Citrus Sinensis ID: 001603

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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------
Protein Sequence
MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNETSKRGLTEYVGAPEASGSGSCDDVEDPPPKRFRQLE
Secondary Structure (PSIPRED)
cEEEEcccccHHHHHHHHHHHHHHccccEEEEccccHHHHHHcccHHHHHHHHHHHHHccccccEEcccccHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEcccHHHHHHcccccccEEEcccccHHHHHHHHHHHcccccccccHHHHHHHHHHHHHccccHHHHHHHcccccccHHHHHHHHHHHHcccccccHHcEEEccccccHHHHHHHEEEEEccccccHHHHHHHHHHccccccccccccccccEEEEcccccEEccHHHHHHHHHHHHccccccccccccccccHHHHHHHHcccccccEEEEEEcccccccccEEEEcHHHHcccccccEEEEEEEEcccccccccccccEEEEcccccccccccccccccEEEEccccccHHccccccccccccEEEccccccccccccccccccccEEEcccccccEEEcccccccccccEEEccccccccccccccccccccEEEcccccccHHHHHcccccccccccccccccccEEEcccccccccccEEEEccccccccccccccccccccEEEEccccccccccccccccccccEEcccccccccccccccccccccEEEEEcccccccccccccccccccEEEEccccccccccccccccccccEEEccccccccccccccccccccEEEEccccccccccccccccccccccccccccccccccccccccccEEEccccccccccccccccccccccEEEccccccccccccHHHcccccEEEccccccccccccccccccEEEccccEEEEEEcccccccccccEEcccccHHHHccccHHHHHHHHHHHHHcccccccEEEEEccccccccccccccccEEEEEcccccccccccEEEEEEEEEEcccccccccccEEEEEEEccccEEEEEEcccccccccccEEEEEEEcccccccccccccccEEEEEEEEcccccEEEEEEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
cEEEEccccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEcccccHHHHHHHHccccccccccEEEEEEccHHHHHHccccccEEEEEccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHHHHcccHHHHHHEEEEcccccHHHHHHHHHHHHHHccccHHHHHHHHHHccccHHHHHHHHHHcEEEEEccccEEEHHHHHHHHHHHHHHHcccccccccEccccHHHHHHHHHccccccEEEEEEEEccccccccEEEccHHHHHHHHccEEEEEEccccccccccccHHcEEEEEcccccccccccccHHHEEEEccccccHHHHccccccccccEEEEcccccccccccccccccccHEEEcccccccEEccccHHHHHHcEEEEccccccccccccccccHHHHEEEccccHHHHHHcccHccccccHcEEEccccccHccccccccccccEEEEccccccHHcccccHcccccccEEEcccccHHHcccHHccccccHHEEEccccccEEccccHHHHHcccEEEcccccccccccccHcccccccEEEccccHHHHHccHHccccHHccEEEccccccccccccHHHHHcccEEEcccccccccccccccccccEEEcccccccccccccccccccccEEEcccccHHHcccccHHHccHHHcEEEccccccccccHHHHHHHHccEEcccccHHHHccccccccccEEEccccccccccccccccccHHEEccccHHHHHccccccHcHHHHHHHHHHccccccccEEEEccccccHHHcccccccEEEEEccccccccccccEEEEEEEEEccccccccccEEEEEEEEcccccEEEcccccccccccccEEEEEEccccccHHccccccccEEEEEEEEcccccEEEEEcEEEEEEEcccccccccccccccccccccccccccccccccccccccccccccccccccHHHHHccc
Coil and Loop (DISEMBL)
mmgiwgmgglgkTTLARVAYDLIshefdgstflANVREKSEKEGSVVSLQKQLLSDLLKLADisiwnvddginIIGSRLRQKKVLLVIDDVADVEQLQNLARkrdwfgpgskiviTTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKafktrqpmgeYVELSKRVLKYAGGLPLALTVLgsflngrsVDLWRSTLKrlkkeppnrIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILegcgfspvIGIEVLIEKSlltvddgnRLWMHDLLQELGHQIvqrqspeqpgkrsriwrDEEVRHMLtentgsevvEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLkidnlqlpegLEYLSNKLRlldwhryplkslpsnfqlekTVEFNMCYSRIEELWNEIKYLNMLKVMKLshsqnliktpdftgvpnlEELILEGCTRLHEIHPSLLLHSKLVIlnlkdctslttlpgkismkSLKTLVLSGCLKLTKKCLEFAGsmndlselfldrttieelpLSIQHLTGLVLlnlkdcknlkSLSHTLRRLQCLknltlsgcsklkkfpeslgsMKDLMELFLdgtsiaevpssielltglqllnlnncsnlvrlpscinglrslktlnlsgcsklqnvpetlgqvesleeldisgtairrppssifvmnnlktlsfsgcngppsstswhwhfpfnlmgqrsypvalmlpslsglhslskldlsdcglgegaipndignlcslkqlnlsqnnfvtlpaSINSlfnlgqldledckrlqsmpqlpsnlyeVQVNGCASLVTLSGALKLckskctsincigslklagnnGLAISMLREYLKAVsdpmkefnivvpgseipkwfmyqnegssitvtrpsylynmNKVVGYAICCvfhvpkrstrshLIQMlpcffngsgvhYFIRFKEkfgqgrsdHLWLLYLSREacresnwhfeSNHIElafkpmsgpglkvtrcgihpvymdeveqFDQITNQWTHFTsynlnetskrglteyvgapeasgsgscddvedpppkrfrqle
Flexible Loop (DISEMBL)
mmgiwgmgglGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQnlarkrdwfgpgskiVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVlgsflngrsVDLWRSTlkrlkkeppnriINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQivqrqspeqpgkrsriwrdEEVRHmltentgsevveGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKslpsnfqlekTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSlttlpgkismksLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLqclknltlsgcsklKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDIsgtairrppsSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNETSKRGLTEYVGApeasgsgscddvedpppkrfrqle
Low Complexity Region (SEG)
MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGsvvslqkqllsdllkladisiWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIElltglqllnlnncsnlvrlPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNETSKRGLTEYVGAPEASGSGSCDDVEDPPPKRFRQLE
Disordered region (IsUnstruct)
***IWGMGGLGKTTLARVAYDLISHEFDGSTFLANV*********VVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIV*******************VRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNET***********************************
Disordered Region (DISOPRED)
MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMD**********************************************************
Disordered Region (DISEMBL)
MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVR***********LQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIV************RIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNETSKRGLTEYVGAP**************PPKRFRQLE
Disordered Region (DISPRO)
MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEV********************************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNETSKRGLTEYVGAPEASGSGSCDDVEDPPPKRFRQLE
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	1046	2.2.26 [Sep-21-2011]
Q40392	1144	TMV resistance protein N	N/A	no	0.765	0.700	0.341	1e-126
O23530	1301	Protein SUPPRESSOR OF npr	no	no	0.759	0.610	0.321	1e-100
Q9SZ67	1895	Probable WRKY transcripti	no	no	0.565	0.312	0.362	2e-99
Q9FH83	1288	Probable WRKY transcripti	no	no	0.605	0.491	0.363	5e-98
Q9FL92	1372	Probable WRKY transcripti	no	no	0.565	0.430	0.361	2e-90
O82500	1095	Putative disease resistan	no	no	0.571	0.546	0.330	1e-88
Q9FKN7	1613	Protein DA1-related 4 OS=	no	no	0.558	0.362	0.323	6e-76
Q9SZA7	816	Probable disease resistan	no	no	0.479	0.615	0.262	3e-22
P0CB16	1201	Putative disease resistan	no	no	0.365	0.318	0.283	4e-22
Q9RBS2	1024	Protein PopC OS=Ralstonia	yes	no	0.359	0.367	0.278	3e-20

>sp|Q40392|TMVRN_NICGU TMV resistance protein N OS=Nicotiana glutinosa GN=N PE=1 SV=1

 Score =  454 bits (1169), Expect = e-126,   Method: Compositional matrix adjust.
 Identities = 316/926 (34%), Positives = 478/926 (51%), Gaps = 125/926 (13%)

Query: 1    MMGIWGMGGLGKTTLARVAYDLI------SHEFDGSTFLANVREKSEKEGSVVSLQKQLL 54
            +MGIWGMGG+GKTT+AR  +D +      S++FDG+ FL +++E   K G + SLQ  LL
Sbjct: 211  IMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKDIKEN--KRG-MHSLQNALL 267

Query: 55   SDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQ-LQNLARKRDWFGPGSKI 113
            S+LL+    +  N +DG + + SRLR KKVL+V+DD+ + +  L+ LA   DWFG GS+I
Sbjct: 268  SELLR-EKANYNNEEDGKHQMASRLRSKKVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRI 326

Query: 114  VITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYA 173
            +ITTRDK L+  +++    IY +  L + E++QLF   AF    P   + +LS  V+ YA
Sbjct: 327  IITTRDKHLIEKNDI----IYEVTALPDHESIQLFKQHAFGKEVPNENFEKLSLEVVNYA 382

Query: 174  GGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVA 233
             GLPLAL V GS L+   +  W+S ++ +K    + II+ L+IS+DGL+  ++++FLD+A
Sbjct: 383  KGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISYDGLEPKQQEMFLDIA 442

Query: 234  CFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQ 293
            CF +  ++D++ +ILE C      G+ +LI+KSL+ + + N++ MHDL+Q++G  IV  Q
Sbjct: 443  CFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQMHDLIQDMGKYIVNFQ 502

Query: 294  SPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLR 353
              + PG+RSR+W  +EV  +++ NTG+  +E I V +Y       L    +A   M  LR
Sbjct: 503  --KDPGERSRLWLAKEVEEVMSNNTGTMAMEAIWVSSY----SSTLRFSNQAVKNMKRLR 556

Query: 354  LLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIK 413
            +  +        ++YL N LR      YP +S PS F+                      
Sbjct: 557  VFNMGRSSTHYAIDYLPNNLRCFVCTNYPWESFPSTFE---------------------- 594

Query: 414  YLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDC 473
             L ML  ++L H+       +   +P+L  + L    RL                     
Sbjct: 595  -LKMLVHLQLRHNSLRHLWTETKHLPSLRRIDLSWSKRL--------------------- 632

Query: 474  TSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHL 533
               T  P    M +L+ + L  C                        + +EE+  S+   
Sbjct: 633  ---TRTPDFTGMPNLEYVNLYQC------------------------SNLEEVHHSLGCC 665

Query: 534  TGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTS 593
            + ++ L L DCK+LK        ++ L+ L L  C  L+K PE  G MK  +++ + G+ 
Sbjct: 666  SKVIGLYLNDCKSLKRFPCV--NVESLEYLGLRSCDSLEKLPEIYGRMKPEIQIHMQGSG 723

Query: 594  IAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQV 652
            I E+PSSI +  T +  L L N  NLV LPS I  L+SL +L++SGCSKL+++PE +G +
Sbjct: 724  IRELPSSIFQYKTHVTKLLLWNMKNLVALPSSICRLKSLVSLSVSGCSKLESLPEEIGDL 783

Query: 653  ESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVA 712
            ++L   D S T I RPPSSI  +N L  L F G          H+ FP         PVA
Sbjct: 784  DNLRVFDASDTLILRPPSSIIRLNKLIILMFRGFKD-----GVHFEFP---------PVA 829

Query: 713  LMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNL 772
                   GLHSL  L+LS C L +G +P +IG+L SLK+L+LS+NNF  LP+SI  L  L
Sbjct: 830  ------EGLHSLEYLNLSYCNLIDGGLPEEIGSLSSLKKLDLSRNNFEHLPSSIAQLGAL 883

Query: 773  GQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGN 832
              LDL+DC+RL  +P+LP  L E+ V+ C   +     L   + K   +    +      
Sbjct: 884  QSLDLKDCQRLTQLPELPPELNELHVD-CHMALKFIHYLVTKRKKLHRVKLDDAHNDTMY 942

Query: 833  NGLAISMLREYLKAVSD-------PMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLY 885
            N  A +M +       D        +  F       +IP WF +Q   SS++V  P   Y
Sbjct: 943  NLFAYTMFQNISSMRHDISASDSLSLTVFTGQPYPEKIPSWFHHQGWDSSVSVNLPENWY 1002

Query: 886  NMNKVVGYAICCVFHVPKRSTRSHLI 911
              +K +G+A+C  +      T +HLI
Sbjct: 1003 IPDKFLGFAVC--YSRSLIDTTAHLI 1026

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 including the hypersensitive response, which restricts the pathogen growth.
Nicotiana glutinosa (taxid: 35889)

>sp|O23530|SNC1_ARATH Protein SUPPRESSOR OF npr1-1, CONSTITUTIVE 1 OS=Arabidopsis thaliana GN=SNC1 PE=1 SV=3

 Score =  366 bits (939), Expect = e-100,   Method: Compositional matrix adjust.
 Identities = 284/884 (32%), Positives = 452/884 (51%), Gaps = 90/884 (10%)

Query: 1    MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA-NVREKSEKEGSVVSLQKQLLSDLLK 59
            M+GIWG  G+GK+T+ R  Y  +S +F    F+       S+  G  +  +K+LLS++L 
Sbjct: 207  MVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFITYKSTSGSDVSGMKLRWEKELLSEILG 266

Query: 60   LADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRD 119
              DI I    +   ++  RL+Q+KVL+++DDV  +E L+ L  K +WFG GS+I++ T+D
Sbjct: 267  QKDIKI----EHFGVVEQRLKQQKVLILLDDVDSLEFLKTLVGKAEWFGSGSRIIVITQD 322

Query: 120  KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
            +QLL AHE+D   IY +E  S   AL +    AF    P  ++ EL+  V K AG LPL 
Sbjct: 323  RQLLKAHEID--LIYEVEFPSEHLALTMLCRSAFGKDSPPDDFKELAFEVAKLAGNLPLG 380

Query: 180  LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
            L+VLGS L GR+ + W   + RL+      I+  L++S+D L   ++ +FL +AC F  +
Sbjct: 381  LSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMKTLRVSYDRLHQKDQDMFLYIACLFNGF 440

Query: 240  DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
            +  +V+ +L+       +G  +L EKSL+ +     + MH+LL++LG +I + +S   PG
Sbjct: 441  EVSYVKDLLKDN-----VGFTMLTEKSLIRITPDGYIEMHNLLEKLGREIDRAKSKGNPG 495

Query: 300  KRSRIWRDEEVRHMLTENTGSEVVEGIIV--DAYFLENEGYLSAGAKAFSQMTNLRLLKI 357
            KR  +   E++  ++TE TG+E + GI +  + YF  +   L    ++F  M NL+ L+I
Sbjct: 496  KRRFLTNFEDIHEVVTEKTGTETLLGIRLPFEEYF--STRPLLIDKESFKGMRNLQYLEI 553

Query: 358  DNL-QLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLN 416
                 LP+ L YL  KLRLLDW   PLKSLPS F+ E  V   M YS++E+LW     L 
Sbjct: 554  GYYGDLPQSLVYLPLKLRLLDWDDCPLKSLPSTFKAEYLVNLIMKYSKLEKLWEGTLPLG 613

Query: 417  MLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSL 476
             LK M L +S NL + PD +   NLEEL L GC  L  +  S+   +KL+ L++ DC  L
Sbjct: 614  SLKEMNLRYSNNLKEIPDLSLAINLEELDLVGCKSLVTLPSSIQNATKLIYLDMSDCKKL 673

Query: 477  TTLPGKISMKSLKTLVLSGC--------LKLTKKCLEFAGSMNDL--SELFLDRTTIEEL 526
             + P  ++++SL+ L L+GC        +K+    ++F    N++   + F ++     L
Sbjct: 674  ESFPTDLNLESLEYLNLTGCPNLRNFPAIKMGCSDVDFPEGRNEIVVEDCFWNKN----L 729

Query: 527  PLSIQHLT-------------GLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKK 573
            P  + +L               L  LN++  K+ K L   ++ L  L+ + LS    L +
Sbjct: 730  PAGLDYLDCLTRCMPCEFRPEQLAFLNVRGYKHEK-LWEGIQSLGSLEGMDLSESENLTE 788

Query: 574  FPESLGSMKDLMELFLDG-TSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLK 632
             P+ L     L  L L+   S+  +PS+I  L  L  L +  C+ L  LP+ +N L SL+
Sbjct: 789  IPD-LSKATKLESLILNNCKSLVTLPSTIGNLHRLVRLEMKECTGLEVLPTDVN-LSSLE 846

Query: 633  TLNLSGCSKL--------------------QNVPETLGQVESLEELDISG-TAIRRPPSS 671
            TL+LSGCS L                    + +P T+G +  L  L++   T +   P+ 
Sbjct: 847  TLDLSGCSSLRSFPLISTNIVWLYLENTAIEEIPSTIGNLHRLVRLEMKKCTGLEVLPTD 906

Query: 672  IFVMNNLKTLSFSGCNG----PPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKL 727
            +  +++L+TL  SGC+     P  S S  W +  N   +        +P LS   +L  L
Sbjct: 907  V-NLSSLETLDLSGCSSLRSFPLISESIKWLYLENTAIEE-------IPDLSKATNLKNL 958

Query: 728  DLSDCGLGEGAIPNDIGNLCSLKQLNLSQ-NNFVTLPASINSLFNLGQLDLEDCKRLQSM 786
             L++C      +P  IGNL  L    + +      LP  +N L +L  LDL  C  L++ 
Sbjct: 959  KLNNCK-SLVTLPTTIGNLQKLVSFEMKECTGLEVLPIDVN-LSSLMILDLSGCSSLRTF 1016

Query: 787  PQLPSNLYEVQVNGCA------SLVTLSGALKLCKSKCTSINCI 824
            P + +N+  + +   A      ++  L   +KL   +CT +  +
Sbjct: 1017 PLISTNIVWLYLENTAIEEIPSTIGNLHRLVKLEMKECTGLEVL 1060

