 142

Query: 1351 PLPEWGFNRFTSLRRFTICGGC-PDLVSPPPFPA--SLTNLWISDMPDLESISSIGENLT 1407
                      + L +          +    P      L NL++S    +  + ++   L 
Sbjct: 143  NNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNH-ISDLRALA-GLK 200

Query: 1408 SLETLRLFN 1416
            +L+ L LF+
Sbjct: 201  NLDVLELFS 209

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	1472
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.93
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.92
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.85
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.85
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.83
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.83
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.82
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.81
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.77
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.75
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.62
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.57
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.55
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.55
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.54
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.53
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.53
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.51
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.51
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.48
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.34
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.33
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.31
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.2
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.2
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.15
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.15
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.14
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.13
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	99.12
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	99.11
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	99.07
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.05
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	99.04
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.02
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	99.0
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.96
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.83
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.79
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.77
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	98.76
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.76
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.71
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.71
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.71
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.68
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.6
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.56
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.45
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.42
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.34
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.33
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.24
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.06
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	97.87
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.8
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.66
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.64
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	97.52
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.5
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.5
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.48
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.32
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.2
d2qy9a2	211	GTPase domain of the signal recognition particle r	97.09
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.94
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.92
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.77
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.77
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.75
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.71
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.7
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.69
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.67
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.67
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.66
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.66
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.66
d1okkd2	207	GTPase domain of the signal recognition particle r	96.64
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.62
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.55
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.51
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.48
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.48
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.47
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.44
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.44
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.44
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.43
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.41
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.4
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.39
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.37
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.37
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.35
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.34
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.34
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.32
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.29
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.28
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.28
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.28
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.19
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.13
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.12
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.1
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.1
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.07
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.02
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	95.97
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	95.96
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	95.95
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.94
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.92
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	95.92
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	95.92
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	95.79
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.76
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	95.75
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.74
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.63
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	95.61
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.61
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.6
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.58
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.56
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.55
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	95.54
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.54
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.49
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.4
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.31
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.23
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.15
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	95.09
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.09
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.99
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	94.95
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.84
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	94.77
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	94.76
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	94.66
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.63
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.58
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.52
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.52
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.52
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.51
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.51
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	94.5
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.49
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.47
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	94.34
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.34
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	94.33
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.24
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	94.19
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.15
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.04
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.0
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.72
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.68
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.62
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.61
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.54
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.52
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.47
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.42
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.37
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	93.32
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.26
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.1
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.98
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	92.97
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.7
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.25
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.19
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	92.14
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	92.04
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	91.93
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	91.88
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	91.84
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	91.78
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	91.64
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.62
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	91.62
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	91.51
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	91.49
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	91.48
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.45
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.32
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	91.3
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	91.25
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	91.15
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	91.14
d2fh5b1	207	Signal recognition particle receptor beta-subunit	91.11
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.09
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	91.09
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	91.08
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	91.06
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	91.02
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	90.98
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	90.98
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	90.9
d1nrjb_	209	Signal recognition particle receptor beta-subunit	90.89
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	90.88
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	90.83
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	90.79
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	90.79
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	90.72
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	90.72
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	90.71
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	90.66
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	90.65
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	90.62
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	90.34
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	90.31
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	90.26
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	90.26
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	90.21
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	90.2
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.13
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	90.1
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.04
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	90.03
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	90.0
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	90.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	89.96
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	89.85
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	89.77
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.67
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	89.61
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	89.58
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	89.58
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	89.49
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	89.37
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	89.33
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	89.25
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	89.16
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	89.01
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	88.93
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	88.9
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	88.85
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	88.83
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	88.82
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	88.78
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	88.72
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	88.66
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	88.45
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.43
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	88.37
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	88.36
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	88.3
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	88.25
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	88.22
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	87.71
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	87.69
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	87.43
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	87.33
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	86.89
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	86.83
d1tuea_	205	Replication protein E1 helicase domain {Human papi	86.81
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	86.68
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	86.33
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	85.18
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	85.07
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	85.0
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	84.39
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	81.74
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	81.68
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	81.48
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	81.3
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	80.91
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	80.66

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=100.00  E-value=5.6e-45  Score=296.04  Aligned_cols=249  Identities=15%  Similarity=0.127  Sum_probs=194.5

Q ss_pred             CCCCCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCC--HHCCCCCEEEEEECCCCCHHHH
Q ss_conf             76771110224799999998259989999947999974698809999999955700--0123762389993677787789
Q 000471          183 VNEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR--VQRHYEIKAWTCVSEDFDVFRI  260 (1472)
Q Consensus       183 ~~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~~  260 (1472)
                      +.++.++||+.++++|+++|...   .+...++|+|+||||+||||||+++|++..  .+.+|++++|+++++.++...+
T Consensus        17 p~~~~~~gR~~~~~~i~~~L~~~---~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l   93 (277)
T d2a5yb3          17 PKQMTCYIREYHVDRVIKKLDEM---CDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTF   93 (277)
T ss_dssp             BCCCCSCCCHHHHHHHHHHHHHH---TTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHH
T ss_pred             CCCCCEECCHHHHHHHHHHHHHC---CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCHHHH
T ss_conf             99886237399999999998734---687840899977997888999999998556554012764899993687777789


Q ss_pred             HHHHHHHH---CCCCC------CCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECC
Q ss_conf             99999962---07988------9933199999999966099849999827998797408752045668999958999728
Q 000471          261 SKSILNSV---ASDQC------KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTR  331 (1472)
Q Consensus       261 ~~~il~~l---~~~~~------~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR  331 (1472)
                      ...+...+   +....      ............+.+.+.++|+|+|+||+|+..  .|..+.      ..|||||||||
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~kr~LlVLDDv~~~~--~~~~~~------~~~srilvTTR  165 (277)
T d2a5yb3          94 DLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEE--TIRWAQ------ELRLRCLVTTR  165 (277)
T ss_dssp             HHHHHHHHHHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTTSTTEEEEEEEECCHH--HHHHHH------HTTCEEEEEES
T ss_pred             HHHHHHHHHHHCCHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEECCHHHHHH--HHHHHC------CCCCEEEEEEE
T ss_conf             9999999987220220278632123369999999999844688167525066776--655520------45755999964


Q ss_pred             CHHHHHHHCCC-CCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCCHHHHH
Q ss_conf             94899760998-90637999957599999852208999788841799999999981997368999985531899945699
Q 000471          332 NLVVAERMGAD-PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTLGGLLRGRDDPRDWE  410 (1472)
Q Consensus       332 ~~~~~~~~~~~-~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~~~~l~~~~~~~~w~  410 (1472)
                      +..++..+... +.|++++|+.+|||+||..+++....   .+..++++++|+++|+|+|||++++|+.++.+ ..+.|.
T Consensus       166 ~~~v~~~~~~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~---~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k-~~~~~~  241 (277)
T d2a5yb3         166 DVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPV---GEKEEDVLNKTIELSSGNPATLMMFFKSCEPK-TFEKMA  241 (277)
T ss_dssp             BGGGGGGCCSCEEEEECCCCCHHHHHHHHHHTSCCCC-----CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSS-SHHHHH
T ss_pred             HHHHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCCC---CHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCC-CHHHHH
T ss_conf             48999863788716877889979999999998477667---42567999999999589989999999986559-899999


Q ss_pred             HHHHHCCCCCCCCCCCCCHHHCCCCCCHHHHHHHHHH
Q ss_conf             9982002345788842002101358996667585142
Q 000471          411 FVLKTDIWNLRDSDILPALRVSYHFLPPQLKQCFAYC  447 (1472)
Q Consensus       411 ~~~~~~~~~~~~~~i~~~l~~sy~~L~~~~k~~f~~~  447 (1472)
                      ...+... ......+..++.+||+.||+++|.||.++
T Consensus       242 ~~~~~L~-~~~~~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         242 QLNNKLE-SRGLVGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             HHHHHHH-HHCSSTTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             HHHHHHH-CCCHHHHHHHHHHHHHCCCHHHHHHHHHC
T ss_conf             9999973-48678899999998851269999999739

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.93  E-value=1.4e-23  Score=161.18  Aligned_cols=86  Identities=16%  Similarity=0.320  Sum_probs=68.3

Q ss_pred             CCCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEE
Q ss_conf             34995119983687887557856478785847741786453345323401665599537875322301311044877523
Q 000471          595 NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHL  674 (1472)
Q Consensus       595 ~~l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L  674 (1472)
                      ..+..|+.|+++++ .+.++ +.+..+++|++|++++|+|+.+|. ++++++|++|++++|. +..++. ++.+++|+.|
T Consensus        41 ~~l~~l~~L~l~~~-~I~~l-~gl~~L~nL~~L~Ls~N~l~~l~~-l~~L~~L~~L~L~~n~-i~~i~~-l~~l~~L~~L  115 (384)
T d2omza2          41 TDLDQVTTLQADRL-GIKSI-DGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQ-IADITP-LANLTNLTGL  115 (384)
T ss_dssp             HHHTTCCEEECCSS-CCCCC-TTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG-GTTCTTCCEE
T ss_pred             HHHCCCCEEECCCC-CCCCC-CCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCCCCCCCC-CCCCCC-CCCCCCCCCC
T ss_conf             89578789989998-98776-242458999989681881798863-3477110103013433-322221-1123343334


Q ss_pred             ECCCCCCCCCCC
Q ss_conf             148999854388
Q 000471          675 RNSTANSLKEMP  686 (1472)
Q Consensus       675 ~l~~~~~~~~~p  686 (1472)
                      +++++. ...++
T Consensus       116 ~~~~~~-~~~~~  126 (384)
T d2omza2         116 TLFNNQ-ITDID  126 (384)
T ss_dssp             ECCSSC-CCCCG
T ss_pred             CCCCCC-CCCCC
T ss_conf             433222-22222

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.92  E-value=6.5e-23  Score=157.02  Aligned_cols=76  Identities=24%  Similarity=0.371  Sum_probs=49.7

Q ss_pred             CCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             47878584774178645334532340166559953787532230131104487752314899985438874345555454
Q 000471          618 IGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTANSLKEMPKGFGKLTSLLT  697 (1472)
Q Consensus       618 i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~i~~L~~L~~  697 (1472)
                      ...+.+|++|++++++|+.+ +.+..|++|++|++++| .+..+|. ++++++|++|++++|. +..++ .++.+++|+.
T Consensus        40 ~~~l~~l~~L~l~~~~I~~l-~gl~~L~nL~~L~Ls~N-~l~~l~~-l~~L~~L~~L~L~~n~-i~~i~-~l~~l~~L~~  114 (384)
T d2omza2          40 QTDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNN-QLTDITP-LKNLTKLVDILMNNNQ-IADIT-PLANLTNLTG  114 (384)
T ss_dssp             HHHHTTCCEEECCSSCCCCC-TTGGGCTTCCEEECCSS-CCCCCGG-GTTCTTCCEEECCSSC-CCCCG-GGTTCTTCCE
T ss_pred             HHHHCCCCEEECCCCCCCCC-CCCCCCCCCCEEECCCC-CCCCCCC-CCCCCCCCCCCCCCCC-CCCCC-CCCCCCCCCC
T ss_conf             88957878998999898776-24245899998968188-1798863-3477110103013433-32222-1112334333


Q ss_pred             C
Q ss_conf             4
Q 000471          698 L  698 (1472)
Q Consensus       698 L  698 (1472)
                      |
T Consensus       115 L  115 (384)
T d2omza2         115 L  115 (384)
T ss_dssp             E
T ss_pred             C
T ss_conf             4

>d1xkua_ c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Decorin
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.85  E-value=4.2e-19  Score=132.99  Aligned_cols=86  Identities=27%  Similarity=0.369  Sum_probs=61.0

Q ss_pred             CCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCH-HHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECC
Q ss_conf             51199836878875578564787858477417864533453-23401665599537875322301311044877523148
Q 000471          599 RLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPE-SINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNS  677 (1472)
Q Consensus       599 ~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~  677 (1472)
                      ..+.++.++. .+.++|..+.  +++++|+|++|+|+.+|. +|.++++|++|++++|......|..|.++++|++|+++
T Consensus        11 ~~~~~~C~~~-~L~~lP~~l~--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~   87 (305)
T d1xkua_          11 HLRVVQCSDL-GLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS   87 (305)
T ss_dssp             ETTEEECTTS-CCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEECCC-CCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEECCC
T ss_conf             5999985599-9885198889--997989784991898696576046565231123443445235665279855783156


Q ss_pred             CCCCCCCCCCC
Q ss_conf             99985438874
Q 000471          678 TANSLKEMPKG  688 (1472)
Q Consensus       678 ~~~~~~~~p~~  688 (1472)
                      +|. +..+|..
T Consensus        88 ~n~-l~~l~~~   97 (305)
T d1xkua_          88 KNQ-LKELPEK   97 (305)
T ss_dssp             SSC-CSBCCSS
T ss_pred             CCC-CCCCCCC
T ss_conf             875-6767640

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.85  E-value=1.1e-21  Score=149.34  Aligned_cols=98  Identities=20%  Similarity=0.328  Sum_probs=42.1

Q ss_pred             CCEEEEECCCCCCC---CCCCCCCCCCCCCEEECCC-CCCC-CCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCE
Q ss_conf             51199836878875---5785647878584774178-6453-34532340166559953787532230131104487752
Q 000471          599 RLRVFSLRGCGNIF---NLPNEIGNLKHLRCLNLSR-TRIQ-ILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHH  673 (1472)
Q Consensus       599 ~Lr~L~L~~~~~~~---~lp~~i~~l~~Lr~L~L~~-~~i~-~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~  673 (1472)
                      +++.|+|+++ .+.   .+|.+|+++++|++|+|++ |++. .+|.+|++|.+|++|++++|......|..+..+.+|++
T Consensus        51 ~v~~L~L~~~-~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~  129 (313)
T d1ogqa_          51 RVNNLDLSGL-NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT  129 (313)
T ss_dssp             CEEEEEEECC-CCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCE
T ss_pred             EEEEEECCCC-CCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHCC
T ss_conf             9889989899-888888798478467533520202654333002431145420011020356434433222220111001


Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             314899985438874345555454
Q 000471          674 LRNSTANSLKEMPKGFGKLTSLLT  697 (1472)
Q Consensus       674 L~l~~~~~~~~~p~~i~~L~~L~~  697 (1472)
                      +++++|.....+|..++.+++|+.
T Consensus       130 l~l~~N~~~~~~p~~l~~l~~L~~  153 (313)
T d1ogqa_         130 LDFSYNALSGTLPPSISSLPNLVG  153 (313)
T ss_dssp             EECCSSEEESCCCGGGGGCTTCCE
T ss_pred             CCCCCCCCCCCCCHHHCCCCCCCE
T ss_conf             111224555568512206740000

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.83  E-value=3e-16  Score=114.93  Aligned_cols=89  Identities=24%  Similarity=0.329  Sum_probs=64.5

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECC
Q ss_conf             95119983687887557856478785847741786453345323401665599537875322301311044877523148
Q 000471          598 PRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNS  677 (1472)
Q Consensus       598 ~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~  677 (1472)
                      .++++|+|+++ .++.+|+.   +++|++|++++|+|+.+|..+   .+|+.|++++|. +..++. +  .+.|++|+++
T Consensus        38 ~~l~~LdLs~~-~L~~lp~~---~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~-l~~l~~-l--p~~L~~L~L~  106 (353)
T d1jl5a_          38 RQAHELELNNL-GLSSLPEL---PPHLESLVASCNSLTELPELP---QSLKSLLVDNNN-LKALSD-L--PPLLEYLGVS  106 (353)
T ss_dssp             HTCSEEECTTS-CCSCCCSC---CTTCSEEECCSSCCSSCCCCC---TTCCEEECCSSC-CSCCCS-C--CTTCCEEECC
T ss_pred             CCCCEEEECCC-CCCCCCCC---CCCCCEEECCCCCCCCCCCCH---HHHHHHHHHHCC-CCHHHH-H--CCCCCCCCCC
T ss_conf             69989993799-98878898---789888989999796336203---320332665514-320321-0--2211111334


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9998543887434555545449
Q 000471          678 TANSLKEMPKGFGKLTSLLTLG  699 (1472)
Q Consensus       678 ~~~~~~~~p~~i~~L~~L~~L~  699 (1472)
                      +|. +..+|. ++.+++|++|.
T Consensus       107 ~n~-l~~lp~-~~~l~~L~~L~  126 (353)
T d1jl5a_         107 NNQ-LEKLPE-LQNSSFLKIID  126 (353)
T ss_dssp             SSC-CSSCCC-CTTCTTCCEEE
T ss_pred             CCC-CCCCCC-HHHHCCCEEEC
T ss_conf             554-322210-01101312311

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Polygalacturonase inhibiting protein PGIP
domain: Polygalacturonase inhibiting protein PGIP
species: Kidney bean (Phaseolus vulgaris) [TaxId: 3885]

Probab=99.83  E-value=3.2e-20  Score=140.07  Aligned_cols=103  Identities=20%  Similarity=0.321  Sum_probs=72.7

Q ss_pred             HHCCCCCCEEEEECCCCCC-CCCCCCCCCCCCCCEEECCCCCCCCC-CHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCC
Q ss_conf             7234995119983687887-55785647878584774178645334-532340166559953787532230131104487
Q 000471          593 LLNHLPRLRVFSLRGCGNI-FNLPNEIGNLKHLRCLNLSRTRIQIL-PESINSLYNLHTILLEDCHQLKKLCKDMGNLRK  670 (1472)
Q Consensus       593 ~~~~l~~Lr~L~L~~~~~~-~~lp~~i~~l~~Lr~L~L~~~~i~~l-p~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~  670 (1472)
                      .+.++++|++|+|+++..+ +.+|.+|+++.+|++|+|++|++..+ |..+..+..|+++++++|.....+|..+.++++
T Consensus        71 ~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~l~~  150 (313)
T d1ogqa_          71 SLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPN  150 (313)
T ss_dssp             GGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGGCTT
T ss_pred             HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHCCCCC
T ss_conf             78467533520202654333002431145420011020356434433222220111001111224555568512206740


Q ss_pred             CCEEECCCCCCCCCCCCCCCCCCCC
Q ss_conf             7523148999854388743455554
Q 000471          671 LHHLRNSTANSLKEMPKGFGKLTSL  695 (1472)
Q Consensus       671 L~~L~l~~~~~~~~~p~~i~~L~~L  695 (1472)
                      |+++++++|.....+|..+..+.++
T Consensus       151 L~~l~l~~n~l~~~ip~~~~~l~~l  175 (313)
T d1ogqa_         151 LVGITFDGNRISGAIPDSYGSFSKL  175 (313)
T ss_dssp             CCEEECCSSCCEEECCGGGGCCCTT
T ss_pred             CCEEECCCCCCCCCCCCCCCCCCCC
T ss_conf             0000023553356203121443112

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

Probab=99.82  E-value=5.3e-17  Score=119.70  Aligned_cols=79  Identities=22%  Similarity=0.293  Sum_probs=40.5

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECC
Q ss_conf             95119983687887557856478785847741786453345323401665599537875322301311044877523148
Q 000471          598 PRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNS  677 (1472)
Q Consensus       598 ~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~  677 (1472)
                      ++|++|++++| .+..+|..+   .+|+.|++++|+++.++.-   ...|++|++++| .+..+|. ++.+++|++|++.
T Consensus        58 ~~L~~L~Ls~N-~l~~lp~~~---~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~~n-~l~~lp~-~~~l~~L~~L~l~  128 (353)
T d1jl5a_          58 PHLESLVASCN-SLTELPELP---QSLKSLLVDNNNLKALSDL---PPLLEYLGVSNN-QLEKLPE-LQNSSFLKIIDVD  128 (353)
T ss_dssp             TTCSEEECCSS-CCSSCCCCC---TTCCEEECCSSCCSCCCSC---CTTCCEEECCSS-CCSSCCC-CTTCTTCCEEECC
T ss_pred             CCCCEEECCCC-CCCCCCCCH---HHHHHHHHHHCCCCHHHHH---CCCCCCCCCCCC-CCCCCCC-HHHHCCCEEECCC
T ss_conf             89888989999-796336203---3203326655143203210---221111133455-4322210-0110131231135


Q ss_pred             CCCCCCCCC
Q ss_conf             999854388
Q 000471          678 TANSLKEMP  686 (1472)
Q Consensus       678 ~~~~~~~~p  686 (1472)
                      ++. +...+
T Consensus       129 ~~~-~~~~~  136 (353)
T d1jl5a_         129 NNS-LKKLP  136 (353)
T ss_dssp             SSC-CSCCC
T ss_pred             CCC-CCCCC
T ss_conf             651-00132

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.81  E-value=5.8e-19  Score=132.07  Aligned_cols=97  Identities=23%  Similarity=0.247  Sum_probs=59.6

Q ss_pred             CCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCC-HHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEE
Q ss_conf             4995119983687887557856478785847741786453345-323401665599537875322301311044877523
Q 000471          596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILP-ESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHL  674 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L  674 (1472)
                      +...+...+.+++ .+..+|..+.  ++|++|+|++|.|+.+| ..|.++++|++|++++| .+..+|. ++.+++|++|
T Consensus         8 ~~~~~~~v~C~~~-~L~~iP~~lp--~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N-~l~~l~~-~~~l~~L~~L   82 (266)
T d1p9ag_           8 KVASHLEVNCDKR-NLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRA-ELTKLQV-DGTLPVLGTL   82 (266)
T ss_dssp             CSTTCCEEECTTS-CCSSCCSCCC--TTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTS-CCCEEEC-CSCCTTCCEE
T ss_pred             CCCCCEEEECCCC-CCCEECCCCC--CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCC-CCCCCCC-CCCCCCCCCC
T ss_conf             2689869980699-9886196757--68898988499289859778634565522135665-4444311-1112232111


Q ss_pred             ECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             148999854388743455554544
Q 000471          675 RNSTANSLKEMPKGFGKLTSLLTL  698 (1472)
Q Consensus       675 ~l~~~~~~~~~p~~i~~L~~L~~L  698 (1472)
                      ++++|. +...+..+..+++|+.|
T Consensus        83 ~Ls~N~-l~~~~~~~~~l~~L~~L  105 (266)
T d1p9ag_          83 DLSHNQ-LQSLPLLGQTLPALTVL  105 (266)
T ss_dssp             ECCSSC-CSSCCCCTTTCTTCCEE
T ss_pred             CCCCCC-CCCCCCCCCCCCCCCCC
T ss_conf             112222-21111121222222222

>d1ozna_ c.10.2.7 (A:) Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Reticulon 4 receptor (Nogo-66 receptor, Ngr)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.77  E-value=5.3e-18  Score=126.01  Aligned_cols=239  Identities=18%  Similarity=0.162  Sum_probs=0.0

Q ss_pred             CCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCHHCC-CCCCHHHHCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCC-
Q ss_conf             6542344579988766665885033343133000056-87322210011346668623478887648760248886424-
Q 000471         1204 CSNLAFLSRNGNLPQALKYLRVEDCSKLESLAERLDN-TSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESF- 1281 (1472)
Q Consensus      1204 ~~~l~~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~-~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~~- 1281 (1472)
                      |.+.........+|.++++|+++++...+..+..+.. ++|+.|+++++......+..+.+++.++.+.+..+..++.+ 
T Consensus        18 c~~~~L~~iP~~ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~   97 (284)
T d1ozna_          18 CPQQGLQAVPVGIPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVD   97 (284)
T ss_dssp             CCSSCCSSCCTTCCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCC
T ss_pred             CCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             47999894497889998889774881798797786414213000013445433211121222222222222102235446


Q ss_pred             CCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCC--CCCCCCCEEEECCCCCCCCCCCCCCCC
Q ss_conf             899878888448932356455446444788876457630189998448999--998996636743646878887122365
Q 000471         1282 PEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFPTNLQSLEVRGLKISKPLPEWGFNR 1359 (1472)
Q Consensus      1282 ~~~~~~l~~L~~L~L~~c~~l~~l~~~l~~l~~L~~L~l~~n~~l~~~~~~--~~~~~L~~L~l~~n~~~~~~~~~~l~~ 1359 (1472)
                      +..+..+++|++|++++|......+..+...++|+.+++.+| .++.++..  ...++|+.|++++|.+....+. .|..
T Consensus        98 ~~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N-~l~~i~~~~f~~~~~L~~L~l~~N~l~~l~~~-~f~~  175 (284)
T d1ozna_          98 PATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGNRISSVPER-AFRG  175 (284)
T ss_dssp             TTTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSS-CCCCCCTTTTTTCTTCCEEECCSSCCCEECTT-TTTT
T ss_pred             CHHHCCCCCCCEEECCCCCCCCCCCCCCCHHCCCCHHHHCCC-CCCCCCHHHHCCCCCHHHCCCCCCCCCCCCHH-HHCC
T ss_conf             201010102778756885443201353320001211020014-31445805740434050223141765662566-6546


Q ss_pred             CCCCCEEEECCCCCCCCCCCCC--CCCCCCEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECC
Q ss_conf             5653314511699999899998--86656144257777676545488877676130337778877899888664460204
Q 000471         1360 FTSLRRFTICGGCPDLVSPPPF--PASLTNLWISDMPDLESISSIGENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSI 1437 (1472)
Q Consensus      1360 l~~L~~L~L~~~~~~~~~~~~~--~~~L~~L~l~~~~~l~~~~~~~~~l~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~i 1437 (1472)
                      +++|+.+++++|.........+  +.+|+.|++++|......+..+.++++|++|++++|+....-+...+...++.+..
T Consensus       176 l~~L~~l~l~~N~l~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N~l~C~C~~~~l~~~l~~~~~  255 (284)
T d1ozna_         176 LHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDCRARPLWAWLQKFRG  255 (284)
T ss_dssp             CTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSSCEECSGGGHHHHHHHHHCCS
T ss_pred             CCCCCHHHHHHCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCHHHHHHHHHCCC
T ss_conf             56341314211434662816766532000233333522100000235546568898119988787564699999986738


Q ss_pred             CCCCCHH
Q ss_conf             4890148
Q 000471         1438 HNCPLIE 1444 (1472)
Q Consensus      1438 ~~~~~l~ 1444 (1472)
                      ..+...|
T Consensus       256 ~~~~~~C  262 (284)
T d1ozna_         256 SSSEVPC  262 (284)
T ss_dssp             EECCCBE
T ss_pred             CCCCEEE
T ss_conf             8886674

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=7.5e-17  Score=118.74  Aligned_cols=21  Identities=19%  Similarity=0.127  Sum_probs=7.3

Q ss_pred             CCCEECCCCCCCHHHHHCCCCC
Q ss_conf             4460204489014886325999
Q 000471         1431 SLSRLSIHNCPLIEKRCRKDEG 1452 (1472)
Q Consensus      1431 ~L~~L~i~~~~~l~~~~~~~~~ 1452 (1472)
                      +|+.|++++||..|+ |...|+
T Consensus       196 ~L~~L~L~~Np~~Cd-C~~~~l  216 (266)
T d1p9ag_         196 LLPFAFLHGNPWLCN-CEILYF  216 (266)
T ss_dssp             CCSEEECCSCCBCCS-GGGHHH
T ss_pred             CCCEEEECCCCCCCC-CCHHHH
T ss_conf             899998369998788-643799

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.62  E-value=7.7e-15  Score=106.08  Aligned_cols=80  Identities=19%  Similarity=0.307  Sum_probs=39.0

Q ss_pred             CCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEE
Q ss_conf             49951199836878875578564787858477417864533453234016655995378753223013110448775231
Q 000471          596 HLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLR  675 (1472)
Q Consensus       596 ~l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~  675 (1472)
                      .+..|+.|++.+| .+..++ .+..+++|++|++++|.+..++. +.++.+|+++++++|. ...++ .+..+++|+.++
T Consensus        39 ~l~~L~~L~l~~~-~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n~-~~~i~-~l~~l~~L~~l~  113 (227)
T d1h6ua2          39 DLDGITTLSAFGT-GVTTIE-GVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNP-LKNVS-AIAGLQSIKTLD  113 (227)
T ss_dssp             HHHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCC-CSCCG-GGTTCTTCCEEE
T ss_pred             HCCCCCEEECCCC-CCCCCH-HHHCCCCCCEEECCCCEEECCCC-CCCCCCCCCCCCCCCC-CCCCC-CCCCCCCCCCCC
T ss_conf             8488689977799-997664-57448888376357853202543-1123343201211122-22222-222222221221


Q ss_pred             CCCCC
Q ss_conf             48999
Q 000471          676 NSTAN  680 (1472)
Q Consensus       676 l~~~~  680 (1472)
                      ++++.
T Consensus       114 l~~~~  118 (227)
T d1h6ua2         114 LTSTQ  118 (227)
T ss_dssp             CTTSC
T ss_pred             CCCCC
T ss_conf             22244

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=4.1e-16  Score=114.10  Aligned_cols=15  Identities=13%  Similarity=0.009  Sum_probs=6.0

Q ss_pred             CCCCCEEEECCCCCC
Q ss_conf             887648760248886
Q 000471         1264 LHHLQKIWINYCPNL 1278 (1472)
Q Consensus      1264 l~~L~~L~L~~~~~l 1278 (1472)
                      +++|++|++++|+.+
T Consensus       174 ~~~L~~L~L~~~~~i  188 (284)
T d2astb2         174 CPNLVHLDLSDSVML  188 (284)
T ss_dssp             CTTCSEEECTTCTTC
T ss_pred             CCCCCCCCCCCCCCC
T ss_conf             222123553223477

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.55  E-value=3e-14  Score=102.30  Aligned_cols=79  Identities=20%  Similarity=0.306  Sum_probs=48.8

Q ss_pred             CCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEEC
Q ss_conf             99511998368788755785647878584774178645334532340166559953787532230131104487752314
Q 000471          597 LPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRN  676 (1472)
Q Consensus       597 l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l  676 (1472)
                      +..|+.|++++| .+..++ .+..+++|++|++++|.|+.++ .+..+++|++|++++|. +..+| .+..+++|+.|++
T Consensus        45 L~~L~~L~l~~~-~i~~l~-~l~~l~~L~~L~L~~n~i~~l~-~~~~l~~L~~L~l~~n~-i~~l~-~l~~l~~L~~L~l  119 (210)
T d1h6ta2          45 LNSIDQIIANNS-DIKSVQ-GIQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENK-VKDLS-SLKDLKKLKSLSL  119 (210)
T ss_dssp             HHTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSC-CCCGG-GGTTCTTCCEEEC
T ss_pred             HCCCCEEECCCC-CCCCCH-HHHHCCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCCC-CCCCC-CCCCCCCCCCCCC
T ss_conf             548458978279-888744-4764899898769896025860-11358621201433333-21222-1212221112234


Q ss_pred             CCCC
Q ss_conf             8999
Q 000471          677 STAN  680 (1472)
Q Consensus       677 ~~~~  680 (1472)
                      +++.
T Consensus       120 ~~~~  123 (210)
T d1h6ta2         120 EHNG  123 (210)
T ss_dssp             TTSC
T ss_pred             CCCC
T ss_conf             5653