Disease resistance protein of the TIR-NB-LRR-type. Part of the RPP5 locus that contains a cluster of several paralogous disease resistance (R) genes. Resistance proteins guard the plant against pathogens that contain an appropriate avirulence protein via an indirect interaction with this avirulence protein. That triggers a defense system including the hypersensitive response, which restricts the pathogen growth. Regulated by RNA silencing. Expression regulated by MOS1 at chromatin level. Negatively regulated at the transcript level by BON1.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZ67|WRK19_ARATH Probable WRKY transcription factor 19 OS=Arabidopsis thaliana GN=WRKY19 PE=2 SV=1

 Score =  364 bits (935), Expect = 2e-99,   Method: Compositional matrix adjust.
 Identities = 227/626 (36%), Positives = 354/626 (56%), Gaps = 34/626 (5%)

Query: 2    MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLA 61
            +GIWG  G+GKTT+A   +  IS +++    L ++ ++ E +G   ++++  LS++L++ 
Sbjct: 840  IGIWGTVGIGKTTIAEEIFRKISVQYETCVVLKDLHKEVEVKGHD-AVRENFLSEVLEVE 898

Query: 62   DISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQ 121
               I   D   + + SRL++K++L+++DDV D   +       ++FGPGS+I++T+R+++
Sbjct: 899  PHVIRISDIKTSFLRSRLQRKRILVILDDVNDYRDVDTFLGTLNYFGPGSRIIMTSRNRR 958

Query: 122  LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT 181
            + V  ++D  H+Y ++ L   ++L L      +       Y  LS  ++K++ G P  L 
Sbjct: 959  VFVLCKID--HVYEVKPLDIPKSLLLLDRGTCQIVLSPEVYKTLSLELVKFSNGNPQVLQ 1016

Query: 182  VLGSFLNGRSVDL-WRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWD 240
             L S      +D  W    + +K   P  I  I + S  GL D E+ IFLD+ACFF   D
Sbjct: 1017 FLSS------IDREWNKLSQEVKTTSPIYIPGIFEKSCCGLDDNERGIFLDIACFFNRID 1070

Query: 241  RDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGK 300
            +D+V  +L+GCGFS  +G   L++KSLLT+   N + M   +Q  G +IV+++S ++PG 
Sbjct: 1071 KDNVAMLLDGCGFSAHVGFRGLVDKSLLTISQHNLVDMLSFIQATGREIVRQESADRPGD 1130

Query: 301  RSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKI--- 357
            RSR+W  + +RH+   +TG+  +EGI +D   L+      A    F +M NLRLLK+   
Sbjct: 1131 RSRLWNADYIRHVFINDTGTSAIEGIFLDMLNLK----FDANPNVFEKMCNLRLLKLYCS 1186

Query: 358  -----DNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEI 412
                   +  P+GLEYL +KLRLL W  YPL SLP +F  E  VE N+  S  ++LW   
Sbjct: 1187 KAEEKHGVSFPQGLEYLPSKLRLLHWEYYPLSSLPKSFNPENLVELNLPSSCAKKLWKGK 1246

Query: 413  KY--------LNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSK 464
            K         L  LK M+LS+S  L K P  +   NLE + LEGC  L  +  S+    K
Sbjct: 1247 KARFCTTNSSLEKLKKMRLSYSDQLTKIPRLSSATNLEHIDLEGCNSLLSLSQSISYLKK 1306

Query: 465  LVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIE 524
            LV LNLK C+ L  +P  + ++SL+ L LSGC KL      F     ++ EL++  T I+
Sbjct: 1307 LVFLNLKGCSKLENIPSMVDLESLEVLNLSGCSKLGN----FPEISPNVKELYMGGTMIQ 1362

Query: 525  ELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDL 584
            E+P SI++L  L  L+L++ ++LK+L  ++ +L+ L+ L LSGC  L++FP+S   MK L
Sbjct: 1363 EIPSSIKNLVLLEKLDLENSRHLKNLPTSIYKLKHLETLNLSGCISLERFPDSSRRMKCL 1422

Query: 585  MELFLDGTSIAEVPSSIELLTGLQLL 610
              L L  T I E+PSSI  LT L  L
Sbjct: 1423 RFLDLSRTDIKELPSSISYLTALDEL 1448

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May act also as a disease resistance protein with a serine/threonine-protein kinase activity.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FH83|WRK52_ARATH Probable WRKY transcription factor 52 OS=Arabidopsis thaliana GN=WRKY52 PE=2 SV=3

 Score =  359 bits (922), Expect = 5e-98,   Method: Compositional matrix adjust.
 Identities = 257/707 (36%), Positives = 385/707 (54%), Gaps = 74/707 (10%)

Query: 2   MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLL----SDL 57
           +GIWGM G+GKTTLA+  +D +S  FD S F+ +  +   ++G    L++QLL    + +
Sbjct: 175 VGIWGMPGIGKTTLAKAVFDQMSSAFDASCFIEDYDKSIHEKGLYCLLEEQLLPGNDATI 234

Query: 58  LKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITT 117
           +KL+ +              RL  K+VL+V+DDV +    ++     DW GPGS I+IT+
Sbjct: 235 MKLSSLR------------DRLNSKRVLVVLDDVRNALVGESFLEGFDWLGPGSLIIITS 282

Query: 118 RDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGE--YVELSKRVLKYAGG 175
           RDKQ+     +++  IY ++ L+  EA QLF + A   ++ MGE    ELS RV+ YA G
Sbjct: 283 RDKQVFCLCGINQ--IYEVQGLNEKEARQLFLLSA-SIKEDMGEQNLQELSVRVINYANG 339

Query: 176 LPLALTVLGSFLNGRS-VDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVAC 234
            PLA++V G  L G+  +    +   +LK+ PP +I++  + ++D L D EK IFLD+AC
Sbjct: 340 NPLAISVYGRELKGKKKLSEMETAFLKLKRRPPFKIVDAFKSTYDTLSDNEKNIFLDIAC 399

Query: 235 FFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQS 294
           FF+  + ++V ++LEGCGF P + I+VL++K L+T+ + NR+W+H L Q++G +I+  ++
Sbjct: 400 FFQGENVNYVIQLLEGCGFFPHVEIDVLVDKCLVTISE-NRVWLHKLTQDIGREIINGET 458

Query: 295 PEQPGKRSRIWRDEEVRHMLTEN---------------TGSEVVEGIIVDAYFLENEGYL 339
             Q  +R R+W    ++++L  N                GSE +EG+ +D   L      
Sbjct: 459 V-QIERRRRLWEPWSIKYLLEYNEHKANGEPKTTFKRAQGSEEIEGLFLDTSNLR----F 513

Query: 340 SAGAKAFSQMTNLRLLKI--------DNLQLPEG-LEYLSNKLRLLDWHRYPLKSLPSNF 390
                AF  M NLRLLKI          +  P G L  L N+LRLL W  YPLKSLP NF
Sbjct: 514 DLQPSAFKNMLNLRLLKIYCSNPEVHPVINFPTGSLHSLPNELRLLHWENYPLKSLPQNF 573

Query: 391 QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCT 450
                VE NM YS++++LW   K L ML+ ++L HS +L+   D     NLE + L+GCT
Sbjct: 574 DPRHLVEINMPYSQLQKLWGGTKNLEMLRTIRLCHSHHLVDIDDLLKAENLEVIDLQGCT 633

Query: 451 RLHEIHPSLLLHSKLVILNLKDCT---SLTTLPGKISMKSLK-----TLVLSGCLKLTKK 502
           RL    P+     +L ++NL  C    S+  +P  I    L+      L +S      ++
Sbjct: 634 RLQNF-PAAGRLLRLRVVNLSGCIKIKSVLEIPPNIEKLHLQGTGILALPVSTVKPNHRE 692

Query: 503 CLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKN 562
            + F   +  LSE     T++ E   S Q L  L+ L LKDC  L+SL + +  L  L  
Sbjct: 693 LVNFLTEIPGLSEELERLTSLLESNSSCQDLGKLICLELKDCSCLQSLPN-MANLD-LNV 750

Query: 563 LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP 622
           L LSGCS L       G  + L +L+L GT+I EVP   +L   L++LN +  S L  LP
Sbjct: 751 LDLSGCSSLNSIQ---GFPRFLKQLYLGGTAIREVP---QLPQSLEILNAHG-SCLRSLP 803

Query: 623 SCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPP 669
           +  N L  LK L+LSGCS+L+ +    G   +L+EL  +GT +R  P
Sbjct: 804 NMAN-LEFLKVLDLSGCSELETIQ---GFPRNLKELYFAGTTLREVP 846

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. Acts also as a disease resistance protein conferring resistance to Ralstonia solanacearum.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FL92|WRK16_ARATH Probable WRKY transcription factor 16 OS=Arabidopsis thaliana GN=WRKY16 PE=2 SV=1

 Score =  334 bits (857), Expect = 2e-90,   Method: Compositional matrix adjust.
 Identities = 239/662 (36%), Positives = 359/662 (54%), Gaps = 71/662 (10%)

Query: 2   MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLA 61
           +GIWGM G+GKTTLA+  +D +S EFD   F+ +  +  +++G    L++Q L +     
Sbjct: 166 VGIWGMPGIGKTTLAKAVFDQMSGEFDAHCFIEDYTKAIQEKGVYCLLEEQFLKE----- 220

Query: 62  DISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQ 121
           +         ++++  RL  K+VL+V+DDV     +++     DWFGP S I+IT++DK 
Sbjct: 221 NAGASGTVTKLSLLRDRLNNKRVLVVLDDVRSPLVVESFLGGFDWFGPKSLIIITSKDKS 280

Query: 122 LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT 181
           +     V++  IY ++ L+  EALQLFS+ A           E+S +V+KYA G PLAL 
Sbjct: 281 VFRLCRVNQ--IYEVQGLNEKEALQLFSLCASIDDMAEQNLHEVSMKVIKYANGHPLALN 338

Query: 182 VLGSFLNG--RSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
           + G  L G  R  ++  + LK LK+ PP   ++ ++ S+D L D EK IFLD+ACFF+  
Sbjct: 339 LYGRELMGKKRPPEMEIAFLK-LKECPPAIFVDAIKSSYDTLNDREKNIFLDIACFFQGE 397

Query: 240 DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
           + D+V ++LEGCGF P +GI+VL+EKSL+T+ + NR+ MH+L+Q++G QI+ R++  Q  
Sbjct: 398 NVDYVMQLLEGCGFFPHVGIDVLVEKSLVTISE-NRVRMHNLIQDVGRQIINRET-RQTK 455

Query: 300 KRSRIWRDEEVRHMLTENTGSEVVEGII----------VDAYFLENEGYLSAGAK--AFS 347
           +RSR+W    ++++L +   +E  E             ++  FL+    LS   K  AF 
Sbjct: 456 RRSRLWEPCSIKYLLEDKEQNENEEQKTTFERAQVPEEIEGMFLDTSN-LSFDIKHVAFD 514

Query: 348 QMTNLRLLKID---------NLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEF 398
            M NLRL KI          N  L   L  L N LRLL W  YPL+ LP NF     VE 
Sbjct: 515 NMLNLRLFKIYSSNPEVHHVNNFLKGSLSSLPNVLRLLHWENYPLQFLPQNFDPIHLVEI 574

Query: 399 NMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPS 458
           NM YS++++LW   K L MLK ++L HSQ L+   D     NLE + L+GCTRL     +
Sbjct: 575 NMPYSQLKKLWGGTKDLEMLKTIRLCHSQQLVDIDDLLKAQNLEVVDLQGCTRLQSFPAT 634

Query: 459 -LLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGC-----------------LKLT 500
             LLH  L ++NL  CT + + P      +++TL L G                  L L 
Sbjct: 635 GQLLH--LRVVNLSGCTEIKSFPE--IPPNIETLNLQGTGIIELPLSIVKPNYRELLNLL 690

Query: 501 KKCLEFAGSMN----DLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRR 556
            +    +G  N    DL  L    T++ ++  S Q+   L  L L DC  L+SL + +  
Sbjct: 691 AEIPGLSGVSNLEQSDLKPL----TSLMKISTSYQNPGKLSCLELNDCSRLRSLPNMV-N 745

Query: 557 LQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCS 616
           L+ LK L LSGCS+L+      G  ++L EL+L GT++ +VP   +L   L+  N + C 
Sbjct: 746 LELLKALDLSGCSELETIQ---GFPRNLKELYLVGTAVRQVP---QLPQSLEFFNAHGCV 799

Query: 617 NL 618
           +L
Sbjct: 800 SL 801

Transcription factor. Interacts specifically with the W box (5'-(T)TGAC[CT]-3'), a frequently occurring elicitor-responsive cis-acting element. May also act as a disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82500|Y4117_ARATH Putative disease resistance protein At4g11170 OS=Arabidopsis thaliana GN=At4g11170 PE=2 SV=1

 Score =  328 bits (841), Expect = 1e-88,   Method: Compositional matrix adjust.
 Identities = 219/663 (33%), Positives = 355/663 (53%), Gaps = 65/663 (9%)

Query: 1   MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKS-----EKEGSVVSLQKQLLS 55
           ++GIWG  G+GKTT+AR  Y+     F+ S F+ NVRE       +  G  + LQ++ LS
Sbjct: 207 IVGIWGPAGVGKTTIARALYNQYHENFNLSIFMENVRESYGEAGLDDYGLKLHLQQRFLS 266

Query: 56  DLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVI 115
            LL   D+ + +    +  I  RL+ +KVL+++DDV ++EQL+ LA++  WFG  S+IV+
Sbjct: 267 KLLDQKDLRVRH----LGAIEERLKSQKVLIILDDVDNIEQLKALAKENQWFGNKSRIVV 322

Query: 116 TTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGG 175
           TT++KQLLV+H+++  H+Y +   S  EAL +F   AFK   P  +   L+      AG 
Sbjct: 323 TTQNKQLLVSHDIN--HMYQVAYPSKQEALTIFCQHAFKQSSPSDDLKHLAIEFTTLAGH 380

Query: 176 LPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACF 235
           LPLAL VLGSF+ G+  + W  +L  LK      +  +L++ +DGL D EK +FL +AC 
Sbjct: 381 LPLALRVLGSFMRGKGKEEWEFSLPTLKSRLDGEVEKVLKVGYDGLHDHEKDLFLHIACI 440

Query: 236 FKSWDRDHVEKILEGCGFSPV-IGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQS 294
           F     +++++++     + V  G++VL +KSL+   +  R+ MH LL++LG ++V++QS
Sbjct: 441 FSGQHENYLKQMIIANNDTYVSFGLQVLADKSLIQKFENGRIEMHSLLRQLGKEVVRKQS 500

Query: 295 PEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRL 354
             +PGKR  +   +E   +L+ NTG+  V GI +D   ++ E Y+S   K F +M NL  
Sbjct: 501 IYEPGKRQFLMNAKETCGVLSNNTGTGTVLGISLDMCEIKEELYIS--EKTFEEMRNLVY 558

Query: 355 LK------IDN-----LQLP-EGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCY 402
           LK      ID+     LQLP EGL YL  +LRLL W  YPL+  PS+F+ E  VE NM +
Sbjct: 559 LKFYMSSPIDDKMKVKLQLPEEGLSYLP-QLRLLHWDAYPLEFFPSSFRPECLVELNMSH 617

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH 462
           S++++LW+ ++ L  L+ M L+ S+NL   P+      L  L L  C  L E+  S+   
Sbjct: 618 SKLKKLWSGVQPLRNLRTMNLNSSRNLEILPNLMEATKLNRLDLGWCESLVELPSSIKNL 677

Query: 463 SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTT 522
             L++L +  C  L  +P  I++ SL+ L    C +L      F     ++  L L  T 
Sbjct: 678 QHLILLEMSCCKKLEIIPTNINLPSLEVLHFRYCTRLQT----FPEISTNIRLLNLIGTA 733

Query: 523 IEELPLSIQHLTGL--VLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGS 580
           I E+P S+++ + +  + +     K L  + + L +L CL+                   
Sbjct: 734 ITEVPPSVKYWSKIDEICMERAKVKRLVHVPYVLEKL-CLR------------------- 773

Query: 581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS 640
                    +   +  +P  ++ L  LQ+++++ C N++ LP     + +L  +N   C 
Sbjct: 774 ---------ENKELETIPRYLKYLPRLQMIDISYCINIISLPKLPGSVSALTAVN---CE 821

Query: 641 KLQ 643
            LQ
Sbjct: 822 SLQ 824

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FKN7|DAR4_ARATH Protein DA1-related 4 OS=Arabidopsis thaliana GN=DAR4 PE=1 SV=2

 Score =  286 bits (732), Expect = 6e-76,   Method: Compositional matrix adjust.
 Identities = 216/667 (32%), Positives = 346/667 (51%), Gaps = 83/667 (12%)

Query: 2   MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLA 61
           +GIWGM G+GKTTLA+  ++ +S ++D S F+ N  E   KEG +  L K+ +  +LK  
Sbjct: 192 IGIWGMPGIGKTTLAKAVFNHMSTDYDASCFIENFDEAFHKEG-LHRLLKERIGKILK-- 248

Query: 62  DISIWNVDDGINIIGS----------RLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGS 111
                   D  +I  S          +L  K++L+V+DDV D    ++  ++ DWFG GS
Sbjct: 249 --------DEFDIESSYIMRPTLHRDKLYDKRILVVLDDVRDSLAAESFLKRLDWFGSGS 300

Query: 112 KIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLK 171
            I+IT+ DKQ+    ++++  IY ++ L+  EALQLFS   F   +P     +LS +V+ 
Sbjct: 301 LIIITSVDKQVFAFCQINQ--IYTVQGLNVHEALQLFSQSVFGINEPEQNDRKLSMKVID 358

Query: 172 YAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLD 231
           Y  G PLAL++ G  L G+  ++  +    LK  PP +I ++L+ ++  L D EK I LD
Sbjct: 359 YVNGNPLALSIYGRELMGKKSEM-ETAFFELKHCPPLKIQDVLKNAYSALSDNEKNIVLD 417

Query: 232 VACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQ 291
           +A FFK    ++V ++LE   + P + I+VL++K +LT+ + N + M++L+Q+   +I  
Sbjct: 418 IAFFFKGETVNYVMQLLEESHYFPRLAIDVLVDKCVLTISE-NTVQMNNLIQDTCQEIFN 476

Query: 292 RQSPEQPGKRSRIWRDEEVRHMLT----ENTG-----------SEVVEGIIVDAYFLENE 336
            +        +R+W    +R++L     E +G           +E +E I +D   ++  
Sbjct: 477 GEIETC----TRMWEPSRIRYLLEYDELEGSGETKAMPKSGLVAEHIESIFLDTSNVK-- 530

Query: 337 GYLSAGAKAFSQMTNLRLLKIDN--------LQLPEGLEYLSNKLRLLDWHRYPLKSLPS 388
                   AF  M NL+ LKI N        L  P+GL+ L  +LRLL W  YPL+SLP 
Sbjct: 531 --FDVKHDAFKNMFNLKFLKIYNSCSKYISGLNFPKGLDSLPYELRLLHWENYPLQSLPQ 588

Query: 389 NFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEG 448
           +F     V+ +M YS++ +L   +K L MLK + LSHS  L++        N+E + L+G
Sbjct: 589 DFDFGHLVKLSMPYSQLHKLGTRVKDLVMLKRLILSHSLQLVECDILIYAQNIELIDLQG 648

Query: 449 CTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGC------------ 496
           CT L    P       L ++NL  CT +    G     +++ L L G             
Sbjct: 649 CTGLQRF-PDTSQLQNLRVVNLSGCTEIKCFSG--VPPNIEELHLQGTRIREIPIFNATH 705

Query: 497 ---LKLTKKCL-EFAGSMNDLSELFLDRTTIEELPLSIQHLTG-LVLLNLKDCKNLKSLS 551
              +KL +K L     + +D+  + L+  T      S  H+ G LV LN+K C NL+ L 
Sbjct: 706 PPKVKLDRKKLWNLLENFSDVEHIDLECVTNLATVTSNNHVMGKLVCLNMKYCSNLRGLP 765

Query: 552 HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLN 611
             +  L+ LK L LSGCS+L+K    +G  ++L +L++ GT+I E+P   +L   L+ LN
Sbjct: 766 DMV-SLESLKVLYLSGCSELEKI---MGFPRNLKKLYVGGTAIRELP---QLPNSLEFLN 818

Query: 612 LNNCSNL 618
            + C +L
Sbjct: 819 AHGCKHL 825

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SZA7|DRL29_ARATH Probable disease resistance protein At4g33300 OS=Arabidopsis thaliana GN=At4g33300 PE=2 SV=3

 Score =  108 bits (269), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 160/610 (26%), Positives = 258/610 (42%), Gaps = 108/610 (17%)

Query: 1   MMGIWGMGGLGKTTLAR---VAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDL 57
           + GI GMGG+GKTTLA+     +++  H F+       V             Q  LL +L
Sbjct: 202 VFGISGMGGVGKTTLAKELQRDHEVQCH-FENRILFLTVS------------QSPLLEEL 248

Query: 58  LKLADISIWNVDDG------INIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGS 111
            +L    IW    G      +          + L+++DDV   + L  L   +    PG 
Sbjct: 249 REL----IWGFLSGCEAGNPVPDCNFPFDGARKLVILDDVWTTQALDRLTSFK---FPGC 301

Query: 112 KIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ-PMGEYVELSKRVL 170
             ++ +R K        + +  Y++EVLS DEA+ LF + AF  +  P+G   +L K+V 
Sbjct: 302 TTLVVSRSKL------TEPKFTYDVEVLSEDEAISLFCLCAFGQKSIPLGFCKDLVKQVA 355

Query: 171 KYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPP------NRIINILQISFDGLQDL 224
               GLPLAL V G+ LNG+    W+  L+RL K  P      +R++  ++ S D L   
Sbjct: 356 NECKGLPLALKVTGASLNGKPEMYWKGVLQRLSKGEPADDSHESRLLRQMEASLDNLDQT 415

Query: 225 EKKIFLDVACF-----------FKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDG 273
            K  FLD+  F              W   H   I EG  F+ ++    L  K+LLT+   
Sbjct: 416 TKDCFLDLGAFPEDRKIPLDVLINIWIELH--DIDEGNAFAILVD---LSHKNLLTLGKD 470

Query: 274 NRL------------WMHDLLQELGHQ-------------IVQRQSPEQPGKRSRIWRDE 308
            RL              HD+L++L                ++ ++  + PG   R   + 
Sbjct: 471 PRLGSLYASHYDIFVTQHDVLRDLALHLSNAGKVNRRKRLLMPKRELDLPGDWERNNDEH 530

Query: 309 EVRHMLTENTGSEVVEGIIVDAYFLENEG-YLSAGAKAF------SQMTNLRLLK-IDNL 360
            +  +++ +TG E+ E    D  F + E   L+  +  +      S+M+ L++L  I+N 
Sbjct: 531 YIAQIVSIHTG-EMNEMQWFDMEFPKAEILILNFSSDKYVLPPFISKMSRLKVLVIINNG 589

Query: 361 QLPEGLEYLS-----NKLRLLDWHRYPLKSLP-SNFQLEKTVEFNMCYSRIEELWNEI-- 412
             P  L   S     +KLR L   R  +  L  S   L+   + ++   +I + +++   
Sbjct: 590 MSPAVLHDFSIFAHLSKLRSLWLERVHVPQLSNSTTPLKNLHKMSLILCKINKSFDQTGL 649

Query: 413 ---KYLNMLKVMKLSHSQNLIKTP-DFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVIL 468
                   L  + + H  +L+  P    G+ +L  L +  C RL E+  +L     L IL
Sbjct: 650 DVADIFPKLGDLTIDHCDDLVALPSSICGLTSLSCLSITNCPRLGELPKNLSKLQALEIL 709

Query: 469 NLKDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCL-EFAGSMNDLSELFLDRTTIEEL 526
            L  C  L TLPG+I  +  LK L +S C+ L+  CL E  G +  L ++ +      + 
Sbjct: 710 RLYACPELKTLPGEICELPGLKYLDISQCVSLS--CLPEEIGKLKKLEKIDMRECCFSDR 767

Query: 527 PLSIQHLTGL 536
           P S   L  L
Sbjct: 768 PSSAVSLKSL 777

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P0CB16|DRL25_ARATH Putative disease resistance protein At4g19050 OS=Arabidopsis thaliana GN=At4g19050 PE=3 SV=2

 Score =  107 bits (267), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 127/448 (28%), Positives = 203/448 (45%), Gaps = 66/448 (14%)

Query: 415 LNMLKVMKLSHSQNLIKTPD--FTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILN--- 469
           L  L V+++S + +L+  PD  F  +  L+ L L G      I  S     KL +L    
Sbjct: 490 LQGLHVLEVSGASSLVNIPDDFFKNMTQLQSLNLSGLA----IKSSPSTIEKLSMLRCFI 545

Query: 470 LKDCTSLTTLPGKI-SMKSLKTLVLSGCLKL------TKKCLEFAGSMNDLSEL----FL 518
           L+ C+ L  LP  I   + L+ + + G  KL       K   ++ G   + ++L     L
Sbjct: 546 LRHCSELQDLPNFIVETRKLEVIDIHGARKLESYFDRVKDWKDYKGKNKNFAQLQLLEHL 605

Query: 519 DRTTIEELPLSIQHLTG----------LVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGC 568
           D +  + + L I HL            L  L L++C  LK L   LR L  L+ L   G 
Sbjct: 606 DFSETKIIRLPIFHLKDSTNDFSTMPILTRLLLRNCTRLKRLPQ-LRPLTNLQILDACGA 664

Query: 569 SKLKKFPE-SLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCING 627
           + L +  E  L   K+L  L +  TS+ E+  +I  +  L  L L NCS +  LPS I  
Sbjct: 665 TDLVEMLEVCLEEKKELRILDMSKTSLPELADTIADVVNLNKLLLRNCSLIEELPS-IEK 723

Query: 628 LRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN 687
           L  L+  ++SGC KL+N+  + G++  L E+++S T +   P  I  ++NLK L    C+
Sbjct: 724 LTHLEVFDVSGCIKLKNINGSFGEMSYLHEVNLSETNLSELPDKISELSNLKELIIRKCS 783

Query: 688 GPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLC 747
              +                       LP+L  L +L   D+S C   E  I     NL 
Sbjct: 784 KLKT-----------------------LPNLEKLTNLEIFDVSGCTELE-TIEGSFENLS 819

Query: 748 SLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLP--SNLYEVQVNGCASLV 805
            L ++NLS+ N   LP  I+ L NL +L L +C +L+++P L   ++L    V+GC +L 
Sbjct: 820 CLHKVNLSETNLGELPNKISELSNLKELILRNCSKLKALPNLEKLTHLVIFDVSGCTNLD 879

Query: 806 TLSGALKLCKSKCTSINCIGSLKLAGNN 833
            +  + +       S++ +  + L+G N
Sbjct: 880 KIEESFE-------SMSYLCEVNLSGTN 900

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9RBS2|POPC_RALSO Protein PopC OS=Ralstonia solanacearum (strain GMI1000) GN=popC PE=4 SV=2

 Score =  101 bits (251), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 130/467 (27%), Positives = 207/467 (44%), Gaps = 91/467 (19%)

Query: 465 LVILNLKDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTI 523
           L  L+LK   +   LP  +  + +L+ L LS   +   K L   G  + L  L ++ + +
Sbjct: 249 LETLSLKGAKNFKALPDAVWRLPALQELKLS---ETGLKSLPPVGGGSALQRLTIEDSPL 305

Query: 524 EELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG---- 579
           E+LP     L  L  L+L + K L+ LS  + +L  LK+L+L    KL++ P+SLG    
Sbjct: 306 EQLPAGFADLDQLASLSLSNTK-LEKLSSGIGQLPALKSLSLQDNPKLERLPKSLGQVEE 364

Query: 580 ---------------SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSC 624
                           M  L +L +D +S+A++P+    L  L  ++L+N + L  LP+ 
Sbjct: 365 LTLIGGRIHALPSASGMSSLQKLTVDNSSLAKLPADFGALGNLAHVSLSN-TKLRDLPAS 423

Query: 625 INGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISG---------------------- 662
           I  L +LKTL+L    KL ++P + GQ+  L+EL ++G                      
Sbjct: 424 IGNLFTLKTLSLQDNPKLGSLPASFGQLSGLQELTLNGNRIHELPSMGGASSLQTLTVDD 483

Query: 663 TAIRRPPSSIFVMNNLKTLSFSGCN---GPPSSTSWHWHFPFNLMGQRSYPVALMLPS-- 717
           TA+   P+    + NL  LS S       P ++ + H     +L G +       LPS  
Sbjct: 484 TALAGLPADFGALRNLAHLSLSNTQLRELPANTGNLHALKTLSLQGNQQLAT---LPSSL 540

Query: 718 --LSGLHSL-----SKLDLSDCGLGEG------------AIPNDIGNLCS-LKQLNLSQN 757
             LSGL  L     S  +L   G G              +IP DIG  C  L QL+LS  
Sbjct: 541 GYLSGLEELTLKNSSVSELPPMGPGSALKTLTVENSPLTSIPADIGIQCERLTQLSLSNT 600

Query: 758 NFVTLPASINSLFNLGQLDLEDCKRLQSMPQLP----SNLYEVQVNGCASLVTLSGAL-K 812
               LP+SI  L NL  L L++  RL+ + +       ++ ++ ++GC  L  L  ++ K
Sbjct: 601 QLRALPSSIGKLSNLKGLTLKNNARLELLSESGVRKLESVRKIDLSGCVRLTGLPSSIGK 660

Query: 813 LCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVP 859
           L K        + +L L+G  GL+++ L   L     P    N++ P
Sbjct: 661 LPK--------LRTLDLSGCTGLSMASLPRSLVL---PRDGLNVIFP 696

Probably involved in host-pathogen interactions. May interact with plant target proteins; may modulate a plant signal transduction pathway.

Ralstonia solanacearum (strain GMI1000) (taxid: 267608)

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	1046
451798990	1335	TMV resistance protein N-like protein 7	0.929	0.728	0.428	0.0
359486075	1291	PREDICTED: TMV resistance protein N-like	0.910	0.737	0.429	0.0
224127726	1203	tir-nbs-lrr resistance protein [Populus	0.902	0.784	0.434	0.0
359486073	1296	PREDICTED: TMV resistance protein N-like	0.909	0.733	0.418	0.0
359486071	1261	PREDICTED: TMV resistance protein N-like	0.927	0.769	0.413	0.0
224114311	1144	tir-nbs-lrr resistance protein [Populus	0.825	0.754	0.427	0.0
147770134	1414	hypothetical protein VITISV_040107 [Viti	0.884	0.654	0.416	0.0
359493273	1233	PREDICTED: TMV resistance protein N-like	0.901	0.764	0.409	0.0
359493267	1417	PREDICTED: TMV resistance protein N-like	0.945	0.697	0.412	0.0
224116202	1098	tir-nbs-lrr resistance protein [Populus	0.826	0.786	0.427	0.0

>gi|451798990|gb|AGF69193.1| TMV resistance protein N-like protein 7 [Vitis labrusca]

 Score =  742 bits (1916), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 451/1052 (42%), Positives = 625/1052 (59%), Gaps = 80/1052 (7%)

Query: 1    MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKL 60
            M+GIWGM G+GKTT+A+V Y+ I  +F+G  FL+NVRE+S K G +  LQ +LLS +LK 
Sbjct: 213  MVGIWGMAGIGKTTIAKVIYERIYTQFEGCCFLSNVREESYKHG-LPYLQMELLSQILKE 271

Query: 61   ADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDK 120
             + +    + GIN +   L  +KVL+++DDV   +QL++LA   +WFG GS+I+ITTRD+
Sbjct: 272  RNPNAGLFNKGINFMKDVLHSRKVLIILDDVDQRKQLEDLAGDNNWFGSGSRIIITTRDR 331

Query: 121  QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLAL 180
             LL   EVD   IY ++ L NDEAL+LF + AF+ +    ++ +L    L Y  GLPLAL
Sbjct: 332  HLLTCQEVDA--IYEVKELDNDEALKLFCLYAFRHKHGTEDFRQLCGHALDYTSGLPLAL 389

Query: 181  TVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWD 240
             VLGS L  + +  W+S L +LK+ P   + N+L+ SF+GL D E+ IFLD+A F+K  D
Sbjct: 390  KVLGSSLYTKGIHEWKSELDKLKQFPNKEVQNVLKTSFEGLDDNEQNIFLDIAFFYKGHD 449

Query: 241  RDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGK 300
            +D V  IL+ CGF   IGI  L +KSL+T+ + N+L MHDLLQE+G +IV RQ  E PG+
Sbjct: 450  KDFVGDILDSCGFFFGIGIRNLEDKSLITISE-NKLCMHDLLQEMGWEIV-RQKSEVPGE 507

Query: 301  RSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNL 360
            RSR+   E++ H+LT NTG+E VEGI +D   L     L+    AF++M  LRLLKI N+
Sbjct: 508  RSRLRVHEDINHVLTTNTGTEAVEGIFLD---LSASKELNFSIDAFTKMKRLRLLKICNV 564

Query: 361  QLPEGLEYLS----------------------------------NKLRLLDWHRYPLKSL 386
            Q+   L YLS                                  N LR L WH YPLKS 
Sbjct: 565  QIDRSLGYLSKKELIAYTHDVWIERNYLYTQNKLHLYEDSKFLSNNLRDLYWHGYPLKSF 624

Query: 387  PSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELIL 446
            PSNF  EK VE NMC+SR+++ W   K    LK +KLSHSQ+L K PDF+GVPNL  LIL
Sbjct: 625  PSNFHPEKLVELNMCFSRLKQPWEGKKGFEKLKSIKLSHSQHLTKIPDFSGVPNLRRLIL 684

Query: 447  EGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEF 506
            +GCT L E+HPS+    KL+ LNL+ C  L +    I M+SL+ L LSGC KL KK  E 
Sbjct: 685  KGCTSLVEVHPSIGALKKLIFLNLEGCKKLKSFSSSIHMESLQILTLSGCSKL-KKFPEV 743

Query: 507  AGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLS 566
             G+M  L  L L+ T I+ LPLSI++LTGL LLNLK+CK+L+SL  ++ +L+ LK L LS
Sbjct: 744  QGNMEHLPNLSLEGTAIKGLPLSIENLTGLALLNLKECKSLESLPRSIFKLKSLKTLILS 803

Query: 567  GCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCIN 626
             C++LKK PE   +M+ LMELFLDG+ I E+PSSI  L GL  LNL NC  L  LP    
Sbjct: 804  NCTRLKKLPEIQENMESLMELFLDGSGIIELPSSIGCLNGLVFLNLKNCKKLASLPQSFC 863

Query: 627  GLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGC 686
             L SL+TL L GCS+L+++P+ LG ++ L EL+  G+ ++  P SI ++ NL+ LS +GC
Sbjct: 864  ELTSLRTLTLCGCSELKDLPDNLGSLQCLTELNADGSGVQEVPPSITLLTNLQILSLAGC 923

Query: 687  NGPPSSTSWHWHFPFNLMGQRSYPV-ALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGN 745
             G   S S +  F F+     S P   L LPS SGL+SL  L L  C L EGA+P+D+G+
Sbjct: 924  KG-GESKSRNMIFSFH-----SSPTEELRLPSFSGLYSLRVLILQRCNLSEGALPSDLGS 977

Query: 746  LCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLV 805
            + SL++L+LS+N+F+T+PAS++ L  L  L LE CK LQS+P+LPS++  +  + C SL 
Sbjct: 978  IPSLERLDLSRNSFITIPASLSGLSRLRSLTLEYCKSLQSLPELPSSVESLNAHSCTSLE 1037