>d1h6ta2 c.10.2.1 (A:31-240) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.55  E-value=4.1e-14  Score=101.48  Aligned_cols=34  Identities=24%  Similarity=0.228  Sum_probs=13.1

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECCC
Q ss_conf             88776761303377788778998886644602044
Q 000471         1404 ENLTSLETLRLFNCPKLKYFPEQGLPKSLSRLSIH 1438 (1472)
Q Consensus      1404 ~~l~~L~~L~l~~~~~l~~l~~~~~~~~L~~L~i~ 1438 (1472)
                      .++++|+.|++++| .++.++....+++|++|+++
T Consensus       175 ~~l~~L~~L~Ls~N-~i~~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         175 AGLTKLQNLYLSKN-HISDLRALAGLKNLDVLELF  208 (210)
T ss_dssp             TTCTTCCEEECCSS-CCCBCGGGTTCTTCSEEEEE
T ss_pred             CCCCCCCEEECCCC-CCCCCHHHCCCCCCCEEECC
T ss_conf             67898999989799-89987211699998999711

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.54  E-value=1.6e-14  Score=104.05  Aligned_cols=59  Identities=24%  Similarity=0.322  Sum_probs=26.0

Q ss_pred             CCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECCCCC
Q ss_conf             78785847741786453345323401665599537875322301311044877523148999
Q 000471          619 GNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       619 ~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                      ..+.+|++|++.+|+|+.++ .+..+++|++|++++|. +..++. +..+++|+.++++++.
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n~-i~~~~~-l~~l~~l~~l~~~~n~   96 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQ-ITDLAP-LKNLTKITELELSGNP   96 (227)
T ss_dssp             HHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCCSCCEEECCSCC
T ss_pred             HHCCCCCEEECCCCCCCCCH-HHHCCCCCCEEECCCCE-EECCCC-CCCCCCCCCCCCCCCC
T ss_conf             78488689977799997664-57448888376357853-202543-1123343201211122

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.4e-12  Score=91.80  Aligned_cols=230  Identities=16%  Similarity=0.149  Sum_probs=0.0

Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCHHHCCCCCCCEEEECCCCCCCCCCCCCC--CCCCCEEEEC
Q ss_conf             58882222211123467999998642688324889775410104899864899625798533488888--9974469842
Q 000471          984 RCPQLLSLVTEEEHDQQQPESPCRLQFLKLSKCEGLTRLPQALLTLSSLTEMRISGCASLVSFPQAAL--PSHLRTVKIE 1061 (1472)
Q Consensus       984 ~~~~l~~~~~~~~~~~~~~~~l~~L~~L~Ls~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~--~~~L~~L~l~ 1061 (1472)
                      .|......+............++++++|++++|.+....+..|.++++|+.|++++|.....++...+  .+.++.+.+.
T Consensus         7 ~C~~~~i~c~~~~l~~iP~~l~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~   86 (242)
T d1xwdc1           7 HCSNRVFLCQESKVTEIPSDLPRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIE   86 (242)
T ss_dssp             EECSSEEEEESCSCSSCCSCSCSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEE
T ss_pred             CCCCCEEEEECCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCC
T ss_conf             87399999818998876888899889998769918964966861464323211022112420100112222222221111


Q ss_pred             CCCCCCCCHHHHHCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEE--EECCCCCCCCCHHHHCCCCCCCCEEEECCCC
Q ss_conf             79998778143311688885538861599987579999999953899--8227886668521112898865607652457
Q 000471         1062 DCNALESLPEAWMHNSNSSLESLKIRNCNSLVSFPEVALPSQLRTVK--IEYCNALISLPEAWMQNSNTSLESLRIKGCD 1139 (1472)
Q Consensus      1062 ~~~~l~~~~~~~~~~~~~~L~~L~l~~~~~l~~~~~~~~~~~L~~L~--l~~~~~l~~~~~~~~~~~~~~L~~L~l~~c~ 1139 (1472)
                      .++.+...+...+.. +++|+.+++++| .+...+......+++.+.  ...+..+..++...+......++.+++.+  
T Consensus        87 ~~n~l~~~~~~~~~~-l~~L~~l~l~~~-~l~~~~~~~~~~~l~~l~~~~~~n~~l~~i~~~~~~~~~~~l~~L~l~~--  162 (242)
T d1xwdc1          87 KANNLLYINPEAFQN-LPNLQYLLISNT-GIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK--  162 (242)
T ss_dssp             CCTTCCEECTTSEEC-CTTCCEEEEESC-CCCSCCCCTTTCBSSCEEEEEESCTTCCEECTTSSTTSBSSCEEEECCS--
T ss_pred             CCCCCCCCCCCCCCC-CCCCCCCCCCHH-HHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCC--
T ss_conf             123432222221222-222222234211-1125543332221111222222212111222222222233100122001--


Q ss_pred             CCCCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             73210111499754457760224521012543324567887743213678886333332223346542344579988766
Q 000471         1140 SLKYIARIQLPPSLKRLIVSRCWNLRTLIGEQDICSSSRGCTSLTYFSSENELPTMLEHLQVRFCSNLAFLSRNGNLPQA 1219 (1472)
Q Consensus      1140 ~l~~~~~~~~~~~L~~L~l~~c~~l~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~L~~l~l~~~~~l~~~~~~~~~~~~ 1219 (1472)
                                                                                                      
T Consensus       163 --------------------------------------------------------------------------------  162 (242)
T d1xwdc1         163 --------------------------------------------------------------------------------  162 (242)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             --------------------------------------------------------------------------------
T ss_conf             --------------------------------------------------------------------------------


Q ss_pred             CCEEEECCCCCCCCCCCHHCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCC-CCCCCCCCEEECCC
Q ss_conf             66588503334313300005687322210011346668623478887648760248886424899-87888844893235
Q 000471         1220 LKYLRVEDCSKLESLAERLDNTSLEEITISVLENLKSLPADLHNLHHLQKIWINYCPNLESFPEE-GLPSTKLTELTIYD 1298 (1472)
Q Consensus      1220 L~~L~l~~c~~l~~~~~~~~~~~L~~L~l~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~~~~~-~~~l~~L~~L~L~~ 1298 (1472)
                                                      +.+..++....+.++++.+....+..++.++.. +..+++|++|++++
T Consensus       163 --------------------------------n~l~~i~~~~~~~~~l~~~~~l~~n~l~~l~~~~f~~l~~L~~L~Ls~  210 (242)
T d1xwdc1         163 --------------------------------NGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISR  210 (242)
T ss_dssp             --------------------------------SCCCEECTTTTTTCCEEEEECTTCTTCCCCCTTTTTTSCCCSEEECTT
T ss_pred             --------------------------------CCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCHHHHCCCCCCCEEECCC
T ss_conf             --------------------------------233332222222011101212354324642478866899999898979


Q ss_pred             CCCCCCCCCCCCCCCCCCEEEECCCCCCCCC
Q ss_conf             6455446444788876457630189998448
Q 000471         1299 CENLKALPNCMHNLTSLLILEIRGCPSVVSF 1329 (1472)
Q Consensus      1299 c~~l~~l~~~l~~l~~L~~L~l~~n~~l~~~ 1329 (1472)
                      |......+..+.+++.|+.+++.....+.++
T Consensus       211 N~l~~l~~~~~~~l~~L~~l~~~~l~~lp~~  241 (242)
T d1xwdc1         211 TRIHSLPSYGLENLKKLRARSTYNLKKLPTL  241 (242)
T ss_dssp             SCCCCCCSSSCTTCCEEESSSEESSSCSCCC
T ss_pred             CCCCCCCHHHHCCCCCCCCCCCCCCCCCCCC
T ss_conf             9289459779737713414767889869899

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.53  E-value=1.4e-13  Score=98.10  Aligned_cols=79  Identities=18%  Similarity=0.301  Sum_probs=38.5

Q ss_pred             CCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEEC
Q ss_conf             99511998368788755785647878584774178645334532340166559953787532230131104487752314
Q 000471          597 LPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRN  676 (1472)
Q Consensus       597 l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l  676 (1472)
                      +..++.|+++++ .+.+++ .+..+++|++|++++|.++.++. ++++++|++|++++|. ...++. +.++++|+.|++
T Consensus        39 l~~l~~L~l~~~-~i~~l~-~l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~-~~~~~~-l~~l~~L~~L~l  113 (199)
T d2omxa2          39 LDQVTTLQADRL-GIKSID-GVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQ-IADITP-LANLTNLTGLTL  113 (199)
T ss_dssp             HTTCCEEECTTS-CCCCCT-TGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSC-CCCCGG-GTTCTTCSEEEC
T ss_pred             HCCCCEEECCCC-CCCCCC-CCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCC-CCCCCC-CCCCCCCCCCCC
T ss_conf             468789989999-997752-02137886757545655667640-1677522311112222-222211-111223222111


Q ss_pred             CCCC
Q ss_conf             8999
Q 000471          677 STAN  680 (1472)
Q Consensus       677 ~~~~  680 (1472)
                      +++.
T Consensus       114 ~~~~  117 (199)
T d2omxa2         114 FNNQ  117 (199)
T ss_dssp             CSSC
T ss_pred             CCCC
T ss_conf             2222

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.51  E-value=8.3e-14  Score=99.55  Aligned_cols=199  Identities=18%  Similarity=0.204  Sum_probs=113.3

Q ss_pred             CCCCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCC-----CCHH
Q ss_conf             67711102247999999982599899999479999746988099999999557000123762389993677-----7877
Q 000471          184 NEAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED-----FDVF  258 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~-----~~~~  258 (1472)
                      ....|+||+++++++.+..          .+++.|+|++|+|||+|++++.+.  ...   ...|+++...     ....
T Consensus        10 ~~~~f~GR~~el~~l~~~~----------~~~i~i~G~~G~GKTsLl~~~~~~--~~~---~~~~i~~~~~~~~~~~~~~   74 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGLR----------APITLVLGLRRTGKSSIIKIGINE--LNL---PYIYLDLRKFEERNYISYK   74 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHTC----------SSEEEEEESTTSSHHHHHHHHHHH--HTC---CEEEEEGGGGTTCSCCCHH
T ss_pred             CHHHCCCHHHHHHHHHHCC----------CCEEEEECCCCCCHHHHHHHHHHH--CCC---CEEEEEECCCCCCCCCCHH
T ss_conf             7220789699999998405----------987999869998299999999997--799---8699972145333324399


Q ss_pred             HHHHHHHHHHCC--------------C--------------CCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHH-
Q ss_conf             899999996207--------------9--------------88993319999999996609984999982799879740-
Q 000471          259 RISKSILNSVAS--------------D--------------QCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIR-  309 (1472)
Q Consensus       259 ~~~~~il~~l~~--------------~--------------~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~-  309 (1472)
                      .+...+......              .              .........++...+. ....++.++|+|++....... 
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~i~id~~~~~~~~~~  153 (283)
T d2fnaa2          75 DFLLELQKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFE-QASKDNVIIVLDEAQELVKLRG  153 (283)
T ss_dssp             HHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHH-HTCSSCEEEEEETGGGGGGCTT
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHH-HHCCCCCCCCCCHHHHHCCCCH
T ss_conf             999999997544555557777777753033434432223410013458999999987-6315555456640554133326


Q ss_pred             ---HHHHCCCCCCCCCCCEEEEECCCHHHHHHH-C-----------CCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCC
Q ss_conf             ---875204566899995899972894899760-9-----------9890637999957599999852208999788841
Q 000471          310 ---WSELRCPFVAGAAGSKIVVTTRNLVVAERM-G-----------ADPVYQLKELSDDDCLCVLTQISLGARDFTRHLS  374 (1472)
Q Consensus       310 ---~~~l~~~~~~~~~~s~iiiTtR~~~~~~~~-~-----------~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~  374 (1472)
                         +..+.... ........+++.+........ .           ....+.|.+++.+++.+++.+...... ...   
T Consensus       154 ~~~~~~l~~~~-~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~-~~~---  228 (283)
T d2fnaa2         154 VNLLPALAYAY-DNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEAD-IDF---  228 (283)
T ss_dssp             CCCHHHHHHHH-HHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHT-CCC---
T ss_pred             HHHHHHHHHHH-HHHHHHHHHHCCCCCHHHHHHHHHHHHCCHHCCCCEEEEEECCCCHHHHHHHHHHHHHHCC-CCH---
T ss_conf             99999999998-7531134420356506789999754210001034105886288788999999996654569-999---


Q ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHCCCCC
Q ss_conf             7999999999819973689999855318999
Q 000471          375 LKEVGEQIVIKCGGLPLAAKTLGGLLRGRDD  405 (1472)
Q Consensus       375 ~~~~~~~i~~~~~g~Plai~~~~~~l~~~~~  405 (1472)
                        +...+|++.++|+|..+..++..+.....
T Consensus       229 --~~~~~i~~~~~G~P~~L~~~~~~~~~~~~  257 (283)
T d2fnaa2         229 --KDYEVVYEKIGGIPGWLTYFGFIYLDNKN  257 (283)
T ss_dssp             --CCHHHHHHHHCSCHHHHHHHHHHHHHHCC
T ss_pred             --HHHHHHHHHHCCCHHHHHHHHHHHHHCCC
T ss_conf             --99999999969979999999999980565

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.51  E-value=1.3e-13  Score=98.27  Aligned_cols=57  Identities=23%  Similarity=0.339  Sum_probs=21.2

Q ss_pred             CCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECCCCC
Q ss_conf             785847741786453345323401665599537875322301311044877523148999
Q 000471          621 LKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       621 l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                      +.++++|+++++.|+.++ .+..+++|++|++++|. +..++. ++++++|++|++++|.
T Consensus        39 l~~l~~L~l~~~~i~~l~-~l~~l~nL~~L~Ls~N~-l~~~~~-l~~l~~L~~L~l~~n~   95 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNNQ-LTDITP-LKNLTKLVDILMNNNQ   95 (199)
T ss_dssp             HTTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSC-CCCCGG-GTTCTTCCEEECCSSC
T ss_pred             HCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCCC-CCCCCC-CCCCCCCCCCCCCCCC
T ss_conf             468789989999997752-02137886757545655-667640-1677522311112222

>d2astb2 c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Cyclin A/CDK2-associated p19, Skp2
domain: Cyclin A/CDK2-associated p19, Skp2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.48  E-value=5.7e-16  Score=113.22  Aligned_cols=13  Identities=31%  Similarity=0.516  Sum_probs=4.7

Q ss_pred             CCCCCEEEECCCC
Q ss_conf             8876487602488
Q 000471         1264 LHHLQKIWINYCP 1276 (1472)
Q Consensus      1264 l~~L~~L~L~~~~ 1276 (1472)
                      +++|++|++++|+
T Consensus       199 ~~~L~~L~L~~C~  211 (284)
T d2astb2         199 LNYLQHLSLSRCY  211 (284)
T ss_dssp             CTTCCEEECTTCT
T ss_pred             CCCCCEEECCCCC
T ss_conf             5768779899999

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.34  E-value=1.3e-09  Score=73.11  Aligned_cols=178  Identities=17%  Similarity=0.089  Sum_probs=111.9

Q ss_pred             CCCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHH
Q ss_conf             77111022479999999825998999994799997469880999999995570001237623899936777877899999
Q 000471          185 EAKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       185 ~~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      +..++|||.+++++.++|...-.......+.+.|+|++|+|||++|+.+++....... ...+|+.+............+
T Consensus        15 p~~l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~   93 (276)
T d1fnna2          15 PKRLPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTT-ARFVYINGFIYRNFTAIIGEI   93 (276)
T ss_dssp             CSCCTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCC-CEEEEEETTTCCSHHHHHHHH
T ss_pred             CCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCC-CCEEEECCHHHHHHHHHHHHH
T ss_conf             8878877999999999999998578988881688898999899999999999754468-857873230011246665456


Q ss_pred             HHHHCCCCCCCCCCHHHHHHHHHHHH--CCCEEEEEEECCCCCCHHHHHHH---CCCCCC-CCCCCEEEEECCCHHHHHH
Q ss_conf             99620798899331999999999660--99849999827998797408752---045668-9999589997289489976
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQL--SGNKFLLVLDDVWNENYIRWSEL---RCPFVA-GAAGSKIVVTTRNLVVAER  338 (1472)
Q Consensus       265 l~~l~~~~~~~~~~~~~~~~~l~~~l--~~~r~LlVlDdv~~~~~~~~~~l---~~~~~~-~~~~s~iiiTtR~~~~~~~  338 (1472)
                      ....+................+.+..  .......++|+++..........   ...... ......+|.++........
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~  173 (276)
T d1fnna2          94 ARSLNIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNN  173 (276)
T ss_dssp             HHHTTCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHH
T ss_conf             77643345553254357899999987520654332036888753543106888874044335652488625876454431


Q ss_pred             H-------CCCCCEECCCCCHHHHHHHHHHHH
Q ss_conf             0-------998906379999575999998522
Q 000471          339 M-------GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       339 ~-------~~~~~~~l~~l~~~e~~~l~~~~~  363 (1472)
                      .       .....+.+.+++.++.++++.+++
T Consensus       174 ~~~~~~~r~~~~~i~~~~~~~~e~~~il~~r~  205 (276)
T d1fnna2         174 LDPSTRGIMGKYVIRFSPYTKDQIFDILLDRA  205 (276)
T ss_dssp             SCHHHHHHHTTCEEECCCCBHHHHHHHHHHHH
T ss_pred             CCHHHHHHHCCHHCCCCCHHHHHHHHHHHHHH
T ss_conf             13036655110110344123888999999999

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.33  E-value=2.3e-12  Score=90.44  Aligned_cols=90  Identities=14%  Similarity=0.090  Sum_probs=40.5

Q ss_pred             CCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCC--CCCC
Q ss_conf             23478887648760248886424899878888448932356455446444788876457630189998448999--9989
Q 000471         1259 ADLHNLHHLQKIWINYCPNLESFPEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFPT 1336 (1472)
Q Consensus      1259 ~~l~~l~~L~~L~L~~~~~l~~~~~~~~~l~~L~~L~L~~c~~l~~l~~~l~~l~~L~~L~l~~n~~l~~~~~~--~~~~ 1336 (1472)
                      ..|.++++|+.|++++|......+..+..+++|++|++++|......+..|.++++|++|+|++| .++.++..  ..++
T Consensus        48 ~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l~~l~~~~F~~l~~L~~L~L~~N-~l~~i~~~~f~~l~  126 (192)
T d1w8aa_          48 GLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDN-QISCVMPGSFEHLN  126 (192)
T ss_dssp             CSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCCCEECSSSSTTCTTCCEEECCSS-CCCEECTTSSTTCT
T ss_pred             CCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCHHHHHCCCCCCCCCCCCC-CCCCCCHHHHCCCC
T ss_conf             02578762721301363221212122211222210100355344349799807974655245774-53535977856875


Q ss_pred             CCCEEEECCCCCC
Q ss_conf             9663674364687
Q 000471         1337 NLQSLEVRGLKIS 1349 (1472)
Q Consensus      1337 ~L~~L~l~~n~~~ 1349 (1472)
                      +|++|++++|++.
T Consensus       127 ~L~~l~L~~N~~~  139 (192)
T d1w8aa_         127 SLTSLNLASNPFN  139 (192)
T ss_dssp             TCCEEECTTCCBC
T ss_pred             CCCCCCCCCCCCC
T ss_conf             3342000364434

>d1w8aa_ c.10.2.7 (A:) Slit {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Slit
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=99.31  E-value=6.8e-12  Score=87.46  Aligned_cols=105  Identities=14%  Similarity=0.118  Sum_probs=64.3

Q ss_pred             CCCCEEEECCCCCCCCC-CCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCC--CCCCCCCEE
Q ss_conf             87648760248886424-899878888448932356455446444788876457630189998448999--998996636
Q 000471         1265 HHLQKIWINYCPNLESF-PEEGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED--GFPTNLQSL 1341 (1472)
Q Consensus      1265 ~~L~~L~L~~~~~l~~~-~~~~~~l~~L~~L~L~~c~~l~~l~~~l~~l~~L~~L~l~~n~~l~~~~~~--~~~~~L~~L 1341 (1472)
                      +++++|+|++|.....+ ...+..+++|++|++++|......+..+..+++|++|++++| .++.++..  ..+++|++|
T Consensus        29 ~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N-~l~~l~~~~F~~l~~L~~L  107 (192)
T d1w8aa_          29 LHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN-KIKEISNKMFLGLHQLKTL  107 (192)
T ss_dssp             TTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSC-CCCEECSSSSTTCTTCCEE
T ss_pred             CCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCC-CCCCCCHHHHHCCCCCCCC
T ss_conf             787889848987755302002578762721301363221212122211222210100355-3443497998079746552


Q ss_pred             EECCCCCCCCCCCCCCCCCCCCCEEEECCC
Q ss_conf             743646878887122365565331451169
Q 000471         1342 EVRGLKISKPLPEWGFNRFTSLRRFTICGG 1371 (1472)
Q Consensus      1342 ~l~~n~~~~~~~~~~l~~l~~L~~L~L~~~ 1371 (1472)
                      ++++|.+....+. .|..+++|++++|++|
T Consensus       108 ~L~~N~l~~i~~~-~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_         108 NLYDNQISCVMPG-SFEHLNSLTSLNLASN  136 (192)
T ss_dssp             ECCSSCCCEECTT-SSTTCTTCCEEECTTC
T ss_pred             CCCCCCCCCCCHH-HHCCCCCCCCCCCCCC
T ss_conf             4577453535977-8568753342000364

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.20  E-value=7.7e-14  Score=99.77  Aligned_cols=90  Identities=19%  Similarity=0.292  Sum_probs=42.7

Q ss_pred             HHHHHCCCCCCEEEEECCCCCCC-----CCCCCCCCCCCCCEEECCCCCCCC-----CCHHHH-HCCCCCEEECCCCCCH
Q ss_conf             99972349951199836878875-----578564787858477417864533-----453234-0166559953787532
Q 000471          590 LQRLLNHLPRLRVFSLRGCGNIF-----NLPNEIGNLKHLRCLNLSRTRIQI-----LPESIN-SLYNLHTILLEDCHQL  658 (1472)
Q Consensus       590 ~~~~~~~l~~Lr~L~L~~~~~~~-----~lp~~i~~l~~Lr~L~L~~~~i~~-----lp~~i~-~L~~L~~L~L~~~~~~  658 (1472)
                      +...++.++++++|+|++| .+.     .+...+..+++|++|+|++|.|..     +...+. ...+|++|++++|...
T Consensus        19 ~~~l~~~l~~l~~L~L~~~-~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~~~~L~~L~L~~n~it   97 (460)
T d1z7xw1          19 WAELLPLLQQCQVVRLDDC-GLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLT   97 (460)
T ss_dssp             HHHHHHHHTTCSEEEEESS-CCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCSTTCCCCEEECTTSCCB
T ss_pred             HHHHHHHCCCCCEEEECCC-CCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHCCCCCCCEEECCCCCCC
T ss_conf             9999976779999982899-998899999999985399988897959859728999999998437887788778887754


Q ss_pred             ----HHHHHHHCCCCCCCEEECCCCC
Q ss_conf             ----2301311044877523148999
Q 000471          659 ----KKLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       659 ----~~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                          ..++..+..+++|++|++++|.
T Consensus        98 ~~~~~~l~~~l~~~~~L~~L~L~~N~  123 (460)
T d1z7xw1          98 GAGCGVLSSTLRTLPTLQELHLSDNL  123 (460)
T ss_dssp             GGGHHHHHHHTTSCTTCCEEECCSSB
T ss_pred             CCCCCCCCCHHHCCCCCCCCCCCCCC
T ss_conf             32210121100003432002444332

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.20  E-value=6.6e-11  Score=81.24  Aligned_cols=93  Identities=24%  Similarity=0.332  Sum_probs=72.7

Q ss_pred             EEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECCCCC
Q ss_conf             19983687887557856478785847741786453345323401665599537875322301311044877523148999
Q 000471          601 RVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       601 r~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                      |+|+|++| .+..+| .+..+.+|++|++++|.|+.+|..+..+++|++|++++| .+..+| ++..+++|++|++++|.
T Consensus         1 R~L~Ls~n-~l~~l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N-~i~~l~-~~~~l~~L~~L~l~~N~   76 (124)
T d1dcea3           1 RVLHLAHK-DLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDN-ALENVD-GVANLPRLQELLLCNNR   76 (124)
T ss_dssp             SEEECTTS-CCSSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSS-CCCCCG-GGTTCSSCCEEECCSSC
T ss_pred             CEEECCCC-CCCCCC-CCCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCC-CCCCCC-CCCCCCCCCEEECCCCC
T ss_conf             98986899-898871-010589889897978716865215655431354532432-112357-41233555768888986


Q ss_pred             CCCCCC--CCCCCCCCCCCC
Q ss_conf             854388--743455554544
Q 000471          681 SLKEMP--KGFGKLTSLLTL  698 (1472)
Q Consensus       681 ~~~~~p--~~i~~L~~L~~L  698 (1472)
                       +..++  ..++.+++|+.|
T Consensus        77 -i~~~~~~~~l~~~~~L~~L   95 (124)
T d1dcea3          77 -LQQSAAIQPLVSCPRLVLL   95 (124)
T ss_dssp             -CCSSSTTGGGGGCTTCCEE
T ss_pred             -CCCCCCCHHHCCCCCCCEE
T ss_conf             -5888882565379999999

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Ribonuclease inhibitor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.15  E-value=3.8e-14  Score=101.70  Aligned_cols=58  Identities=16%  Similarity=0.248  Sum_probs=22.3

Q ss_pred             CCCEEECCCCCCCC--CCHHHHHCCCCCEEECCCCCCH----HHHHHHHCCCCCCCEEECCCCC
Q ss_conf             58477417864533--4532340166559953787532----2301311044877523148999
Q 000471          623 HLRCLNLSRTRIQI--LPESINSLYNLHTILLEDCHQL----KKLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       623 ~Lr~L~L~~~~i~~--lp~~i~~L~~L~~L~L~~~~~~----~~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                      +|+.||++++++..  +.+-+..+++|++|+|++|...    ..++..+...++|++|++++|.
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~   66 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNE   66 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCC
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCCC
T ss_conf             8777982089588689999997677999998289999889999999998539998889795985

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.15  E-value=8.6e-10  Score=74.22  Aligned_cols=180  Identities=11%  Similarity=0.108  Sum_probs=108.1

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf             71110224799999998259989999947999974698809999999955700012376238999367778778999999
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  265 (1472)
                      .+++|.++.++.+..|+....      ...+.++|++|+||||+|+.+++............-...+...+.........
T Consensus        14 ~divg~~~~~~~L~~~i~~~~------~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~   87 (227)
T d1sxjc2          14 DEVYGQNEVITTVRKFVDEGK------LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIK   87 (227)
T ss_dssp             GGCCSCHHHHHHHHHHHHTTC------CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHCCCCHHHHHHHHHHHHCCC------CCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEECCHH
T ss_conf             983596999999999997699------98599988998775589999999851677764157731555687543210001


Q ss_pred             HHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCHH-HHH-HHCCCC
Q ss_conf             962079889933199999999966099849999827998797408752045668999958999728948-997-609989
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAE-RMGADP  343 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~-~~~-~~~~~~  343 (1472)
                      .....                ......++-.+|+|+++.........+...+......+++++++.... +.. ......
T Consensus        88 ~~~~~----------------~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~  151 (227)
T d1sxjc2          88 DFAST----------------RQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCT  151 (227)
T ss_dssp             HHHHB----------------CCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HCCCC----------------CCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHHHH
T ss_conf             01110----------------00257771899996632000237899998863112002320126708775999998875


Q ss_pred             CEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHH
Q ss_conf             063799995759999985220899978884179999999998199736
Q 000471          344 VYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       344 ~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  391 (1472)
                      .+++.+++.++-...+.+.+....- ..+   .+....|++.++|...
T Consensus       152 ~i~~~~~~~~~i~~~l~~I~~~e~i-~i~---~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         152 RFRFQPLPQEAIERRIANVLVHEKL-KLS---PNAEKALIELSNGDMR  195 (227)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTTC-CBC---HHHHHHHHHHHTTCHH
T ss_pred             HHCCCCCCCCCCCCCCCCCCCCCCC-CCC---HHHHHHHHHHCCCCHH
T ss_conf             4012356520001102122111124-589---8999999998499699

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.14  E-value=3.2e-11  Score=83.23  Aligned_cols=88  Identities=23%  Similarity=0.301  Sum_probs=48.0

Q ss_pred             HCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHH-HCCCCCCC
Q ss_conf             23499511998368788755785647878584774178645334532340166559953787532230131-10448775
Q 000471          594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKD-MGNLRKLH  672 (1472)
Q Consensus       594 ~~~l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~-i~~L~~L~  672 (1472)
                      |.++..+|.|+|++| .+..+|..+..+.+|++|++++|.|..++ .+..+++|++|++++|. +..+|.. +..+++|+
T Consensus        14 ~~n~~~lr~L~L~~n-~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~-~~~~l~~L~~L~ls~N~-i~~l~~~~~~~l~~L~   90 (162)
T d1a9na_          14 YTNAVRDRELDLRGY-KIPVIENLGATLDQFDAIDFSDNEIRKLD-GFPLLRRLKTLLVNNNR-ICRIGEGLDQALPDLT   90 (162)
T ss_dssp             EECTTSCEEEECTTS-CCCSCCCGGGGTTCCSEEECCSSCCCEEC-CCCCCSSCCEEECCSSC-CCEECSCHHHHCTTCC
T ss_pred             CCCCCCCCEEECCCC-CCCCCCCCCCCCCCCCEEECCCCCCCCCC-CCCCCCCHHHHHCCCCC-CCCCCCCCCCCCCCCC
T ss_conf             168574848978899-78865762004145998989799787647-74457613064310213-4577763223345344


Q ss_pred             EEECCCCCCCCCC
Q ss_conf             2314899985438
Q 000471          673 HLRNSTANSLKEM  685 (1472)
Q Consensus       673 ~L~l~~~~~~~~~  685 (1472)
                      +|++++|. +..+
T Consensus        91 ~L~L~~N~-i~~~  102 (162)
T d1a9na_          91 ELILTNNS-LVEL  102 (162)
T ss_dssp             EEECCSCC-CCCG
T ss_pred             CCEECCCC-CCCC
T ss_conf             34203000-1665

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.13  E-value=9.7e-10  Score=73.89  Aligned_cols=183  Identities=16%  Similarity=0.137  Sum_probs=111.0

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf             71110224799999998259989999947999974698809999999955700012376238999367778778999999
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  265 (1472)
                      .+++|.++.++.+..|+....      ...+.++|++|+||||+|+.+++.......-..+.-+..+.......+...+.
T Consensus        15 ~d~ig~~~~~~~L~~~~~~~~------~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~~   88 (224)
T d1sxjb2          15 SDIVGNKETIDRLQQIAKDGN------MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQIK   88 (224)
T ss_dssp             GGCCSCTHHHHHHHHHHHSCC------CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             HHHCCCHHHHHHHHHHHHCCC------CCEEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEHHHHHH
T ss_conf             990297999999999998699------87499988999870546999999972566432211111345578521166788


Q ss_pred             HHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCHH-HHH-HHCCCC
Q ss_conf             962079889933199999999966099849999827998797408752045668999958999728948-997-609989
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAE-RMGADP  343 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~-~~~-~~~~~~  343 (1472)
                      ........               ....+.-++|+|+++.........+...+.......++++++.... +.. ......
T Consensus        89 ~~~~~~~~---------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~  153 (224)
T d1sxjb2          89 HFAQKKLH---------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCA  153 (224)
T ss_dssp             HHHHBCCC---------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHHHCC---------------CCCCCEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHH
T ss_conf             78876224---------------777635999982443232157787752011233333665314743021067887777


Q ss_pred             CEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHHH
Q ss_conf             06379999575999998522089997888417999999999819973689
Q 000471          344 VYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       344 ~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai  393 (1472)
                      .+++.+.+.++-...+.+.+....-...    .+....|++.|+|.+..+
T Consensus       154 ~i~~~~~~~~~i~~~l~~i~~~e~~~i~----~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         154 ILRYSKLSDEDVLKRLLQIIKLEDVKYT----NDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHHTTCHHHH
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHCCCCCC----HHHHHHHHHHCCCCHHHH
T ss_conf             7653133224567888777774046789----999999999869969999

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=99.12  E-value=2.4e-08  Score=65.09  Aligned_cols=205  Identities=15%  Similarity=0.066  Sum_probs=117.0

Q ss_pred             CCCCEEECHHHHHHHHHHHHCC---CCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCH----HCCCCCEEEEEECCCCC
Q ss_conf             6771110224799999998259---9899999479999746988099999999557000----12376238999367778
Q 000471          184 NEAKVYGREKEKEEIIELLLND---DLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV----QRHYEIKAWTCVSEDFD  256 (1472)
Q Consensus       184 ~~~~~vGr~~~~~~l~~~L~~~---~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~  256 (1472)
                      .+..++||+.+.+.|.+++...   .........++.++|++|+|||++++.+++....    ........++.+.....
T Consensus        14 ~P~~~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~   93 (287)
T d1w5sa2          14 IPPELRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPN   93 (287)
T ss_dssp             CCSSCSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCS
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCC
T ss_conf             89988878999999999999999749988885348996789998999999999999875415556784166303333465


Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHH--CCCEEEEEEECCCCC------CHHHHHH---HCCCC---CCCCC
Q ss_conf             7789999999620798899331999999999660--998499998279987------9740875---20456---68999
Q 000471          257 VFRISKSILNSVASDQCKDKDDLNLLQEKLKKQL--SGNKFLLVLDDVWNE------NYIRWSE---LRCPF---VAGAA  322 (1472)
Q Consensus       257 ~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l--~~~r~LlVlDdv~~~------~~~~~~~---l~~~~---~~~~~  322 (1472)
                      ............+................+.+..  .....++++|.++..      .......   +...+   .....
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~  173 (287)
T d1w5sa2          94 LYTILSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNR  173 (287)
T ss_dssp             HHHHHHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCB
T ss_pred             HHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCHHHCCCC
T ss_conf             04678887653043233345127889999999998546766541257888515665542678988999874320104565


Q ss_pred             CCEEEEECCCHHHHH--------HHCCCCCEECCCCCHHHHHHHHHHHHCCC-CCCCCCCCHHHHHHHHHHHH------C
Q ss_conf             958999728948997--------60998906379999575999998522089-99788841799999999981------9
Q 000471          323 GSKIVVTTRNLVVAE--------RMGADPVYQLKELSDDDCLCVLTQISLGA-RDFTRHLSLKEVGEQIVIKC------G  387 (1472)
Q Consensus       323 ~s~iiiTtR~~~~~~--------~~~~~~~~~l~~l~~~e~~~l~~~~~~~~-~~~~~~~~~~~~~~~i~~~~------~  387 (1472)
                      -..|++++.......        .......+.+++++.++..+++..++... .....+   .++.+.|+++.      .
T Consensus       174 ~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~---~~al~~ia~~~~~~~~~~  250 (287)
T d1w5sa2         174 IGFLLVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWE---PRHLELISDVYGEDKGGD  250 (287)
T ss_dssp             EEEEEEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCC---HHHHHHHHHHHCGGGTSC
T ss_pred             EEEEEECCCHHHHHHHHHHCCCHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHHCCCCCC
T ss_conf             14776243089999998625201123220652257759999998766677752468779---999999999972303678


Q ss_pred             CCHH
Q ss_conf             9736
Q 000471          388 GLPL  391 (1472)
Q Consensus       388 g~Pl  391 (1472)
                      |.|.
T Consensus       251 gd~R  254 (287)
T d1w5sa2         251 GSAR  254 (287)
T ss_dssp             CCHH
T ss_pred             CCHH
T ss_conf             8999

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.11  E-value=1.4e-09  Score=72.89  Aligned_cols=194  Identities=13%  Similarity=0.069  Sum_probs=112.5

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHC-CCCCEEEEEECCCCCHHHHHHHH
Q ss_conf             71110224799999998259989999947999974698809999999955700012-37623899936777877899999
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-HYEIKAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~-~f~~~~wv~~~~~~~~~~~~~~i  264 (1472)
                      .+++|.+...+.+..|+....      .+.+.++|++|+||||+|+.+++...... .......+..+...........+
T Consensus        12 ~diig~~~~~~~l~~~i~~~~------~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (237)
T d1sxjd2          12 DEVTAQDHAVTVLKKTLKSAN------LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV   85 (237)
T ss_dssp             TTCCSCCTTHHHHHHHTTCTT------CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             HHCCCCHHHHHHHHHHHHCCC------CCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHEECCCCCCCHHHHHHH
T ss_conf             872693999999999998699------88599989999984999999999970976334321220021135606789999


Q ss_pred             HHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCHH--HHHHHCCC
Q ss_conf             9962079889933199999999966099849999827998797408752045668999958999728948--99760998
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV--VAERMGAD  342 (1472)
Q Consensus       265 l~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~--~~~~~~~~  342 (1472)
                       ........ .....    ..+......+.-++|+|+++......+..+...+.......++++|+....  ........
T Consensus        86 -~~~~~~~~-~~~~~----~~~~~~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~  159 (237)
T d1sxjd2          86 -KNFARLTV-SKPSK----HDLENYPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQC  159 (237)
T ss_dssp             -HHHHHSCC-CCCCT----THHHHSCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHS
T ss_pred             -HHHHHHHH-HHHHH----HHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHH
T ss_conf             -88765444-32467----8776135667369999551336777788876301222233332122466422233111000


Q ss_pred             CCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHH-HHHH
Q ss_conf             9063799995759999985220899978884179999999998199736-8999
Q 000471          343 PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKT  395 (1472)
Q Consensus       343 ~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-ai~~  395 (1472)
                      ..+++.+++.++..+++...+....- ..+   .++.+.|++.++|.+. |+..
T Consensus       160 ~~i~f~~~~~~~~~~~L~~i~~~e~i-~i~---~~~l~~ia~~s~gd~R~ai~~  209 (237)
T d1sxjd2         160 SKFRFKALDASNAIDRLRFISEQENV-KCD---DGVLERILDISAGDLRRGITL  209 (237)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTC-CCC---HHHHHHHHHHTSSCHHHHHHH
T ss_pred             HHHCCCCCCCCCCCHHHHHHHHHHCC-CCC---HHHHHHHHHHCCCCHHHHHHH
T ss_conf             11023333332110010114555267-578---999999999859989999999

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=99.07  E-value=1.2e-08  Score=67.10  Aligned_cols=195  Identities=15%  Similarity=0.119  Sum_probs=111.3

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf             71110224799999998259989999947999974698809999999955700012376238999367778778999999
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  265 (1472)
                      .+++|.++..+.+..++....     -...+.++|+.|+||||+|+.+++.........       ............+.
T Consensus        12 ~dlig~~~~~~~L~~~i~~~~-----~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~-------~~~~~~~~~~~~i~   79 (239)
T d1njfa_          12 ADVVGQEHVLTALANGLSLGR-----IHHAYLFSGTRGVGKTSIARLLAKGLNCETGIT-------ATPCGVCDNCREIE   79 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHTTC-----CCSEEEEECSTTSSHHHHHHHHHHHHHCTTCSC-------SSCCSCSHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHCCC-----CCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCC-------CCCCCCCHHHHHHH
T ss_conf             881595999999999998599-----870598888998758999999999846855666-------67555424799997


Q ss_pred             HHHCCC----CCCCCCCHHHHHHHHHHH----HCCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCHH-HH
Q ss_conf             962079----889933199999999966----099849999827998797408752045668999958999728948-99
Q 000471          266 NSVASD----QCKDKDDLNLLQEKLKKQ----LSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VA  336 (1472)
Q Consensus       266 ~~l~~~----~~~~~~~~~~~~~~l~~~----l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~-~~  336 (1472)
                      ..-...    ........+.....+...    ..+++-++|+|+++.........+...+-.....+++|++|.+.. +.
T Consensus        80 ~~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~  159 (239)
T d1njfa_          80 QGRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLP  159 (239)
T ss_dssp             HTCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSC
T ss_pred             CCCCCEEEEECCHHCCCHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCC
T ss_conf             47987079961120078999999999997465259987999978110899999999999856898869999738856367


Q ss_pred             HH-HCCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHH-HHHHH
Q ss_conf             76-09989063799995759999985220899978884179999999998199736-89999
Q 000471          337 ER-MGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL-AAKTL  396 (1472)
Q Consensus       337 ~~-~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl-ai~~~  396 (1472)
                      .. ......+.+.+++.++..+.+...+.......+    .+....|++.++|.+- |+..+
T Consensus       160 ~~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~~~~~----~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         160 VTILSRCLQFHLKALDVEQIRHQLEHILNEEHIAHE----PRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCCBC----HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHCCCCC----HHHHHHHHHHCCCCHHHHHHHH
T ss_conf             657612102222467678766688787764314789----9999999997699799999999

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: U2A'-like
domain: Splicesomal U2A' protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.05  E-value=9.8e-11  Score=80.17  Aligned_cols=100  Identities=19%  Similarity=0.228  Sum_probs=45.5

Q ss_pred             CCCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHH-HHHCCCCCEEECCCCCCHHHHH--HHHCCCCCC
Q ss_conf             3499511998368788755785647878584774178645334532-3401665599537875322301--311044877
Q 000471          595 NHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPES-INSLYNLHTILLEDCHQLKKLC--KDMGNLRKL  671 (1472)
Q Consensus       595 ~~l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~-i~~L~~L~~L~L~~~~~~~~lp--~~i~~L~~L  671 (1472)
                      ..+++|++|+|++| .+..++ .+..+++|++|++++|.+..+|.. +..+++|++|++++|. +..++  ..+..+++|
T Consensus        38 ~~l~~L~~L~Ls~N-~i~~l~-~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~L~~N~-i~~~~~l~~l~~l~~L  114 (162)
T d1a9na_          38 ATLDQFDAIDFSDN-EIRKLD-GFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNS-LVELGDLDPLASLKSL  114 (162)
T ss_dssp             GGTTCCSEEECCSS-CCCEEC-CCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEECCSCC-CCCGGGGGGGGGCTTC
T ss_pred             CCCCCCCEEECCCC-CCCCCC-CCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCEECCCC-CCCCCCCCCCCCCCCC
T ss_conf             04145998989799-787647-74457613064310213457776322334534434203000-1665421100136532


Q ss_pred             CEEECCCCCCCCCCCC----CCCCCCCCCCC
Q ss_conf             5231489998543887----43455554544
Q 000471          672 HHLRNSTANSLKEMPK----GFGKLTSLLTL  698 (1472)
Q Consensus       672 ~~L~l~~~~~~~~~p~----~i~~L~~L~~L  698 (1472)
                      ++|++++|. +...|.    .+..+++|+.|
T Consensus       115 ~~L~l~~N~-i~~~~~~r~~~i~~lp~L~~L  144 (162)
T d1a9na_         115 TYLCILRNP-VTNKKHYRLYVIYKVPQVRVL  144 (162)
T ss_dssp             CEEECCSSG-GGGSTTHHHHHHHHCTTCSEE
T ss_pred             CHHHCCCCC-CCCCCCHHHHHHHHCCCCCEE
T ss_conf             066407996-345610699999878995833

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=99.04  E-value=2.6e-09  Score=71.13  Aligned_cols=181  Identities=15%  Similarity=0.095  Sum_probs=107.5

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCC-EEEEEECCCCCHHHHHHHH
Q ss_conf             711102247999999982599899999479999746988099999999557000123762-3899936777877899999
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEI-KAWTCVSEDFDVFRISKSI  264 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~-~~wv~~~~~~~~~~~~~~i  264 (1472)
                      .+++|.+...+.+..|+...      ..+.+.++|++|+||||+|+.+++.... ..+.. .+-++++...+...+...+
T Consensus        24 ~diig~~~~~~~l~~~i~~~------~~~~lll~Gp~G~GKTtla~~iak~l~~-~~~~~~~~e~n~s~~~~~~~~~~~~   96 (231)
T d1iqpa2          24 DDIVGQEHIVKRLKHYVKTG------SMPHLLFAGPPGVGKTTAALALARELFG-ENWRHNFLELNASDERGINVIREKV   96 (231)
T ss_dssp             TTCCSCHHHHHHHHHHHHHT------CCCEEEEESCTTSSHHHHHHHHHHHHHG-GGHHHHEEEEETTCHHHHHTTHHHH
T ss_pred             HHCCCCHHHHHHHHHHHHCC------CCCEEEEECCCCCCHHHHHHHHHHHHHH-CCCCCCEEEEECCCCCCHHHHHHHH
T ss_conf             99139399999999999859------9976999789997487999999999873-1467771587567666634888888


Q ss_pred             HHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCHH-HHHH-HCCC
Q ss_conf             9962079889933199999999966099849999827998797408752045668999958999728948-9976-0998
Q 000471          265 LNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAER-MGAD  342 (1472)
Q Consensus       265 l~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~-~~~~-~~~~  342 (1472)
                      ......                ......++.++++|+++......+..+...+........+|.|+.... +... ....
T Consensus        97 ~~~~~~----------------~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~  160 (231)
T d1iqpa2          97 KEFART----------------KPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRC  160 (231)
T ss_dssp             HHHHHS----------------CCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTE
T ss_pred             HHHHHH----------------HHCCCCCCEEEEEHHHHHCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHCHHHHHCCC
T ss_conf             888751----------------0015787228861434431214789876411247764478861487665657684731


Q ss_pred             CCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHHH
Q ss_conf             906379999575999998522089997888417999999999819973689
Q 000471          343 PVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAA  393 (1472)
Q Consensus       343 ~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai  393 (1472)
                      ..+.+.+.+.++....+.+.+....-..    ..+..+.|++.++|....+
T Consensus       161 ~~i~~~~~~~~~~~~~l~~~~~~e~i~i----~~~~l~~I~~~~~gdiR~a  207 (231)
T d1iqpa2         161 AIFRFRPLRDEDIAKRLRYIAENEGLEL----TEEGLQAILYIAEGDMRRA  207 (231)
T ss_dssp             EEEECCCCCHHHHHHHHHHHHHTTTCEE----CHHHHHHHHHHHTTCHHHH
T ss_pred             CCCCCCCCCHHHHHHHHHHHHHHHCCCC----CHHHHHHHHHHCCCCHHHH
T ss_conf             2101233430467789988899839998----9999999999839979999

>d1dcea3 c.10.2.2 (A:444-567) Rab geranylgeranyltransferase alpha-subunit, C-terminal domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
domain: Rab geranylgeranyltransferase alpha-subunit, C-terminal domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.02  E-value=5.1e-10  Score=75.62  Aligned_cols=89  Identities=19%  Similarity=0.253  Sum_probs=61.1

Q ss_pred             HCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHH--HHHCCCCCC
Q ss_conf             234995119983687887557856478785847741786453345323401665599537875322301--311044877
Q 000471          594 LNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLC--KDMGNLRKL  671 (1472)
Q Consensus       594 ~~~l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp--~~i~~L~~L  671 (1472)
                      +..++.|+.|++++| .+..+|..++.+++|++|++++|.|+.+| .+..+++|++|++++|. +..+|  ..+..+++|
T Consensus        16 l~~l~~L~~L~ls~N-~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N~-i~~~~~~~~l~~~~~L   92 (124)
T d1dcea3          16 LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNR-LQQSAAIQPLVSCPRL   92 (124)
T ss_dssp             GGGGTTCCEEECCSS-CCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSC-CCSSSTTGGGGGCTTC
T ss_pred             CCCCCCCCEEECCCC-CCCCCHHHHHHHHCCCCCCCCCCCCCCCC-CCCCCCCCCEEECCCCC-CCCCCCCHHHCCCCCC
T ss_conf             105898898979787-16865215655431354532432112357-41233555768888986-5888882565379999


Q ss_pred             CEEECCCCCCCCCCC
Q ss_conf             523148999854388
Q 000471          672 HHLRNSTANSLKEMP  686 (1472)
Q Consensus       672 ~~L~l~~~~~~~~~p  686 (1472)
                      ++|++++|. +...+
T Consensus        93 ~~L~l~~N~-i~~~~  106 (124)
T d1dcea3          93 VLLNLQGNS-LCQEE  106 (124)
T ss_dssp             CEEECTTSG-GGGSS
T ss_pred             CEEECCCCC-CCCCC
T ss_conf             999897996-88682

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=99.00  E-value=1.4e-08  Score=66.61  Aligned_cols=155  Identities=19%  Similarity=0.247  Sum_probs=98.4

Q ss_pred             CEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCC---H-HCCCCCEEEE-EECCCCCHHHHH
Q ss_conf             1110224799999998259989999947999974698809999999955700---0-1237623899-936777877899
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR---V-QRHYEIKAWT-CVSEDFDVFRIS  261 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~---~-~~~f~~~~wv-~~~~~~~~~~~~  261 (1472)
                      .++||++|++++...|...      ...-+.++|++|+|||++++.+++...   + .......+|. +.+.-       
T Consensus        19 ~~igRd~Ei~~l~~iL~r~------~k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~l-------   85 (268)
T d1r6bx2          19 PLIGREKELERAIQVLCRR------RKNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSL-------   85 (268)
T ss_dssp             CCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---------
T ss_pred             CCCCHHHHHHHHHHHHHCC------CCCCCEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECHH-------
T ss_conf             6638099999999999547------668967988898867799999999998178450003541278640567-------


Q ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHHH-CCCEEEEEEECCCCC--------CHHHHHHHCCCCCCCCCCCEEEEECCC
Q ss_conf             99999620798899331999999999660-998499998279987--------974087520456689999589997289
Q 000471          262 KSILNSVASDQCKDKDDLNLLQEKLKKQL-SGNKFLLVLDDVWNE--------NYIRWSELRCPFVAGAAGSKIVVTTRN  332 (1472)
Q Consensus       262 ~~il~~l~~~~~~~~~~~~~~~~~l~~~l-~~~r~LlVlDdv~~~--------~~~~~~~l~~~~~~~~~~s~iiiTtR~  332 (1472)
                            +.+..  ...+.++....+...+ +.+..++++|++...        ...+...+..|+... ..-++|.||..
T Consensus        86 ------iag~~--~~g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~r-g~i~vIgatT~  156 (268)
T d1r6bx2          86 ------LAGTK--YRGDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTY  156 (268)
T ss_dssp             -------CCCC--CSSCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSSS-CCCEEEEEECH
T ss_pred             ------HCCCC--CCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHHC-CCCEEEEECCH
T ss_conf             ------50676--3005899999999986126784688433698862777788641179876488747-98759995799


Q ss_pred             HHHHHHHCCC-------CCEECCCCCHHHHHHHHHHHH
Q ss_conf             4899760998-------906379999575999998522
Q 000471          333 LVVAERMGAD-------PVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       333 ~~~~~~~~~~-------~~~~l~~l~~~e~~~l~~~~~  363 (1472)
                      .........+       +.+.+++.+.+++.+++....
T Consensus       157 eey~~~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         157 QEFSNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             HHHHCCCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCHHHHHHHCCCCCCCCCHHHHHHHHHHHH
T ss_conf             99999986167888652100368989999999999866

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.96  E-value=8.1e-10  Score=74.39  Aligned_cols=192  Identities=11%  Similarity=0.109  Sum_probs=102.6

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCH----HCCCCCEEEEEECCCC------
Q ss_conf             711102247999999982599899999479999746988099999999557000----1237623899936777------
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRV----QRHYEIKAWTCVSEDF------  255 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~------  255 (1472)
                      .+++|+++..+.+..++....     ...-+.++|++|+||||+|+.+++....    ....+...+.......      
T Consensus        11 ~diig~~~~~~~L~~~~~~~~-----~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2          11 NALSHNEELTNFLKSLSDQPR-----DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             GGCCSCHHHHHHHHTTTTCTT-----CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             HHCCCCHHHHHHHHHHHHCCC-----CCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHC
T ss_conf             883583999999999997699-----878599889999988999999997622764222221234443466631122110


Q ss_pred             ---------------CHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCC
Q ss_conf             ---------------87789999999620798899331999999999660998499998279987974087520456689
Q 000471          256 ---------------DVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAG  320 (1472)
Q Consensus       256 ---------------~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~  320 (1472)
                                     ..................     ...  ..-......+.-++|+|+++......+..+...+-..
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~--~~~~~~~~~~~~iiiide~d~l~~~~~~~l~~~~e~~  158 (252)
T d1sxje2          86 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQ-----VDF--QDSKDGLAHRYKCVIINEANSLTKDAQAALRRTMEKY  158 (252)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC-------------------CCEEEEEECTTSSCHHHHHHHHHHHHHS
T ss_pred             CCCCCCEEEECCCCCCCCCEEEEHHHHHHHHHH-----HHH--HHCCCCCCCCCEEEEECCCCCCCCCCCHHHHCCCCCC
T ss_conf             477631000010445775224310223434331-----001--2114666787249994243334543111221002213


Q ss_pred             CCCCEEEEECCCHH-HH-HHHCCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHH
Q ss_conf             99958999728948-99-76099890637999957599999852208999788841799999999981997368
Q 000471          321 AAGSKIVVTTRNLV-VA-ERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLA  392 (1472)
Q Consensus       321 ~~~s~iiiTtR~~~-~~-~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla  392 (1472)
                      ...+++|+||.+.+ +. ........+++.+++.++..+.+...+....- ...  ..++...|++.+.|.+..
T Consensus       159 ~~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~-~~~--~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         159 SKNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERI-QLE--TKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TTTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTC-EEC--CSHHHHHHHHHHTTCHHH
T ss_pred             CCCCCCEEEECCCCCHHHHHHCCHHEEEECCCCHHHHHHHHHHHHHHCCC-CCC--CHHHHHHHHHHCCCCHHH
T ss_conf             56643000102111002544210002430353304689999999998399-989--699999999986994999

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.83  E-value=2.6e-09  Score=71.20  Aligned_cols=85  Identities=15%  Similarity=0.152  Sum_probs=37.7

Q ss_pred             CCCCCCEEEEECCCCCCCCCC-CCCCCCCCCCEEECCCCCCCCCC-HHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCC
Q ss_conf             349951199836878875578-56478785847741786453345-3234016655995378753223013110448775
Q 000471          595 NHLPRLRVFSLRGCGNIFNLP-NEIGNLKHLRCLNLSRTRIQILP-ESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLH  672 (1472)
Q Consensus       595 ~~l~~Lr~L~L~~~~~~~~lp-~~i~~l~~Lr~L~L~~~~i~~lp-~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~  672 (1472)
                      ..+++|+.|++.++..+..++ ..|..+.+|+.|+|++|+|+.++ ..|..+++|++|+|++| .+..+|.++....+|+
T Consensus        28 ~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~l~~~~~~~~~l~  106 (156)
T d2ifga3          28 PGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN-ALESLSWKTVQGLSLQ  106 (156)
T ss_dssp             CSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS-CCSCCCSTTTCSCCCC
T ss_pred             CCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECCCC-CCCCCCHHHHCCCCCC
T ss_conf             576565743168986644369212256666672162021247742011124554333322678-7851574563353212


Q ss_pred             EEECCCCC
Q ss_conf             23148999
Q 000471          673 HLRNSTAN  680 (1472)
Q Consensus       673 ~L~l~~~~  680 (1472)
                      +|++++|.
T Consensus       107 ~L~L~~Np  114 (156)
T d2ifga3         107 ELVLSGNP  114 (156)
T ss_dssp             EEECCSSC
T ss_pred             CCCCCCCC
T ss_conf             43357986

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.79  E-value=1.3e-10  Score=79.38  Aligned_cols=102  Identities=21%  Similarity=0.259  Sum_probs=69.7

Q ss_pred             HHHCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCC
Q ss_conf             97234995119983687887557856478785847741786453345323401665599537875322301311044877
Q 000471          592 RLLNHLPRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKL  671 (1472)
Q Consensus       592 ~~~~~l~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L  671 (1472)
                      ..+..+++|+.|+|++| .+..++ .+..+++|++|++++|.|+.+|..+..+..|+.|++++| .+..++ .+..+++|
T Consensus        42 ~sl~~L~~L~~L~Ls~n-~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N-~i~~l~-~~~~l~~L  117 (198)
T d1m9la_          42 ATLSTLKACKHLALSTN-NIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYN-QIASLS-GIEKLVNL  117 (198)
T ss_dssp             HHHHHTTTCCEEECSEE-EESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEE-ECCCHH-HHHHHHHS
T ss_pred             HHHHCCCCCCEEECCCC-CCCCCC-CCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCC-CCCCCCCC
T ss_conf             67762604615199446-899864-424782535734135343210000332212333333332-222222-22222234


Q ss_pred             CEEECCCCCCCCCCC--CCCCCCCCCCCC
Q ss_conf             523148999854388--743455554544
Q 000471          672 HHLRNSTANSLKEMP--KGFGKLTSLLTL  698 (1472)
Q Consensus       672 ~~L~l~~~~~~~~~p--~~i~~L~~L~~L  698 (1472)
                      ++|++++|. +..++  ..++.+++|+.|
T Consensus       118 ~~L~L~~N~-i~~~~~~~~l~~l~~L~~L  145 (198)
T d1m9la_         118 RVLYMSNNK-ITNWGEIDKLAALDKLEDL  145 (198)
T ss_dssp             SEEEESEEE-CCCHHHHHHHTTTTTCSEE
T ss_pred             CCCCCCCCH-HCCCCCCCCCCCCCCCCEE
T ss_conf             111234102-1255422123677763023

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=98.77  E-value=6.8e-07  Score=55.91  Aligned_cols=183  Identities=11%  Similarity=0.074  Sum_probs=105.1

Q ss_pred             ECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf             02247999999982599899999479999746988099999999557000123762389993677787789999999620
Q 000471          190 GREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVA  269 (1472)
Q Consensus       190 Gr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  269 (1472)
                      +-+...+++...+....     -...+.++|+.|+||||+|+.+++...-.....   +-.+....+.    ..+.....
T Consensus         6 w~~~~~~~l~~~~~~~~-----l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~---~~~~~~~~~~----~~i~~~~~   73 (207)
T d1a5ta2           6 WLRPDFEKLVASYQAGR-----GHHALLIQALPGMGDDALIYALSRYLLCQQPQG---HKSCGHCRGC----QLMQAGTH   73 (207)
T ss_dssp             GGHHHHHHHHHHHHTTC-----CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT---TBCCSCSHHH----HHHHHTCC
T ss_pred             CCHHHHHHHHHHHHCCC-----CCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCC---CCCCCCCCHH----HHHHHCCC
T ss_conf             21999999999998599-----673798889998759999999998210101232---1223342015----56543034


Q ss_pred             C-------CCCCCCCCHHHHHHHHHHHH-----CCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCHH-HH
Q ss_conf             7-------98899331999999999660-----99849999827998797408752045668999958999728948-99
Q 000471          270 S-------DQCKDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VA  336 (1472)
Q Consensus       270 ~-------~~~~~~~~~~~~~~~l~~~l-----~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~-~~  336 (1472)
                      .       .........++.. .+.+.+     .+++-++|+|+++.........+...+-....+.++|+||++.. +.
T Consensus        74 ~~~~~~~~~~~~~~i~~~~ir-~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll  152 (207)
T d1a5ta2          74 PDYYTLAPEKGKNTLGVDAVR-EVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLL  152 (207)
T ss_dssp             TTEEEECCCTTCSSBCHHHHH-HHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSC
T ss_pred             CCCCHHHHHHCCCCCCCCHHH-HHHHHHHHCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHH
T ss_conf             311012343134533321146-7765321100357640477313442000014999999985011110455306865510


Q ss_pred             HHH-CCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHH
Q ss_conf             760-9989063799995759999985220899978884179999999998199736899
Q 000471          337 ERM-GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAK  394 (1472)
Q Consensus       337 ~~~-~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~  394 (1472)
                      ... .....+.+.+++.++....+....    +. +    .+.+..|++.++|.|..+-
T Consensus       153 ~tI~SRc~~i~~~~~~~~~~~~~L~~~~----~~-~----~~~~~~i~~~s~Gs~r~al  202 (207)
T d1a5ta2         153 ATLRSRCRLHYLAPPPEQYAVTWLSREV----TM-S----QDALLAALRLSAGSPGAAL  202 (207)
T ss_dssp             HHHHTTSEEEECCCCCHHHHHHHHHHHC----CC-C----HHHHHHHHHHTTTCHHHHH
T ss_pred             HHHCCEEEEEECCCCCHHHHHHHHHHCC----CC-C----HHHHHHHHHHCCCCHHHHH
T ss_conf             3200215788268999999999999748----99-9----9999999997699999999

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: Outer arm dynein light chain 1
family: Outer arm dynein light chain 1
domain: Outer arm dynein light chain 1
species: Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]

Probab=98.76  E-value=3.3e-10  Score=76.87  Aligned_cols=66  Identities=23%  Similarity=0.226  Sum_probs=26.3

Q ss_pred             CCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEEECCCCCCHHHHHHHHCCCCCCCEEECCCC
Q ss_conf             55785647878584774178645334532340166559953787532230131104487752314899
Q 000471          612 FNLPNEIGNLKHLRCLNLSRTRIQILPESINSLYNLHTILLEDCHQLKKLCKDMGNLRKLHHLRNSTA  679 (1472)
Q Consensus       612 ~~lp~~i~~l~~Lr~L~L~~~~i~~lp~~i~~L~~L~~L~L~~~~~~~~lp~~i~~L~~L~~L~l~~~  679 (1472)
                      ..+|.++..+.+|++|+|++|.|+.++ .+..+++|++|++++| .+..+|..+..+++|++|++++|
T Consensus        38 ~~l~~sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N-~i~~i~~~~~~~~~L~~L~l~~N  103 (198)
T d1m9la_          38 EKMDATLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRN-LIKKIENLDAVADTLEELWISYN  103 (198)
T ss_dssp             CCCHHHHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEE-EECSCSSHHHHHHHCCEEECSEE
T ss_pred             HHHHHHHHCCCCCCEEECCCCCCCCCC-CCCCCCCCCCHHHCCC-CCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             002467762604615199446899864-4247825357341353-43210000332212333333332