Query: 806  TLSGALKLCKSKCTS---INCIGSLKLAGNNGLAI-----------SMLREYL---KAVS 848
            T + +     SK       N     +L  N G  I           S + ++L   + + 
Sbjct: 1038 TFTCSSSAYTSKKFGDLRFNFTNCFRLGENQGSDIVGAILEGIQLMSSIPKFLVPDRGIP 1097

Query: 849  DPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHV------- 901
             P  E+N +VPG+ IP+WF +Q+ G S+ +  P + YN  K++G A C   +        
Sbjct: 1098 TPHNEYNALVPGNRIPEWFRHQSVGCSVNIELPQHWYN-TKLMGLAFCAALNFKGAMDGN 1156

Query: 902  PKRSTRSH-LIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLS---REACRESNWH 957
            P     S  L+  L   F  +G+H      E      SDH    Y+S    E C   NW 
Sbjct: 1157 PGTEPSSFGLVCYLNDCFVETGLHSLYTPPEGSKFIESDHTLFEYISLARLEICL-GNWF 1215

Query: 958  FESNHIELAFKPMSGPGLKVTRCGIHPVYMDE 989
             + +   +A   ++G   +V +CGI  VY ++
Sbjct: 1216 RKLSDNVVASFALTGSDGEVKKCGIRLVYEED 1247

Source: Vitis labrusca

Species: Vitis labrusca

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486075|ref|XP_002273047.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  738 bits (1906), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 445/1037 (42%), Positives = 625/1037 (60%), Gaps = 85/1037 (8%)

Query: 1    MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKL 60
            M+GIWGM G+GKTT+A   Y  I  +F+G  FL+NVREKS+K    V +Q +LLS +   
Sbjct: 218  MVGIWGMAGIGKTTIAEAVYQKICTQFEGCCFLSNVREKSQKNDPAV-IQMELLSQVFWE 276

Query: 61   ADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDK 120
             +++    + GIN I   L   +VL+V+DDV   +QL+ LA   +WFGPGS+I+ITTR+K
Sbjct: 277  GNLNTRIFNRGINAIKKTLHSMRVLIVLDDVDRPQQLEVLAGNHNWFGPGSRIIITTREK 336

Query: 121  QLLVAHEVDEE-HIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
             LL     DE+  IY ++ L+ DEA +LF   AFK + P G++V+L  R L Y  G+PLA
Sbjct: 337  HLL-----DEKVEIYEVKELNKDEARRLFYQHAFKYKPPAGDFVQLCDRALNYTKGIPLA 391

Query: 180  LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
            L +LG FL  RS   W S L++L++ P   I ++L+ISFDGL D +K IF D+ACFFK  
Sbjct: 392  LKILGRFLYNRSKKEWESELEKLRRIPNKEIQDVLRISFDGLDDNQKDIFFDIACFFKGQ 451

Query: 240  DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
            D+D+V K+L+ C F P IGI  LI+KSL+T+   N+L MHDL+QE+G +IV+++S + PG
Sbjct: 452  DKDYVIKLLKSCDFFPEIGIRNLIDKSLVTIS-YNKLCMHDLIQEMGWEIVRQESMKDPG 510

Query: 300  KRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDN 359
            KRSR+W +++V  MLT NTG+E VEG++++   L+    L      F++M  LR+L+  +
Sbjct: 511  KRSRLWVNDDVIDMLTTNTGTEAVEGMVLNLSTLKE---LHFSVNVFTKMNKLRVLRFYD 567

Query: 360  LQ------------------------LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKT 395
             Q                        L    ++LSN LR L W  YPLKSLPSNF  EK 
Sbjct: 568  AQIWGSSWIWRRNDRYKSPYTECKFHLSGDFKFLSNHLRSLYWDGYPLKSLPSNFHPEKL 627

Query: 396  VEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEI 455
            +E  MC+S++E+LW   K    LK ++LSHSQ+LIK PDF+G P L  +ILEGCT L ++
Sbjct: 628  LELKMCFSQLEQLWEGNKSFQKLKFIELSHSQHLIKAPDFSGAPKLRRIILEGCTSLVKV 687

Query: 456  HPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSE 515
            HPS+    KL+ LNL+ C +L +    I ++SL+ L LSGC KL KK  E  G+M++LSE
Sbjct: 688  HPSIGALKKLIFLNLEGCKNLKSFLSSIHLESLQILTLSGCSKL-KKLPEVQGAMDNLSE 746

Query: 516  LFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP 575
            L L  T I+ LPLSI++L GL L NL++CK+L+SL   + +L+ LK L LS C +LKK P
Sbjct: 747  LSLKGTAIKGLPLSIEYLNGLALFNLEECKSLESLPGCIFKLKSLKTLILSNCLRLKKLP 806

Query: 576  ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
            E   +M+ L ELFLD T + E+PSSIE L GL LL L NC  L  LP  I  L SL+TL 
Sbjct: 807  EIQENMESLKELFLDDTGLRELPSSIEHLNGLVLLKLKNCKRLASLPESICKLTSLQTLT 866

Query: 636  LSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
            LSGCS+L+ +P+ +G ++ L +L  +G+ I+  PSSI ++  L+ LS +GC G  S +  
Sbjct: 867  LSGCSELKKLPDDMGSLQCLLKLKANGSGIQEVPSSITLLTRLQVLSLAGCKGGGSKSR- 925

Query: 696  HWHFPFNL-MGQRSYPV-ALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLN 753
                  NL +  R+ P   L L SL+ LHSL KL+LSD  L EGA+P+D+ +L  L+ L+
Sbjct: 926  ------NLALSLRASPTDGLRLSSLTVLHSLKKLNLSDRNLLEGALPSDLSSLSWLECLD 979

Query: 754  LSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTL---SGA 810
            LS+NNF+T+P S++ L +L +L +E CK LQS+P+LPS++ E+  N C SL T    S A
Sbjct: 980  LSRNNFITVPTSLSRLPHLRRLIVEHCKNLQSLPELPSSIKELLANDCTSLETFSYPSSA 1039

Query: 811  LKLCKSKCTSINCIGSLKLAGN-NGLAISMLREYLKAVSDPMK--------------EFN 855
              L K    +       +L GN     +  + + ++ V+   K               ++
Sbjct: 1040 YPLRKFGDFNFEFSNCFRLVGNEQSDTVEAILQEIRLVASIQKSMAPSEHSARYGESRYD 1099

Query: 856  IVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRST----RSHLI 911
             VVPGS IP+WF +Q+EG SITV  P   YN N  +G A C VFH PK S     RS   
Sbjct: 1100 AVVPGSRIPEWFTHQSEGDSITVELPPGCYNTNS-IGLAACAVFH-PKFSMGKIGRSAYF 1157

Query: 912  QMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLY--LSREACRESNWHFESNHIELAFKP 969
             +     N SG  + +         ++DH+W  Y  +S    R+        H+++AF  
Sbjct: 1158 SV-----NESG-GFSLDNTTSMHFSKADHIWFGYRLISGVDLRD--------HLKVAFAT 1203

Query: 970  MSGPGLKVTRCGIHPVY 986
               PG  V +CG+  VY
Sbjct: 1204 SKVPGEVVKKCGVRLVY 1220

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224127726|ref|XP_002329162.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222870943|gb|EEF08074.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  738 bits (1906), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 460/1059 (43%), Positives = 637/1059 (60%), Gaps = 115/1059 (10%)

Query: 12   KTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDG 71
            K+T+ARV YD I  EF+GS FLANVRE  EK G+V  LQKQLLS++L+     IW+ + G
Sbjct: 235  KSTIARVVYDKIRCEFEGSCFLANVREGFEKHGAV-PLQKQLLSEILREKSPKIWDPEKG 293

Query: 72   INIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEE 131
            I  I +RL+ +KVL+++DDV +++QL  LA    WF PGS+I+IT+RDK LL  H VD  
Sbjct: 294  IAEIKNRLQNRKVLVILDDVDNLKQLHFLAVDWKWFLPGSRIIITSRDKNLLSTHAVD-- 351

Query: 132  HIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRS 191
             IY  E L++D+AL L S KAFK  QP+  Y EL K VL +A GLPLA  VL S L GRS
Sbjct: 352  GIYEAEELNDDDALVLLSRKAFKKDQPIEGYWELCKSVLGHARGLPLAARVLASSLCGRS 411

Query: 192  VDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGC 251
            +D W S +KRL + P   ++ +L++SFDGL++LEKK+FLD+ACFFK  ++D V +IL  C
Sbjct: 412  MDFWESFIKRLNEIPNRDVMAVLKLSFDGLEELEKKLFLDIACFFKGMNKDQVTRILNQC 471

Query: 252  GFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVR 311
            GF    GI++L +KSL+ V + + L MHDLLQ +G ++V+++S  +PG+RSR+W  ++V 
Sbjct: 472  GFHANYGIQILQDKSLICVSN-DTLSMHDLLQAMGREVVRQESTAEPGRRSRLWASKDVF 530

Query: 312  HMLTENTGSEVVEGIIVDAYFLEN-EGYLSAGAKA------FSQMTNLRLLKIDNLQLPE 364
            H+L +NTG+E +E I +D    E+ EG +    ++      FS+M+ LRLL+I N     
Sbjct: 531  HVLGKNTGTEEIESIALDWANPEDVEGTMQKTKRSAWNTGVFSKMSRLRLLRIRNACFDS 590

Query: 365  GLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLS 424
            G EYLSN+LR L+W  YP K LPS+FQ E  VE ++CYS + +L    K L+ LKV+ LS
Sbjct: 591  GPEYLSNELRFLEWRNYPSKYLPSSFQPENLVEVHLCYSNLRQLRLGNKILDSLKVIDLS 650

Query: 425  HSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKIS 484
            +S+ LIKTP                                         + T +P    
Sbjct: 651  YSEYLIKTP-----------------------------------------NFTGIP---- 665

Query: 485  MKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDC 544
              +L+ L+L GC +L+                        E+  SI H   L+ +NL DC
Sbjct: 666  --NLERLILQGCRRLS------------------------EVHSSIGHHNKLIYVNLMDC 699

Query: 545  KNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELL 604
            ++L SL   +  L  L+ L LSGCSKLK+FPE  G+ K L +L LD TSI E+P SI+ L
Sbjct: 700  ESLTSLPSRISGLNLLEELHLSGCSKLKEFPEIEGNKKCLRKLCLDQTSIEELPPSIQYL 759

Query: 605  TGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTA 664
             GL  L+L +C  L  LPS INGL+SLKTL+LSGCS+L+N+PE  GQ+E L ELD+SGTA
Sbjct: 760  VGLISLSLKDCKKLSCLPSSINGLKSLKTLHLSGCSELENLPENFGQLECLNELDVSGTA 819

Query: 665  IRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWH---FPFNLMGQRSYPVALMLPSLSGL 721
            IR PP SIF + NLK LSF GC     ST+  W    FP  + G+R+   +L+LPSLSGL
Sbjct: 820  IREPPVSIFSLKNLKILSFHGCAESSRSTTNIWQRLMFPL-MPGKRANSTSLVLPSLSGL 878

Query: 722  HSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
             SL++L LS+C LGEGA+PNDIG L SL+QLNLS+N FV+LP SI+ L  L  L +EDCK
Sbjct: 879  SSLTRLGLSNCNLGEGAVPNDIGYLSSLRQLNLSRNKFVSLPTSIDQLSGLQFLRMEDCK 938

Query: 782  RLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCK---SKCTSINCIGSLKLAGNNGLAIS 838
             LQS+P+LPSNL E +VNGC SL  +  + KLC+    +   INC    +    N +  +
Sbjct: 939  MLQSLPELPSNLEEFRVNGCTSLEKMQFSRKLCQLNYLRYLFINCWRLSESDCWNNMFPT 998

Query: 839  MLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCV 898
            +LR+  +   + ++ F++++PGSEIP WF +Q+EGSS++V  P + +  ++ +GYA+C  
Sbjct: 999  LLRKCFQGPPNLIESFSVIIPGSEIPTWFSHQSEGSSVSVQTPPHSHENDEWLGYAVCAS 1058

Query: 899  FHVPKRSTRSHLIQMLPCFFNGSGVH---YFIRFKEKFGQGRSDHLWLLYLSREACRESN 955
               P          M  CFFNG G      ++R K    +  SDHLW LY        S 
Sbjct: 1059 LGYPDFPPNVFRSPM-QCFFNGDGNESESIYVRLKP--CEILSDHLWFLYFP------SR 1109

Query: 956  WHFESNHIELAFKPMSGPGLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNE----- 1010
            +     H+   F+  +    KV +CG+  VY  +VE+ +++TN + + T   ++E     
Sbjct: 1110 FKRFDRHVRFRFED-NCSQTKVIKCGVRLVYQQDVEELNRMTNLYENSTFEGVDECFQES 1168

Query: 1011 ----TSKRGLTEYVGAPEASGSGSCDDVEDPPPKRFRQL 1045
                  + G T  VG  EASGS S D  E PP K+ +Q+
Sbjct: 1169 GGALVKRLGHTNDVG--EASGSVSSD--EQPPTKKLKQI 1203

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486073|ref|XP_002272820.2| PREDICTED: TMV resistance protein N-like, partial [Vitis vinifera]

 Score =  718 bits (1854), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 435/1039 (41%), Positives = 626/1039 (60%), Gaps = 88/1039 (8%)

Query: 1    MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKL 60
            M+GIWGM G+GKTT+A   Y  I  +F+G  FL+NVREKS+     V +Q +LLS + + 
Sbjct: 223  MVGIWGMAGIGKTTIAEAVYQKIRTQFEGCCFLSNVREKSQNNDPAV-IQMKLLSQIFEK 281

Query: 61   ADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDK 120
             +++   +  GIN+I   L   +VL+V+DDV   +QL+ LA   +WFGPGS+I+ITTR+K
Sbjct: 282  GNLNTGLLSGGINVIEKTLHSMRVLIVLDDVDCPQQLEVLAGNHNWFGPGSRIIITTREK 341

Query: 121  QLLVAHEVDEE-HIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
             LL     DE+  IY ++ L+ DEA +LF   AFK + P G++V+L  R L Y  G+PLA
Sbjct: 342  HLL-----DEKVEIYIVKELNKDEARKLFYQHAFKYKPPAGDFVQLCDRALNYTKGIPLA 396

Query: 180  LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
            L +LG FL  RS   W S L++L++ P N I ++L+ISFDGL D +K IFLD+ACFFK  
Sbjct: 397  LKILGRFLYNRSKKEWESELEKLRRIPNNEIQDVLRISFDGLDDNQKDIFLDIACFFKGQ 456

Query: 240  DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
            D+D+V K+L+ C F P IGI  LI+KSL+T+   N+L MHDL+Q++G +IV+++S + PG
Sbjct: 457  DKDYVIKLLKSCDFFPEIGIRNLIDKSLVTIS-YNKLCMHDLIQKMGWEIVRQESIKDPG 515

Query: 300  KRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDN 359
            KRSR+W +++V  MLT NTG+E VEG++++   L+    L      F++M  LR+L+  +
Sbjct: 516  KRSRLWVNDDVIDMLTTNTGTEAVEGMVLNLSTLKE---LHFSVNVFTKMNKLRVLRFYD 572

Query: 360  LQ------------------------LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKT 395
             Q                        L    ++LSN LR L W  YPLKSLPSNF  EK 
Sbjct: 573  AQIWGSSWIWRRNDRYKSPYTECKFHLSGDFKFLSNHLRSLYWDGYPLKSLPSNFHPEKL 632

Query: 396  VEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEI 455
            +E  MC+S++E+LW   K    LK ++LSHSQ+LIKTPDF+G P L  +ILEGCT L ++
Sbjct: 633  LELKMCFSQLEQLWEGNKSFQKLKFIELSHSQHLIKTPDFSGAPKLRRIILEGCTSLVKV 692

Query: 456  HPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSE 515
            HPS+    KL+ LNL+ C +L +    I ++SL+ L LSGC KL KK  E  G M++ SE
Sbjct: 693  HPSIGALKKLIFLNLEGCKNLKSFLSSIHLESLQILTLSGCSKL-KKFPEVQGPMDNFSE 751

Query: 516  LFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP 575
            L L  T I+ LPLSI++L GL LLNL++CK+L+SL   + +L+ LK L LS CS+LKK P
Sbjct: 752  LSLKGTAIKGLPLSIEYLNGLALLNLEECKSLESLPSCIFKLKSLKTLILSNCSRLKKLP 811

Query: 576  ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
            E   +M+ L ELFLD T + E+PSSIE L GL LL L NC  L  LP     L SL+TL 
Sbjct: 812  EIGENMESLKELFLDDTGLRELPSSIEHLNGLVLLKLKNCKRLASLPESFCKLTSLQTLT 871

Query: 636  LSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
            LSGCS+L+ +P+ +G ++ L +L  +G+ I+  P+SI ++  L+ LS +GC G  S +  
Sbjct: 872  LSGCSELKKLPDDMGSLQCLLKLKANGSGIQEVPTSITLLTKLQVLSLAGCKGGGSKSK- 930

Query: 696  HWHFPFNL-MGQRSYPV-ALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLN 753
                  NL +  R+ P   L L SL+ LHSL KL+LSDC L EGA+P+D+ +L  L+ L+
Sbjct: 931  ------NLALSLRASPTDGLRLSSLTVLHSLKKLNLSDCNLLEGALPSDLSSLSWLECLD 984

Query: 754  LSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKL 813
            LS+N+F+T+P S++ L  L +L LE CK L+S+P+LPS++ E+  N C SL T+S     
Sbjct: 985  LSRNSFITVP-SLSRLPRLERLILEHCKSLRSLPELPSSVEELLANDCTSLETISNPSSA 1043

Query: 814  CKSKCTS------INC---------------IGSLKLAGN--NGLAISMLREYLKAVSDP 850
               + +        NC               +  ++L  +  N +A S ++  L  V D 
Sbjct: 1044 YAWRNSGHLYSEFCNCFRLVENEQSDNVEAILRGIRLVASIPNSVAPSDIQRDLSIVYDA 1103

Query: 851  MKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVP---KRSTR 907
                  VVPGS IP+WF +Q+E  S+TV  P +  N  +++G A+C VFH      +  R
Sbjct: 1104 ------VVPGSSIPEWFTHQSERCSVTVELPPHWCN-TRLMGLAVCVVFHANIGMGKFGR 1156

Query: 908  SHLIQMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAF 967
            S    M     N SG  + +         ++DH+W  Y          +    +H++++F
Sbjct: 1157 SAYFSM-----NESG-GFSLHNTVSMHFSKADHIWFGY---RPLFGDVFSSSIDHLKVSF 1207

Query: 968  KPMSGPGLKVTRCGIHPVY 986
               +  G  V +CG+  V+
Sbjct: 1208 AGSNRAGEVVKKCGVRLVF 1226

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486071|ref|XP_002272667.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  697 bits (1799), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 439/1061 (41%), Positives = 632/1061 (59%), Gaps = 91/1061 (8%)

Query: 1    MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKL 60
            M+GIWGM G+GKTT+A   Y  I   F+G  FL+NVREKS+K    V +Q +LLS + + 
Sbjct: 218  MVGIWGMAGIGKTTIAEAVYQKIRTRFEGCCFLSNVREKSQKNDPAV-IQMELLSQIFEE 276

Query: 61   ADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDK 120
             +++   +  GIN+I   L   +VL+V+DDV   +QL+ LA   +WF PGS+I+ITTR+K
Sbjct: 277  GNLNTGVLSGGINVIEKTLHSMRVLIVLDDVDCPQQLEVLAGNHNWFSPGSRIIITTREK 336

Query: 121  QLLVAHEVDEE-HIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
             LL     DE+  IY  + L+ DEA +LF   AFK + P+G++V+L  R L Y  G+PLA
Sbjct: 337  HLL-----DEKVEIYVAKELNKDEARKLFYQHAFKYKPPVGDFVQLCDRALNYTKGIPLA 391

Query: 180  LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
            L +LG FL  RS   W S L++L++ P   I ++L+ISFDGL D +K IFLD+ACFFK  
Sbjct: 392  LKILGRFLYNRSKKEWESELEKLRRIPNKEIQDVLRISFDGLDDNQKDIFLDIACFFKGQ 451

Query: 240  DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
            D+D+V K+L+ C F P I I  LI+KSL+T+   N+L MHDL+QE+G +IV+++S + PG
Sbjct: 452  DKDYVIKLLKSCDFFPEIEIRNLIDKSLVTIS-YNKLCMHDLIQEMGWEIVRQESIKDPG 510

Query: 300  KRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDN 359
            KRSR+W +++V  MLT NTG+E VEG++++   L+    L      F++M  LR+L+  +
Sbjct: 511  KRSRLWVNDDVIDMLTTNTGTEAVEGMVLNLSTLKE---LHFSVNVFTKMNKLRVLRFYD 567

Query: 360  LQ------------------------LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKT 395
             Q                        L    ++LSN LR L W  YPLKSLPSNF  EK 
Sbjct: 568  AQIWGSSWIGRHNDRYKSPYTECKFHLSGDFKFLSNHLRSLHWDGYPLKSLPSNFHPEKL 627

Query: 396  VEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEI 455
            +E  MC+S++E+LW   K    LK ++LSHSQ+LIKTPDF+G P L  +ILEGCT L ++
Sbjct: 628  LELKMCFSQLEQLWEGNKSFQKLKFIELSHSQHLIKTPDFSGAPKLRRIILEGCTSLVKV 687

Query: 456  HPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSE 515
            HPS+    KL+ LNL+ C +L +    I ++SL+T+ LSGC KL KK  E  G+M++L E
Sbjct: 688  HPSIGALKKLIFLNLEGCKNLKSFSSSIHLESLQTITLSGCSKL-KKFPEVQGAMDNLPE 746

Query: 516  LFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP 575
            L L  T I+ LPLSI++L GL LLNL++CK+L+SL   + +L+ LK L LS CS+LKK P
Sbjct: 747  LSLKGTAIKGLPLSIEYLNGLSLLNLEECKSLESLPGCIFKLKSLKTLILSNCSRLKKLP 806

Query: 576  ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
            E   +M+ L +LFLD T + E+PSSIE L GL LL L NC  L  LP  I  L SL+TL 
Sbjct: 807  EIQENMESLKKLFLDDTGLRELPSSIEHLNGLVLLKLKNCKKLASLPESICKLTSLQTLT 866

Query: 636  LSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
            LSGCS+L+ +P+ +G ++ L +L  +GT I+  P+SI ++  L+ LS +GC G  S +  
Sbjct: 867  LSGCSELKKLPDDMGSLQCLVKLKANGTGIQEVPTSITLLTKLEVLSLAGCKGGESKSR- 925

Query: 696  HWHFPFNL-MGQRSYPVALMLPS-LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLN 753
                  NL +  RS P   + PS L  L+SL KL+LS C L EGA+P+D+ +L  L+ L+
Sbjct: 926  ------NLALCLRSSPTKGLRPSFLPVLYSLRKLNLSGCNLLEGALPSDLSSLSWLECLD 979

Query: 754  LSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTL---SGA 810
            LS+N+F+T+P +++ L  L +L LE CK L+S+P+LPSN+ ++  N C SL T    S A
Sbjct: 980  LSRNSFITVP-NLSRLPRLKRLILEHCKSLRSLPELPSNIEKLLANDCTSLETFSNPSSA 1038

Query: 811  LKLCKSKCTSINCIGSLKLAGN----NGLAISMLREYLKAVSD------PMKEFNIVVPG 860
                 S+  +       +L  N    N  AI      + ++S+       +K ++ VVPG
Sbjct: 1039 YAWRNSRHLNFQFYNCFRLVENEQSDNVEAILRGIRLVASISNFVAPHYELKWYDAVVPG 1098

Query: 861  SEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPK----RSTRSHLIQMLP- 915
            S IP+WF  Q+ G S+TV  P + +   +++G A+C VFH P     +  RS    M   
Sbjct: 1099 SSIPEWFTDQSLGCSVTVELPPH-WCTTRLMGLAVCFVFH-PNIGMGKFGRSEYFSMNES 1156

Query: 916  ---CFFNGSGVHYFIRFKEKFGQGRSDHLWLLY--LSREACRESNWHFESNHIELAFKPM 970
                  N +  H+           ++DH+W  Y  L  E    S      +H++++F   
Sbjct: 1157 GGFSLHNTASTHF----------SKADHIWFGYRPLYGEVFSPS-----IDHLKVSFAGS 1201

Query: 971  SGPGLKVTRCGIHPVY-MDEV----EQFDQITNQWTHFTSY 1006
            +  G  V +CG   V+  DE     E+ + +   W     Y
Sbjct: 1202 NRAGEVVKKCGARLVFEQDEPCGREEEMNHVHEDWLEVPFY 1242

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224114311|ref|XP_002332395.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222832718|gb|EEE71195.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  692 bits (1785), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 419/979 (42%), Positives = 591/979 (60%), Gaps = 116/979 (11%)

Query: 12  KTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDG 71
           KTT+ARV YD I   F+GS FLANVRE   ++    SLQK+LLSD+L   DI+I +   G
Sbjct: 70  KTTVARVLYDRIRRRFEGSCFLANVREAFAEKDGPRSLQKKLLSDILMERDINICDSSTG 129

Query: 72  INIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEE 131
           I +I  +L++ K+L+V+DDV D +QL+ LA++  WFGPGS+I+IT+RD  +L+ +  D+ 
Sbjct: 130 IEMIKQKLQRIKILVVLDDVNDRKQLEYLAKEPGWFGPGSRIIITSRDTNVLIGN--DDT 187

Query: 132 HIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRS 191
            IY  E L++D+AL LFS KAFK  QP   +VELSK+V+ YA GLPLA  V+GSFL  RS
Sbjct: 188 KIYEAEKLNDDDALMLFSQKAFKNDQPAEGFVELSKQVVDYANGLPLAHEVIGSFLYERS 247

Query: 192 VDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGC 251
           +  WR  + R+ + P  +II++L++SFDGL + +KKIFLD+ACF K + +D + +ILE  
Sbjct: 248 IPEWRGAINRMNEIPDGKIIDVLRVSFDGLHESDKKIFLDIACFLKGFKKDRITRILESR 307

Query: 252 GFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVR 311
           GF   IGI VLIE+SL++V   +++WMHDLLQ +G +IV+ +SPE+PG+RSR+W  E+V 
Sbjct: 308 GFHAGIGIPVLIERSLISVSR-DQVWMHDLLQIMGKEIVRCESPEEPGRRSRLWTYEDVC 366

Query: 312 HMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSN 371
             L +NTG E +E I +D   +++  +     +AFS+M+ LRLLKI+N+QL EG E LSN
Sbjct: 367 LALMDNTGKEKIEAIFLDMPGIKDAQW---NMEAFSKMSKLRLLKINNVQLSEGPEDLSN 423

Query: 372 KLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIK 431
           KLR L+W+ YP KSLP+  Q+++ VE +M  S +++LW   K    LK++ LS+S     
Sbjct: 424 KLRFLEWYSYPSKSLPAGLQVDELVELHMANSNLDQLWYGCKSALNLKIINLSYS----- 478

Query: 432 TPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTL 491
                                               LNL     LT +P      +L++L
Sbjct: 479 ------------------------------------LNLSRTPDLTGIP------NLESL 496

Query: 492 VLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS 551
           +L GC                        T++ E+  S+     L  +NL +CK+++ L 
Sbjct: 497 ILEGC------------------------TSLSEVHPSLGSHKNLQYVNLVNCKSIRILP 532

Query: 552 HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLN 611
             L  ++ LK  TL GC KL+KFP+ + +M  LM L LD T I ++ SSI  L GL LL+
Sbjct: 533 SNLE-MESLKVFTLDGCLKLEKFPDVVRNMNCLMVLRLDETGITKLSSSIRHLIGLGLLS 591

Query: 612 LNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSS 671
           +N+C NL  +PS I+ L+SLK L+LSGCS+L+N+P+ LG+VESLEE D+SGT+IR+PP+S
Sbjct: 592 MNSCKNLKSIPSSISCLKSLKKLDLSGCSELKNIPKNLGKVESLEEFDVSGTSIRQPPAS 651

Query: 672 IFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSD 731
           IF++ +LK LSF GC     + + H                  LPSLSGL SL  LDL  
Sbjct: 652 IFLLKSLKVLSFDGCKRIAVNPTDH-----------------RLPSLSGLCSLEVLDLCA 694

Query: 732 CGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPS 791
           C L EGA+P DIG L SL+ L+LSQNNFV+LP SIN LF L +L LEDC  L+S+P++PS
Sbjct: 695 CNLREGALPEDIGFLSSLRSLDLSQNNFVSLPQSINQLFELERLVLEDCSMLESLPEVPS 754

Query: 792 NLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNG---LAISMLREYLKAVS 848
            +  V +NGC SL  +   +KL  SK +   C+   +L  +NG   + ++ML  YLK +S
Sbjct: 755 KVQTVNLNGCISLKEIPDPIKLSSSKISEFLCLNCWELYEHNGQDSMGLTMLERYLKGLS 814

Query: 849 DPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRS 908
           +P   F IVVPG+EIP WF ++++GSSI+V  PS+       +G+  C  F     S   
Sbjct: 815 NPRPGFGIVVPGNEIPGWFNHRSKGSSISVQVPSW------SMGFVACVAFSANGESPS- 867

Query: 909 HLIQMLPCFFNGSGVHYF---IRFKEKFGQGRSDHLWLLYLSREACRE-SNW-HFESNHI 963
                L C F  +G   +   +       Q  SDH+WL YLS +   E   W H   ++I
Sbjct: 868 -----LFCHFKTNGRENYPSPMCISCNSIQVLSDHIWLFYLSFDYLIELKEWQHGSFSNI 922

Query: 964 ELAFKPMSGPGLKVTRCGI 982
           EL+F   S P +KV  CG+
Sbjct: 923 ELSFHS-SQPRVKVKNCGV 940

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147770134|emb|CAN76615.1| hypothetical protein VITISV_040107 [Vitis vinifera]

 Score =  691 bits (1783), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 432/1037 (41%), Positives = 603/1037 (58%), Gaps = 112/1037 (10%)

Query: 1    MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKL 60
            M+GIWGM G+GKTT+A   Y  I  +F+   F          EG++              
Sbjct: 218  MVGIWGMAGIGKTTIAEAVYQKICTQFE--VFW---------EGNL-------------- 252

Query: 61   ADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDK 120
             +  I+N   GIN I   L   +VL+V+DDV   +QL+ LA   +WFGPGS+I+ITTR+K
Sbjct: 253  -NTRIFN--RGINAIKKXLHSMRVLIVLDDVDRPQQLEVLAGNHNWFGPGSRIIITTREK 309

Query: 121  QLLVAHEVDEE-HIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
             LL     DE+  IY  + L+ DEA  L    AFK + P G +V+L  R L Y  G+PLA
Sbjct: 310  HLL-----DEKVEIYEXKELNKDEARXLXYQHAFKYKPPAGXFVQLCDRALNYTKGIPLA 364

Query: 180  LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
            L +LG FL  RS   W S L++L++ P   I ++L+ISFDGL D +K IF D+ACFFK  
Sbjct: 365  LKILGRFLYNRSKKEWESELEKLRRIPNKEIQDVLRISFDGLDDNQKDIFXDIACFFKGQ 424

Query: 240  DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
            D+D+V K+L+ C F P IGI  LI+KSL+T+   N+L MHDL+QE+G +IV+++S + PG
Sbjct: 425  DKDYVIKLLKSCDFFPEIGIRNLIDKSLVTIS-YNKLCMHDLIQEMGWEIVRQESXKDPG 483

Query: 300  KRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDN 359
            K SR+W +++V  MLT NTG+E VEG++++   L+    L      F++M  LR+ +  +
Sbjct: 484  KXSRLWVNDDVIDMLTTNTGTEAVEGMVLNLSTLKE---LHFSVNVFTKMNKLRVXRFYD 540

Query: 360  LQ------------------------LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKT 395
             Q                        L    ++LSN LR L W  YPLKSLPSNF  EK 
Sbjct: 541  AQIWGSSWIWRRNDRYKSPYTECKFHLSGDFKFLSNHLRSLYWDGYPLKSLPSNFHPEKL 600

Query: 396  VEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEI 455
            +E  MC+S++E+LW   K    LK ++LSHSQ+LIK PDF+G P L  +ILEGCT L ++
Sbjct: 601  LELKMCFSQLEQLWEGNKSFQKLKFIELSHSQHLIKXPDFSGAPKLRRIILEGCTSLVKV 660

Query: 456  HPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSE 515
            HPS+    KL+ LNL+ C +L +    I ++SL+ L LSGC KL KK  E  G+M++LSE
Sbjct: 661  HPSIGALKKLIFLNLEGCKNLKSFLSSIHLESLQILTLSGCSKL-KKXPEVQGAMDNLSE 719

Query: 516  LFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP 575
            L L  T I+ LPLSI++L GL L NL++CK+L+SL     +L+ LK L LS C +LKK P
Sbjct: 720  LSLKGTAIKGLPLSIEYLNGLALFNLEECKSLESLPGCXFKLKSLKTLILSNCLRLKKLP 779

Query: 576  ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
            E   +M+ L ELFLD T + E+PSSIE L GL LL L NC  L  LP  I  L SL+TL 
Sbjct: 780  EIQENMESLKELFLDDTGLRELPSSIEHLNGLVLLKLKNCKRLASLPESICKLTSLQTLT 839

Query: 636  LSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
            LSGCS+L+ +P+ +G ++ L +L  +G+ I+  PSSI ++  L+ LS +GC G  S +  
Sbjct: 840  LSGCSELKKLPDDMGSLQCLLKLKANGSGIQEVPSSITLLTRLQVLSLAGCKGGGSKSR- 898

Query: 696  HWHFPFNL-MGQRSYPV-ALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLN 753
                  NL +  R+ P   L L SL+ LHSL KL+LSD  L EGA+P+D+ +L  L+ L+
Sbjct: 899  ------NLALSLRASPTDGLRLSSLTVLHSLKKLNLSDRNLLEGALPSDLSSLSWLECLD 952

Query: 754  LSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTL---SGA 810
            LS+NNF+T+P S++ L +L +L +E CK LQS+P+LPS++ E+  N C SL T    S A
Sbjct: 953  LSRNNFITVPTSLSRLPHLRRLIVEHCKNLQSLPELPSSIKELLANDCTSLETFSYPSSA 1012

Query: 811  LKLCKSKCTSINCIGSLKLAGN-NGLAISMLREYLKAVSDPMK--------------EFN 855
              L K    +       +L GN     +  + + ++ V+   K               ++
Sbjct: 1013 YPLRKFGDFNFEFSNCFRLVGNEQSDTVEAILQEIRLVASIQKSMAPSEHSARYGESRYD 1072

Query: 856  IVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICCVFHVPKRST----RSHLI 911
             VVPGS IP+WF +Q+EG SITV  P   YN N  +G A C VFH PK S     RS   
Sbjct: 1073 AVVPGSRIPEWFTHQSEGDSITVELPPGCYNTNS-IGLAACAVFH-PKFSMGKIGRSAYF 1130

Query: 912  QMLPCFFNGSGVHYFIRFKEKFGQGRSDHLWLLY--LSREACRESNWHFESNHIELAFKP 969
             +     N SG  + +         ++DH+W  Y  +S    R+        H+++AF  
Sbjct: 1131 SV-----NESG-GFSLDNTTSMHFSKADHIWFGYRLISGVDLRD--------HLKVAFAT 1176

Query: 970  MSGPGLKVTRCGIHPVY 986
               PG  V +CG+  VY
Sbjct: 1177 SKVPGEVVKKCGVRLVY 1193

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493273|ref|XP_002272034.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  686 bits (1771), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 440/1075 (40%), Positives = 612/1075 (56%), Gaps = 132/1075 (12%)