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.76  E-value=9.6e-08  Score=61.29  Aligned_cols=196  Identities=15%  Similarity=0.115  Sum_probs=104.5

Q ss_pred             CCEEECHHHHHHHHHHHHCC-----------CCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCC
Q ss_conf             71110224799999998259-----------9899999479999746988099999999557000123762389993677
Q 000471          186 AKVYGREKEKEEIIELLLND-----------DLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~-----------~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      .+++|.+..++++.+|+...           ...+....+.+.++|++|+||||+|+.+++..  .   ....+++.+..
T Consensus        14 ~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~--~---~~~~~~~~~~~   88 (253)
T d1sxja2          14 QQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQEL--G---YDILEQNASDV   88 (253)
T ss_dssp             GGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHT--T---CEEEEECTTSC
T ss_pred             HHHCCCHHHHHHHHHHHHHHHHCCHHHHHHHCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHH--H---HHHHCCCCCCC
T ss_conf             996698999999999999625300234323202578887449998799998889999999998--7---51201344322


Q ss_pred             CCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHH---HHHHCCCCCCCCCCCEEEEECC
Q ss_conf             7877899999996207988993319999999996609984999982799879740---8752045668999958999728
Q 000471          255 FDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIR---WSELRCPFVAGAAGSKIVVTTR  331 (1472)
Q Consensus       255 ~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~---~~~l~~~~~~~~~~s~iiiTtR  331 (1472)
                      .+...+. ........... ......  ..........+..++++|+++......   +..+.......  ...+++|+.
T Consensus        89 ~~~~~~~-~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~~~~--~~~ii~i~~  162 (253)
T d1sxja2          89 RSKTLLN-AGVKNALDNMS-VVGYFK--HNEEAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFCRKT--STPLILICN  162 (253)
T ss_dssp             CCHHHHH-HTGGGGTTBCC-STTTTT--C----CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHHHHC--SSCEEEEES
T ss_pred             HHHHHHH-HHHHHHHHCCH-HHHHHH--HHHHCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHCCC--CCCCCCCCC
T ss_conf             1168899-99988763121-210133--43201455665137776301111100013467776540123--422211135


Q ss_pred             --CH-HHHHHHCCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCH-HHHHHH
Q ss_conf             --94-899760998906379999575999998522089997888417999999999819973-689999
Q 000471          332 --NL-VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP-LAAKTL  396 (1472)
Q Consensus       332 --~~-~~~~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P-lai~~~  396 (1472)
                        .. .+.........+++.+.+.++-...+...+....- ..+   .+....|++.++|.. -|+..+
T Consensus       163 ~~~~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i-~i~---~~~l~~i~~~s~GDiR~ai~~L  227 (253)
T d1sxja2         163 ERNLPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKF-KLD---PNVIDRLIQTTRGDIRQVINLL  227 (253)
T ss_dssp             CTTSSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CCC---TTHHHHHHHHTTTCHHHHHHHH
T ss_pred             CCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCC-CCC---HHHHHHHHHHCCCCHHHHHHHH
T ss_conf             5552113532440365311453146788999999998099-999---9999999996797099999999

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=98.71  E-value=4.5e-07  Score=57.05  Aligned_cols=176  Identities=16%  Similarity=0.101  Sum_probs=96.2

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf             71110224799999998259989999947999974698809999999955700012376238999367778778999999
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  265 (1472)
                      .+++|-+..++++..|+..... .....+-+.++|++|+|||++|+.+++.  ....   .+.++.+.......+     
T Consensus         9 ~divGqe~~~~~l~~~i~~~~~-~~~~~~~~L~~GPpGtGKT~lA~~la~~--~~~~---~~~~~~~~~~~~~~~-----   77 (238)
T d1in4a2           9 DEFIGQENVKKKLSLALEAAKM-RGEVLDHVLLAGPPGLGKTTLAHIIASE--LQTN---IHVTSGPVLVKQGDM-----   77 (238)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHH-HTCCCCCEEEESSTTSSHHHHHHHHHHH--HTCC---EEEEETTTCCSHHHH-----
T ss_pred             HHCCCHHHHHHHHHHHHHHHHH-CCCCCCEEEEECCCCCCHHHHHHHHHHC--CCCC---CCCCCCCCCCCHHHH-----
T ss_conf             9908959999999999997885-3887774898799997388999999850--3888---533257442248889-----


Q ss_pred             HHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCC-------C-----------CCCCCCCEEE
Q ss_conf             962079889933199999999966099849999827998797408752045-------6-----------6899995899
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCP-------F-----------VAGAAGSKIV  327 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~-------~-----------~~~~~~s~ii  327 (1472)
                                       ...+..  ..++..+++|.+.......-+.+...       .           ........+|
T Consensus        78 -----------------~~~~~~--~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I  138 (238)
T d1in4a2          78 -----------------AAILTS--LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLV  138 (238)
T ss_dssp             -----------------HHHHHH--CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEE
T ss_pred             -----------------HHHHHH--HCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCCCCCCEEEE
T ss_conf             -----------------999875--4358824777898840677764214024414544543760024444578876999


Q ss_pred             EECCCHH-H--HHHHCCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHH
Q ss_conf             9728948-9--976099890637999957599999852208999788841799999999981997368999
Q 000471          328 VTTRNLV-V--AERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKT  395 (1472)
Q Consensus       328 iTtR~~~-~--~~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~  395 (1472)
                      .+|.... .  +........+.+++.+.++...++...+......    ...+....+++.++|.+..+..
T Consensus       139 ~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~~~----~~~~~l~~i~~~s~gd~R~ai~  205 (238)
T d1in4a2         139 GATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMDVE----IEDAAAEMIAKRSRGTPRIAIR  205 (238)
T ss_dssp             EEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTTCC----BCHHHHHHHHHTSTTCHHHHHH
T ss_pred             EECCCCCCCCCCCEEEEEEEEEECCCCHHHHHHHHHHHHHHCCCH----HHHHHHHHHHHHCCCCHHHHHH
T ss_conf             954787555543113300799844787787777777765301100----2579999999967998999999

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=98.71  E-value=1.2e-07  Score=60.76  Aligned_cols=154  Identities=14%  Similarity=0.153  Sum_probs=89.7

Q ss_pred             EEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCC----CHHCCCCCEEE-EEECCCCCHHHHHH
Q ss_conf             11022479999999825998999994799997469880999999995570----00123762389-99367778778999
Q 000471          188 VYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDD----RVQRHYEIKAW-TCVSEDFDVFRISK  262 (1472)
Q Consensus       188 ~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~----~~~~~f~~~~w-v~~~~~~~~~~~~~  262 (1472)
                      ++|||.++++++..|....      ..-+.++|++|+|||+++..++...    ......+..+| ++++.-        
T Consensus        24 ~~gr~~ei~~~~~~L~r~~------k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l--------   89 (387)
T d1qvra2          24 VIGRDEEIRRVIQILLRRT------KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSL--------   89 (387)
T ss_dssp             CCSCHHHHHHHHHHHHCSS------CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC-----------
T ss_pred             CCCCHHHHHHHHHHHHCCC------CCCCEEECCCCCCHHHHHHHHHHHHHHCCCCHHHCCCEEEEEEHHHH--------
T ss_conf             7480899999999982488------99976879999889999999999998089997886966899557666--------


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHHH-C-CCEEEEEEECCCCCC-------HHHHHHHCCCCCCCCCCCEEEEECCCH
Q ss_conf             9999620798899331999999999660-9-984999982799879-------740875204566899995899972894
Q 000471          263 SILNSVASDQCKDKDDLNLLQEKLKKQL-S-GNKFLLVLDDVWNEN-------YIRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       263 ~il~~l~~~~~~~~~~~~~~~~~l~~~l-~-~~r~LlVlDdv~~~~-------~~~~~~l~~~~~~~~~~s~iiiTtR~~  333 (1472)
                        +.   +..  ...+.++....+...+ . ..++++++|++...-       ..+...+..|.... ..-++|.+|...
T Consensus        90 --~a---g~~--~~g~~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r-g~~~~I~~tT~~  161 (387)
T d1qvra2          90 --LA---GAK--YRGEFEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR-GELRLIGATTLD  161 (387)
T ss_dssp             ---------------CHHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT-TCCCEEEEECHH
T ss_pred             --HC---CCC--CCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHHHCCCCCCCCCCHHHHHHHHHHC-CCCCEEEECCHH
T ss_conf             --52---667--4136899999999985058996698724088884277787741389999999737-885166636899


Q ss_pred             HHHHHH------CCCCCEECCCCCHHHHHHHHHHHH
Q ss_conf             899760------998906379999575999998522
Q 000471          334 VVAERM------GADPVYQLKELSDDDCLCVLTQIS  363 (1472)
Q Consensus       334 ~~~~~~------~~~~~~~l~~l~~~e~~~l~~~~~  363 (1472)
                      .....-      ...+.+.+++.+.+++..++....
T Consensus       162 ey~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~  197 (387)
T d1qvra2         162 EYREIEKDPALERRFQPVYVDEPTVEETISILRGLK  197 (387)
T ss_dssp             HHHHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHH
T ss_conf             998763367999824611279986788999999999

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=98.71  E-value=5.8e-07  Score=56.35  Aligned_cols=178  Identities=17%  Similarity=0.073  Sum_probs=96.1

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHH
Q ss_conf             71110224799999998259989999947999974698809999999955700012376238999367778778999999
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSIL  265 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il  265 (1472)
                      .++||-+..++++..++..... .....+-+.++||+|+||||+|+.+++..  ..   ...+++.+....         
T Consensus         9 ddivGq~~~~~~L~~~i~~~~~-~~~~~~~~Ll~GPpG~GKTtla~~la~~~--~~---~~~~~~~~~~~~---------   73 (239)
T d1ixsb2           9 DEYIGQERLKQKLRVYLEAAKA-RKEPLEHLLLFGPPGLGKTTLAHVIAHEL--GV---NLRVTSGPAIEK---------   73 (239)
T ss_dssp             GGSCSCHHHHHHHHHHHHHHTT-SSSCCCCEEEECCTTSCHHHHHHHHHHHH--TC---CEEEEETTTCCS---------
T ss_pred             HHHCCHHHHHHHHHHHHHHHHH-CCCCCCEEEEECCCCCCHHHHHHHHHHHH--CC---CEEECCCCCCCC---------
T ss_conf             8948989999999999997873-58888738988979987888999999984--98---747546875343---------


Q ss_pred             HHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCC--------C----------CCCCCCEEE
Q ss_conf             9620798899331999999999660998499998279987974087520456--------6----------899995899
Q 000471          266 NSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPF--------V----------AGAAGSKIV  327 (1472)
Q Consensus       266 ~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~--------~----------~~~~~s~ii  327 (1472)
                                   .......+..... .+.++++|.++......-..+....        .          .......++
T Consensus        74 -------------~~~~~~~~~~~~~-~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i  139 (239)
T d1ixsb2          74 -------------PGDLAAILANSLE-EGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLI  139 (239)
T ss_dssp             -------------HHHHHHHHHTTCC-TTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEE
T ss_pred             -------------CHHHHHHHHHHCC-CCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCEEEE
T ss_conf             -------------2146899885103-88734431100110447875001243332121104655654334689977999


Q ss_pred             E-ECCCHH--HHHHHCCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHHHHHH
Q ss_conf             9-728948--99760998906379999575999998522089997888417999999999819973689999
Q 000471          328 V-TTRNLV--VAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLAAKTL  396 (1472)
Q Consensus       328 i-TtR~~~--~~~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Plai~~~  396 (1472)
                      . |++...  ..........+.+.+.+.++..+++...+....-..    ..+....|++.++|.+-.+..+
T Consensus       140 ~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~~i~~----~~~~l~~ia~~s~gd~R~a~~~  207 (239)
T d1ixsb2         140 GATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLLGVRI----TEEAALEIGRRSRGTMRVAKRL  207 (239)
T ss_dssp             EEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGGCCCB----CHHHHHHHHHHTTSSHHHHHHH
T ss_pred             EECCCCCCCCCHHHCCCCEEEEEECCCHHHHHHHHHHHHHHHCCCC----CHHHHHHHHHHCCCCHHHHHHH
T ss_conf             6306833344101012214567520574555578899999848765----2678999999769999999999

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: High affinity nerve growth factor receptor, N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.68  E-value=7.5e-08  Score=61.97  Aligned_cols=87  Identities=20%  Similarity=0.165  Sum_probs=30.6

Q ss_pred             CCCCCCCCEEEECCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCCC-CCCCCC
Q ss_conf             47888764876024888642489-9878888448932356455446444788876457630189998448999-998996
Q 000471         1261 LHNLHHLQKIWINYCPNLESFPE-EGLPSTKLTELTIYDCENLKALPNCMHNLTSLLILEIRGCPSVVSFPED-GFPTNL 1338 (1472)
Q Consensus      1261 l~~l~~L~~L~L~~~~~l~~~~~-~~~~l~~L~~L~L~~c~~l~~l~~~l~~l~~L~~L~l~~n~~l~~~~~~-~~~~~L 1338 (1472)
                      +..+++|++|++++++.++.++. .|..+++|+.|++++|......+..|..+++|++|+|++| .++.+|.. ....+|
T Consensus        27 l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N-~l~~l~~~~~~~~~l  105 (156)
T d2ifga3          27 LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFN-ALESLSWKTVQGLSL  105 (156)
T ss_dssp             SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSS-CCSCCCSTTTCSCCC
T ss_pred             CCCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECCCC-CCCCCCHHHHCCCCC
T ss_conf             2576565743168986644369212256666672162021247742011124554333322678-785157456335321


Q ss_pred             CEEEECCCCC
Q ss_conf             6367436468
Q 000471         1339 QSLEVRGLKI 1348 (1472)
Q Consensus      1339 ~~L~l~~n~~ 1348 (1472)
                      +.|++++|++
T Consensus       106 ~~L~L~~Np~  115 (156)
T d2ifga3         106 QELVLSGNPL  115 (156)
T ss_dssp             CEEECCSSCC
T ss_pred             CCCCCCCCCC
T ss_conf             2433579863

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=98.60  E-value=1.5e-06  Score=53.69  Aligned_cols=175  Identities=18%  Similarity=0.166  Sum_probs=94.6

Q ss_pred             CCCEEECHHHH--HHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHH
Q ss_conf             77111022479--9999998259989999947999974698809999999955700012376238999367778778999
Q 000471          185 EAKVYGREKEK--EEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       185 ~~~~vGr~~~~--~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      +..++|...+.  +.+.++....    ......+.|+|+.|+|||.|++++++..  ......+++++      ..+...
T Consensus        10 dnF~vg~~N~~a~~~~~~~~~~~----~~~~n~l~l~G~~G~GKTHLl~A~~~~~--~~~~~~~~~~~------~~~~~~   77 (213)
T d1l8qa2          10 ENFIVGEGNRLAYEVVKEALENL----GSLYNPIFIYGSVGTGKTHLLQAAGNEA--KKRGYRVIYSS------ADDFAQ   77 (213)
T ss_dssp             SSCCCCTTTHHHHHHHHHHHHTT----TTSCSSEEEECSSSSSHHHHHHHHHHHH--HHTTCCEEEEE------HHHHHH
T ss_pred             HHCCCCCCHHHHHHHHHHHHHCC----CCCCCCEEEECCCCCCHHHHHHHHHHHH--CCCCCCEEEEC------HHHHHH
T ss_conf             53137774999999999998676----8778857998889983999999999874--46765048844------378799


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCC-HHHHHHHCCCCCC--CCCCCEEEEECCCH------
Q ss_conf             99996207988993319999999996609984999982799879-7408752045668--99995899972894------
Q 000471          263 SILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN-YIRWSELRCPFVA--GAAGSKIVVTTRNL------  333 (1472)
Q Consensus       263 ~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~-~~~~~~l~~~~~~--~~~~s~iiiTtR~~------  333 (1472)
                      .+...+....      .......+.     .--++++||++... ...|......+..  ...|.+||+|++..      
T Consensus        78 ~~~~~~~~~~------~~~~~~~~~-----~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~  146 (213)
T d1l8qa2          78 AMVEHLKKGT------INEFRNMYK-----SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDG  146 (213)
T ss_dssp             HHHHHHHHTC------HHHHHHHHH-----TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTT
T ss_pred             HHHHHHHCCC------HHHHHHHHH-----HCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHCCC
T ss_conf             9999987166------266789876-----21301011265505865778899999998763166389954875100134


Q ss_pred             ---HHHHHHCCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHC
Q ss_conf             ---899760998906379999575999998522089997888417999999999819
Q 000471          334 ---VVAERMGADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCG  387 (1472)
Q Consensus       334 ---~~~~~~~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~  387 (1472)
                         ++..+.....++.++ .++++-.+++++++.. .....+   .++..-|++++.
T Consensus       147 ~~~dL~SRL~~g~~~~i~-p~d~~~~~iL~~~a~~-rgl~l~---~~v~~yl~~~~~  198 (213)
T d1l8qa2         147 VSDRLVSRFEGGILVEIE-LDNKTRFKIIKEKLKE-FNLELR---KEVIDYLLENTK  198 (213)
T ss_dssp             SCHHHHHHHHTSEEEECC-CCHHHHHHHHHHHHHH-TTCCCC---HHHHHHHHHHCS
T ss_pred             CCHHHHHHHHCCEEEEEC-CCCHHHHHHHHHHHHH-CCCCCC---HHHHHHHHHHCC
T ss_conf             326788886185689978-8827999999999998-299999---999999998568

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=98.56  E-value=1.8e-07  Score=59.61  Aligned_cols=152  Identities=18%  Similarity=0.155  Sum_probs=86.8

Q ss_pred             CEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCC---H-HCCCCCEEEEEECCCCCHHHHHH
Q ss_conf             1110224799999998259989999947999974698809999999955700---0-12376238999367778778999
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR---V-QRHYEIKAWTCVSEDFDVFRISK  262 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~---~-~~~f~~~~wv~~~~~~~~~~~~~  262 (1472)
                      ..+||++|++++...|...      ...-+.++|.+|+|||++++.++....   + ...-+..+|.-     +...+  
T Consensus        23 ~~igRd~Ei~~l~~iL~r~------~k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~L--   89 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRR------TKNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGAL--   89 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSS------SSCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHH--
T ss_pred             CCCCCHHHHHHHHHHHHCC------CCCCEEEEECCCCCCHHHHHHHHHHHHHCCCCHHHCCCEEEEE-----EHHHH--
T ss_conf             8728099999999999535------8887399835875447999999999980899978818569996-----69998--


Q ss_pred             HHHHHHCCCCCCCCCCHHHHHHHHHHHH--CCCEEEEEEECCCCCCH-------HHHHHHCCCCCCCCCCCEEEEECCCH
Q ss_conf             9999620798899331999999999660--99849999827998797-------40875204566899995899972894
Q 000471          263 SILNSVASDQCKDKDDLNLLQEKLKKQL--SGNKFLLVLDDVWNENY-------IRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       263 ~il~~l~~~~~~~~~~~~~~~~~l~~~l--~~~r~LlVlDdv~~~~~-------~~~~~l~~~~~~~~~~s~iiiTtR~~  333 (1472)
                           +.+..  ...+.++....+.+.+  ...+.++++|++...-.       .+...+..|.... ..-++|.||...
T Consensus        90 -----iAg~~--~rG~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~r-g~l~~IgatT~e  161 (195)
T d1jbka_          90 -----VAGAK--YRGEFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTLD  161 (195)
T ss_dssp             -----HTTTC--SHHHHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHHT-TSCCEEEEECHH
T ss_pred             -----HCCCC--CCHHHHHHHHHHHHHHHCCCCCEEEECCHHHHHHCCCCCCCCCCHHHHHHHHHHC-CCCEEEECCCHH
T ss_conf             -----64587--4077999999999987317980899726089984378777752389999999857-995498518999


Q ss_pred             HHHHHHC-------CCCCEECCCCCHHHHHHHH
Q ss_conf             8997609-------9890637999957599999
Q 000471          334 VVAERMG-------ADPVYQLKELSDDDCLCVL  359 (1472)
Q Consensus       334 ~~~~~~~-------~~~~~~l~~l~~~e~~~l~  359 (1472)
                      .......       ..+.+.+++.+.+++..++
T Consensus       162 ey~~~~e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         162 EYRQYIEKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             HHHHHTTTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HHHHHHHCCHHHHHCCCEEECCCCCHHHHHHHH
T ss_conf             999998738899963987545898989999985

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.45  E-value=1.3e-10  Score=79.31  Aligned_cols=274  Identities=18%  Similarity=0.113  Sum_probs=0.0

Q ss_pred             CCCEEEEECCCCCCCCCCCCCCCCCCCCEEECCCCCC-----CCCCHHHHHCCCCCEEECCCC----------CCHHHHH
Q ss_conf             9511998368788755785647878584774178645-----334532340166559953787----------5322301
Q 000471          598 PRLRVFSLRGCGNIFNLPNEIGNLKHLRCLNLSRTRI-----QILPESINSLYNLHTILLEDC----------HQLKKLC  662 (1472)
Q Consensus       598 ~~Lr~L~L~~~~~~~~lp~~i~~l~~Lr~L~L~~~~i-----~~lp~~i~~L~~L~~L~L~~~----------~~~~~lp  662 (1472)
                      +.|..-++..- .+..+...+.....|+.|+|++|.|     ..+...+...++|+.|+++++          .....+.
T Consensus         8 ~~L~l~~~~~e-~~~~l~~~L~~~~~l~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~l~l~~~~~~~~~~~~~~~~~~l~   86 (344)
T d2ca6a1           8 KSLKLDAITTE-DEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKKDLEIAEFSDIFTGRVKDEIPEALRLLL   86 (344)
T ss_dssp             CCCEESSCCSH-HHHTTSHHHHHCSCCCEEECTTSEECHHHHHHHHHTTTTCTTCCEEECCSCCTTSCGGGSHHHHHHHH
T ss_pred             CCCCCCCCCHH-HHHHHHHHHHHCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCHHHHHHH
T ss_conf             88877889987-89999999963899788978498377899999999998589988888877754334542106787999


Q ss_pred             HHHCCCCCCCEEECCCCCCCCC-----CCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCC
Q ss_conf             3110448775231489998543-----88743455554544956826798854102238313588348932337899111
Q 000471          663 KDMGNLRKLHHLRNSTANSLKE-----MPKGFGKLTSLLTLGRFVVGKDSGSGLRELKSLTHLQGTLRISKLENVKDVGD  737 (1472)
Q Consensus       663 ~~i~~L~~L~~L~l~~~~~~~~-----~p~~i~~L~~L~~L~~~~~~~~~~~~~~~l~~L~~L~~~l~i~~l~~~~~~~~  737 (1472)
                      ..+...++|++|++++|. +..     +...+...++|++|......-.......-...+..+.                
T Consensus        87 ~~l~~~~~L~~L~L~~n~-i~~~~~~~l~~~l~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~----------------  149 (344)
T d2ca6a1          87 QALLKCPKLHTVRLSDNA-FGPTAQEPLIDFLSKHTPLEHLYLHNNGLGPQAGAKIARALQELA----------------  149 (344)
T ss_dssp             HHHTTCTTCCEEECCSCC-CCTTTHHHHHHHHHHCTTCCEEECCSSCCHHHHHHHHHHHHHHHH----------------
T ss_pred             HHHHHCCCCCCCCCCCCC-CCCCCCCCHHHHHCCCCCCHHEECCCCCCCCCCCCCCCCCCCCCC----------------
T ss_conf             887547775633000013-455433310111002343210000024666654311112122221----------------


Q ss_pred             CCHHCCCCCCCCCEEEEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCEEEEEEECCCC------CCCCCCCCCCCCCCEE
Q ss_conf             1142028877887079872277656853025799770028899998908997327999------9846478876662178
Q 000471          738 ASEAQLNNKVNLEALLLKWSARDVQNLDQCEFETHVLSVLKPHRDVQELTITGYGGTK------FPIWLGDSSFSKLARL  811 (1472)
Q Consensus       738 ~~~~~l~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~------~p~~~~~~~~~~L~~L  811 (1472)
                       ........+.++.+.+..+..      .......+...+...+.++.|++.++.+..      +...+..  .++|+.|
T Consensus       150 -~~~~~~~~~~L~~l~l~~n~i------~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~g~~~~l~~~l~~--~~~L~~L  220 (344)
T d2ca6a1         150 -VNKKAKNAPPLRSIICGRNRL------ENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAY--CQELKVL  220 (344)
T ss_dssp             -HHHHHHTCCCCCEEECCSSCC------TGGGHHHHHHHHHHCTTCCEEECCSSCCCHHHHHHHHHTTGGG--CTTCCEE
T ss_pred             -CCCCCCCCCCCCEEECCCCCC------CCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHCC--HHHHCCC
T ss_conf             -100014676421110136501------3554332211112333213354333222222232002433211--0121122


Q ss_pred             EECCCCC------CCCCCCCCCCCCCCEEECCCCCCEEECCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf             8858899------9999989878756023067888418474014798877888732885357633322222788873345
Q 000471          812 ELRRCTS------TSLPSVGQLPFLKELRISGMDGVKSVGSEFYGNSRSVPFPSLETLSFFDMREWEEWIPCGAGEEVDE  885 (1472)
Q Consensus       812 ~L~~~~~------~~l~~l~~l~~L~~L~L~~~~~~~~i~~~~~~~~~~~~fp~L~~L~l~~~~~l~~~~~~~~~~~~~~  885 (1472)
                      ++++|.+      .....+...++|++|++++|..-..-...+...-.....+.|++|.+.++. +..-...........
T Consensus       221 ~Ls~N~i~~~g~~~L~~~l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~-i~~~~~~~l~~~l~~  299 (344)
T d2ca6a1         221 DLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNE-IELDAVRTLKTVIDE  299 (344)
T ss_dssp             ECCSSCCHHHHHHHHHHHGGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSC-CBHHHHHHHHHHHHH
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCEEECCCCC-CCHHHHHHHHHHHHC
T ss_conf             2333322222222344433232211110300475671566788877631568888989898986-980899999999970


Q ss_pred             CCCCCCEEEECCCC
Q ss_conf             48743476434784
Q 000471          886 VFPKLRKLSLFHCH  899 (1472)
Q Consensus       886 ~~~~L~~L~l~~c~  899 (1472)
                      ..+.|+.|++++|.
T Consensus       300 ~~~~L~~L~l~~N~  313 (344)
T d2ca6a1         300 KMPDLLFLELNGNR  313 (344)
T ss_dssp             HCTTCCEEECTTSB
T ss_pred             CCCCCCEEECCCCC
T ss_conf             38999989787980

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.42  E-value=1.5e-06  Score=53.73  Aligned_cols=184  Identities=17%  Similarity=0.124  Sum_probs=99.4

Q ss_pred             CEEECHHHHHHHHHHHH----CCCC---CCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHH
Q ss_conf             11102247999999982----5998---9999947999974698809999999955700012376238999367778778
Q 000471          187 KVYGREKEKEEIIELLL----NDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~----~~~~---~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      +++|-|..+++|.+.+.    ..+.   .+-...+-+.++|++|+|||++|+.+++.  ...+|   +.++.+.      
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~--~~~~~---~~i~~~~------   73 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANE--TGAFF---FLINGPE------   73 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHH--TTCEE---EEECHHH------
T ss_pred             HHCCHHHHHHHHHHHHHHHHCCHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHH--HCCEE---EEEECHH------
T ss_conf             631099999999999998831999998679998864687669988830899999987--48837---9997304------


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHH-------HH----HHHCCCC--CCCCCCCEE
Q ss_conf             9999999620798899331999999999660998499998279987974-------08----7520456--689999589
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYI-------RW----SELRCPF--VAGAAGSKI  326 (1472)
Q Consensus       260 ~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~-------~~----~~l~~~~--~~~~~~s~i  326 (1472)
                              +....  .......+...+...-..++.+|++||++.....       ..    ..+....  .....+.-|
T Consensus        74 --------l~~~~--~g~~~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlv  143 (258)
T d1e32a2          74 --------IMSKL--AGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIV  143 (258)
T ss_dssp             --------HTTSC--TTHHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEE
T ss_pred             --------HCCCC--CCCHHHHHHHHHHHHHHCCCEEEEEHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCE
T ss_conf             --------30254--56178888999999986499499852111322578877770689998775001101234688117


Q ss_pred             EEECCCHHHHHH-H----CCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHHH-HHHH
Q ss_conf             997289489976-0----99890637999957599999852208999788841799999999981997368-9999
Q 000471          327 VVTTRNLVVAER-M----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPLA-AKTL  396 (1472)
Q Consensus       327 iiTtR~~~~~~~-~----~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pla-i~~~  396 (1472)
                      |.||........ .    .-+..+.++..+.++-.++|.....+ .....+.+    ...|++.+.|+--| |..+
T Consensus       144 i~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~-~~~~~~~~----~~~la~~t~G~s~adl~~l  214 (258)
T d1e32a2         144 MAATNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKN-MKLADDVD----LEQVANETHGHVGADLAAL  214 (258)
T ss_dssp             EEEESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTT-SCBCTTCC----HHHHHHHCTTCCHHHHHHH
T ss_pred             EEECCCCCCCCHHHHHCCCCCCEEECCCCCHHHHHHHHHHHCCC-CCCCCCCC----HHHHHHCCCCCCHHHHHHH
T ss_conf             97579931025245424630232378999988999873220457-63345530----3444420667789999999

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=98.34  E-value=1.2e-05  Score=48.12  Aligned_cols=179  Identities=15%  Similarity=0.110  Sum_probs=95.8

Q ss_pred             CCEEECHHHHHHHHHHH---HCCCC---CCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHH
Q ss_conf             71110224799999998---25998---9999947999974698809999999955700012376238999367778778
Q 000471          186 AKVYGREKEKEEIIELL---LNDDL---RGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L---~~~~~---~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .+++|.|+..+++.+.+   ...+.   -+....+.+.++|++|+|||++|+.+++..  ..+   .+-++.+.-.+.  
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~--~~~---~~~i~~~~l~~~--   84 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEA--KVP---FFTISGSDFVEM--   84 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHH--TCC---EEEECSCSSTTS--
T ss_pred             HHHHCHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCCCHHHHHHHHHC--CCC---EEEEEHHHHHHC--
T ss_conf             9981639999999999999879999998699988867866899888228999999982--998---799886994260--


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCC----------HHHH----HHHCCCCC--CCCCC
Q ss_conf             99999996207988993319999999996609984999982799879----------7408----75204566--89999
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN----------YIRW----SELRCPFV--AGAAG  323 (1472)
Q Consensus       260 ~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~----------~~~~----~~l~~~~~--~~~~~  323 (1472)
                                   . .......+...+...-+..+++|++||++...          ....    ..+...+-  ....+
T Consensus        85 -------------~-~g~~~~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  150 (256)
T d1lv7a_          85 -------------F-VGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEG  150 (256)
T ss_dssp             -------------C-CCCCHHHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSC
T ss_pred             -------------C-HHHHHHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             -------------0-10789999999999997599899997756657567898888748999999999999538777799