Query: 12   KTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDG 71
            KTT+A+V Y+LIS +F+G +FLAN+RE S+  G ++ LQKQLL D+L      I N+D+G
Sbjct: 225  KTTIAKVVYNLISSQFEGISFLANIREVSKNCG-LLPLQKQLLGDILMGWSQRISNLDEG 283

Query: 72   INIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEE 131
            IN++  RL  KKVL+++DDV D+ QL++LA   DWFG GS+IVITTRDK LL  H V E 
Sbjct: 284  INVLMDRLHSKKVLIILDDVDDLNQLESLAGNVDWFGIGSRIVITTRDKHLLNVHGVSE- 342

Query: 132  HIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRS 191
             IY  + L  +EALQLFS  AFK + P  +Y+ LS  V+ YA GLPLAL VLGSFL  ++
Sbjct: 343  -IYEAKELEPEEALQLFSQYAFKRKSPDKDYMNLSDNVVHYAKGLPLALKVLGSFLFSKT 401

Query: 192  VDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGC 251
            +  W S L +LKKE   ++ ++L+ISFDGL   +K+IFLD+ACFFK  + D V KIL+GC
Sbjct: 402  ILEWESELHKLKKELNTKVQDVLRISFDGLDFTQKEIFLDLACFFKGQEYDFVIKILDGC 461

Query: 252  GFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVR 311
            GF    GI VL ++ L+ + D NRLWMHDL+Q++G +IV+++ P+ PGK SR+W  E + 
Sbjct: 462  GFHAKSGIRVLSDRCLIDLLD-NRLWMHDLIQQMGWEIVRQECPKDPGKWSRLWDYEHIY 520

Query: 312  HMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQ---------- 361
             +L +NTG+E +EGI +D Y       +    +AF++M  LRLLK+ N            
Sbjct: 521  SVLKKNTGTETIEGIFLDMY---RSKEIQFTTEAFAKMNRLRLLKVFNFSGIGKEGYKEP 577

Query: 362  LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVM 421
            L    E+ S +LR L WH YP  SLPS F  E  +E NMCYS + ELW   + L+ L  +
Sbjct: 578  LSVSFEFPSYELRYLYWHGYPFGSLPSKFHSENLIELNMCYSYMRELWKGNEVLDNLNTI 637

Query: 422  KLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPG 481
            +LS+SQ+LI                                                LP 
Sbjct: 638  ELSNSQHLIH-----------------------------------------------LPN 650

Query: 482  KISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNL 541
              SM +L+ LVL GC                        TTI ELP SI +LTGL+LL+L
Sbjct: 651  FSSMPNLERLVLEGC------------------------TTISELPFSIGYLTGLILLDL 686

Query: 542  KDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI 601
            ++CK LKSL  ++ +L+ L+ L LS CSKL+ FPE + +M+ L +L LDGT++ ++  SI
Sbjct: 687  ENCKRLKSLPSSICKLKSLETLILSACSKLESFPEIMENMEHLKKLLLDGTALKQLHPSI 746

Query: 602  ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDIS 661
            E L GL  LNL +C NL  LP  I  L+SL+TL +SGCSKLQ +PE LG ++ L +L   
Sbjct: 747  EHLNGLVSLNLRDCKNLATLPCSIGNLKSLETLIVSGCSKLQQLPENLGSLQCLVKLQAD 806

Query: 662  GTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSY-PVALMLPSLSG 720
            GT +R+PPSSI ++ NL+ LSF GC G  +S SW   F F L+ ++S   + L LPSLSG
Sbjct: 807  GTLVRQPPSSIVLLRNLEILSFGGCKG-LASNSWSSLFSFWLLPRKSSDTIGLQLPSLSG 865

Query: 721  LHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDC 780
            L SL +LD+SDC L EGA+P DI NL SL+ LNLS+NNF +LPA I+ L  L  L L  C
Sbjct: 866  LCSLRELDISDCNLMEGAVPFDICNLSSLETLNLSRNNFFSLPAGISKLSKLRFLSLNHC 925

Query: 781  KRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSK--C-----TSINCIG-SLKLAGN 832
            K L  +P+LPS++ EV    C+SL T+     +C ++  C     T  NC     +   +
Sbjct: 926  KSLLQIPELPSSIIEVNAQYCSSLNTILTPSSVCNNQPVCRWLVFTLPNCFNLDAENPCS 985

Query: 833  NGLAI-----SMLREYLKAVSD--PMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLY 885
            N +AI      ++   L+ + +  P   F+I +PGSEIP W   QN GS +T+  P + +
Sbjct: 986  NDMAIISPRMQIVTNMLQKLQNFLPDFGFSIFLPGSEIPDWISNQNLGSEVTIELPPHWF 1045

Query: 886  NMNKVVGYAICCVFH----VPKRSTRSHLIQMLPCFFNGSGVHYFIRFKEKFGQG----R 937
              N  +G+A+CCVF      P   +   L Q+     +  G+ + +   +  G      +
Sbjct: 1046 ESN-FLGFAVCCVFAFEDIAPNGCSSQLLCQLQSDESHFRGIGHILHSIDCEGNSEDRLK 1104

Query: 938  SDHLWLLYLSREACRES------NWHFESNHIELAFKPMS-GPGLKVTRCGIHPVYMDEV 990
            S H+WL Y  R   R S       W     H + +F  +S  P   V +CGIH +Y  + 
Sbjct: 1105 SHHMWLAYKPRGRLRISYGDCPNRWR----HAKASFGFISCCPSNMVRKCGIHLIYAQDH 1160

Query: 991  EQFDQITNQWTHFTSYNLNETSKRGLTEYVGAPEASGSGSCDDVEDPPPKRFRQL 1045
            E+ +  +    H +S N ++   +     VG   ASGSG C  V     +R  +L
Sbjct: 1161 EERN--STMIHHSSSGNFSDL--KSADSSVG---ASGSGLCCSVFIMGARRMEEL 1208

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359493267|ref|XP_002271591.2| PREDICTED: TMV resistance protein N-like [Vitis vinifera]

 Score =  680 bits (1755), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 437/1059 (41%), Positives = 628/1059 (59%), Gaps = 70/1059 (6%)

Query: 2    MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLA 61
            +GI+G+GG+GKTT+A+V+++ I+ +F  ++F+ANVRE S+ +G ++ LQKQLL D     
Sbjct: 344  VGIYGLGGIGKTTIAKVSFNHIASDFMITSFIANVRECSKSKG-LLHLQKQLLRDCSMRR 402

Query: 62   DISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQ 121
              S+ NVD+GI +I +RL  KKVLLV+DDV ++ QL+ LA   +WFGPGS I+ITTR+K 
Sbjct: 403  VESLSNVDEGITMIKARLCFKKVLLVLDDVDNLSQLEALAGDHNWFGPGSIIIITTREKH 462

Query: 122  LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT 181
            LL  HE+D   +Y  + L + EA++LFS  AF    P   Y  LS  V++Y  GLPL L 
Sbjct: 463  LL-GHEMDA--LYEAKKLGHKEAVELFSWHAFNQNHPKEYYETLSNSVVRYVDGLPLGLK 519

Query: 182  VLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDR 241
            VLG FL G++V  W S L +LK+EP   I ++L+ S+D L   +K++FLDVACFF   D+
Sbjct: 520  VLGRFLCGKTVGEWESELHKLKQEPNQEIQSVLKRSYDELDHTQKQLFLDVACFFNGEDK 579

Query: 242  DHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKR 301
            D V +IL+ C F    GI VL +K L+T+ D N++WMHDLLQ++G  IV+++SPE PGK 
Sbjct: 580  DFVTRILDACNFYAKGGIRVLTDKCLVTILD-NKIWMHDLLQQMGRDIVRQESPEDPGKW 638

Query: 302  SRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKI---- 357
            SR+     +  +LT   G+E ++G++ +    +    +    K+F+ M NLRLLKI    
Sbjct: 639  SRLCYPGVISRVLTRKMGTEAIKGMLFNVSIPKQ---IHITTKSFAMMKNLRLLKIYSHL 695

Query: 358  --------DNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELW 409
                    ++++L +  E+ S +LR L W  YPL+SLPS+F  E  VE +M YS +++LW
Sbjct: 696  KSTSAREDNSVKLSKDFEFPSCELRYLYWQGYPLESLPSSFDAEDLVELDMRYSNLKQLW 755

Query: 410  NEIKYLNMLKVMKLSHSQNLIKTPDFT-GVPNLEELILEGCTRLHEIHPSLLLHSKLVIL 468
                 L  L  ++LS SQ+LI+ PD +   PNLE LIL+GC+ L E+H S+   SKL++L
Sbjct: 756  ENDMLLEKLNTIRLSCSQHLIEIPDISISAPNLETLILDGCSSLLEVHTSIGKLSKLILL 815

Query: 469  NLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPL 528
            +LK+C  L++ P  I+M++LK L LSGC  L KK  +  G+M  L EL+L  T IEELPL
Sbjct: 816  SLKNCKKLSSFPSIINMEALKILNLSGCSGL-KKFPDIQGNMEHLLELYLASTAIEELPL 874

Query: 529  SIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELF 588
            S  HLTGLV+L+LK CKNLKSL  ++ +L+ L+ L LSGCSKL+ FPE +  M++L EL 
Sbjct: 875  SFGHLTGLVILDLKRCKNLKSLPASICKLESLEYLFLSGCSKLENFPEMMEDMENLKELL 934

Query: 589  LDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPET 648
            LDGTSI  +P SI+ L GL LLNL NC NLV LP  +  L SL+TL +SGCS L N+P  
Sbjct: 935  LDGTSIEGLPLSIDRLKGLVLLNLRNCKNLVSLPKGMCKLTSLETLIVSGCSLLNNLPRN 994

Query: 649  LGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRS 708
            LG ++ L +L   GTAI +PP SI ++ NL+ L + G     + TS    F F L+ + S
Sbjct: 995  LGSLQRLVQLHAEGTAITQPPDSIVLLRNLEVLVYPG-RKILTPTSLGSLFSFWLLHRNS 1053

Query: 709  Y-PVALMLPS-LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI 766
               + L LPS      S + LDLSDC L EGAIPNDI +L SLK+L LS+NNF+++PA I
Sbjct: 1054 SNGIGLHLPSGFPIFRSFTNLDLSDCKLIEGAIPNDICSLISLKKLALSKNNFLSIPAGI 1113

Query: 767  NSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLV-------TLSGALKLCKSKCT 819
            + L NL  L +  C+ L  +P+LP ++ ++  + C +L+       TL G L+     C+
Sbjct: 1114 SELTNLKDLLIGQCQSLIEIPELPPSIRDIDAHNCTALLPGSSSVSTLQG-LQFLFYNCS 1172

Query: 820  SI----------NCIGSLKLAGNNGLAISMLREYLKAVSDPMKE---FNIVVPGSEIPKW 866
             +          N +        +  A          V   + E   F+IV PGSEIP+W
Sbjct: 1173 KLFEDQSSDDKRNVLQRFPHNDASSSASVSSLTTSPVVMQKLLENIAFSIVFPGSEIPEW 1232

Query: 867  FMYQNEGSSITVTRPSYLYNMNKVVGYAICCVF-HVPKRSTRSHLIQMLPCFFNGSGVHY 925
              +Q+ GSSI +  P+  Y  N ++G+++C V  H+P+R         + C  N     Y
Sbjct: 1233 IWHQHVGSSIKIELPTDWY--NDLLGFSLCSVLEHLPER---------IICRLNSDVFDY 1281

Query: 926  --FIRFKEKF-GQGRS---DHLWLLYLSREACR------ESNWHFESNHIELAFKPMSGP 973
                 F   F G+G +   +H+WL Y      R       ++W+      E A +  S  
Sbjct: 1282 GDLKDFGHDFHGKGNNVGPEHVWLGYQPCSQLRLFEFNDPNDWNLIEISFEAAHRFSSSA 1341

Query: 974  GLKVTRCGIHPVYMDEVEQFDQITNQWTHFTSYNLNETS 1012
               V +CG+  +Y +++E              YN+ E S
Sbjct: 1342 SNVVKKCGVCLIYAEDLEGIHPQNKIQLKSRGYNVVERS 1380

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224116202|ref|XP_002331986.1| tir-nbs-lrr resistance protein [Populus trichocarpa] gi|222832110|gb|EEE70587.1| tir-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  680 bits (1754), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 424/992 (42%), Positives = 599/992 (60%), Gaps = 128/992 (12%)

Query: 1   MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKL 60
            +GI GMGGLGKTT+ARV YD I  +F+GS FLANVRE   ++     LQ+QLLS++L +
Sbjct: 59  FIGICGMGGLGKTTVARVVYDRIRWQFEGSCFLANVREVFAEKDGPRRLQEQLLSEIL-M 117

Query: 61  ADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDK 120
              S+ +   GI +I  R ++KK+L+V+DDV D +QL++LA +  WFGPGS+I+IT+RDK
Sbjct: 118 ERASVCDSSRGIEMIKRRSQRKKILVVLDDVDDHKQLESLAAESKWFGPGSRIIITSRDK 177

Query: 121 QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLAL 180
           Q+L  + V    IY  E L++D+AL LFS KAF+  QP  ++++LSK+V+ YA GLPLAL
Sbjct: 178 QVLTRNGV--ARIYEAEKLNDDDALMLFSQKAFENDQPAEDFLDLSKQVVGYANGLPLAL 235

Query: 181 TVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWD 240
            V+GSFL+GRS+  WR  + R+ + P + II +L +SFDGL +LEKKIFLD+ACF K + 
Sbjct: 236 EVIGSFLHGRSIPEWRGAINRMNEIPDHEIIKVLLVSFDGLHELEKKIFLDIACFLKGFK 295

Query: 241 RDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGK 300
            D + +IL+G GF   IGI VLIE+SL++V   +++WMH+LLQ++G +I++R+SPE+PG+
Sbjct: 296 IDRITRILDGRGFHASIGIPVLIERSLISVSR-DQVWMHNLLQKMGKEIIRRESPEEPGR 354

Query: 301 RSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNL 360
           RSR+W  ++V   L +N G E +E I +D   ++   +     +AFS+M+ LRLLKI+N+
Sbjct: 355 RSRLWTYKDVCLALMDNIGKEKIEAIFLDMPGIKEAQW---NMEAFSKMSRLRLLKINNV 411

Query: 361 QLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKV 420
           QL EG E LSNKLR L+WH YP KSLP++ Q+++ VE +M  S IE+LW   K    LK+
Sbjct: 412 QLSEGPEDLSNKLRFLEWHSYPSKSLPASLQVDELVELHMANSSIEQLWYGCKSAINLKI 471

Query: 421 MKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLP 480
           + LS+S                                         LNL    +LT +P
Sbjct: 472 INLSNS-----------------------------------------LNLSKTPNLTGIP 490

Query: 481 GKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLN 540
                 +L++L+L GC                        T++ E+  S+     L  +N
Sbjct: 491 ------NLESLILEGC------------------------TSLSEVHPSLALHKKLQHVN 520

Query: 541 LKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSS 600
           L +CK+++ L + L  ++ LK  TL GCSKL+KFP+ +G+M  LM L LD TSI ++PSS
Sbjct: 521 LVNCKSIRILPNNLE-MESLKVCTLDGCSKLEKFPDIIGNMNCLMVLRLDETSITKLPSS 579

Query: 601 IELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI 660
           I  L GL LL++N+C NL  +PS I  L+SLK L+LSGCS+L+ +PE LG+VESLEE D+
Sbjct: 580 IHHLIGLGLLSMNSCKNLESIPSSIGCLKSLKKLDLSGCSELKCIPENLGKVESLEEFDV 639

Query: 661 SGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSG 720
           SGT IR+ P+SIF++ NL+ LS  GC                          +MLPSLS 
Sbjct: 640 SGTLIRQLPASIFLLKNLEVLSMDGCKR-----------------------IVMLPSLSS 676

Query: 721 LHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDC 780
           L SL  L L  C L EGA+P DIG+L SL+ L+LSQN FV+LP +IN L  L  L LEDC
Sbjct: 677 LCSLEVLGLRACNLREGALPEDIGHLSSLRSLDLSQNKFVSLPKAINQLSELEMLVLEDC 736

Query: 781 KRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNG---LAI 837
             L S+P++PS +  V +NGC SL  +   +KL  SK +   C+   +L  +NG   +  
Sbjct: 737 TMLASLPEVPSKVQTVNLNGCRSLKKIPDPIKLSSSKRSEFLCLNCWELYKHNGRESMGS 796

Query: 838 SMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRPSYLYNMNKVVGYAICC 897
           +ML  YL+ +S+P   F I VPG+EIP WF ++++GSSI+V  PS        +G+  C 
Sbjct: 797 TMLERYLQGLSNPRPGFGIAVPGNEIPGWFNHRSKGSSISVQVPS------GRMGFFACV 850

Query: 898 VFHVPKRSTRSHLIQMLPCFFNGSGVHYF-----IRFKEKFGQGRSDHLWLLYLSREACR 952
            F+    S        L C F  +G   +     I F+   G   SDH+WL YLS +  +
Sbjct: 851 AFNANDESPS------LFCHFKANGRENYPSPMCINFE---GHLFSDHIWLFYLSFDYLK 901

Query: 953 E-SNWHFES-NHIELAFKPMSGPGLKVTRCGI 982
           E   W  ES ++IEL+F      G+KV  CG+
Sbjct: 902 ELQEWQHESFSNIELSFHSYE-QGVKVNNCGV 932