Q ss_pred             CEEEEECCCHHHH-HHH----CCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCH
Q ss_conf             5899972894899-760----998906379999575999998522089997888417999999999819973
Q 000471          324 SKIVVTTRNLVVA-ERM----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       324 s~iiiTtR~~~~~-~~~----~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  390 (1472)
                      .-||.||..+... ...    .-++.+.+.+.+.++-.++++....+. ......+    ...+++.+.|..
T Consensus       151 v~vIatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~-~~~~~~~----~~~la~~t~G~s  217 (256)
T d1lv7a_         151 IIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRV-PLAPDID----AAIIARGTPGFS  217 (256)
T ss_dssp             EEEEEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTS-CBCTTCC----HHHHHHTCTTCC
T ss_pred             EEEEEECCCCCCCCHHHCCCCCCCEEEECCCCCHHHHHHHHHHHCCCC-CCCCCCC----HHHHHHHCCCCC
T ss_conf             899980799310798576898787798779959999999999842599-8686569----999998689989

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=98.33  E-value=1.5e-05  Score=47.36  Aligned_cols=179  Identities=15%  Similarity=0.100  Sum_probs=92.9

Q ss_pred             CCEEECHHHHHHHHHHH---HCCC---CCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHH
Q ss_conf             71110224799999998---2599---89999947999974698809999999955700012376238999367778778
Q 000471          186 AKVYGREKEKEEIIELL---LNDD---LRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L---~~~~---~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      .+++|-++.+++|.+.+   ...+   .-+....+-+.++|++|+|||++|+.+++..  ..+   .+.++.+      .
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~--~~~---~~~i~~~------~   77 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEA--RVP---FITASGS------D   77 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHT--TCC---EEEEEHH------H
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHC--CCC---EEEEEHH------H
T ss_conf             9971579999999999999879999997599988648876689888359999999873--997---7997869------9


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCC----------HHH----HHHHCCCCC--CCCCC
Q ss_conf             99999996207988993319999999996609984999982799879----------740----875204566--89999
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNEN----------YIR----WSELRCPFV--AGAAG  323 (1472)
Q Consensus       260 ~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~----------~~~----~~~l~~~~~--~~~~~  323 (1472)
                      +.    .    ..  .......+...+...-...+++|++||++...          ...    ...+...+-  ....+
T Consensus        78 l~----~----~~--~g~~~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~  147 (247)
T d1ixza_          78 FV----E----MF--VGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTA  147 (247)
T ss_dssp             HH----H----SC--TTHHHHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCC
T ss_pred             HH----H----CC--CCHHHHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             64----6----24--53899999999999997699799997736647467899888758999999999999638777899


Q ss_pred             CEEEEECCCHHHH-HHH----CCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCH
Q ss_conf             5899972894899-760----998906379999575999998522089997888417999999999819973
Q 000471          324 SKIVVTTRNLVVA-ERM----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLP  390 (1472)
Q Consensus       324 s~iiiTtR~~~~~-~~~----~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~P  390 (1472)
                      .-||.||...... ..+    .-+..+.+.+.+.++-.++++....... ......    ...+++.+.|..
T Consensus       148 vivi~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~-~~~~~~----~~~la~~t~g~s  214 (247)
T d1ixza_         148 IVVMAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKP-LAEDVD----LALLAKRTPGFV  214 (247)
T ss_dssp             EEEEEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSC-BCTTCC----HHHHHHTCTTCC
T ss_pred             EEEEEECCCCCCCCHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHCCCC-CCCCCC----HHHHHHHCCCCC
T ss_conf             8999807994006996758987857999799699999999998750657-765468----999997788988

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=98.24  E-value=3.3e-05  Score=45.27  Aligned_cols=154  Identities=14%  Similarity=0.148  Sum_probs=73.5

Q ss_pred             CCEEECHHHHHHHHHHHH-------CCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHH
Q ss_conf             711102247999999982-------5998999994799997469880999999995570001237623899936777877
Q 000471          186 AKVYGREKEKEEIIELLL-------NDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~-------~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      ..++|..+.++.+.+...       ...   ....+-|.++|++|+|||++|+.+++.  ...+|   +.++.+....  
T Consensus         9 ~~~i~~~~~i~~i~~~~~~~~~~~~~~~---~~p~~~vLL~GppGtGKT~la~alA~~--~~~~~---~~i~~~~~~~--   78 (246)
T d1d2na_           9 NGIIKWGDPVTRVLDDGELLVQQTKNSD---RTPLVSVLLEGPPHSGKTALAAKIAEE--SNFPF---IKICSPDKMI--   78 (246)
T ss_dssp             TCCCCCSHHHHHHHHHHHHHHHHHHHCS---SCSEEEEEEECSTTSSHHHHHHHHHHH--HTCSE---EEEECGGGCT--
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHHHHCCC---CCCCEEEEEECCCCCCHHHHHHHHHHC--CCCCC---CCCCCCCCCC--
T ss_conf             6984768799999999999999986368---899807998896999889999998620--10023---3345652235--


Q ss_pred             HHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCC----------CHHHHHHHCCC---CCCCCCCCE
Q ss_conf             89999999620798899331999999999660998499998279987----------97408752045---668999958
Q 000471          259 RISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNE----------NYIRWSELRCP---FVAGAAGSK  325 (1472)
Q Consensus       259 ~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~----------~~~~~~~l~~~---~~~~~~~s~  325 (1472)
                                 +  .........+...+....+..+.+|++|+++..          .......+...   ....+.+..
T Consensus        79 -----------g--~~~~~~~~~i~~if~~A~~~~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~  145 (246)
T d1d2na_          79 -----------G--FSETAKCQAMKKIFDDAYKSQLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLL  145 (246)
T ss_dssp             -----------T--CCHHHHHHHHHHHHHHHHTSSEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEE
T ss_pred             -----------C--CCCCCHHHHHHHHHHHHHHCCCCEEEHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCEE
T ss_conf             -----------6--542112244444565555324222331025667651345441247899999998607776545014


Q ss_pred             EEEECCCHHHHHHHC---C-CCCEECCCCCH-HHHHHHHHHH
Q ss_conf             999728948997609---9-89063799995-7599999852
Q 000471          326 IVVTTRNLVVAERMG---A-DPVYQLKELSD-DDCLCVLTQI  362 (1472)
Q Consensus       326 iiiTtR~~~~~~~~~---~-~~~~~l~~l~~-~e~~~l~~~~  362 (1472)
                      ||.||..+.......   . ...+.++.+.. ++.++.+...
T Consensus       146 vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il~~l~~~  187 (246)
T d1d2na_         146 IIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLLEALELL  187 (246)
T ss_dssp             EEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHHHHHHHH
T ss_pred             EEECCCCHHHCCCHHHCCCCCEEEECCCCHHHHHHHHHHHHC
T ss_conf             553248832256102018663388559910599999999742

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.06  E-value=1.2e-05  Score=48.13  Aligned_cols=179  Identities=15%  Similarity=0.126  Sum_probs=94.2

Q ss_pred             CEEECHHHHHHHHHHHH----CCC---CCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHH
Q ss_conf             11102247999999982----599---89999947999974698809999999955700012376238999367778778
Q 000471          187 KVYGREKEKEEIIELLL----NDD---LRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFR  259 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~----~~~---~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~  259 (1472)
                      +++|.++.+++|.+.+.    ..+   ..+-...+-|.++|++|.|||++|+.++..  ...+|     +.++    ...
T Consensus         8 di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~--~~~~~-----~~~~----~~~   76 (265)
T d1r7ra3           8 DIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANE--CQANF-----ISIK----GPE   76 (265)
T ss_dssp             SCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHH--TTCEE-----EEEC----HHH
T ss_pred             HHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHH--HCCCE-----EEEE----HHH
T ss_conf             966789999999999999963999998679998875788789987630477887877--18947-----9988----799


Q ss_pred             HHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHH----------H----HHHHCCCCCC--CCCC
Q ss_conf             9999999620798899331999999999660998499998279987974----------0----8752045668--9999
Q 000471          260 ISKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYI----------R----WSELRCPFVA--GAAG  323 (1472)
Q Consensus       260 ~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~----------~----~~~l~~~~~~--~~~~  323 (1472)
                              +....  .......+...+...-...++++++||++..-..          .    ...+...+-.  ...+
T Consensus        77 --------l~~~~--~~~~~~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~  146 (265)
T d1r7ra3          77 --------LLTMW--FGESEANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKN  146 (265)
T ss_dssp             --------HHTSC--TTTHHHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------C
T ss_pred             --------HHHCC--CCCHHHHHHHHHHHHHHCCCCCEEHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf             --------52531--65158999999999986398435687546324557876788737999999999999628677799


Q ss_pred             CEEEEECCCHHHH-HHH----CCCCCEECCCCCHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHCCCHH
Q ss_conf             5899972894899-760----9989063799995759999985220899978884179999999998199736
Q 000471          324 SKIVVTTRNLVVA-ERM----GADPVYQLKELSDDDCLCVLTQISLGARDFTRHLSLKEVGEQIVIKCGGLPL  391 (1472)
Q Consensus       324 s~iiiTtR~~~~~-~~~----~~~~~~~l~~l~~~e~~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~~~g~Pl  391 (1472)
                      .-+|.||...... ..+    .....+++++.+.++-.++|+.... ......+.+    ..++++++.|...
T Consensus       147 v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~-~~~~~~~~~----l~~la~~t~g~s~  214 (265)
T d1r7ra3         147 VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLR-KSPVAKDVD----LEFLAKMTNGFSG  214 (265)
T ss_dssp             CEEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTT-CC----CCC----CHHHHHHHCSSCC
T ss_pred             EEEEEECCCCHHCCHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHC-CCCCHHHHH----HHHHHHCCCCCCH
T ss_conf             8999917992227997807877647999566078889999999960-577102436----8999825899999

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=97.87  E-value=0.00023  Score=39.97  Aligned_cols=135  Identities=16%  Similarity=0.174  Sum_probs=67.1

Q ss_pred             CEEECHHHHHHHHHHHHCCC---CCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHH---HH
Q ss_conf             11102247999999982599---8999994799997469880999999995570001237623899936777877---89
Q 000471          187 KVYGREKEKEEIIELLLNDD---LRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF---RI  260 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~---~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~---~~  260 (1472)
                      .++|.++.++.+...+....   ........++..+|+.|+|||.+|+.+++.  .-+.-...+-++.+.-.+..   .+
T Consensus        24 ~v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~--l~~~~~~~~~~~~~~~~~~~~~~~L  101 (315)
T d1qvra3          24 RVVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAAT--LFDTEEAMIRIDMTEYMEKHAVSRL  101 (315)
T ss_dssp             HSCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHH--HHSSGGGEEEECTTTCCSSGGGGGC
T ss_pred             EEECHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHH--HCCCCCCEEEEECCCCCCCHHHHHH
T ss_conf             27087999999999999986578998887669999788862489999999998--3588753488731554542156651


Q ss_pred             HHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCC-----------CCCCEEEEE
Q ss_conf             999999620798899331999999999660998499998279987974087520456689-----------999589997
Q 000471          261 SKSILNSVASDQCKDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAG-----------AAGSKIVVT  329 (1472)
Q Consensus       261 ~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~-----------~~~s~iiiT  329 (1472)
                      ...-....+.      .....+...+++   ....+++||+++..+...+..+...+-.+           ..++-+|+|
T Consensus       102 ~g~~~gyvG~------~~~~~l~~~~~~---~p~~Vvl~DEieK~~~~v~~~ll~~l~~g~~~~~~gr~v~~~~~i~i~t  172 (315)
T d1qvra3         102 IGAPPGYVGY------EEGGQLTEAVRR---RPYSVILFDEIEKAHPDVFNILLQILDDGRLTDSHGRTVDFRNTVIILT  172 (315)
T ss_dssp             --------------------CHHHHHHH---CSSEEEEESSGGGSCHHHHHHHHHHHTTTEECCSSSCCEECTTEEEEEE
T ss_pred             CCCCCCCCCC------CCCCHHHHHHHH---CCCCEEEEEHHHHCCHHHHHHHHHHHCCCCEECCCCCEECCCCEEEEEE
T ss_conf             4899987674------667848999984---9983799714754078999899998613834279996853754289874


Q ss_pred             CCC
Q ss_conf             289
Q 000471          330 TRN  332 (1472)
Q Consensus       330 tR~  332 (1472)
                      |..
T Consensus       173 snl  175 (315)
T d1qvra3         173 SNL  175 (315)
T ss_dssp             CCT
T ss_pred             CCC
T ss_conf             245

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.80  E-value=3.3e-06  Score=51.60  Aligned_cols=87  Identities=18%  Similarity=0.247  Sum_probs=55.0

Q ss_pred             HHHHHHHCCCCCCEEEEECCCCCCCCCC---CCCCCCCCCCEEECCCCCCCCCCH-HHHHCCCCCEEECCCCCCHHHH--
Q ss_conf             8999972349951199836878875578---564787858477417864533453-2340166559953787532230--
Q 000471          588 SVLQRLLNHLPRLRVFSLRGCGNIFNLP---NEIGNLKHLRCLNLSRTRIQILPE-SINSLYNLHTILLEDCHQLKKL--  661 (1472)
Q Consensus       588 ~~~~~~~~~l~~Lr~L~L~~~~~~~~lp---~~i~~l~~Lr~L~L~~~~i~~lp~-~i~~L~~L~~L~L~~~~~~~~l--  661 (1472)
                      ..+..++..++.|++|+|++| .+..++   ..+..+++|++|++++|.|..+++ ......+|+.|++++|......  
T Consensus        55 ~~l~~~~~~~~~L~~L~Ls~N-~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~  133 (162)
T d1koha1          55 ATLRIIEENIPELLSLNLSNN-RLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRD  133 (162)
T ss_dssp             HHHHHHHHHCTTCCCCCCCSS-CCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSS
T ss_pred             HHHHHHHHHCCCCCEEECCCC-CCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEEECCCCCCCCCCCC
T ss_conf             660788974878788637776-6667731588986588561000435721342344222033104266489976767666


Q ss_pred             -----HHHHCCCCCCCEEE
Q ss_conf             -----13110448775231
Q 000471          662 -----CKDMGNLRKLHHLR  675 (1472)
Q Consensus       662 -----p~~i~~L~~L~~L~  675 (1472)
                           ...+..+++|+.||
T Consensus       134 ~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1         134 QSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHHHHHHHHTTSTTCCEET
T ss_pred             CHHHHHHHHHHCCCCCEEC
T ss_conf             1569999999889978799

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.66  E-value=0.00031  Score=39.16  Aligned_cols=129  Identities=9%  Similarity=-0.052  Sum_probs=73.1

Q ss_pred             HHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCC--HHCCCCCEEEEEECCCCCHHHHHHHHHHHHCCC
Q ss_conf             799999998259989999947999974698809999999955700--012376238999367778778999999962079
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDR--VQRHYEIKAWTCVSEDFDVFRISKSILNSVASD  271 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~--~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~  271 (1472)
                      +++.+.+++...      ....+.++|++|.|||++|..+.+...  ...|. ...++...+.                 
T Consensus         2 ~~~~l~~~i~~~------~~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~-D~~~i~~~~~-----------------   57 (198)
T d2gnoa2           2 QLETLKRIIEKS------EGISILINGEDLSYPREVSLELPEYVEKFPPKAS-DVLEIDPEGE-----------------   57 (198)
T ss_dssp             HHHHHHHHHHTC------SSEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTT-TEEEECCSSS-----------------
T ss_pred             HHHHHHHHHHCC------CCCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCC-CEEEEECCCC-----------------
T ss_conf             789999999669------9855998898998889999999999843456799-8899807767-----------------


Q ss_pred             CCCCCCCHHHHHHHHHHHH-----CCCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCHH-HHHHH-CCCCC
Q ss_conf             8899331999999999660-----99849999827998797408752045668999958999728948-99760-99890
Q 000471          272 QCKDKDDLNLLQEKLKKQL-----SGNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNLV-VAERM-GADPV  344 (1472)
Q Consensus       272 ~~~~~~~~~~~~~~l~~~l-----~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~~-~~~~~-~~~~~  344 (1472)
                          ....++... +.+.+     .+++-++|+|+++.........+...+-....++.+|++|.+.. +.... ..-+.
T Consensus        58 ----~I~Id~IR~-i~~~~~~~~~~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~  132 (198)
T d2gnoa2          58 ----NIGIDDIRT-IKDFLNYSPELYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFR  132 (198)
T ss_dssp             ----CBCHHHHHH-HHHHHTSCCSSSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             ----CCCHHHHHH-HHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCHHHCHHHHHCCEEE
T ss_conf             ----899899999-999996175458987999947310366666478887737898852222069956687887352277


Q ss_pred             EECCCCC
Q ss_conf             6379999
Q 000471          345 YQLKELS  351 (1472)
Q Consensus       345 ~~l~~l~  351 (1472)
                      +.+.+..
T Consensus       133 i~~~~p~  139 (198)
T d2gnoa2         133 VVVNVPK  139 (198)
T ss_dssp             EECCCCH
T ss_pred             EECCCCH
T ss_conf             7679936

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=97.64  E-value=0.00015  Score=41.21  Aligned_cols=133  Identities=18%  Similarity=0.131  Sum_probs=69.9

Q ss_pred             CEEECHHHHHHHHHHHHC---CCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHH
Q ss_conf             111022479999999825---99899999479999746988099999999557000123762389993677787789999
Q 000471          187 KVYGREKEKEEIIELLLN---DDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKS  263 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~---~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~  263 (1472)
                      .++|-++.++.+...+..   .-........++..+|+.|+|||.||+.++..  .   +...+-++.+.-.+...    
T Consensus        23 ~viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~--l---~~~~i~~d~s~~~~~~~----   93 (315)
T d1r6bx3          23 LVFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKA--L---GIELLRFDMSEYMERHT----   93 (315)
T ss_dssp             TSCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHH--H---TCEEEEEEGGGCSSSSC----
T ss_pred             EECCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHH--C---CCCEEEECCCCCCCHHH----
T ss_conf             06485999999999999997267888887658999778750069999999863--3---67706741544455446----


Q ss_pred             HHHHHCCCCCCCC-CCH-HHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCCCCC-----------CCCCEEEEEC
Q ss_conf             9996207988993-319-99999999660998499998279987974087520456689-----------9995899972
Q 000471          264 ILNSVASDQCKDK-DDL-NLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPFVAG-----------AAGSKIVVTT  330 (1472)
Q Consensus       264 il~~l~~~~~~~~-~~~-~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~~~~-----------~~~s~iiiTt  330 (1472)
                       ...+.+...... .+. ..+...+.   +....++.||+++..+..-+..+...+-.+           ...+-+|.||
T Consensus        94 -~~~l~g~~~gy~g~~~~~~l~~~~~---~~~~~vvl~DeieKa~~~V~~~lLqild~G~ltd~~Gr~vdf~n~iiI~Ts  169 (315)
T d1r6bx3          94 -VSRLIGAPPGYVGFDQGGLLTDAVI---KHPHAVLLLDEIEKAHPDVFNILLQVMDNGTLTDNNGRKADFRNVVLVMTT  169 (315)
T ss_dssp             -CSSSCCCCSCSHHHHHTTHHHHHHH---HCSSEEEEEETGGGSCHHHHHHHHHHHHHSEEEETTTEEEECTTEEEEEEE
T ss_pred             -HHHHCCCCCCCCCCCCCCHHHHHHH---HCCCCHHHHCCCCCCCCHHHHHHHHHHCCCEECCCCCCCCCCCCEEEEECC
T ss_conf             -6652146787501146870337777---385430221222301633766567762146025889972686325888414


Q ss_pred             CC
Q ss_conf             89
Q 000471          331 RN  332 (1472)
Q Consensus       331 R~  332 (1472)
                      ..
T Consensus       170 ni  171 (315)
T d1r6bx3         170 NA  171 (315)
T ss_dssp             CS
T ss_pred             CH
T ss_conf             40

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.52  E-value=0.00099  Score=35.98  Aligned_cols=131  Identities=16%  Similarity=0.143  Sum_probs=64.4

Q ss_pred             CEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHH
Q ss_conf             11102247999999982599899999479999746988099999999557000123762389993677787789999999
Q 000471          187 KVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~  266 (1472)
                      +|||....++++.+.+..-.   ..+ .-|.|.|..|+|||++|+.+..... ... ...+-+++. ..+.......+..
T Consensus         1 ~~v~~S~~~~~~~~~~~~~a---~~~-~pvlI~Ge~GtGK~~~A~~ih~~s~-~~~-~~~~~~~~~-~~~~~~~~~~lfg   73 (247)
T d1ny5a2           1 EYVFESPKMKEILEKIKKIS---CAE-CPVLITGESGVGKEVVARLIHKLSD-RSK-EPFVALNVA-SIPRDIFEAELFG   73 (247)
T ss_dssp             CCCCCSHHHHHHHHHHHHHT---TCC-SCEEEECSTTSSHHHHHHHHHHHST-TTT-SCEEEEETT-TSCHHHHHHHHHC
T ss_pred             CEEECCHHHHHHHHHHHHHH---CCC-CCEEEECCCCCCHHHHHHHHHHHCC-CCC-CCCCCCHHH-HHHHCCCHHHHCC
T ss_conf             95862999999999999996---889-9789989998179999999999658-765-332021023-4310112887628


Q ss_pred             HHCCCCC---CCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCHHHHHHHCCCC------CCC-----CCCCEEEEECCC
Q ss_conf             6207988---99331999999999660998499998279987974087520456------689-----999589997289
Q 000471          267 SVASDQC---KDKDDLNLLQEKLKKQLSGNKFLLVLDDVWNENYIRWSELRCPF------VAG-----AAGSKIVVTTRN  332 (1472)
Q Consensus       267 ~l~~~~~---~~~~~~~~~~~~l~~~l~~~r~LlVlDdv~~~~~~~~~~l~~~~------~~~-----~~~s~iiiTtR~  332 (1472)
                      .-.....   ....+.      +. . .... .|++||++......-..+...+      +.+     ....|||.||..
T Consensus        74 ~~~~~~~~~~~~~~g~------l~-~-a~gG-tL~l~~i~~L~~~~Q~~L~~~l~~~~~~~~~~~~~~~~~~RlI~~s~~  144 (247)
T d1ny5a2          74 YEKGAFTGAVSSKEGF------FE-L-ADGG-TLFLDEIGELSLEAQAKLLRVIESGKFYRLGGRKEIEVNVRILAATNR  144 (247)
T ss_dssp             BCTTSSTTCCSCBCCH------HH-H-TTTS-EEEEESGGGCCHHHHHHHHHHHHHSEECCBTCCSBEECCCEEEEEESS
T ss_pred             CCCCCCCCCCCCCCCH------HH-C-CCCC-EEEEECHHHCCHHHHHHHHHHHHHCCEEECCCCCCEECCEEEEEECCC
T ss_conf             5357767753355888------77-2-3899-799958375999999999999975987878999702337599993397


Q ss_pred             H
Q ss_conf             4
Q 000471          333 L  333 (1472)
Q Consensus       333 ~  333 (1472)
                      .
T Consensus       145 ~  145 (247)
T d1ny5a2         145 N  145 (247)
T ss_dssp             C
T ss_pred             C
T ss_conf             9

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.50  E-value=0.00043  Score=38.25  Aligned_cols=90  Identities=22%  Similarity=0.141  Sum_probs=61.1

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCC----CCCCHHHHHH
Q ss_conf             999947999974698809999999955700012376238999367778778999999962079889----9331999999
Q 000471          209 GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK----DKDDLNLLQE  284 (1472)
Q Consensus       209 ~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~  284 (1472)
                      +-+..+++-|+|+.|.|||++|.+++...  +..-..++|++....++.+.     +++++.....    .....++...
T Consensus        56 G~~~g~i~e~~G~~~~GKT~l~l~~~~~~--q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~  128 (269)
T d1mo6a1          56 GLPRGRVIEIYGPESSGKTTVALHAVANA--QAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALE  128 (269)
T ss_dssp             SBCSSSEEEEECSSSSSHHHHHHHHHHHH--HHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHH
T ss_pred             CCCCCEEEEEECCCCCHHHHHHHHHHHHH--HCCCCEEEEEECCCCCCHHH-----HHHHCCCHHHEEEECCCCHHHHHH
T ss_conf             86663369996488748899999999987--54898899998976679999-----998099889958966998999999


Q ss_pred             HHHHHHC-CCEEEEEEECCCCC
Q ss_conf             9996609-98499998279987
Q 000471          285 KLKKQLS-GNKFLLVLDDVWNE  305 (1472)
Q Consensus       285 ~l~~~l~-~~r~LlVlDdv~~~  305 (1472)
                      .+....+ .+.-|+|+|-+-..
T Consensus       129 ~~~~l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         129 IADMLIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHHHHHTTCEEEEEEECSTTC
T ss_pred             HHHHHHHCCCCCEEEEECCCCC
T ss_conf             9999985599878999330245

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=3.8e-06  Score=51.21  Aligned_cols=15  Identities=40%  Similarity=0.558  Sum_probs=5.4

Q ss_pred             CCCCCEEECCCCCCC
Q ss_conf             785847741786453
Q 000471          621 LKHLRCLNLSRTRIQ  635 (1472)
Q Consensus       621 l~~Lr~L~L~~~~i~  635 (1472)
                      +++|++|+|++|.|+
T Consensus        64 ~~~L~~L~Ls~N~i~   78 (162)
T d1koha1          64 IPELLSLNLSNNRLY   78 (162)
T ss_dssp             CTTCCCCCCCSSCCC
T ss_pred             CCCCCEEECCCCCCC
T ss_conf             878788637776666

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.48  E-value=0.00036  Score=38.76  Aligned_cols=87  Identities=17%  Similarity=0.128  Sum_probs=59.8

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCC----CCCCHHHHHHHH
Q ss_conf             9947999974698809999999955700012376238999367778778999999962079889----933199999999
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK----DKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~l  286 (1472)
                      +..+++-|+|++|.|||++|.+++....  +.=..++|++....++..     +++.++.....    .....++....+
T Consensus        55 p~g~itei~G~~~sGKT~l~l~~~~~aq--k~g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~  127 (268)
T d1xp8a1          55 PRGRITEIYGPESGGKTTLALAIVAQAQ--KAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIM  127 (268)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHH--HTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH--HCCCEEEEEECCCCCCHH-----HHHHHCCCCHHEEEECCCCHHHHHHHH
T ss_conf             6754789805876522799999999997--079989999887658999-----999828981237997489999999999


Q ss_pred             HHHHCC-CEEEEEEECCCC
Q ss_conf             966099-849999827998
Q 000471          287 KKQLSG-NKFLLVLDDVWN  304 (1472)
Q Consensus       287 ~~~l~~-~r~LlVlDdv~~  304 (1472)
                      ....+. ..-|+|+|-+-.
T Consensus       128 ~~l~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         128 ELLVRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HHHHTTTCCSEEEEECTTT
T ss_pred             HHHHHCCCCCEEEEECCCC
T ss_conf             9998658971999945454

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=97.32  E-value=0.00036  Score=38.76  Aligned_cols=87  Identities=22%  Similarity=0.153  Sum_probs=55.5

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCC----CCCCHHHHHHHH
Q ss_conf             9947999974698809999999955700012376238999367778778999999962079889----933199999999
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCK----DKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~----~~~~~~~~~~~l  286 (1472)
                      ...+++-|+|++|.||||+|.+++...  +..-..++|++....++..     .++.++...+.    .....++....+
T Consensus        52 ~~g~itei~G~~gsGKTtl~l~~~~~~--q~~g~~~vyidtE~~~~~~-----~a~~~Gvd~d~v~~~~~~~~E~~~~~i  124 (263)
T d1u94a1          52 PMGRIVEIYGPESSGKTTLTLQVIAAA--QREGKTCAFIDAEHALDPI-----YARKLGVDIDNLLCSQPDTGEQALEIC  124 (263)
T ss_dssp             ETTSEEEEECSTTSSHHHHHHHHHHHH--HHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHH--HCCCCEEEEECCCCCCCHH-----HHHHHCCCHHHEEEECCCCHHHHHHHH
T ss_conf             673589980577747899999999998--7089879998654454899-----999839987997996289899999999


Q ss_pred             HHHHC-CCEEEEEEECCCC
Q ss_conf             96609-9849999827998
Q 000471          287 KKQLS-GNKFLLVLDDVWN  304 (1472)
Q Consensus       287 ~~~l~-~~r~LlVlDdv~~  304 (1472)
                      ....+ +..-|+|+|-+..
T Consensus       125 ~~l~~~~~~~liViDSi~a  143 (263)
T d1u94a1         125 DALARSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHHHHHTCCSEEEEECGGG
T ss_pred             HHHHHCCCCCEEEEECCCC
T ss_conf             9998549998999988655

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=97.20  E-value=0.00032  Score=39.02  Aligned_cols=43  Identities=19%  Similarity=0.371  Sum_probs=29.5

Q ss_pred             HHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             47999999982599899999479999746988099999999557
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.+.+.++.+..... ....++.|.++|++|+|||++|+.++..
T Consensus        13 ~~~~~~~~~~~~~~~-~~~~P~~ilL~GpPGtGKT~la~~la~~   55 (273)
T d1gvnb_          13 NRLNDNLEELIQGKK-AVESPTAFLLGGQPGSGKTSLRSAIFEE   55 (273)
T ss_dssp             HHHHHHHHHHHTTCC-CCSSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCC-CCCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999999999984152-7899979998897998899999999998

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=97.09  E-value=0.002  Score=34.10  Aligned_cols=91  Identities=15%  Similarity=0.046  Sum_probs=51.7

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCH--HHHHHHHHHHHCCCCCC--CCCCHHHHHHHH
Q ss_conf             99479999746988099999999557000123762389993677787--78999999962079889--933199999999
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDV--FRISKSILNSVASDQCK--DKDDLNLLQEKL  286 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~--~~~~~~il~~l~~~~~~--~~~~~~~~~~~l  286 (1472)
                      ..+.|+.++|+.|+||||.+.+++...  +. ....+.+-....+..  .+-++..++.++.+...  ...+........
T Consensus         7 ~~p~vi~lvGptGvGKTTTiAKLA~~~--~~-~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~   83 (211)
T d2qy9a2           7 KAPFVILMVGVNGVGKTTTIGKLARQF--EQ-QGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDA   83 (211)
T ss_dssp             CTTEEEEEECCTTSCHHHHHHHHHHHH--HT-TTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHH--HH-CCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHH
T ss_conf             999799998999999899999999999--97-799479982321366612045554343388621135687799999999