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

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	1046
TAIR|locus:2175991	1294	AT5G17680 [Arabidopsis thalian	0.766	0.619	0.353	1.2e-115
UNIPROTKB|Q40392	1144	N "TMV resistance protein N" [	0.640	0.585	0.367	2.9e-110
TAIR|locus:2167457	1191	AT5G36930 [Arabidopsis thalian	0.631	0.554	0.373	2.3e-101
TAIR|locus:2053405	1215	AT2G14080 [Arabidopsis thalian	0.731	0.629	0.336	3.1e-99
TAIR|locus:2147992	1189	AT5G11250 [Arabidopsis thalian	0.731	0.643	0.333	1.3e-98
TAIR|locus:2163426	1187	TAO1 "target of AVRB operation	0.660	0.582	0.333	3e-94
TAIR|locus:2155189	980	AT5G49140 [Arabidopsis thalian	0.561	0.598	0.364	2.1e-93
TAIR|locus:2174900	968	AT5G40060 [Arabidopsis thalian	0.648	0.700	0.328	2.7e-92
TAIR|locus:2129670	1008	AT4G14370 [Arabidopsis thalian	0.588	0.611	0.330	3.4e-92
TAIR|locus:2129236	1301	SNC1 "SUPPRESSOR OF NPR1-1, CO	0.834	0.671	0.302	4.3e-92

TAIR|locus:2175991 AT5G17680 [Arabidopsis thaliana (taxid:3702)]

 Score = 1140 (406.4 bits), Expect = 1.2e-115, P = 1.2e-115
 Identities = 300/848 (35%), Positives = 452/848 (53%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGXXXXXXXXXXXXXXXX 60
             M+GIWGMGG+GKTT+A+  Y+ +S +F    F+ NV+E   + G                
Sbjct:   208 MLGIWGMGGVGKTTIAKYLYNQLSGQFQVHCFMENVKEVCNRYGVRRLQVEFLCRMFQER 267

Query:    61 XXXXXWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDK 120
                  W+     NII  R R K V +V+DDV   EQL  L ++  WFGPGS+I++TTRD+
Sbjct:   268 DKEA-WSSVSCCNIIKERFRHKMVFIVLDDVDRSEQLNELVKETGWFGPGSRIIVTTRDR 326

Query:   121 QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR--QPMGEYVELSKRVLKYAGGLPL 178
              LL++H ++   +Y ++ L   EALQLF   AF+     P G + ELS + + YA GLPL
Sbjct:   327 HLLLSHGINL--VYKVKCLPKKEALQLFCNYAFREEIILPHG-FEELSVQAVNYASGLPL 383

Query:   179 ALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKS 238
             AL VLGSFL  RS   W STL RLK  P + I+ +L++S+DGL + EK IFL ++CF+  
Sbjct:   384 ALRVLGSFLYRRSQIEWESTLARLKTYPHSDIMEVLRVSYDGLDEQEKAIFLYISCFYNM 443

Query:   239 WDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQP 298
                D+V K+L+ CG++  IGI +L EKSL+ V+    + +HDLL+++G ++V++Q+   P
Sbjct:   444 KQVDYVRKLLDLCGYAAEIGITILTEKSLI-VESNGCVKIHDLLEQMGRELVRQQAVNNP 502

Query:   299 GKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKID 358
              +R  +W  E++ H+L+EN+G+++VEGI ++   L     + A  +AF  ++NL+LL   
Sbjct:   503 AQRLLLWDPEDICHLLSENSGTQLVEGISLN---LSEISEVFASDRAFEGLSNLKLLNFY 559

Query:   359 NLQ--------LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN 410
             +L         LP GL YL  KLR L W  YPLK++PS F  E  VE  M  S +E+LW+
Sbjct:   560 DLSFDGETRVHLPNGLSYLPRKLRYLRWDGYPLKTMPSRFFPEFLVELCMSNSNLEKLWD 619

Query:   411 EIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNL 470
              I+ L  LK M LS  + L++ PD +   NLEEL L  C  L E+ PS+     L    L
Sbjct:   620 GIQPLRNLKKMDLSRCKYLVEVPDLSKATNLEELNLSYCQSLVEVTPSIKNLKGLSCFYL 679

Query:   471 KDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI 530
              +C  L  +P  I +KSL+T+ +SGC  L K   E   S N    L+L  T IEELP SI
Sbjct:   680 TNCIQLKDIPIGIILKSLETVGMSGCSSL-KHFPEI--SWNT-RRLYLSSTKIEELPSSI 735

Query:   531 QHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD 590
               L+ LV L++ DC+ L++L   L  L  LK+L L GC +L+  P++L ++  L  L + 
Sbjct:   736 SRLSCLVKLDMSDCQRLRTLPSYLGHLVSLKSLNLDGCRRLENLPDTLQNLTSLETLEVS 795

Query:   591 GT-SIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRSLKTLNLSGCSKLQNVPETL 649
             G  ++ E P                       P+ I  L  L++L++S   +L ++P ++
Sbjct:   796 GCLNVNEFPR----VSTSIEVLRISETSIEEIPARICNLSQLRSLDISENKRLASLPVSI 851

Query:   650 GQVESLEELDISGTAIRRP-PSSIF-VMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQR 707
              ++ SLE+L +SG ++    P  I   M+ L+       +      +        ++ Q 
Sbjct:   852 SELRSLEKLKLSGCSVLESFPLEICQTMSCLRWFDLDRTSIKELPENIGNLVALEVL-QA 910

Query:   708 SYPVALMLP-SLSGLHSLSKLDLSDC-----GLGEGAIPNDIGNLCSLKQLNLSQNNFVT 761
             S  V    P S++ L  L  L + +      GL     P  +     L+ L+LS  N   
Sbjct:   911 SRTVIRRAPWSIARLTRLQVLAIGNSFFTPEGLLHSLCP-PLSRFDDLRALSLSNMNMTE 969

Query:   762 LPASINSLFNLGQLDLEDCKRLQSMP---QLPSNLYEVQVNGCASLVTLS-----GALKL 813
             +P SI +L+NL +LDL      + +P   +  + L  + +N C  L  L      G L +
Sbjct:   970 IPNSIGNLWNLLELDLSG-NNFEFIPASIKRLTRLNRLNLNNCQRLQALPDELPRGLLYI 1028

Query:   814 CKSKCTSI 821
                 CTS+
Sbjct:  1029 YIHSCTSL 1036

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

UNIPROTKB|Q40392 N "TMV resistance protein N" [Nicotiana glutinosa (taxid:35889)]

 Score = 1089 (388.4 bits), Expect = 2.9e-110, P = 2.9e-110
 Identities = 256/697 (36%), Positives = 391/697 (56%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLI------SHEFDGSTFLANVREKSEKEGXXXXXXXXXX 54
             +MGIWGMGG+GKTT+AR  +D +      S++FDG+ FL +++E   K G          
Sbjct:   211 IMGIWGMGGVGKTTIARAIFDTLLGRMDSSYQFDGACFLKDIKEN--KRGMHSLQNALLS 268

Query:    55 XXXXXXXXXXXWNVDDGINIIGSRLRQKKVLLVIDDVADVEQ-LQNLARKRDWFGPGSKI 113
                         N +DG + + SRLR KKVL+V+DD+ + +  L+ LA   DWFG GS+I
Sbjct:   269 ELLREKANYN--NEEDGKHQMASRLRSKKVLIVLDDIDNKDHYLEYLAGDLDWFGNGSRI 326

Query:   114 VITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYA 173
             +ITTRDK L+  +++    IY +  L + E++QLF   AF    P   + +LS  V+ YA
Sbjct:   327 IITTRDKHLIEKNDI----IYEVTALPDHESIQLFKQHAFGKEVPNENFEKLSLEVVNYA 382

Query:   174 GGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVA 233
              GLPLAL V GS L+   +  W+S ++ +K    + II+ L+IS+DGL+  ++++FLD+A
Sbjct:   383 KGLPLALKVWGSLLHNLRLTEWKSAIEHMKNNSYSGIIDKLKISYDGLEPKQQEMFLDIA 442

Query:   234 CFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQ 293
             CF +  ++D++ +ILE C      G+ +LI+KSL+ + + N++ MHDL+Q++G  IV  Q
Sbjct:   443 CFLRGEEKDYILQILESCHIGAEYGLRILIDKSLVFISEYNQVQMHDLIQDMGKYIVNFQ 502

Query:   294 SPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLR 353
               + PG+RSR+W  +EV  +++ NTG+  +E I V +Y       L    +A   M  LR
Sbjct:   503 --KDPGERSRLWLAKEVEEVMSNNTGTMAMEAIWVSSY----SSTLRFSNQAVKNMKRLR 556

Query:   354 LLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIK 413
             +  +        ++YL N LR      YP +S PS F+L+  V   + ++ +  LW E K
Sbjct:   557 VFNMGRSSTHYAIDYLPNNLRCFVCTNYPWESFPSTFELKMLVHLQLRHNSLRHLWTETK 616

Query:   414 YLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDC 473
             +L  L+ + LS S+ L +TPDFTG+PNLE + L  C+ L E+H SL   SK++ L L DC
Sbjct:   617 HLPSLRRIDLSWSKRLTRTPDFTGMPNLEYVNLYQCSNLEEVHHSLGCCSKVIGLYLNDC 676

Query:   474 TSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QH 532
              SL   P  ++++SL+ L L  C  L +K  E  G M    ++ +  + I ELP SI Q+
Sbjct:   677 KSLKRFPC-VNVESLEYLGLRSCDSL-EKLPEIYGRMKPEIQIHMQGSGIRELPSSIFQY 734

Query:   533 LTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGT 592
              T +  L L + KNL +L  ++ RL+ L +L++SGCSKL+  PE +G + +L       T
Sbjct:   735 KTHVTKLLLWNMKNLVALPSSICRLKSLVSLSVSGCSKLESLPEEIGDLDNLRVFDASDT 794

Query:   593 SIAEVPSSIEXXXXXXXXXXXXXXXXXXX--PSCINGLRSLKTLNLSGCSKLQN-VPETL 649
              I   PSSI                      P    GL SL+ LNLS C+ +   +PE +
Sbjct:   795 LILRPPSSIIRLNKLIILMFRGFKDGVHFEFPPVAEGLHSLEYLNLSYCNLIDGGLPEEI 854

Query:   650 GQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGC 686
             G + SL++LD+S       PSSI  +  L++L    C
Sbjct:   855 GSLSSLKKLDLSRNNFEHLPSSIAQLGALQSLDLKDC 891

GO:0005515 "protein binding" evidence=IPI

TAIR|locus:2167457 AT5G36930 [Arabidopsis thaliana (taxid:3702)]

 Score = 1005 (358.8 bits), Expect = 2.3e-101, P = 2.3e-101
 Identities = 258/691 (37%), Positives = 382/691 (55%)

Query:     4 IWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGXXXXXXXXXXXXXXXXXXX 63
             I+GMGG+GKTTLA+VA++  SH F+GS+FL N RE S+K                     
Sbjct:   217 IYGMGGIGKTTLAKVAFNEFSHLFEGSSFLENFREYSKKPEGRTHLQHQLLSDILRRNDI 276

Query:    64 XXWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLL 123
                 +D  +     R R K+VLLV+DDV DV QL + A  RD FG GS+I+ITTR+  LL
Sbjct:   277 EFKGLDHAVK---ERFRSKRVLLVVDDVDDVHQLNSAAIDRDCFGHGSRIIITTRNMHLL 333

Query:   124 VAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVL 183
                ++  E  Y+ + L  DE+L+LFS  AF+T +P  E+++ S+ V+ Y  GLPLA+ VL
Sbjct:   334 --KQLRAEGSYSPKELDGDESLELFSWHAFRTSEPPKEFLQHSEEVVTYCAGLPLAVEVL 391

Query:   184 GSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSWDRDH 243
             G+FL  RS+  W STLK LK+ P + I   LQISF+ L   +K +FLD+ACFF   D  +
Sbjct:   392 GAFLIERSIREWESTLKLLKRIPNDNIQAKLQISFNALTIEQKDVFLDIACFFIGVDSYY 451

Query:   244 VEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSR 303
             V  IL+GC   P I + +L+E+ L+T+  GN + MHDLL+++G QIV+  SP++ G+RSR
Sbjct:   452 VACILDGCNLYPDIVLSLLMERCLITIS-GNNIMMHDLLRDMGRQIVREISPKKCGERSR 510

Query:   304 IWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLP 363
             +W   +V  +L + +G+  +EG+ + A  ++ + Y     +AF++M  LRLL++  + L 
Sbjct:   511 LWSHNDVVGVLKKKSGTNAIEGLSLKADVMDFQ-YFEV--EAFAKMQELRLLELRYVDLN 567

Query:   364 EGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELW---NEIKYLNMLKV 420
                E+    LR L WH + L+  P N  LE     ++ YS ++  W   +  +  NM+K 
Sbjct:   568 GSYEHFPKDLRWLCWHGFSLECFPINLSLESLAALDLQYSNLKRFWKAQSPPQPANMVKY 627

Query:   421 MKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSL-LLHSKLVILNLKDCTSLTTL 479
             + LSHS  L +TPDF+  PN+E+LIL  C  L  +H S+ +L  KLV+LNL  C  L  L
Sbjct:   628 LDLSHSVYLRETPDFSYFPNVEKLILINCKSLVLVHKSIGILDKKLVLLNLSSCIELDVL 687

Query:   480 PGKI-SMKSLKTLVLSGCLKLTKKCLEFA-GSMNDLSELFLDRTTIEELPLSIQHLTGLV 537
             P +I  +KSL++L LS C KL +  L+ A G +  L+ L  D T + E+P +I  L  L 
Sbjct:   688 PEEIYKLKSLESLFLSNCSKLER--LDDALGELESLTTLLADFTALREIPSTINQLKKLK 745

Query:   538 LLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAE- 596
              L+L  CK L  LS  +  L   K+ ++S    L + P SL  +  +  L L   ++++ 
Sbjct:   746 RLSLNGCKGL--LSDDIDNLYSEKSHSVS----LLR-PVSLSGLTYMRILSLGYCNLSDE 798

Query:   597 -VPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESL 655
              +P  I                    P+    L +L  L LS CSKLQ++   L    SL
Sbjct:   799 LIPEDI-GSLSFLRDLDLRGNSFCNLPTDFATLPNLGELLLSDCSKLQSI---LSLPRSL 854

Query:   656 EELDISGTAIRRPPSSIFVMNNLKTLSFSGC 686
               LD+    + +    I   + L  L  + C
Sbjct:   855 LFLDVGKCIMLKRTPDISKCSALFKLQLNDC 885

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2053405 AT2G14080 [Arabidopsis thaliana (taxid:3702)]

 Score = 985 (351.8 bits), Expect = 3.1e-99, P = 3.1e-99
 Identities = 271/806 (33%), Positives = 416/806 (51%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSE-KEGXXXXXXXXXXXXXXX 59
             M+GIWG  G+GKTT+ R  Y+ +S  F+ S F+ N++                       
Sbjct:   253 MIGIWGPPGIGKTTIVRFLYNQLSSSFELSIFMENIKTMHTILASSDDYSAKLILQRQFL 312

Query:    60 XXXXXXWNVD-DGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTR 118
                    +++   + ++  RL  KKVL+V+DDV    QL  LA++  WFGP S+I+ITT+
Sbjct:   313 SKILDHKDIEIPHLRVLQERLYNKKVLVVLDDVDQSVQLDALAKETRWFGPRSRILITTQ 372

Query:   119 DKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPL 178
             D++LL AH ++  +IY +++ ++D+ALQ+F M AF  + P   + +L+++V    G  PL
Sbjct:   373 DRKLLKAHRIN--NIYKVDLPNSDDALQIFCMYAFGQKTPYDGFYKLARKVTWLVGNFPL 430

Query:   179 ALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKS 238
              L V+GS+    S   WR  + RL+     +I ++L+ S+D L D +K +FL +ACFF  
Sbjct:   431 GLRVVGSYFREMSKQEWRKEIPRLRARLDGKIESVLKFSYDALCDEDKDLFLHIACFFNH 490

Query:   239 WDRDHVEKILEGCGFSPVIG-IEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQ 297
                + +E  L G  F  +     VL EKSL++++  N + MHD L +LG +IV++QS  +
Sbjct:   491 ESIEKLEDFL-GKTFLDIAQRFHVLAEKSLISINS-NFVEMHDSLAQLGKEIVRKQSVRE 548

Query:   298 PGKRSRIWRDEEVRHMLTENT-GSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLK 356
             PG+R  +    ++  +L ++T G   V GI +D +   N+   +   KAF  M+NL+ L+
Sbjct:   549 PGQRQFLVDARDISEVLADDTAGGRSVIGIYLDLH--RNDDVFNISEKAFEGMSNLQFLR 606

Query:   357 IDNLQ--------LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEEL 408
             + N          LP  L Y+S KLRLLDW  +P+   PS F  E  VE NM  S++E+L
Sbjct:   607 VKNFGNLFPAIVCLPHCLTYISRKLRLLDWMYFPMTCFPSKFNPEFLVELNMWGSKLEKL 666

Query:   409 WNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVIL 468
             W EI+ L  LK M L  S+NL + PD +   NLE L L GC+ L E+  S+   +KL+ L
Sbjct:   667 WEEIQPLRNLKRMDLFSSKNLKELPDLSSATNLEVLNLNGCSSLVELPFSIGNATKLLKL 726

Query:   469 NLKDCTSLTTLPGKISMK-SLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDR-TTIEEL 526
              L  C+SL  LP  I    +L+T+  S C  L +      G+  +L EL L   ++++EL
Sbjct:   727 ELSGCSSLLELPSSIGNAINLQTIDFSHCENLVELPSSI-GNATNLKELDLSCCSSLKEL 785

Query:   527 PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLME 586
             P SI + T L  L+L  C +LK L  ++     LK L L+ CS L K P S+G+  +L +
Sbjct:   786 PSSIGNCTNLKKLHLICCSSLKELPSSIGNCTNLKELHLTCCSSLIKLPSSIGNAINLEK 845

Query:   587 LFLDGT-SIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRSLKTLNLSGCSKLQNV 645
             L L G  S+ E+PS I                    PS I  L  L  L L GC KLQ +
Sbjct:   846 LILAGCESLVELPSFIGKATNLKILNLGYLSCLVELPSFIGNLHKLSELRLRGCKKLQVL 905

Query:   646 PETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN---GPPSSTSWHWHFPFN 702
             P  +  +E L ELD++   + +  +   +  N+K L   G      P S  SW       
Sbjct:   906 PTNIN-LEFLNELDLTDCILLK--TFPVISTNIKRLHLRGTQIEEVPSSLRSWPRLEDLQ 962