Q ss_pred             HHHHC-CCEEEEEEECCCC
Q ss_conf             96609-9849999827998
Q 000471          287 KKQLS-GNKFLLVLDDVWN  304 (1472)
Q Consensus       287 ~~~l~-~~r~LlVlDdv~~  304 (1472)
                      .+..+ ...=++++|-.-.
T Consensus        84 ~~~a~~~~~d~ilIDTaGr  102 (211)
T d2qy9a2          84 IQAAKARNIDVLIADTAGR  102 (211)
T ss_dssp             HHHHHHTTCSEEEECCCCC
T ss_pred             HHHHHHCCCCEEEECCCCC
T ss_conf             9999876998899656887

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=96.94  E-value=0.0048  Score=31.63  Aligned_cols=82  Identities=20%  Similarity=0.154  Sum_probs=45.9

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCC--CCEEEEEECCCCCHHHHHHHHHHHHC-CCCCCCCCCHHHHHHH
Q ss_conf             99994799997469880999999995570001237--62389993677787789999999620-7988993319999999
Q 000471          209 GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHY--EIKAWTCVSEDFDVFRISKSILNSVA-SDQCKDKDDLNLLQEK  285 (1472)
Q Consensus       209 ~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f--~~~~wv~~~~~~~~~~~~~~il~~l~-~~~~~~~~~~~~~~~~  285 (1472)
                      ....+-+|+|.|..|+||||+|+.+...  ....+  ..+.-++...=+-..+.+..  ..+. .....+..+.+.+.+.
T Consensus        76 ~~k~P~iIGIaG~sgSGKSTla~~L~~l--L~~~~~~~~v~~Is~D~F~~~~~~l~~--~~~~~~~g~Pes~D~~~L~~~  151 (308)
T d1sq5a_          76 GQRIPYIISIAGSVAVGKSTTARVLQAL--LSRWPEHRRVELITTDGFLHPNQVLKE--RGLMKKKGFPESYDMHRLVKF  151 (308)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHHHH--HTTSTTCCCEEEEEGGGGBCCHHHHHH--HTCTTCTTSGGGBCHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCCCCHHHHHHHHH--HHHHCCCCCEEEEEEEEEECCCHHHHH--HCCCCCCCCHHHHHHHHHHHH
T ss_conf             7899889999689999876899999999--730468996599952156898458888--368766881676319999999


Q ss_pred             HHHHHCCCE
Q ss_conf             996609984
Q 000471          286 LKKQLSGNK  294 (1472)
Q Consensus       286 l~~~l~~~r  294 (1472)
                      +.....+++
T Consensus       152 L~~lk~g~~  160 (308)
T d1sq5a_         152 VSDLKSGVP  160 (308)
T ss_dssp             HHHHTTTCS
T ss_pred             HHHHHCCCC
T ss_conf             999975998

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.92  E-value=0.0014  Score=35.08  Aligned_cols=39  Identities=28%  Similarity=0.364  Sum_probs=27.6

Q ss_pred             HHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             999999982599899999479999746988099999999557
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ++.|.+....-   ...+.-+|+|.|+.|.||||||+.+...
T Consensus         7 ~~~~~~~~~~~---~~~~~~iIgI~G~~GSGKSTla~~L~~~   45 (198)
T d1rz3a_           7 IDFLCKTILAI---KTAGRLVLGIDGLSRSGKTTLANQLSQT   45 (198)
T ss_dssp             HHHHHHHHHTS---CCSSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             99999999852---6799889997898878999999999998

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.77  E-value=0.00092  Score=36.16  Aligned_cols=38  Identities=13%  Similarity=-0.011  Sum_probs=26.9

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEE
Q ss_conf             994799997469880999999995570001237623899
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWT  249 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv  249 (1472)
                      .+..+|.++|++|+||||+|+.++..... ..++...++
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~~L~~-~~~~~~~~~   41 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQVTLNQ-QGGRSVSLL   41 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHHHHHH-HCSSCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCCCHHHH
T ss_conf             99769998899999999999999999865-079840321

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.77  E-value=0.00081  Score=36.52  Aligned_cols=61  Identities=18%  Similarity=0.080  Sum_probs=37.8

Q ss_pred             HHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHH
Q ss_conf             79999999825998999994799997469880999999995570001237623899936777877
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      ...++.+.+...    ..+..+|+|.|++|+|||||..++....+..++=-.++-++.+..++-.
T Consensus        36 ~~~~~~~~~~~~----~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~gg   96 (323)
T d2qm8a1          36 AVRDLIDAVLPQ----TGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRTGG   96 (323)
T ss_dssp             HHHHHHHHHGGG----CCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSSCC
T ss_pred             HHHHHHHHHHHC----CCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHHHH
T ss_conf             999999986330----6981598611799888999999999987636875134434655478775

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=96.75  E-value=0.0034  Score=32.60  Aligned_cols=93  Identities=16%  Similarity=0.080  Sum_probs=51.5

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECC-CCCHHHHHHHHHHHHCCCCCC--CCCCHHHHHHHH
Q ss_conf             99947999974698809999999955700012376238999367-778778999999962079889--933199999999
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQCK--DKDDLNLLQEKL  286 (1472)
Q Consensus       210 ~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l  286 (1472)
                      +.++.|+.++|+.|+||||.+.+++...  ..+-..+..+++.. .....+-++..++.++.+...  ...+........
T Consensus         8 ~~~p~vi~lvGptGvGKTTTiAKLAa~~--~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~   85 (213)
T d1vmaa2           8 PEPPFVIMVVGVNGTGKTTSCGKLAKMF--VDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDA   85 (213)
T ss_dssp             SSSCEEEEEECCTTSSHHHHHHHHHHHH--HHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHH--HHCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHH
T ss_conf             9999899998999998899999999999--97799069996013342046788877643276410367777689987887


Q ss_pred             -HHHHCCCEEEEEEECCCC
Q ss_conf             -966099849999827998
Q 000471          287 -KKQLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       287 -~~~l~~~r~LlVlDdv~~  304 (1472)
                       ........=++++|=.-.
T Consensus        86 ~~~~~~~~~d~ilIDTaGr  104 (213)
T d1vmaa2          86 VAHALARNKDVVIIDTAGR  104 (213)
T ss_dssp             HHHHHHTTCSEEEEEECCC
T ss_pred             HHHHHHCCCCEEEEECCCC
T ss_conf             8999876999899824553

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=96.71  E-value=0.00085  Score=36.37  Aligned_cols=68  Identities=10%  Similarity=-0.050  Sum_probs=40.4

Q ss_pred             HHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHH
Q ss_conf             999999982599899999479999746988099999999557000123762389993677787789999999
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILN  266 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~  266 (1472)
                      ..++...+..    ..++..+|+|+|++|+|||||...+......+++=-.++-++-+..++--.++..-.+
T Consensus        40 ~~~ll~~~~~----~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~r  107 (327)
T d2p67a1          40 STQLLDAIMP----YCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTR  107 (327)
T ss_dssp             HHHHHHHHGG----GCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--------------
T ss_pred             HHHHHHHHHH----CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECCCCCCCHHH
T ss_conf             9999998653----1698328974389999899999999999975698332203777610006515541367

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=96.70  E-value=0.00052  Score=37.74  Aligned_cols=24  Identities=21%  Similarity=0.180  Sum_probs=22.0

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             947999974698809999999955
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      -.+.|.|.|+.|+||||||+.++.
T Consensus         6 ~~K~I~i~G~~GsGKTTla~~La~   29 (192)
T d1lw7a2           6 FAKTVAILGGESSGKSVLVNKLAA   29 (192)
T ss_dssp             TCEEEEEECCTTSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             632899989999989999999999

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.69  E-value=0.00061  Score=37.27  Aligned_cols=24  Identities=33%  Similarity=0.325  Sum_probs=21.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             799997469880999999995570
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      +.|.|+|++|+|||||+++++...
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~l   25 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEVL   25 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             699998899971999999999999

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.67  E-value=0.00019  Score=40.48  Aligned_cols=50  Identities=26%  Similarity=0.280  Sum_probs=30.2

Q ss_pred             CEEECHHHHHHHHHHHHC----CCCC----CCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             111022479999999825----9989----9999479999746988099999999557
Q 000471          187 KVYGREKEKEEIIELLLN----DDLR----GDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       187 ~~vGr~~~~~~l~~~L~~----~~~~----~~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .++|-++.++.+...+..    ....    .....+.+.++||+|+|||.||+.+++.
T Consensus        15 ~ViGQd~A~~~l~~av~~~~~r~~~~~~~~~~~~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          15 HIIGQADAKRAVAIALRNRWRRMQLQEPLRHEVTPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             TCCSCHHHHHHHHHHHHHHHHTTSSCHHHHHHCCCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCHHHHHHHHHHC
T ss_conf             1349199999999999989877245787766789866999899998888999998621

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.67  E-value=0.0082  Score=30.17  Aligned_cols=91  Identities=13%  Similarity=0.105  Sum_probs=49.2

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECC-CCCHHHHHHHHHHHHCCCCC--CCCCCHHHHHHHHH
Q ss_conf             9947999974698809999999955700012376238999367-77877899999996207988--99331999999999
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQC--KDKDDLNLLQEKLK  287 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~--~~~~~~~~~~~~l~  287 (1472)
                      .+.+|+.++|+.|+||||.+.+++....  .+-..+..+++.. .....+-++...+.++.+..  ....+.........
T Consensus         8 ~~~~vi~lvGp~GvGKTTTiaKLA~~~~--~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~~~   85 (207)
T d1ls1a2           8 KDRNLWFLVGLQGSGKTTTAAKLALYYK--GKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVE   85 (207)
T ss_dssp             CSSEEEEEECCTTTTHHHHHHHHHHHHH--HTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHHHH--HCCCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHH
T ss_conf             9986899989999988999999999999--77992799954434640888899999862886311124420367888898


Q ss_pred             --HHHCCCEEEEEEECCCC
Q ss_conf             --66099849999827998
Q 000471          288 --KQLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       288 --~~l~~~r~LlVlDdv~~  304 (1472)
                        ....+.. ++++|=...
T Consensus        86 ~~~~~~~~d-~vlIDTaGr  103 (207)
T d1ls1a2          86 EKARLEARD-LILVDTAGR  103 (207)
T ss_dssp             HHHHHHTCC-EEEEECCCC
T ss_pred             HHHHHCCCC-CEEECCCCC
T ss_conf             887633676-403345442

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.66  E-value=0.0037  Score=32.37  Aligned_cols=72  Identities=18%  Similarity=0.294  Sum_probs=40.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHCC
Q ss_conf             47999974698809999999955700012376238999367778778999999962079889933199999999966099
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDDLNLLQEKLKKQLSG  292 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~~~~~~~~l~~~l~~  292 (1472)
                      ..++.++|++|+|||.||+.++.  .....+. .+-+..+.-.+              .   -..+.+...+.+.+..+ 
T Consensus       123 ~g~~l~~G~pG~GKT~la~ala~--~~~~~~~-~~~~~~~~~~~--------------~---~~G~~e~~~~~~f~~a~-  181 (321)
T d1w44a_         123 SGMVIVTGKGNSGKTPLVHALGE--ALGGKDK-YATVRFGEPLS--------------G---YNTDFNVFVDDIARAML-  181 (321)
T ss_dssp             SEEEEEECSSSSCHHHHHHHHHH--HHHTTSC-CEEEEBSCSST--------------T---CBCCHHHHHHHHHHHHH-
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH--HHCCCCC-EEEEEHHHHHH--------------C---CCCHHHHHHHHHHHHHH-
T ss_conf             86388877998508899999999--8637998-08978268544--------------2---44457899999999986-


Q ss_pred             CEEEEEEECCCCC
Q ss_conf             8499998279987
Q 000471          293 NKFLLVLDDVWNE  305 (1472)
Q Consensus       293 ~r~LlVlDdv~~~  305 (1472)
                      ++.+|++|.++..
T Consensus       182 ~~~ilf~DEid~~  194 (321)
T d1w44a_         182 QHRVIVIDSLKNV  194 (321)
T ss_dssp             HCSEEEEECCTTT
T ss_pred             HCCEEEEEHHHHH
T ss_conf             2658974101222

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=96.66  E-value=0.0018  Score=34.26  Aligned_cols=92  Identities=15%  Similarity=0.068  Sum_probs=49.3

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECC-CCCHHHHHHHHHHHHCCCCCC--CCCCHHH-HHHH
Q ss_conf             99947999974698809999999955700012376238999367-778778999999962079889--9331999-9999
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQCK--DKDDLNL-LQEK  285 (1472)
Q Consensus       210 ~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~--~~~~~~~-~~~~  285 (1472)
                      ...+.|+.++|+.|+||||.+.+++...+.+ . ..+..+++.. .....+-++..++.++.+...  ...+... ..+.
T Consensus         9 ~k~p~vi~lvGptGvGKTTTiAKLA~~~~~~-g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a   86 (211)
T d1j8yf2           9 DKIPYVIMLVGVQGTGKATTAGKLAYFYKKK-G-FKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRG   86 (211)
T ss_dssp             SSSSEEEEEECSCCC----HHHHHHHHHHHT-T-CCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHHC-C-CCEEEEEEECCCCCHHHHHHHHCCCCCCCEEECCCCHHHHHHHHHH
T ss_conf             9999899998999999899999999999977-9-9369997202355156789874014684223024410244789999


Q ss_pred             HHHHHCCCEEEEEEECCC
Q ss_conf             996609984999982799
Q 000471          286 LKKQLSGNKFLLVLDDVW  303 (1472)
Q Consensus       286 l~~~l~~~r~LlVlDdv~  303 (1472)
                      +........=++++|=..
T Consensus        87 ~~~~~~~~~d~IlIDTaG  104 (211)
T d1j8yf2          87 VEKFLSEKMEIIIVDTAG  104 (211)
T ss_dssp             HHHHHHTTCSEEEEECCC
T ss_pred             HHHHHCCCCCEEEEECCC
T ss_conf             987402677369985377

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.66  E-value=0.0018  Score=34.39  Aligned_cols=36  Identities=28%  Similarity=0.464  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             799999998259989999947999974698809999999955
Q 000471          194 EKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       194 ~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ++..+.+.+.      ..+.++|.+.|-||+||||+|-.++.
T Consensus         7 ~~~~~~~~~~------~~~~~iii~sGKGGVGKTT~a~nLA~   42 (279)
T d1ihua2           7 SLSALVDDIA------RNEHGLIMLMGKGGVGKTTMAAAIAV   42 (279)
T ss_dssp             CHHHHHHHHH------TTSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CHHHHHHHHH------CCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             5889998850------37978999979998878999999999

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=96.64  E-value=0.0031  Score=32.84  Aligned_cols=92  Identities=14%  Similarity=-0.013  Sum_probs=50.2

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECC-CCCHHHHHHHHHHHHCCCCCC--CCCCHHHHHHHHH
Q ss_conf             9947999974698809999999955700012376238999367-778778999999962079889--9331999999999
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE-DFDVFRISKSILNSVASDQCK--DKDDLNLLQEKLK  287 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~-~~~~~~~~~~il~~l~~~~~~--~~~~~~~~~~~l~  287 (1472)
                      ++.+++.++|+.|+||||.+.+++....  .+=..+..++... .....+-++..++.++.+...  ...+.........
T Consensus         4 ~~~~vi~lvGptGvGKTTTiaKLA~~~~--~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~~~   81 (207)
T d1okkd2           4 PKGRVVLVVGVNGVGKTTTIAKLGRYYQ--NLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDPAALAYDAV   81 (207)
T ss_dssp             CSSSEEEEECSTTSSHHHHHHHHHHHHH--TTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCEECCCTTCCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHH--HCCCCEEEEEECCCCCCCHHHHHHCCCCCCCEEEECCCCCCHHHHHHHHH
T ss_conf             9977999989999988999999999999--77990799981366654026676405456823896167742788999989


Q ss_pred             H-HHCCCEEEEEEECCCC
Q ss_conf             6-6099849999827998
Q 000471          288 K-QLSGNKFLLVLDDVWN  304 (1472)
Q Consensus       288 ~-~l~~~r~LlVlDdv~~  304 (1472)
                      . .-....=++++|=.-.
T Consensus        82 ~~~~~~~~d~ilIDTaGr   99 (207)
T d1okkd2          82 QAMKARGYDLLFVDTAGR   99 (207)
T ss_dssp             HHHHHHTCSEEEECCCCC
T ss_pred             HHHHHCCCCEEECCCCCC
T ss_conf             999987999997175222

>d1pgva_ c.10.1.1 (A:) Tropomodulin C-terminal domain {nematode (Caenorhabditis elegans) [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: nematode (Caenorhabditis elegans) [TaxId: 6239]

Probab=96.62  E-value=0.0035  Score=32.47  Aligned_cols=91  Identities=18%  Similarity=0.202  Sum_probs=44.3

Q ss_pred             HHHHHCCCCCCEEEEECCCCCCCC-----CCCCCCCCCCCCEEECCCCCCC-----CCCHHHHHCCCCCEEECCCCCCHH
Q ss_conf             999723499511998368788755-----7856478785847741786453-----345323401665599537875322
Q 000471          590 LQRLLNHLPRLRVFSLRGCGNIFN-----LPNEIGNLKHLRCLNLSRTRIQ-----ILPESINSLYNLHTILLEDCHQLK  659 (1472)
Q Consensus       590 ~~~~~~~l~~Lr~L~L~~~~~~~~-----lp~~i~~l~~Lr~L~L~~~~i~-----~lp~~i~~L~~L~~L~L~~~~~~~  659 (1472)
                      +..+..+.+.|+.|+|+++..+..     +-..+.....|++|+|++|.+.     .+...+..-+.|+.|++++|....
T Consensus         7 l~~l~~n~~~L~~L~L~~~~~i~~~~~~~l~~~L~~n~~L~~L~Ls~n~l~~~~~~~la~~L~~n~~L~~L~L~~n~i~~   86 (167)
T d1pgva_           7 INRLREDDTDLKEVNINNMKRVSKERIRSLIEAACNSKHIEKFSLANTAISDSEARGLIELIETSPSLRVLNVESNFLTP   86 (167)
T ss_dssp             HHHHHTTCSSCCEEECTTCCSSCHHHHHHHHHHHTTCSCCCEEECTTSCCBHHHHTTHHHHHHHCSSCCEEECCSSBCCH
T ss_pred             HHHHHHCCCCCCEEEECCCCCCCHHHHHHHHHHHHHCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCCCEEEEHHHCCH
T ss_conf             99998289998197827999989899999999976377645401201562156798875310002343300330102145


Q ss_pred             ----HHHHHHCCCCCCCEEECCCCC
Q ss_conf             ----301311044877523148999
Q 000471          660 ----KLCKDMGNLRKLHHLRNSTAN  680 (1472)
Q Consensus       660 ----~lp~~i~~L~~L~~L~l~~~~  680 (1472)
                          .+...+..-+.|++|+++++.
T Consensus        87 ~g~~~l~~aL~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          87 ELLARLLRSTLVTQSIVEFKADNQR  111 (167)
T ss_dssp             HHHHHHHHHTTTTCCCSEEECCCCS
T ss_pred             HHHHHHHHHHHHCCCCCEEECCCCC
T ss_conf             9999999999848938987788776

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.55  E-value=0.00094  Score=36.11  Aligned_cols=37  Identities=19%  Similarity=0.072  Sum_probs=26.1

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEE
Q ss_conf             994799997469880999999995570001237623899
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWT  249 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv  249 (1472)
                      .+..+|.++|++|.||||+|+.++.  +....+....++
T Consensus        17 ~~g~vI~L~G~pGSGKTTiAk~La~--~l~~~~~~~~~~   53 (195)
T d1x6va3          17 FRGCTVWLTGLSGAGKTTVSMALEE--YLVCHGIPCYTL   53 (195)
T ss_dssp             CCCEEEEEESSCHHHHHHHHHHHHH--HHHHTTCCEEEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH--HHHHCCCCCCCH
T ss_conf             9996999889999999999999999--997447973100

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.51  E-value=0.01  Score=29.52  Aligned_cols=25  Identities=28%  Similarity=0.303  Sum_probs=21.9

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9947999974698809999999955
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ....+|.++|++|.||||+|++...
T Consensus        12 ~~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          12 PNPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             9998999989999989999999997

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.48  E-value=0.014  Score=28.74  Aligned_cols=34  Identities=26%  Similarity=0.324  Sum_probs=24.5

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEE
Q ss_conf             4799997469880999999995570001237623899
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWT  249 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv  249 (1472)
                      ..+++|.|+.|.|||||.+.+..-.   ..-.+.+++
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~---~p~sG~I~~   64 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLD---KPTEGEVYI   64 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSS---CCSEEEEEE
T ss_pred             CCEEEEECCCCCCCCHHHHHCCCCC---CCCCCEEEE
T ss_conf             9799998899998216557506887---777662699

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=96.48  E-value=0.00089  Score=36.26  Aligned_cols=22  Identities=32%  Similarity=0.459  Sum_probs=20.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ++|.|.|++|+||||+|+.+..
T Consensus         3 klI~i~G~~GsGKTTva~~L~~   24 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAA   24 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             0899989999998999999999

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.47  E-value=0.0059  Score=31.06  Aligned_cols=33  Identities=15%  Similarity=0.127  Sum_probs=24.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEE
Q ss_conf             799997469880999999995570001237623899
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWT  249 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv  249 (1472)
                      .+++|.|+.|.|||||.+.++.-.   ..-...+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~---~p~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIV---KPDRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSS---CCSEEEEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHCCC---CCCCEEEEE
T ss_conf             799999799980999999997399---989628999

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.0018  Score=34.31  Aligned_cols=24  Identities=25%  Similarity=0.434  Sum_probs=21.6

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+|++|+|+.|.|||||++++...
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~   25 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPA   25 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             788999918999899999999999

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.44  E-value=0.0082  Score=30.17  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=21.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|.|+.|.|||||.+.+..-
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             989999989998299999999658

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.44  E-value=0.0012  Score=35.33  Aligned_cols=26  Identities=27%  Similarity=0.275  Sum_probs=23.0

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .++.+|.|.|++|.||||+|+.++..
T Consensus         4 ~kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           4 SKPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             89948999899999889999999999

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.43  E-value=0.0028  Score=33.07  Aligned_cols=42  Identities=24%  Similarity=0.164  Sum_probs=32.6

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCC
Q ss_conf             99479999746988099999999557000123762389993677
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      +...++.|+|++|+|||++|.+++.+  ...+...++|++....
T Consensus        24 ~~gsl~li~G~pGsGKT~l~~qia~~--~~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          24 FKDSIILATGATGTGKTLLVSRFVEN--ACANKERAILFAYEES   65 (242)
T ss_dssp             ESSCEEEEEECTTSSHHHHHHHHHHH--HHTTTCCEEEEESSSC
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHH--HHHHCCCCCEEECCCC
T ss_conf             69849999918999999999999999--9872324411212679

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.41  E-value=0.00068  Score=36.98  Aligned_cols=23  Identities=26%  Similarity=0.364  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.|.+.|++|+||||+|+.++..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             74999899999999999999999

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=96.40  E-value=0.0026  Score=33.28  Aligned_cols=24  Identities=29%  Similarity=0.326  Sum_probs=20.8

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             947999974698809999999955
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..+++.+.|-||+||||+|..++.
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             985999979986749999999999

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.39  E-value=0.0087  Score=30.00  Aligned_cols=24  Identities=25%  Similarity=0.304  Sum_probs=21.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|.|+.|.|||||.+.+..-
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl   55 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGL   55 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             989999999998299999999758

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=96.37  E-value=0.0093  Score=29.84  Aligned_cols=99  Identities=14%  Similarity=0.088  Sum_probs=51.3

Q ss_pred             HHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEE-ECCCCCHHHHHHHHHHHHCC----C
Q ss_conf             999998259989999947999974698809999999955700012376238999-36777877899999996207----9
Q 000471          197 EIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTC-VSEDFDVFRISKSILNSVAS----D  271 (1472)
Q Consensus       197 ~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~-~~~~~~~~~~~~~il~~l~~----~  271 (1472)
                      ++++.+..-     .+...++|.|..|+|||+|+.++.+... ..+-.+++.+. +.+.....   .++.+....    .
T Consensus        32 r~ID~l~Pi-----grGQr~~I~g~~g~GKT~l~~~i~~~~~-~~~~~~v~~~~~iger~~ev---~~~~~~~~~~vv~~  102 (289)
T d1xpua3          32 RVLDLASPI-----GRGQRGLIVAPPKAGKTMLLQNIAQSIA-YNHPDCVLMVLLIDERPEEV---TEMQRLVKGEVVAS  102 (289)
T ss_dssp             HHHHHHSCC-----BTTCEEEEEECSSSSHHHHHHHHHHHHH-HHCTTSEEEEEEEEECHHHH---HHHHHHCSSEEEEE
T ss_pred             EEEEECCCC-----CCCCEEEEECCCCCCHHHHHHHHHHHHH-HCCCCEEEEEEEECEEHHHH---HHHHHHCCEEEEEC
T ss_conf             356412564-----5787556867999887899999999775-15897699987611008788---76775405079960


Q ss_pred             CCCCCCCHH----HHHHHHHHHH--CCCEEEEEEECCCC
Q ss_conf             889933199----9999999660--99849999827998
Q 000471          272 QCKDKDDLN----LLQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       272 ~~~~~~~~~----~~~~~l~~~l--~~~r~LlVlDdv~~  304 (1472)
                      ...+.....    .....+.+++  +++.+|+++||+-.
T Consensus       103 t~d~~~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr  141 (289)
T d1xpua3         103 TFDEPASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITR  141 (289)
T ss_dssp             ETTSCHHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCHHH
T ss_conf             588835678999999999999999826575155176899

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.37  E-value=0.0064  Score=30.84  Aligned_cols=24  Identities=25%  Similarity=0.289  Sum_probs=21.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|.|+.|.|||||++.++.-
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl   52 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGL   52 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             989999999998099999999648

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.35  E-value=0.0016  Score=34.73  Aligned_cols=27  Identities=37%  Similarity=0.422  Sum_probs=23.8

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             999479999746988099999999557
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       210 ~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ++..++|.|.|++|.||||+|+.++..
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999728999899999989999999998

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.34  E-value=0.011  Score=29.38  Aligned_cols=24  Identities=29%  Similarity=0.322  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|.|+.|.|||||++.++.-
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHCCC
T ss_conf             979999899989888999987588

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.34  E-value=0.0031  Score=32.85  Aligned_cols=38  Identities=21%  Similarity=0.211  Sum_probs=26.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECC
Q ss_conf             7999974698809999999955700012376238999367
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSE  253 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~  253 (1472)
                      +.|+|+|-||+||||+|-.++..... ..+ .+.-++...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~-~G~-rVllID~D~   39 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHA-MGK-TIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHT-TTC-CEEEEEECT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHH-CCC-CEEEEECCC
T ss_conf             79999899857799999999999996-899-589996379

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=96.32  E-value=0.0014  Score=35.02  Aligned_cols=22  Identities=32%  Similarity=0.376  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ++|.|+|++|.||||+|+++..
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             7999989999999999999999

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.29  E-value=0.018  Score=28.07  Aligned_cols=24  Identities=25%  Similarity=0.339  Sum_probs=21.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|.|+.|.|||||.+.+..-
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             979999999998599999999678

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.28  E-value=0.013  Score=28.87  Aligned_cols=23  Identities=30%  Similarity=0.413  Sum_probs=20.9

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..+++|.|+.|.|||||.+.+..
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~g   53 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAG   53 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
T ss_conf             98999998999809999999975

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.28  E-value=0.018  Score=28.00  Aligned_cols=84  Identities=18%  Similarity=0.207  Sum_probs=45.7

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCC-CEEEEEECCCCCHHHHHHHHHHHHCCC------CCCCCCCHHH
Q ss_conf             999947999974698809999999955700012376-238999367778778999999962079------8899331999
Q 000471          209 GDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYE-IKAWTCVSEDFDVFRISKSILNSVASD------QCKDKDDLNL  281 (1472)
Q Consensus       209 ~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~-~~~wv~~~~~~~~~~~~~~il~~l~~~------~~~~~~~~~~  281 (1472)
                      +...+-+|+|.|..|.||||||..+......+.... .++.++...=+-..+-...+.+.....      ......+.+.
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~l  102 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKL  102 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCEECCCCCCHHHHH
T ss_conf             89998899837998788999999999999987277860676356777788899999852135553110047874034889


Q ss_pred             HHHHHHHHHCC
Q ss_conf             99999966099
Q 000471          282 LQEKLKKQLSG  292 (1472)
Q Consensus       282 ~~~~l~~~l~~  292 (1472)
                      +.+.+....++
T Consensus       103 l~~~l~~l~~~  113 (286)
T d1odfa_         103 LQEVLNTIFNN  113 (286)
T ss_dssp             HHHHHHHHTC-
T ss_pred             HHHHHHHHHHH
T ss_conf             99999999740

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.28  E-value=0.016  Score=28.26  Aligned_cols=24  Identities=25%  Similarity=0.350  Sum_probs=21.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|+|+.|.|||||.+.+..-
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~   51 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTL   51 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             979999999999999999999669

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.19  E-value=0.012  Score=29.11  Aligned_cols=24  Identities=17%  Similarity=0.232  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +-+|+|.|..|.||||+|+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~   25 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQL   25 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             989999899978799999999999

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.13  E-value=0.0023  Score=33.71  Aligned_cols=26  Identities=23%  Similarity=0.427  Sum_probs=22.9

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ...+++.|.|++|.||||+|+.+...
T Consensus         4 ~~~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           4 HDHHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             TTSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             98718999899998989999999998

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.12  E-value=0.0019  Score=34.18  Aligned_cols=24  Identities=21%  Similarity=0.282  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.+|.++|.+|+||||+|++++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             989999899999999999999999

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.10  E-value=0.022  Score=27.44  Aligned_cols=102  Identities=21%  Similarity=0.292  Sum_probs=58.7

Q ss_pred             HHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCC-CHHHHHHHHHHHHCCC----
Q ss_conf             99999825998999994799997469880999999995570001237623899936777-8778999999962079----
Q 000471          197 EIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF-DVFRISKSILNSVASD----  271 (1472)
Q Consensus       197 ~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~-~~~~~~~~il~~l~~~----  271 (1472)
                      +.++.+..-     .+..-++|.|..|+|||+|+.++.++. .+.+-+.++++-+++.. ...++..++.+.-...    
T Consensus        57 raID~l~pi-----gkGQr~~If~~~g~GKt~l~~~i~~~~-~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~  130 (276)
T d2jdid3          57 KVVDLLAPY-----AKGGKIGLFGGAGVGKTVLIMELINNV-AKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDA  130 (276)
T ss_dssp             HHHHHHSCE-----ETTCEEEEEECTTSSHHHHHHHHHHHH-TTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSS
T ss_pred             EEEEEECCC-----CCCCEEEEECCCCCCHHHHHHHHHHHH-HHHCCCEEEEEEECCCHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             203102563-----678877766799989899999999988-76179969999955575999999999886176545666


Q ss_pred             ---------CCCCCCCHH----HHHHHHHHHH---CCCEEEEEEECCCC
Q ss_conf             ---------889933199----9999999660---99849999827998
Q 000471          272 ---------QCKDKDDLN----LLQEKLKKQL---SGNKFLLVLDDVWN  304 (1472)
Q Consensus       272 ---------~~~~~~~~~----~~~~~l~~~l---~~~r~LlVlDdv~~  304 (1472)
                               ...+.....    .....+.+++   +++.+|+++||+..
T Consensus       131 ~~~tvvv~~~s~~~~~~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr  179 (276)
T d2jdid3         131 TSKVALVYGQMNEPPGARARVALTGLTVAEYFRDQEGQDVLLFIDNIFR  179 (276)
T ss_dssp             CCCEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHH
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHH
T ss_conf             4238999978999999999999999999999886379848999706068

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=96.10  E-value=0.0016  Score=34.74  Aligned_cols=22  Identities=41%  Similarity=0.551  Sum_probs=19.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..|.|.|++|+||||+|+.++.
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
T ss_conf             9798989999998999999999

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.07  E-value=0.0027  Score=33.19  Aligned_cols=25  Identities=32%  Similarity=0.507  Sum_probs=22.1

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..++|.|.|++|.||||+|+.+...
T Consensus         3 ~g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           3 GGNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9859999889999889999999999

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.02  E-value=0.0021  Score=33.97  Aligned_cols=23  Identities=22%  Similarity=0.379  Sum_probs=21.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      .++|.|.|+.|.||||+|+.+++
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~   25 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQS   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             85999989999998999999999

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=95.97  E-value=0.023  Score=27.32  Aligned_cols=131  Identities=15%  Similarity=0.082  Sum_probs=60.3

Q ss_pred             HHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCC-CHHCCCCCEEEEEECCCCCHHHHHHHHHHHH--
Q ss_conf             2479999999825998999994799997469880999999995570-0012376238999367778778999999962--
Q 000471          192 EKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDD-RVQRHYEIKAWTCVSEDFDVFRISKSILNSV--  268 (1472)
Q Consensus       192 ~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~-~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l--  268 (1472)
                      +....-+...+.         .+++.|.|++|.||||++..+.... +....-...+.+..........+...+....  
T Consensus       151 ~~Q~~A~~~al~---------~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~~~~~~~  221 (359)
T d1w36d1         151 NWQKVAAAVALT---------RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESLGKALRQ  221 (359)
T ss_dssp             CHHHHHHHHHHT---------BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHHTHHHHH
T ss_pred             CHHHHHHHHHHC---------CCEEEEECCCCCCCEEHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHHHHHHHH
T ss_conf             389999999970---------88599976898875216999999999987526982898437599999999888777764


Q ss_pred             -CCCCC------CCCCCHH------HHHHHHHH-HHC-CCEEEEEEECCCCCCHHHHHHHCCCCCCCCCCCEEEEECCCH
Q ss_conf             -07988------9933199------99999996-609-984999982799879740875204566899995899972894
Q 000471          269 -ASDQC------KDKDDLN------LLQEKLKK-QLS-GNKFLLVLDDVWNENYIRWSELRCPFVAGAAGSKIVVTTRNL  333 (1472)
Q Consensus       269 -~~~~~------~~~~~~~------~~~~~l~~-~l~-~~r~LlVlDdv~~~~~~~~~~l~~~~~~~~~~s~iiiTtR~~  333 (1472)
                       .....      .......      .....+.. .-. ..--++|+|.+.-.+......+...++   .++++|+.--..
T Consensus       222 ~~~~~~~~~~~~~~~~t~~~ll~~~~~~~~~~~~~~~~l~~d~lIIDEaSmv~~~l~~~ll~~~~---~~~~lILvGD~~  298 (359)
T d1w36d1         222 LPLTDEQKKRIPEDASTLHRLLGAQPGSQRLRHHAGNPLHLDVLVVDEASMIDLPMMSRLIDALP---DHARVIFLGDRD  298 (359)
T ss_dssp             SSCCSCCCCSCSCCCBTTTSCC-----------CTTSCCSCSEEEECSGGGCBHHHHHHHHHTCC---TTCEEEEEECTT
T ss_pred             CCCHHHHHHHHHHHHHHHHHHHHHHHCCHHHHHHHHCCCCCCEEEEHHHHCCCHHHHHHHHHHHC---CCCEEEEECCHH
T ss_conf             58104455420134557899876310006777754366654134653321448999999998725---999899977722


Q ss_pred             H
Q ss_conf             8
Q 000471          334 V  334 (1472)
Q Consensus       334 ~  334 (1472)
                      +
T Consensus       299 Q  299 (359)
T d1w36d1         299 Q  299 (359)
T ss_dssp             S
T ss_pred             H
T ss_conf             1

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=95.96  E-value=0.0021  Score=33.96  Aligned_cols=23  Identities=39%  Similarity=0.689  Sum_probs=21.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ++|+|.|+.|+||||+++.+...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~   24 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDN   24 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             88999899998989999999999

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.95  E-value=0.0086  Score=30.05  Aligned_cols=25  Identities=36%  Similarity=0.398  Sum_probs=21.5

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +..+++|+|+.|.|||||++.+..-
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             9989999999998499999998614

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=95.94  E-value=0.0028  Score=33.10  Aligned_cols=25  Identities=32%  Similarity=0.453  Sum_probs=21.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.-.|.|.|++|+||||+|+.++..
T Consensus         4 k~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           4 KGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             SSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             9888999828999889999999998

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.92  E-value=0.0061  Score=30.96  Aligned_cols=40  Identities=20%  Similarity=0.143  Sum_probs=27.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCC
Q ss_conf             799997469880999999995570001237623899936777
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDF  255 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~  255 (1472)
                      +.|+|+|-||+||||+|..++....  ..-..+.-++.....
T Consensus         3 r~IaisgKGGVGKTT~a~NLA~~LA--~~G~rVLlID~DpQ~   42 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNLVAALA--EMGKKVMIVGCDPKA   42 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHH--HTTCCEEEEEECSSS
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHH--HCCCCEEEEECCCCC
T ss_conf             2899989998779999999999999--789978999518999

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=95.92  E-value=0.027  Score=26.93  Aligned_cols=24  Identities=42%  Similarity=0.509  Sum_probs=21.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ...++|+|+.|.|||||++.+..-
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHC
T ss_conf             999999999999899999999735

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.92  E-value=0.012  Score=29.08  Aligned_cols=51  Identities=14%  Similarity=0.079  Sum_probs=35.3

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHC----CCCCEEEEEECCCCCHHHHH
Q ss_conf             9947999974698809999999955700012----37623899936777877899
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQR----HYEIKAWTCVSEDFDVFRIS  261 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~----~f~~~~wv~~~~~~~~~~~~  261 (1472)
                      ...+++-|+|++|.|||++|.++........    .-...+|++....++.....
T Consensus        32 ~~G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~   86 (251)
T d1szpa2          32 ETGSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRLV   86 (251)
T ss_dssp             ESSSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGGH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCHHHHHHHH
T ss_conf             6996999983899988999999999863124312689639999402307899998

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.79  E-value=0.0023  Score=33.62  Aligned_cols=22  Identities=23%  Similarity=0.513  Sum_probs=18.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ++| +.|++|+||||+|+.++..
T Consensus         3 ~Iv-liG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           3 KAV-LVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             SEE-EECSTTSSHHHHHHHHHHH
T ss_pred             CEE-EECCCCCCHHHHHHHHHHH
T ss_conf             489-9889999889999999998

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=95.76  E-value=0.006  Score=31.03  Aligned_cols=27  Identities=26%  Similarity=0.064  Sum_probs=23.3

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             999479999746988099999999557
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       210 ~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .++.+.+.++||+|+|||++|..+++.
T Consensus       151 ~~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         151 IPKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             CTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             997676999899998889999999998

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=95.75  E-value=0.032  Score=26.48  Aligned_cols=24  Identities=29%  Similarity=0.265  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|.|+.|.|||||.+.+..-
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             989999989998299999999647

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=95.74  E-value=0.0062  Score=30.95  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=20.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +++.|.|+.|+||||+++.+...
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             19999898998989999999999

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.63  E-value=0.0035  Score=32.52  Aligned_cols=24  Identities=38%  Similarity=0.563  Sum_probs=21.6

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+||+|.||+|.||+|+|+.+.++
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             988997799988989999999999

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=95.61  E-value=0.0036  Score=32.45  Aligned_cols=25  Identities=28%  Similarity=0.236  Sum_probs=21.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             7999974698809999999955700
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDR  238 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~~~  238 (1472)
                      ++++|+|..|.|||||+.++....+
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~   26 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAV   26 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             0999980999989999999999998

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.61  E-value=0.0037  Score=32.39  Aligned_cols=21  Identities=48%  Similarity=0.645  Sum_probs=19.2

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |+|+|+.|+|||||++.+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHC
T ss_conf             999989993899999999814

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.60  E-value=0.023  Score=27.36  Aligned_cols=90  Identities=20%  Similarity=0.194  Sum_probs=50.1

Q ss_pred             HHHHHHCCCCCCEEEEECCCCCCCC-----CCCCCCCCCCCCEEECCCCCCCC-----CCHHHHHCCCCCEEECCCCCCH
Q ss_conf             9999723499511998368788755-----78564787858477417864533-----4532340166559953787532
Q 000471          589 VLQRLLNHLPRLRVFSLRGCGNIFN-----LPNEIGNLKHLRCLNLSRTRIQI-----LPESINSLYNLHTILLEDCHQL  658 (1472)
Q Consensus       589 ~~~~~~~~l~~Lr~L~L~~~~~~~~-----lp~~i~~l~~Lr~L~L~~~~i~~-----lp~~i~~L~~L~~L~L~~~~~~  658 (1472)
                      .+..+....+.|+.|+|+++..+..     +-..+....+|+.|++++|.+..     +-..+.....++.+++++|...
T Consensus         8 ~l~~~~~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~   87 (166)
T d1io0a_           8 TLKRIQNNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFIS   87 (166)
T ss_dssp             HHHHHHTTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCC
T ss_pred             HHHHHHHCCCCCCEEECCCCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCHHHHHCCCCCC
T ss_conf             99999955999868876899998989999999888419825743015896117789999987752122101210254322


Q ss_pred             ----HHHHHHHCCCCCCCEEECCC
Q ss_conf             ----23013110448775231489
Q 000471          659 ----KKLCKDMGNLRKLHHLRNST  678 (1472)
Q Consensus       659 ----~~lp~~i~~L~~L~~L~l~~  678 (1472)
                          ..+...+...+.|+.+++..
T Consensus        88 ~~g~~~l~~~l~~~~~L~~l~L~l  111 (166)
T d1io0a_          88 GSGILALVEALQSNTSLIELRIDN  111 (166)
T ss_dssp             HHHHHHHHHGGGGCSSCCEEECCC
T ss_pred             CHHHHHHHHHHHHCCCCCEEEECC
T ss_conf             014788999998486524773216

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.58  E-value=0.0056  Score=31.20  Aligned_cols=26  Identities=27%  Similarity=0.296  Sum_probs=22.7

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+..+|.+.|++|.||||+|+++...
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~~   47 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEHQ   47 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             99869999899999989999999988

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.56  E-value=0.0028  Score=33.08  Aligned_cols=23  Identities=26%  Similarity=0.323  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.|.+.|++|+||||+|+.++..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
T ss_conf             98899889999889999999999

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=95.55  E-value=0.0036  Score=32.45  Aligned_cols=21  Identities=43%  Similarity=0.589  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.+.||+|+||||+|+.++..
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999899999889999999998

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=95.54  E-value=0.022  Score=27.49  Aligned_cols=90  Identities=16%  Similarity=0.113  Sum_probs=48.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCC-HHHHHHHHHHHHCCC-------CCCCCC----CHH
Q ss_conf             47999974698809999999955700012376238999367778-778999999962079-------889933----199
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFD-VFRISKSILNSVASD-------QCKDKD----DLN  280 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~-~~~~~~~il~~l~~~-------~~~~~~----~~~  280 (1472)
                      ..-++|.|..|+|||+|+......  ...+...++++-+..... ..++..++.+.-...       ...+..    -.-
T Consensus        67 GQr~~Ifg~~g~GKt~l~~~~~~~--~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~  144 (276)
T d1fx0a3          67 GQRELIIGDRQTGKTAVATDTILN--QQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAP  144 (276)
T ss_dssp             TCBCBEEESSSSSHHHHHHHHHHT--CCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHH
T ss_pred             CCEEEECCCCCCCHHHHHHHHHHH--HCCCCCEEEEEEECCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHH
T ss_conf             766760067788857999997765--404675355555221267788999851157750331001234676599999999


Q ss_pred             HHHHHHHHHH--CCCEEEEEEECCCC
Q ss_conf             9999999660--99849999827998
Q 000471          281 LLQEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       281 ~~~~~l~~~l--~~~r~LlVlDdv~~  304 (1472)
                      .....+.+++  ++++.|+++||+..
T Consensus       145 ~~a~tiAEyfrd~G~~Vlll~Dsltr  170 (276)
T d1fx0a3         145 YTGAALAEYFMYRERHTLIIYDDLSK  170 (276)
T ss_dssp             HHHHHHHHHHHHTTCEEEEEEECHHH
T ss_pred             HHHHHHHHHHHHCCCCEEEEEECCHH
T ss_conf             99998888999759964577505389

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.54  E-value=0.025  Score=27.09  Aligned_cols=51  Identities=22%  Similarity=0.186  Sum_probs=34.6

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCH----HCCCCCEEEEEECCCCCHHHH
Q ss_conf             999479999746988099999999557000----123762389993677787789
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYNDDRV----QRHYEIKAWTCVSEDFDVFRI  260 (1472)
Q Consensus       210 ~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~----~~~f~~~~wv~~~~~~~~~~~  260 (1472)
                      =+..+++.|.|++|+|||++|.++..+...    .......+|+......+...+
T Consensus        33 lp~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (254)
T d1pzna2          33 IETQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERI   87 (254)
T ss_dssp             EESSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHHHHCHHHHCCCCCEEEEEECCCHHHHHHH
T ss_conf             5588799998589898899999999986344876388962899831012589999

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.49  E-value=0.0049  Score=31.59  Aligned_cols=23  Identities=26%  Similarity=0.306  Sum_probs=20.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+|.|.|++|.||||.|+.+++.
T Consensus         2 ~iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           2 LVVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             39999799999989999999998

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.40  E-value=0.0047  Score=31.67  Aligned_cols=44  Identities=20%  Similarity=0.276  Sum_probs=29.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf             799997469880999999995570001237623899936777877899999996207
Q 000471          214 SVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~  270 (1472)
                      -+|+|-|++|+||||+|+.++.+...       .++      +.-.+++.++.....
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~lg~-------~~i------stGdl~R~~a~~~~~   47 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKDFGF-------TYL------DTGAMYRAATYMALK   47 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHHHCC-------EEE------EHHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHCC-------CEE------CHHHHHHHHHHHHHH
T ss_conf             59997899987989999999999699-------478------779999999999987

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=95.31  E-value=0.0067  Score=30.72  Aligned_cols=24  Identities=29%  Similarity=0.410  Sum_probs=20.1

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9947999974698809999999955
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      .+.++| |.|++|.||||+|+.++.
T Consensus         2 ~~~rii-l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAV-LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEE-EECCTTSSHHHHHHHHHH
T ss_pred             CCCEEE-EECCCCCCHHHHHHHHHH
T ss_conf             963899-989999988999999999

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.23  E-value=0.0042  Score=32.00  Aligned_cols=44  Identities=20%  Similarity=0.336  Sum_probs=30.5

Q ss_pred             CCEEECHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             71110224799999998259989999947999974698809999999955
Q 000471          186 AKVYGREKEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       186 ~~~vGr~~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..++|.+..+..+.-.....      +..-+.+.|++|+|||++|+.+..
T Consensus         7 ~~I~Gq~~~kral~laa~~~------~~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           7 SAIVGQEDMKLALLLTAVDP------GIGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             GGSCSCHHHHHHHHHHHHCG------GGCCEEEECCGGGCTTHHHHHHHH
T ss_pred             HHCCCCHHHHHHHHHHHHCC------CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             14069499999999997646------997089988998529999999987

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=95.15  E-value=0.015  Score=28.47  Aligned_cols=22  Identities=36%  Similarity=0.451  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +=|.++||.|+|||.||+.++.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHH
T ss_conf             6479989999889999999998

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=95.09  E-value=0.052  Score=25.09  Aligned_cols=56  Identities=14%  Similarity=0.079  Sum_probs=35.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHCC
Q ss_conf             94799997469880999999995570001237623899936777877899999996207
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVAS  270 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~~  270 (1472)
                      +..++.|.|.+|+|||+++.+++.+.-....+ .+.+++..  .+..++...++.....
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la~~~a~~~g~-~v~~~s~E--~~~~~~~~r~~~~~~~   89 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQALQWGTAMGK-KVGLAMLE--ESVEETAEDLIGLHNR   89 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHHHHHTSCC-CEEEEESS--SCHHHHHHHHHHHHTT
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHHHHHHHCCC-CEEEEEEC--CCHHHHHHHHHHHHHC
T ss_conf             98089999479997999999999726553366-34576401--1113577699998645

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.09  E-value=0.013  Score=28.85  Aligned_cols=39  Identities=21%  Similarity=0.144  Sum_probs=28.3

Q ss_pred             EEEEEE-CCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCC
Q ss_conf             799997-46988099999999557000123762389993677
Q 000471          214 SVISIN-GMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       214 ~vv~I~-G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      |+|+|+ |-||+||||+|..++...  ...-..+.+++....
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~l--a~~g~~VlliD~D~~   41 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVAL--AQLGHDVTIVDADIT   41 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHH--HHTTCCEEEEECCCS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHH--HHCCCCEEEEECCCC
T ss_conf             7999979999980999999999999--968998999959899

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=94.99  E-value=0.0074  Score=30.46  Aligned_cols=24  Identities=25%  Similarity=0.292  Sum_probs=21.6

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             947999974698809999999955
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +.++|.|.|++|.||||+|+.++.
T Consensus         7 ~~~iI~l~G~pGSGKsT~a~~La~   30 (194)
T d3adka_           7 KSKIIFVVGGPGSGKGTQCEKIVQ   30 (194)
T ss_dssp             TSCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             782899989999987999999999

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.95  E-value=0.0065  Score=30.83  Aligned_cols=22  Identities=36%  Similarity=0.602  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +.|.|+|+.|+|||||++.+..
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~   23 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFA   23 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
T ss_conf             7699989999998999999997

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=94.84  E-value=0.012  Score=29.24  Aligned_cols=24  Identities=25%  Similarity=0.340  Sum_probs=19.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .-.|.|.|++|.||||+|+.++..
T Consensus         6 ~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           6 LLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             216999889999879999999999

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=94.77  E-value=0.0069  Score=30.66  Aligned_cols=21  Identities=29%  Similarity=0.618  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHC
Q ss_conf             999974698809999999955
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      .|.|.||.|+|||||++++..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~   22 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQ   22 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
T ss_conf             199999999999999999997

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=94.76  E-value=0.048  Score=25.32  Aligned_cols=26  Identities=27%  Similarity=0.354  Sum_probs=22.6

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ....++.|.|.+|+|||++|.+++.+
T Consensus        32 ~~G~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          32 ESQSVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             ETTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHH
T ss_conf             28859999917999989999999999

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=94.66  E-value=0.016  Score=28.37  Aligned_cols=23  Identities=39%  Similarity=0.368  Sum_probs=19.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ...+...||.|+|||.||+.++.
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
T ss_conf             75324418998637899999986

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.63  E-value=0.01  Score=29.61  Aligned_cols=22  Identities=27%  Similarity=0.517  Sum_probs=20.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ++|.|+|+.|+|||||++.+..
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~   24 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRE   24 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             4999989999999999999984

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.58  E-value=0.011  Score=29.32  Aligned_cols=24  Identities=25%  Similarity=0.479  Sum_probs=21.5

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             947999974698809999999955
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +..+|+|.|..|.||||+|+.+.+
T Consensus         3 k~pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           3 KHPIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             TSCEEEEESCC---CCTHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             888999989997809999999999

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.52  E-value=0.013  Score=28.90  Aligned_cols=26  Identities=27%  Similarity=0.151  Sum_probs=22.1

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .++-+|+|.|.-|+||||+++.+.+.
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             98619998899998889999999987

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=94.52  E-value=0.0096  Score=29.75  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .|.|.|++|.||||+|+.+++.
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             9999889999989999999998

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.52  E-value=0.011  Score=29.48  Aligned_cols=21  Identities=29%  Similarity=0.476  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|.|++|.||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999889999989999999998

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.51  E-value=0.074  Score=24.16  Aligned_cols=50  Identities=14%  Similarity=0.040  Sum_probs=35.0

Q ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHCCC----CHHCCCCCEEEEEECCCCCHH
Q ss_conf             99994799997469880999999995570----001237623899936777877
Q 000471          209 GDDGFSVISINGMGGVGKTTLAQLVYNDD----RVQRHYEIKAWTCVSEDFDVF  258 (1472)
Q Consensus       209 ~~~~~~vv~I~G~gG~GKTtLa~~v~~~~----~~~~~f~~~~wv~~~~~~~~~  258 (1472)
                      +=...+++.|+|++|.|||++|.+++...    .....+..+.|+.....+...
T Consensus        33 Gip~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (258)
T d1v5wa_          33 GIESMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPD   86 (258)
T ss_dssp             SBCSSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECHHHHHHHH
T ss_conf             976897999988998878899999999997444316666248874017777899

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.51  E-value=0.014  Score=28.77  Aligned_cols=25  Identities=36%  Similarity=0.486  Sum_probs=22.1

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +++.|+|-|+-|+||||+++.+...
T Consensus         1 ~pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           1 GPRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9819999899888599999999998

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=94.50  E-value=0.047  Score=25.42  Aligned_cols=103  Identities=17%  Similarity=0.169  Sum_probs=51.1

Q ss_pred             HHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCCCCHHC-CC-----CCEEEEEECCCCC-HHHHHHHHHHHHC
Q ss_conf             999998259989999947999974698809999999955700012-37-----6238999367778-7789999999620
Q 000471          197 EIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYNDDRVQR-HY-----EIKAWTCVSEDFD-VFRISKSILNSVA  269 (1472)
Q Consensus       197 ~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~-~f-----~~~~wv~~~~~~~-~~~~~~~il~~l~  269 (1472)
                      +.++.|..-     .+..-++|.|.+|+|||+++..+........ .-     ..++++-+++... ..++...+...-.
T Consensus        57 raID~l~pi-----g~GQr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~  131 (285)
T d2jdia3          57 KAVDSLVPI-----GRGQRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADA  131 (285)
T ss_dssp             HHHHHHSCC-----BTTCBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTC
T ss_pred             EEEECCCCC-----CCCCEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHCCCCC
T ss_conf             577434676-----678778765688888589999999757764156544563289996307638789999998614561


Q ss_pred             CC-------CCCCCCCHHHH----HHHHHHHH--CCCEEEEEEECCCC
Q ss_conf             79-------88993319999----99999660--99849999827998
Q 000471          270 SD-------QCKDKDDLNLL----QEKLKKQL--SGNKFLLVLDDVWN  304 (1472)
Q Consensus       270 ~~-------~~~~~~~~~~~----~~~l~~~l--~~~r~LlVlDdv~~  304 (1472)
                      ..       ...+.......    ...+.+++  +++.+|+++||+..
T Consensus       132 ~~~tvvv~~ts~~~~~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr  179 (285)
T d2jdia3         132 MKYTIVVSATASDAAPLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSK  179 (285)
T ss_dssp             GGGEEEEEECTTSCHHHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHH
T ss_conf             200499997899999999999999999999999769967999717289

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.49  E-value=0.0095  Score=29.78  Aligned_cols=23  Identities=17%  Similarity=0.366  Sum_probs=20.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      .+.|.|+||.|+|||||++++..
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~   25 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLIT   25 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHH
T ss_conf             77199999899999999999997

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=94.47  E-value=0.012  Score=29.09  Aligned_cols=23  Identities=39%  Similarity=0.502  Sum_probs=19.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +-+|+|+|+.|.||||+|..+..
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             98999989887789999999998

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.34  E-value=0.012  Score=29.10  Aligned_cols=21  Identities=29%  Similarity=0.311  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|.|++|.||||+|+.++..
T Consensus         3 I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999889999979999999999

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=94.34  E-value=0.014  Score=28.63  Aligned_cols=22  Identities=32%  Similarity=0.385  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ||+|.|+.|.|||||..++.++
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             8999918998399999999998

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.33  E-value=0.039  Score=25.92  Aligned_cols=38  Identities=26%  Similarity=0.113  Sum_probs=27.1

Q ss_pred             CEEEEEE-CCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEEC
Q ss_conf             4799997-469880999999995570001237623899936
Q 000471          213 FSVISIN-GMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVS  252 (1472)
Q Consensus       213 ~~vv~I~-G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~  252 (1472)
                      .++|+|+ +-||+||||+|..++....  ..-..++.++..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la--~~g~~VlliD~D   40 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALG--DRGRKVLAVDGD   40 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHH--HTTCCEEEEECC
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHH--HCCCCEEEEECC
T ss_conf             829999899998819999999999999--689989999498

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.24  E-value=0.084  Score=23.79  Aligned_cols=25  Identities=20%  Similarity=0.292  Sum_probs=21.5

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             4799997469880999999995570
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      ...|+|.|+-|+||||+++.+.+..
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L   27 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEAL   27 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             0599998998889999999999999

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=94.19  E-value=0.014  Score=28.76  Aligned_cols=21  Identities=33%  Similarity=0.512  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|.|++|.||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999889999879999999998

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.15  E-value=0.016  Score=28.27  Aligned_cols=23  Identities=22%  Similarity=0.362  Sum_probs=20.5

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..++.|+||.|+|||||.+.+..
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~   24 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLK   24 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             80999999999999999999986

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.04  E-value=0.012  Score=29.17  Aligned_cols=24  Identities=29%  Similarity=0.374  Sum_probs=21.5

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+.|+|-|+-|+||||+|+.+...
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             988999878887799999999999

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.00  E-value=0.094  Score=23.49  Aligned_cols=25  Identities=36%  Similarity=0.456  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             4799997469880999999995570
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      .+.|+|-|+.|+||||+++.+....
T Consensus         2 gkfIviEG~dGsGKsT~~~~L~~~L   26 (210)
T d4tmka_           2 SKYIVIEGLEGAGKTTARNVVVETL   26 (210)
T ss_dssp             CCEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             8789998998887999999999999

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.72  E-value=0.019  Score=27.88  Aligned_cols=23  Identities=26%  Similarity=0.353  Sum_probs=18.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+++ |.|++|.||||+|+.++..
T Consensus         3 mrIv-l~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           3 IRMV-LIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             EEEE-EECCCCCCHHHHHHHHHHH
T ss_conf             6999-9899999989999999999

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=93.68  E-value=0.11  Score=23.13  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=19.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+..|+|.+|+||||+|.+++..
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHH
T ss_conf             58999928999899999999999

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.62  E-value=0.026  Score=26.99  Aligned_cols=25  Identities=32%  Similarity=0.526  Sum_probs=21.7

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +..+++|+|+.|.|||||++.+..-
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999999989998299999999579

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=93.61  E-value=0.031  Score=26.53  Aligned_cols=24  Identities=33%  Similarity=0.448  Sum_probs=21.3

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             947999974698809999999955
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +...++|+|+.|.|||||++.+..
T Consensus        27 ~Ge~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          27 PNSIIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHH
T ss_conf             999999999999979999999999

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.54  E-value=0.11  Score=22.98  Aligned_cols=25  Identities=32%  Similarity=0.522  Sum_probs=21.9

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.+.|+|-|+-|+||||+++.+...
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~~   26 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYKK   26 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             7689999899888699999999999

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.52  E-value=0.024  Score=27.22  Aligned_cols=26  Identities=19%  Similarity=0.156  Sum_probs=22.2

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ....++.|.|++|+|||++|.+++.+
T Consensus        21 ~~G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          21 ETGSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             ETTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHH
T ss_conf             59979999958999999999999999

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.47  E-value=0.029  Score=26.72  Aligned_cols=23  Identities=39%  Similarity=0.443  Sum_probs=21.0

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..+++|+|+.|.|||||++.+..
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~G   50 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINF   50 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
T ss_conf             97999998999829999999974

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.42  E-value=0.028  Score=26.80  Aligned_cols=23  Identities=30%  Similarity=0.512  Sum_probs=20.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..+++|+|+.|.|||||++.+..
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~g   63 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITR   63 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTT
T ss_pred             CCEEEEECCCCCHHHHHHHHHHC
T ss_conf             99999999999859999999862

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.37  E-value=0.022  Score=27.43  Aligned_cols=21  Identities=33%  Similarity=0.384  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|.|++|.||||.|+.++..
T Consensus         3 I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999879999989999999998

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=93.32  E-value=0.12  Score=22.75  Aligned_cols=14  Identities=21%  Similarity=0.351  Sum_probs=5.2

Q ss_pred             CCCCCCEEEEECCC
Q ss_conf             34995119983687
Q 000471          595 NHLPRLRVFSLRGC  608 (1472)
Q Consensus       595 ~~l~~Lr~L~L~~~  608 (1472)
                      ...++|+.|++++|
T Consensus        43 ~~n~~L~~L~Ls~n   56 (166)
T d1io0a_          43 KTNTYVKKFSIVGT   56 (166)
T ss_dssp             TTCCSCCEEECTTS
T ss_pred             HCCCCCCEEECCCC
T ss_conf             41982574301589

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.26  E-value=0.024  Score=27.27  Aligned_cols=24  Identities=33%  Similarity=0.505  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|+|+.|.|||||.+.++.-
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             989999999997199999999662

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=93.10  E-value=0.032  Score=26.40  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=18.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHH
Q ss_conf             799997469880999999995
Q 000471          214 SVISINGMGGVGKTTLAQLVY  234 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~  234 (1472)
                      -+|+|+|+.|.||||+|+.+.
T Consensus         4 ~iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHH
T ss_conf             799978988688999999999

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=92.98  E-value=0.044  Score=25.56  Aligned_cols=27  Identities=26%  Similarity=0.541  Sum_probs=22.5

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             999479999746988099999999557
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       210 ~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+..+.|+|+|.+|+|||||...+.+.
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHCCC
T ss_conf             889989999899998799999985298

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=92.97  E-value=0.036  Score=26.13  Aligned_cols=22  Identities=36%  Similarity=0.646  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .|+|.|+-|+||||+++.+...
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~   23 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGA   23 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             8999899878999999999999

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.70  E-value=0.04  Score=25.81  Aligned_cols=22  Identities=36%  Similarity=0.566  Sum_probs=19.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      -+|+|+|..|.||||+|+.+-.
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             8999888887889999999998

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=92.25  E-value=0.056  Score=24.88  Aligned_cols=43  Identities=16%  Similarity=0.153  Sum_probs=27.8

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCC
Q ss_conf             99479999746988099999999557000123762389993677
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSED  254 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~  254 (1472)
                      +...++.|.|.+|+|||++|.+++..... ..-..++|++....
T Consensus        24 ~~G~~~~I~G~~G~GKT~la~~~~~~~~~-~~~~~~~~~s~e~~   66 (242)
T d1tf7a1          24 PIGRSTLVSGTSGTGKTLFSIQFLYNGII-EFDEPGVFVTFEET   66 (242)
T ss_dssp             ETTSEEEEEESTTSSHHHHHHHHHHHHHH-HHCCCEEEEESSSC
T ss_pred             CCCEEEEEEECCCCCHHHHHHHHHHHHHH-HCCCCCCCCCCCCC
T ss_conf             69839999947999999999999999998-56887420126679

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.19  E-value=0.053  Score=25.06  Aligned_cols=22  Identities=27%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ++|+|+|..|.||||+|+.+.+
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             8999979999889999999998

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=92.14  E-value=0.11  Score=22.96  Aligned_cols=26  Identities=23%  Similarity=0.436  Sum_probs=21.8

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             94799997469880999999995570
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      .+-.|.|-|+-|+||||+++.+.+..
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~l   30 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASAA   30 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSGG
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             65899998886678999999999986

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.04  E-value=0.092  Score=23.54  Aligned_cols=35  Identities=29%  Similarity=0.481  Sum_probs=26.7

Q ss_pred             HHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             47999999982599899999479999746988099999999557
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .-++.+.++|..         +...+.|..|+|||||...+..+
T Consensus        84 ~g~~~L~~~l~~---------kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          84 MGIEELKEYLKG---------KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             TTHHHHHHHHSS---------SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             HHHHHHHHHHCC---------CEEEEECCCCCCHHHHHHHHCCH
T ss_conf             557669999569---------80899788987788887730535

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=91.93  E-value=0.059  Score=24.79  Aligned_cols=24  Identities=33%  Similarity=0.335  Sum_probs=21.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+++|.|+.|.|||||++.+..-
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             979999999998499999999779

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.88  E-value=0.06  Score=24.71  Aligned_cols=22  Identities=32%  Similarity=0.339  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999991989999999619

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.84  E-value=0.053  Score=25.07  Aligned_cols=21  Identities=33%  Similarity=0.359  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|+|.+|+|||+|+.++.++
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999993999999999629

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.78  E-value=0.056  Score=24.90  Aligned_cols=21  Identities=29%  Similarity=0.507  Sum_probs=18.3

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|.+|+|||||+..+.+.
T Consensus         5 v~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998995989999999829

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.64  E-value=0.057  Score=24.84  Aligned_cols=22  Identities=32%  Similarity=0.303  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|+.++.++
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999994989999999729

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.62  E-value=0.069  Score=24.34  Aligned_cols=21  Identities=33%  Similarity=0.631  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|+|.+|+|||||...+..+
T Consensus         5 i~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998997989999999709

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=91.62  E-value=0.1  Score=23.30  Aligned_cols=27  Identities=30%  Similarity=0.300  Sum_probs=22.8

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCC
Q ss_conf             947999974698809999999955700
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDR  238 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~~~  238 (1472)
                      +..+|.+.|.=|.||||+++.+++...
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             982999966877658899999876422

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.51  E-value=0.06  Score=24.71  Aligned_cols=22  Identities=32%  Similarity=0.312  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||+|+.++.+.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999992989999999739

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=91.49  E-value=0.013  Score=28.95  Aligned_cols=22  Identities=23%  Similarity=0.345  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|+++|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999899999899999999688

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=91.48  E-value=0.064  Score=24.55  Aligned_cols=21  Identities=29%  Similarity=0.346  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|+|.+|+|||||...+..+
T Consensus         3 ivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           3 ILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999998989999999659

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.45  E-value=0.056  Score=24.89  Aligned_cols=25  Identities=36%  Similarity=0.558  Sum_probs=22.0

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.+|..|.|.-|.|||||.+++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHC
T ss_conf             9788998648889999999999856

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=91.32  E-value=0.065  Score=24.50  Aligned_cols=22  Identities=36%  Similarity=0.419  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|+|+|.+|+|||||...+..+
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998999999999679

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=91.30  E-value=0.061  Score=24.65  Aligned_cols=23  Identities=22%  Similarity=0.258  Sum_probs=19.9

Q ss_pred             EEEEEECCC-CCCHHHHHHHHHCC
Q ss_conf             799997469-88099999999557
Q 000471          214 SVISINGMG-GVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~g-G~GKTtLa~~v~~~  236 (1472)
                      +.+.|.|-| |+||||++-.++..
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~a   25 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQA   25 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             519999899994299999999999

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.25  E-value=0.07  Score=24.31  Aligned_cols=22  Identities=32%  Similarity=0.505  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCCC
Q ss_conf             9997469880999999995570
Q 000471          216 ISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      |.++|.+|+|||+|...+.++.
T Consensus         5 i~lvG~~~vGKTsli~r~~~~~   26 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTKR   26 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHCC
T ss_conf             9999989978999999997398

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.15  E-value=0.069  Score=24.33  Aligned_cols=22  Identities=36%  Similarity=0.356  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||||...+..+
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999991989999999739

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=91.14  E-value=0.098  Score=23.36  Aligned_cols=25  Identities=28%  Similarity=0.278  Sum_probs=21.6

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+.|+|+|..|+|||||...+...
T Consensus         4 ~~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           4 YSGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             4769999999999999999999688

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.11  E-value=0.074  Score=24.16  Aligned_cols=23  Identities=22%  Similarity=0.257  Sum_probs=20.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +-|.|+|.+|+|||||..++...
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
T ss_conf             98999999998989999999809

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.09  E-value=0.076  Score=24.06  Aligned_cols=21  Identities=33%  Similarity=0.498  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|..|+|||+|++.+...
T Consensus         4 i~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999898993999999998188

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=91.09  E-value=0.077  Score=24.04  Aligned_cols=22  Identities=23%  Similarity=0.392  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||||...+...
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHCCC
T ss_conf             9999999998999999998089

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.08  E-value=0.076  Score=24.06  Aligned_cols=21  Identities=29%  Similarity=0.479  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|+|.+|+|||+|..++.++
T Consensus         7 i~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998994999999999739

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=91.06  E-value=0.096  Score=23.44  Aligned_cols=25  Identities=28%  Similarity=0.446  Sum_probs=20.5

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +..-|.++|.+|+|||||..++...
T Consensus        12 k~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_          12 KTGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             7778999999998989999999678

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=91.02  E-value=0.06  Score=24.71  Aligned_cols=23  Identities=35%  Similarity=0.502  Sum_probs=20.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ...++|+|+.|.|||||++.+..
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
T ss_conf             98999988999809999999971

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.00  E-value=0.073  Score=24.17  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||||...+...
T Consensus         8 KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           8 KLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999990989999999619

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.98  E-value=0.079  Score=23.97  Aligned_cols=22  Identities=45%  Similarity=0.561  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||||...+.++
T Consensus         4 Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           4 KVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999996989999999709

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.98  E-value=0.074  Score=24.13  Aligned_cols=22  Identities=36%  Similarity=0.462  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|.+.+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999991989999999729

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.90  E-value=0.081  Score=23.88  Aligned_cols=22  Identities=23%  Similarity=0.332  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999994989999999859

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.89  E-value=0.08  Score=23.94  Aligned_cols=23  Identities=39%  Similarity=0.488  Sum_probs=20.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.|.|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
T ss_conf             89999999998899999999679

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.88  E-value=0.076  Score=24.08  Aligned_cols=22  Identities=32%  Similarity=0.536  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||+|..++..+
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999998993999999999719

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.83  E-value=0.094  Score=23.50  Aligned_cols=22  Identities=32%  Similarity=0.395  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .|+|.|..|+|||||..++...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999999899999999677

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.79  E-value=0.078  Score=24.02  Aligned_cols=22  Identities=32%  Similarity=0.431  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|+.++...
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999993989999999829

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=90.79  E-value=0.13  Score=22.68  Aligned_cols=25  Identities=28%  Similarity=0.328  Sum_probs=20.4

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9479999746988099999999557
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +.--|.++|.+|+|||||..++...
T Consensus        15 ~~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_          15 QEVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             SCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             CEEEEEEECCCCCCHHHHHHHHHCC
T ss_conf             8779999999998999999999648

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.72  E-value=0.079  Score=23.97  Aligned_cols=21  Identities=33%  Similarity=0.401  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.|+|.+|+|||+|+.++.++
T Consensus         3 v~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998990989999999849

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.72  E-value=0.1  Score=23.32  Aligned_cols=24  Identities=29%  Similarity=0.243  Sum_probs=19.8

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .--|.|+|.+|+|||+|..++..+
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             699999999997999999999749

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.71  E-value=0.092  Score=23.54  Aligned_cols=22  Identities=32%  Similarity=0.392  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|+.++...
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999992999999999719

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.66  E-value=0.077  Score=24.03  Aligned_cols=22  Identities=23%  Similarity=0.350  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||+|+.++..+
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999990999999999709

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.65  E-value=0.12  Score=22.74  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=19.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .--|.|+|.+|+|||+|...+.+.
T Consensus         6 ~~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           6 THKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             279999997996989999999739

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.62  E-value=0.095  Score=23.45  Aligned_cols=24  Identities=29%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..-|.|+|..|+|||+|...+.+.
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             338999998992989999999719

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.34  E-value=0.093  Score=23.51  Aligned_cols=21  Identities=33%  Similarity=0.586  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|..|+|||+|..++...
T Consensus         6 ivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999998998999999999709

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.31  E-value=0.084  Score=23.80  Aligned_cols=22  Identities=36%  Similarity=0.436  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||||..++...
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999996789999999868

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.26  E-value=0.087  Score=23.69  Aligned_cols=22  Identities=36%  Similarity=0.433  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|..++.+.
T Consensus         4 KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           4 KLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999998993889999999719

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.26  E-value=0.093  Score=23.52  Aligned_cols=22  Identities=27%  Similarity=0.421  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|..|+|||||+..+.++
T Consensus         6 Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           6 KVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999990989999999829

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.21  E-value=0.092  Score=23.53  Aligned_cols=22  Identities=32%  Similarity=0.516  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|...+..+
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             8999999997999999999739

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=90.20  E-value=0.076  Score=24.06  Aligned_cols=23  Identities=26%  Similarity=0.387  Sum_probs=20.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..+++|.|+.|.|||||.+.+..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
T ss_conf             98999998999809999999948

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.13  E-value=0.097  Score=23.41  Aligned_cols=21  Identities=24%  Similarity=0.363  Sum_probs=17.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHC
Q ss_conf             999974698809999999955
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      -|.++|-+|+|||+|.+++..
T Consensus         4 KivllG~~~vGKTsl~~r~~~   24 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKI   24 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
T ss_conf             999999999888999998840

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.10  E-value=0.095  Score=23.47  Aligned_cols=22  Identities=41%  Similarity=0.424  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||+|..++.++
T Consensus        11 Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1          11 KCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999998999999999649

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.04  E-value=0.099  Score=23.34  Aligned_cols=20  Identities=30%  Similarity=0.418  Sum_probs=17.2

Q ss_pred             EEEEECCCCCCHHHHHHHHH
Q ss_conf             99997469880999999995
Q 000471          215 VISINGMGGVGKTTLAQLVY  234 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~  234 (1472)
                      -|.+.|.+|+|||+|..++.
T Consensus         4 KivllG~~~vGKTsll~r~~   23 (200)
T d1zcba2           4 KILLLGAGESGKSTFLKQMR   23 (200)
T ss_dssp             EEEEECSTTSSHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             99999899999899999884

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.03  E-value=0.11  Score=23.12  Aligned_cols=22  Identities=18%  Similarity=0.348  Sum_probs=18.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|..|+|||+|..++...
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999991989999999729

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.00  E-value=0.11  Score=23.07  Aligned_cols=22  Identities=36%  Similarity=0.498  Sum_probs=18.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||+|+..+...
T Consensus         5 Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           5 RVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999998992999999999728

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=90.00  E-value=0.091  Score=23.59  Aligned_cols=26  Identities=23%  Similarity=0.189  Sum_probs=22.1

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .+.|-|+|+|.+|.|||||+.++...
T Consensus         4 ~~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           4 KRLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GGEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HHCEEEEEEECCCCCHHHHHHHHHHH
T ss_conf             02029999958989989999999996

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.96  E-value=0.098  Score=23.36  Aligned_cols=21  Identities=33%  Similarity=0.670  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|.+|+|||+|..++.++
T Consensus         6 i~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           6 LVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999997998999999999809

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=89.85  E-value=0.14  Score=22.46  Aligned_cols=24  Identities=33%  Similarity=0.445  Sum_probs=21.3

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ...|+|.|..|+|||||..++.+.
T Consensus         5 ~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           5 CGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             619999979999899999999589

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.77  E-value=0.13  Score=22.65  Aligned_cols=21  Identities=43%  Similarity=0.556  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|.+|+|||+|..++.+.
T Consensus        10 i~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998990889999999719

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=89.67  E-value=0.11  Score=23.14  Aligned_cols=24  Identities=38%  Similarity=0.466  Sum_probs=20.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ...|+|-|.-|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             429999898677899999999998

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=89.61  E-value=0.12  Score=22.87  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=19.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      --|.|+|.+|+|||+|..++..+
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           5 HKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             69999998995889999999729

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=89.58  E-value=0.18  Score=21.69  Aligned_cols=35  Identities=23%  Similarity=0.254  Sum_probs=24.6

Q ss_pred             HHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             999999982599899999479999746988099999999557
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ...+..++..      ... -|.|+|.+|+|||||..++...
T Consensus         4 ~~~~~~~~~~------k~~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           4 FTRIWRLFNH------QEH-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHHHTT------SCE-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHHHCC------CEE-EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999977289------857-9999999998989999999668

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.58  E-value=0.11  Score=23.02  Aligned_cols=21  Identities=33%  Similarity=0.461  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|..|+|||+|+..+.+.
T Consensus         5 ivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           5 IVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999995989999999729

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.49  E-value=0.11  Score=22.95  Aligned_cols=21  Identities=33%  Similarity=0.370  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|.+|+|||+|..++...
T Consensus         6 vvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           6 CVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999996999999999719

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=89.37  E-value=0.3  Score=20.28  Aligned_cols=37  Identities=16%  Similarity=0.130  Sum_probs=27.1

Q ss_pred             HHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             99999998259989999947999974698809999999955
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ...+..+|..    ..++...+.++|+|+.|||+++..+.+
T Consensus        90 ~~~l~~~L~~----~~~k~n~~~l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_          90 ASVFLGWATK----KFGKRNTIWLFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             HHHHHHHHTT----CSTTCCEEEEECSTTSSHHHHHHHHHH
T ss_pred             HHHHHHHHCC----CCCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             9999999759----997617999985898877899999999

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.33  E-value=0.13  Score=22.59  Aligned_cols=24  Identities=29%  Similarity=0.607  Sum_probs=19.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             4799997469880999999995570
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      .+ |.++|..|+|||+|...+.++.
T Consensus         5 ~K-i~lvG~~~vGKTsll~~~~~~~   28 (169)
T d1x1ra1           5 YK-LVVVGDGGVGKSALTIQFFQKI   28 (169)
T ss_dssp             EE-EEEECCTTSSHHHHHHHHHHSS
T ss_pred             EE-EEEECCCCCCHHHHHHHHHHCC
T ss_conf             79-9999989959899999997098

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=89.25  E-value=0.088  Score=23.68  Aligned_cols=21  Identities=19%  Similarity=0.371  Sum_probs=18.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |+|+|.+|+|||||...+...
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999899999899999999689

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.16  E-value=0.12  Score=22.83  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||||+..+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999991989999999719

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.01  E-value=0.13  Score=22.61  Aligned_cols=22  Identities=32%  Similarity=0.526  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||||...+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999997999999999849

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=88.93  E-value=0.28  Score=20.54  Aligned_cols=20  Identities=20%  Similarity=0.182  Sum_probs=14.8

Q ss_pred             EEEEECCCCCCHHHHH-HHHH
Q ss_conf             9999746988099999-9995
Q 000471          215 VISINGMGGVGKTTLA-QLVY  234 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa-~~v~  234 (1472)
                      .+.|.|.+|.||||.+ ..+.
T Consensus        16 ~~lI~g~aGTGKTt~l~~rv~   36 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVITNKIA   36 (306)
T ss_dssp             EEEECCCTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCHHHHHHHHHH
T ss_conf             989996288438999999999

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=88.90  E-value=0.14  Score=22.47  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=18.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.+.|.+|+|||||..++...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998989999999719

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=88.85  E-value=0.14  Score=22.44  Aligned_cols=22  Identities=23%  Similarity=0.344  Sum_probs=18.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      .-|.+.|.+|+|||||.+++..
T Consensus         7 ~KilllG~~~vGKTsll~~~~~   28 (221)
T d1azta2           7 HRLLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
T ss_conf             7799998999988999998950

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=88.83  E-value=0.15  Score=22.18  Aligned_cols=25  Identities=32%  Similarity=0.359  Sum_probs=20.9

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             4799997469880999999995570
Q 000471          213 FSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      .-.|+|-|.-|+||||+++.+.+..
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHH
T ss_conf             1699998887788999999999987

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=88.82  E-value=0.14  Score=22.37  Aligned_cols=22  Identities=32%  Similarity=0.394  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999998899999999689

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.72  E-value=0.14  Score=22.36  Aligned_cols=23  Identities=17%  Similarity=0.248  Sum_probs=19.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      --|.+.|.+|+|||+|..++.+.
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             79999998997899999999719

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=88.66  E-value=0.16  Score=21.98  Aligned_cols=23  Identities=30%  Similarity=0.541  Sum_probs=20.2

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      .|-|+|.|..|.|||||+.++..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH
T ss_conf             50999994889809999999999

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=88.45  E-value=0.33  Score=20.05  Aligned_cols=18  Identities=28%  Similarity=0.272  Sum_probs=14.1

Q ss_pred             EEEEECCCCCCHHHHHHH
Q ss_conf             999974698809999999
Q 000471          215 VISINGMGGVGKTTLAQL  232 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~  232 (1472)
                      .+.|.|.+|.||||.+-+
T Consensus        26 ~~lV~g~aGSGKTt~l~~   43 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTH   43 (318)
T ss_dssp             CEEEEECTTSCHHHHHHH
T ss_pred             CEEEEECCCCCHHHHHHH
T ss_conf             989995298668999999

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=88.43  E-value=0.11  Score=23.03  Aligned_cols=21  Identities=33%  Similarity=0.518  Sum_probs=18.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHC
Q ss_conf             999974698809999999955
Q 000471          215 VISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      -|+|+|.+++|||||...+..
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEE
T ss_pred             EEEEECCCCCCHHHHHHHHHC
T ss_conf             699989999879999999968

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=88.37  E-value=0.18  Score=21.72  Aligned_cols=23  Identities=35%  Similarity=0.465  Sum_probs=19.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      --|+|.|..|+|||||..++...
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
T ss_conf             88999999999999999999778

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=88.36  E-value=0.16  Score=22.12  Aligned_cols=22  Identities=36%  Similarity=0.558  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.++|.+|+|||||...+...
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999999999999999589

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=88.30  E-value=0.12  Score=22.92  Aligned_cols=26  Identities=23%  Similarity=0.295  Sum_probs=20.7

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCCC
Q ss_conf             994799997469880999999995570
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYNDD  237 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~~  237 (1472)
                      ...+ |.++|.+|+|||||..++.+..
T Consensus        11 k~~k-IvlvG~~~vGKTSli~rl~~~~   36 (173)
T d1e0sa_          11 KEMR-ILMLGLDAAGKTTILYKLKLGQ   36 (173)
T ss_dssp             CCEE-EEEEEETTSSHHHHHHHTTCCC
T ss_pred             CEEE-EEEECCCCCCHHHHHHHHHCCC
T ss_conf             7479-9999999987899999984488

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=88.25  E-value=0.15  Score=22.21  Aligned_cols=22  Identities=23%  Similarity=0.270  Sum_probs=18.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.+.|.+|+|||+|..++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999999889999999679

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=88.22  E-value=0.087  Score=23.70  Aligned_cols=21  Identities=33%  Similarity=0.540  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHCC
Q ss_conf             999746988099999999557
Q 000471          216 ISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       216 v~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      |.++|.+|+|||+|..++.+.
T Consensus         6 i~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC--
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999990889999999849

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=87.71  E-value=0.2  Score=21.48  Aligned_cols=24  Identities=33%  Similarity=0.293  Sum_probs=19.4

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             479999746988099999999557
Q 000471          213 FSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .--|.++|.+|+|||||..++...
T Consensus        17 ~~KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_          17 ELRILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             CEEEEEEEETTSSHHHHHHHTCCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHCC
T ss_conf             689999999999889999887338

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=87.69  E-value=0.24  Score=20.92  Aligned_cols=23  Identities=30%  Similarity=0.265  Sum_probs=19.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      .+-|.|.|..|+||||+|..+..
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~   36 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQ   36 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEEECCCCCHHHHHHHHHH
T ss_conf             99999980899998999999998

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=87.43  E-value=0.28  Score=20.54  Aligned_cols=23  Identities=26%  Similarity=0.309  Sum_probs=19.7

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..-|.|.|+.|+||||+|..+..
T Consensus        15 g~gvli~G~sG~GKS~lal~l~~   37 (177)
T d1knxa2          15 GVGVLLTGRSGIGKSECALDLIN   37 (177)
T ss_dssp             TEEEEEEESSSSSHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             99999981899998999999998

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=87.33  E-value=0.43  Score=19.33  Aligned_cols=26  Identities=23%  Similarity=0.328  Sum_probs=23.3

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      .++.||+|+|+-+.|||+|+..++..
T Consensus        30 ~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          30 QPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHCCC
T ss_conf             98799998899999799999998099

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=86.89  E-value=0.22  Score=21.19  Aligned_cols=22  Identities=27%  Similarity=0.385  Sum_probs=19.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +-+.|.|+.|.||||+.+.+..
T Consensus       167 ~nili~G~tgSGKTT~l~al~~  188 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIME  188 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGG
T ss_pred             CCEEEEEECCCCCHHHHHHHHH
T ss_conf             8889994035662578999865

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=86.83  E-value=0.46  Score=19.15  Aligned_cols=40  Identities=25%  Similarity=0.374  Sum_probs=27.8

Q ss_pred             HHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             47999999982599899999479999746988099999999557
Q 000471          193 KEKEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       193 ~~~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      ..+.++...+....    ...--|.++|..|+|||||...+...
T Consensus        16 ~~l~e~~~~l~~~~----~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          16 TKLLELLGNLKQED----VNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHTT----CCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHCC----CCCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             99999999986457----78748999899998699999998589

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=86.81  E-value=0.37  Score=19.74  Aligned_cols=36  Identities=14%  Similarity=0.185  Sum_probs=27.4

Q ss_pred             HHHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             99999998259989999947999974698809999999955
Q 000471          195 KEEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       195 ~~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +..+..+|.     +.++...+.++|+++.|||.+|..+.+
T Consensus        40 l~~l~~~l~-----~~PKkn~i~~~GP~~TGKS~f~~sl~~   75 (205)
T d1tuea_          40 LGALKSFLK-----GTPKKNCLVFCGPANTGKSYFGMSFIH   75 (205)
T ss_dssp             HHHHHHHHH-----TCTTCSEEEEESCGGGCHHHHHHHHHH
T ss_pred             HHHHHHHHC-----CCCCCEEEEEECCCCCCHHHHHHHHHH
T ss_conf             999999973-----898731899988998568999999999

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=86.68  E-value=0.17  Score=21.94  Aligned_cols=26  Identities=19%  Similarity=0.256  Sum_probs=21.4

Q ss_pred             CCCEEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             99479999746988099999999557
Q 000471          211 DGFSVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       211 ~~~~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +....|+|+|.+++|||||..++...
T Consensus        14 ~~~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          14 DTGIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             66978999889999899999998589

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.33  E-value=0.13  Score=22.66  Aligned_cols=22  Identities=32%  Similarity=0.371  Sum_probs=18.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|.|+|.+|+|||||...+..+
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999994999999999709

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=85.18  E-value=0.37  Score=19.75  Aligned_cols=23  Identities=26%  Similarity=0.284  Sum_probs=19.5

Q ss_pred             CEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             47999974698809999999955
Q 000471          213 FSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       213 ~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ..-|.|.|..|+||||+|.....
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~   37 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIK   37 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEEECCCCCHHHHHHHHHH
T ss_conf             99999980899999999999998

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=85.07  E-value=0.43  Score=19.34  Aligned_cols=35  Identities=17%  Similarity=0.203  Sum_probs=26.1

Q ss_pred             HHHHHHHHCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHC
Q ss_conf             9999998259989999947999974698809999999955
Q 000471          196 EEIIELLLNDDLRGDDGFSVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       196 ~~l~~~L~~~~~~~~~~~~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      +.+.+++..     ....|-|+|.|..|.|||||+..+..
T Consensus         5 ~~~~~lm~~-----~~~IRNI~iiGhvd~GKTTL~d~Ll~   39 (341)
T d1n0ua2           5 DQMRSLMDK-----VTNVRNMSVIAHVDHGKSTLTDSLVQ   39 (341)
T ss_dssp             HHHHHHHHC-----GGGEEEEEEECCGGGTHHHHHHHHHH
T ss_pred             HHHHHHHCC-----CCCCCEEEEEECCCCCHHHHHHHHHH
T ss_conf             999998437-----31674899996888869999999999

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=84.39  E-value=0.39  Score=19.58  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      ++|+|.|..+.|||||+..+..
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~   27 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRG   27 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHH
T ss_conf             8799996998549999999982

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=81.74  E-value=0.76  Score=17.76  Aligned_cols=111  Identities=11%  Similarity=0.036  Sum_probs=56.2

Q ss_pred             CCEEEEEECCCCCCHHHHHHHHHCCCCHH-------------CCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf             94799997469880999999995570001-------------23762389993677787789999999620798899331
Q 000471          212 GFSVISINGMGGVGKTTLAQLVYNDDRVQ-------------RHYEIKAWTCVSEDFDVFRISKSILNSVASDQCKDKDD  278 (1472)
Q Consensus       212 ~~~vv~I~G~gG~GKTtLa~~v~~~~~~~-------------~~f~~~~wv~~~~~~~~~~~~~~il~~l~~~~~~~~~~  278 (1472)
                      ..+++.|+|+.+.||||+.+.+.-..-..             ..|+ .++.......+...-...           -..+
T Consensus        40 ~~~~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d-~I~~~~~~~d~~~~~~S~-----------F~~E  107 (234)
T d1wb9a2          40 QRRMLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPID-RIFTRVGAADDLASGRST-----------FMVE  107 (234)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCC-EEEEEEC----------------------CHHH
T ss_pred             CCEEEEEECCCCHHHHHHHHHHHHHHHHHHCCCEEECCCEECCCCH-HHEEEECCCCCCCCCHHH-----------HHHH
T ss_conf             9539999546731368999987999999872976741766613442-023487467534365318-----------9999


Q ss_pred             HHHHHHHHHHHHCCCEEEEEEECCCCCCH-HHHHH----HCCCCCCCCCCCEEEEECCCHHHHH
Q ss_conf             99999999966099849999827998797-40875----2045668999958999728948997
Q 000471          279 LNLLQEKLKKQLSGNKFLLVLDDVWNENY-IRWSE----LRCPFVAGAAGSKIVVTTRNLVVAE  337 (1472)
Q Consensus       279 ~~~~~~~l~~~l~~~r~LlVlDdv~~~~~-~~~~~----l~~~~~~~~~~s~iiiTtR~~~~~~  337 (1472)
                      ..++...++.  .+++.|+++|.+-.-.. .+=..    +...+. ...++.+++||-...+..
T Consensus       108 ~~~~~~il~~--~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~~  168 (234)
T d1wb9a2         108 MTETANILHN--ATEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELTQ  168 (234)
T ss_dssp             HHHHHHHHHH--CCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGGG
T ss_pred             HHHHHHHHHH--CCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHH-CCCCCEEEEECCHHHHHH
T ss_conf             9999999974--546608853222358774566678987645432-045442898524687764

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=81.68  E-value=0.2  Score=21.40  Aligned_cols=23  Identities=26%  Similarity=0.484  Sum_probs=19.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHCC
Q ss_conf             79999746988099999999557
Q 000471          214 SVISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      +...+.|..|+|||||...+..+
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~  120 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPE  120 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-
T ss_pred             CEEEEECCCCCCHHHHHHHHCCH
T ss_conf             64999877873487898751517

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=81.30  E-value=0.79  Score=17.66  Aligned_cols=54  Identities=15%  Similarity=0.164  Sum_probs=32.6

Q ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCHHCCCCCEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf             999479999746988099999999557000123762389993677787789999999620
Q 000471          210 DDGFSVISINGMGGVGKTTLAQLVYNDDRVQRHYEIKAWTCVSEDFDVFRISKSILNSVA  269 (1472)
Q Consensus       210 ~~~~~vv~I~G~gG~GKTtLa~~v~~~~~~~~~f~~~~wv~~~~~~~~~~~~~~il~~l~  269 (1472)
                      .++.++..|+++-|.|||+++-.++..      ....+.+.+-...-..+....+.+.+.
T Consensus         5 ~~~~~~~ll~apTGsGKT~~~~~~~~~------~~~~vli~~P~~~l~~q~~~~~~~~~~   58 (136)
T d1a1va1           5 PQSFQVAHLHAPTGSGKSTKVPAAYAA------QGYKVLVLNPSVAATLGFGAYMSKAHG   58 (136)
T ss_dssp             CSSCEEEEEECCTTSCTTTHHHHHHHT------TTCCEEEEESCHHHHHHHHHHHHHHHS
T ss_pred             CCCCCEEEEEECCCCCHHHHHHHHHHH------CCCCEEEECCHHHHHHHHHHHHHHHHH
T ss_conf             667888999968877999999999998------699399976769999999999999852

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=80.91  E-value=0.58  Score=18.49  Aligned_cols=22  Identities=32%  Similarity=0.401  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHCC
Q ss_conf             9999746988099999999557
Q 000471          215 VISINGMGGVGKTTLAQLVYND  236 (1472)
Q Consensus       215 vv~I~G~gG~GKTtLa~~v~~~  236 (1472)
                      -|+|+|.+-+|||||-..+-..
T Consensus         4 ~~GivG~Pn~GKSTlf~~lt~~   25 (278)
T d1jala1           4 KCGIVGLPNVGKSTLFNALTKA   25 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             4888899999889999999779

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=80.66  E-value=0.67  Score=18.10  Aligned_cols=22  Identities=18%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHC
Q ss_conf             7999974698809999999955
Q 000471          214 SVISINGMGGVGKTTLAQLVYN  235 (1472)
Q Consensus       214 ~vv~I~G~gG~GKTtLa~~v~~  235 (1472)
                      --|+|+|..|+|||||...+..
T Consensus        57 l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          57 LNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHT
T ss_pred             CEEEEECCCCCCHHHHHHHHHC
T ss_conf             1799989999978999999958