Query:   703 LMGQRSYPVALMLPSLSG-LHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQ-NNFV 760
             ++   +      L   S  L  ++ L+LSD  + E  +   +  +  L++L LS     V
Sbjct:   963 MLYSEN------LSEFSHVLERITVLELSDINIRE--MTPWLNRITRLRRLKLSGCGKLV 1014

Query:   761 TLPASINSLFNLGQLDLEDCKRLQSM 786
             +LP   +SL  L   D E+C  L+ +
Sbjct:  1015 SLPQLSDSLIIL---DAENCGSLERL 1037

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2147992 AT5G11250 [Arabidopsis thaliana (taxid:3702)]

 Score = 979 (349.7 bits), Expect = 1.3e-98, P = 1.3e-98
 Identities = 267/801 (33%), Positives = 420/801 (52%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREK-SEKEGXXXXXXXXXXXXXXX 59
             ++GIWG  G+GKTT+ARV Y+ +SH F  S F+ N++   +   G               
Sbjct:   259 IIGIWGPPGIGKTTIARVVYNQLSHSFQLSVFMENIKANYTRPTGSDDYSAKLQLQQMFM 318

Query:    60 XXXXXXWNVD-DGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTR 118
                    +++   + +   RL+ KKVL+V+D V    QL  +A++  WFGPGS+I+ITT+
Sbjct:   319 SQITKQKDIEIPHLGVAQDRLKDKKVLVVLDGVNQSVQLDAMAKEAWWFGPGSRIIITTQ 378

Query:   119 DKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPL 178
             D++L  AH ++  HIY ++    +EALQ+F M AF    P   +  L+ +V+  AG LPL
Sbjct:   379 DQKLFRAHGIN--HIYKVDFPPTEEALQIFCMYAFGQNSPKDGFQNLAWKVINLAGNLPL 436

Query:   179 ALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKS 238
              L ++GS+  G S + W+ +L RL+      I +IL+ S+D L D +K +FL +ACFF  
Sbjct:   437 GLRIMGSYFRGMSREEWKKSLPRLESSLDADIQSILKFSYDALDDEDKNLFLHIACFFNG 496

Query:   239 WDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQP 298
              +   +E+ L          + VL EKSL++  +   + MH LL +LG +IV+ QS  +P
Sbjct:   497 KEIKILEEHLAKKFVEVRQRLNVLAEKSLISFSNWGTIEMHKLLAKLGGEIVRNQSIHEP 556

Query:   299 GKRSRIWRDEEVRHMLT-ENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKI 357
             G+R  ++  EE+  +L  +  GS+ V GI    Y +E E       + F  M+NL+ L+ 
Sbjct:   557 GQRQFLFDGEEICDVLNGDAAGSKSVIGIDFH-YIIEEE--FDMNERVFEGMSNLQFLRF 613

Query:   358 D----NLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIK 413
             D     LQL  GL YLS KL+LLDW  +P+  LPS   +E  +E N+ +S+++ LW  +K
Sbjct:   614 DCDHDTLQLSRGLSYLSRKLQLLDWIYFPMTCLPSTVNVEFLIELNLTHSKLDMLWEGVK 673

Query:   414 YLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHS-KLVILNLKD 472
              L+ L+ M LS+S NL + PD +   NL +LIL  C+ L ++ PS + ++  L  L+L  
Sbjct:   674 PLHNLRQMDLSYSVNLKELPDLSTAINLRKLILSNCSSLIKL-PSCIGNAINLEDLDLNG 732

Query:   473 CTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDR-TTIEELPLSIQ 531
             C+SL  LP      +L+ L+L  C  L +       ++N L EL L   +++  LP SI 
Sbjct:   733 CSSLVELPSFGDAINLQKLLLRYCSNLVELPSSIGNAIN-LRELDLYYCSSLIRLPSSIG 791

Query:   532 HLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDG 591
             +   L++L+L  C NL  L  ++     L+ L L  C+KL + P S+G+  +L  L LD 
Sbjct:   792 NAINLLILDLNGCSNLLELPSSIGNAINLQKLDLRRCAKLLELPSSIGNAINLQNLLLDD 851

Query:   592 -TSIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRSLKTLNLSGCSKLQNVPETLG 650
              +S+ E+PSSI                    P  I  L+ L+ L L GCSKL+++P  + 
Sbjct:   852 CSSLLELPSSIGNATNLVYMNLSNCSNLVELPLSIGNLQKLQELILKGCSKLEDLPININ 911

Query:   651 QVESLEELDISGTA-IRRPPSSIFVMNNLKTLSFSGC---NGPPSSTSWHWHFPFNLMGQ 706
              +ESL+ L ++  + ++R P    +  N++ L   G      P S  SW       LM  
Sbjct:   912 -LESLDILVLNDCSMLKRFPE---ISTNVRALYLCGTAIEEVPLSIRSWP-RLDELLMSY 966

Query:   707 RSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLS-QNNFVTLPAS 765
               +   +  P +  L  ++ LDLS   + E  +P  I  +  L+ L L      V+LP  
Sbjct:   967 --FDNLVEFPHV--LDIITNLDLSGKEIQE--VPPLIKRISRLQTLILKGYRKVVSLPQI 1020

Query:   766 INSLFNLGQLDLEDCKRLQSM 786
              +SL     +D EDC+ L+ +
Sbjct:  1021 PDSL---KWIDAEDCESLERL 1038

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2163426 TAO1 "target of AVRB operation1" [Arabidopsis thaliana (taxid:3702)]

 Score = 938 (335.3 bits), Expect = 3.0e-94, P = 3.0e-94
 Identities = 237/711 (33%), Positives = 383/711 (53%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGXXXXXXXXXXXXXXXX 60
             M+GIWG  G+GKTT++RV Y+ + H+F     + N++ +  +                  
Sbjct:   236 MIGIWGPAGIGKTTISRVLYNKLFHQFQLGAIIDNIKVRYPRPCHDEYSAKLQLQKELLS 295

Query:    61 XXXXXWN-VDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRD 119
                   + V   + +   RL+ KKVLLV+DDV  + QL  +A+   WFG GS+I++ T+D
Sbjct:   296 QMINQKDMVVPHLGVAQERLKDKKVLLVLDDVDGLVQLDAMAKDVQWFGLGSRIIVVTQD 355

Query:   120 KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
              +LL AH +  ++IY ++  ++DEAL++F M AF  + P   + ++++ V   AG LPL 
Sbjct:   356 LKLLKAHGI--KYIYKVDFPTSDEALEIFCMYAFGEKSPKVGFEQIARTVTTLAGKLPLG 413

Query:   180 LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
             L V+GS+L   S   W  ++ RL+    + I ++L+ S++ L + EK +FL + CFF+  
Sbjct:   414 LRVMGSYLRRMSKQEWAKSIPRLRTSLDDDIESVLKFSYNSLAEQEKDLFLHITCFFRRE 473

Query:   240 DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
               + +E  L         G+++L +KSLL+++ GN + MH+LL +LG  IV++QS  +PG
Sbjct:   474 RIETLEVFLAKKSVDMRQGLQILADKSLLSLNLGN-IEMHNLLVQLGLDIVRKQSIHKPG 532

Query:   300 KRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKI-- 357
             KR  +   E++  +LT++TG+  + GI ++   +  EG ++   +AF +M NL+ L+   
Sbjct:   533 KRQFLVDTEDICEVLTDDTGTRTLIGIDLELSGVI-EGVINISERAFERMCNLQFLRFHH 591

Query:   358 -------DNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN 410
                    D L LP+GL ++S KLRLL W RYPL  LP  F  E  V+ NM  S +E+LW+
Sbjct:   592 PYGDRCHDILYLPQGLSHISRKLRLLHWERYPLTCLPPKFNPEFLVKINMRDSMLEKLWD 651

Query:   411 EIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNL 470
               + +  LK M LS   NL + PDF+   NL+EL L  C  L E+  S+   + L+ L+L
Sbjct:   652 GNEPIRNLKWMDLSFCVNLKELPDFSTATNLQELRLINCLSLVELPSSIGNATNLLELDL 711

Query:   471 KDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDR-TTIEELPL 528
              DC+SL  LP  I ++ +LK L L+ C  L K    F G++  L EL L   +++ E+P 
Sbjct:   712 IDCSSLVKLPSSIGNLTNLKKLFLNRCSSLVKLPSSF-GNVTSLKELNLSGCSSLLEIPS 770

Query:   529 SIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELF 588
             SI ++  L  +    C +L  L  ++     LK L L  CS L + P S+ ++  L +L 
Sbjct:   771 SIGNIVNLKKVYADGCSSLVQLPSSIGNNTNLKELHLLNCSSLMECPSSMLNLTRLEDLN 830

Query:   589 LDGT-SIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRSLKTLNLSGCSKLQNVPE 647
             L G  S+ ++PS I                    P  I    +L TL L GCS L  +P 
Sbjct:   831 LSGCLSLVKLPS-IGNVINLQSLYLSDCSSLMELPFTIENATNLDTLYLDGCSNLLELPS 889

Query:   648 TLGQVESLEELDISG-TAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHW 697
             ++  + +L+ L ++G ++++  PS +    NL++LS   C+      S  W
Sbjct:   890 SIWNITNLQSLYLNGCSSLKELPSLVENAINLQSLSLMKCSSLVELPSSIW 940

GO:0005622 "intracellular" evidence=IEA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0042742 "defense response to bacterium" evidence=IMP

TAIR|locus:2155189 AT5G49140 [Arabidopsis thaliana (taxid:3702)]

 Score = 930 (332.4 bits), Expect = 2.1e-93, P = 2.1e-93
 Identities = 226/620 (36%), Positives = 347/620 (55%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGXXXXXXXXXXXXXXXX 60
             M+GIWG  G+GKTT+ARV +   S +F  + F+ NVR   ++                  
Sbjct:   209 MVGIWGPAGIGKTTIARVLHSRFSGDFRFTVFMENVRGNYQRIVDSGGEYNLQARLQKEF 268

Query:    61 XXXXXWNVDDGINI---IGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITT 117
                     D  IN    I  RL+++KVL+V+ DV  VEQL+ LA +  WFGPGS+I++TT
Sbjct:   269 LPIIFNQKDRKINHLWKIEERLKKQKVLIVLGDVDKVEQLEALANETRWFGPGSRIIVTT 328

Query:   118 RDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLP 177
             +DKQ+LV HE++  HIY +++     AL++  + AFK      +++++   V + +G LP
Sbjct:   329 KDKQILVGHEIN--HIYEVKLPCRKTALEILCLYAFKQNVAPDDFMDVVVEVAELSGHLP 386

Query:   178 LALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFK 237
             L L VLGS + G+S D W+  L RL      ++  IL+IS+D L   +K +FL +AC F 
Sbjct:   387 LGLRVLGSHMRGKSKDRWKLELGRLTTSLDEKVEKILKISYDDLHIRDKALFLHIACMFN 446

Query:   238 SWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQ 297
               + D V+++L        +G+++L++KSL+ ++D   + MH LL ++G ++V + S E 
Sbjct:   447 GENIDLVKQMLVNSDLDVSLGLQLLLDKSLIQINDDREIVMHSLLLKMGKEVVCQHSSE- 505

Query:   298 PGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLL-- 355
             PGKR  ++  +E  ++L+ NTGSE V GI +D   ++N+ ++S   + F  M NL+ L  
Sbjct:   506 PGKRQFLFNTKETCNILSNNTGSEAVLGISLDTSEIQNDVFMSE--RVFEDMRNLKFLRF 563

Query:   356 ---KIDN-----LQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEE 407
                KID      L LP GL YL   +RLL W  YP+K +PS F+ E  VE  M +S++ +
Sbjct:   564 YNKKIDENPSLKLHLPRGLNYLP-AVRLLHWDSYPMKYIPSQFRPECLVELRMMHSKVVK 622

Query:   408 LWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLL-LHSKLV 466
             LW   + L  LK + LS S NL++ PD +   +LE L LEGC  L E+  S+L LH +L 
Sbjct:   623 LWEGTQTLAYLKTIDLSFSNNLVEVPDLSKAISLETLCLEGCQSLAELPSSVLNLH-RLK 681

Query:   467 ILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEEL 526
              L L  C  L  +P  I++ SL+ L + GCLKL      F     ++  +F+  T IEE+
Sbjct:   682 WLRLTMCEKLEVIPLHINLASLEVLDMEGCLKLKS----FPDISKNIERIFMKNTGIEEI 737

Query:   527 PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLME 586
             P SI   + L  L++  C NLK  SH  + +  +  LT SG  +L   P+ +  +  L  
Sbjct:   738 PPSISQWSRLESLDISGCLNLKIFSHVPKSVVYIY-LTDSGIERL---PDCIKDLTWLHY 793

Query:   587 LFLDG----TSIAEVPSSIE 602
             L++D      S+ E+PSSI+
Sbjct:   794 LYVDNCRKLVSLPELPSSIK 813

GO:0005622 "intracellular" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2174900 AT5G40060 [Arabidopsis thaliana (taxid:3702)]

 Score = 832 (297.9 bits), Expect = 2.7e-92, Sum P(2) = 2.7e-92
 Identities = 238/725 (32%), Positives = 371/725 (51%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVR-EKS----EKEGXXXXXXXXXXX 55
             M+GIWG  G+GKTT+AR  +  +S  F  S ++      KS     +             
Sbjct:    14 MVGIWGPSGIGKTTIARALFARLSRHFHCSVYIDRAFVSKSMASYSRANPDDYNMKLHLQ 73

Query:    56 XXXXXXXXXXWNVD-DGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIV 114
                        N+  D +  +G RL+ +KVLL IDD+     L  LA +  WFG GS+I+
Sbjct:    74 ETFLSTILGKQNIKIDHLGALGERLKHQKVLLFIDDLDQQVVLNALAGQIQWFGSGSRII 133

Query:   115 ITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAG 174
             + T DK LL++H +  E+IY + + S + AL++    AF+   P   + +L+  V+++AG
Sbjct:   134 VVTNDKHLLISHGI--ENIYQVCLPSKELALEMLCRYAFRQNTPPDGFKKLAVEVVRHAG 191

Query:   175 GLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDL-EKKIFLDVA 233
              LPL L VLGS+L GR+   W   L RL+K    +I   L++ +DGL +  ++ IF  +A
Sbjct:   192 ILPLGLNVLGSYLRGRNKRYWMDMLPRLRKGLDGKIQKALRVGYDGLDNKKDEAIFRHIA 251

Query:   234 CFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQ 293
             C F     + +  +L     +  IG+E L++KSL+ V   N + MH LLQE+G +IV+ Q
Sbjct:   252 CLFNFEKVNDIRLLLADSDLNFNIGLENLVDKSLVNVRS-NIVEMHCLLQEMGREIVRAQ 310

Query:   294 SPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLR 353
             S E  G+R  +   E++  +L +N G++ + GI +D   +++E  L+   KAF  M NLR
Sbjct:   311 SNEA-GEREFLMDTEDICDVLDDNIGTKKMLGISLDVDEIDHE--LNVHEKAFQGMRNLR 367

Query:   354 LLKIDN----------LQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYS 403
              L I            L LPE  +YL  KL+LL W +YP++ LPS+F+ E  V+  M  S
Sbjct:   368 FLNIYTKALMSGQKIRLHLPENFDYLPPKLKLLCWDKYPMRCLPSSFRPENLVKLKMQES 427

Query:   404 RIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHS 463
              +E+LW  +  L  LK M L  S+NL + PD +   NL+ L L+ C+ L +I  S+   +
Sbjct:   428 ELEKLWEGVGSLTCLKDMDLEKSKNLKEIPDLSMATNLKTLNLKYCSSLVKISSSIQNLN 487

Query:   464 KLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTI 523
             KL  LN++ CT+L TLP  I++KSL  L L GC +L      F    N++S LFLD+T+I
Sbjct:   488 KLTKLNMEGCTNLETLPAGINLKSLHRLDLRGCSRLRM----FPDISNNISVLFLDKTSI 543

Query:   524 EELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCL---------KN---LTLSGCSKL 571
             EE P ++ HL  L  L+++   N + L   ++ L CL         KN   L LS    L
Sbjct:   544 EEFPSNL-HLKKLFDLSMQQM-NSEKLWEGVQPLTCLMKMLSPPLAKNFNTLYLSDIPSL 601

Query:   572 KKFPESLGSMKDLMELFLDGT-SIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRS 630
              + P  + ++K LMEL +    ++  +P+                      P  I+   S
Sbjct:   602 VELPCGIQNLKKLMELSIRRCKNLESLPTGANFKYLDYLDLSGCSKLRSF-PD-ISSTIS 659

Query:   631 LKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPP 690
                LN +G  ++ +  E   ++  L  L+ +   ++    +IF + +L    FS C G  
Sbjct:   660 CLCLNRTGIEEVPSWIENFVRLTYLTMLECN--KLKYVSLNIFKLKHLDKADFSDC-GTL 716

Query:   691 SSTSW 695
             +  SW
Sbjct:   717 TEVSW 721

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005737 "cytoplasm" evidence=ISM

GO:0006952 "defense response" evidence=IEA

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2129670 AT4G14370 [Arabidopsis thaliana (taxid:3702)]

 Score = 791 (283.5 bits), Expect = 3.4e-92, Sum P(2) = 3.4e-92
 Identities = 217/656 (33%), Positives = 334/656 (50%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGXXXXXXXXXXXXXXXX 60
             ++GI G  G+GKTT+AR  Y L+   F  S F+ N+   S+  G                
Sbjct:   168 IVGICGPAGIGKTTIARALYSLLLSSFQLSCFVENL-SGSDNRGLDEYGFKLRLQEQLLS 226

Query:    61 XXXXXWNVDD-GINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRD 119
                    +    +  I  RL  +KVL+V+DDV D++QL+ LA +  WFGPGS+I++TT D
Sbjct:   227 KILNQNGMRIYHLGAIQERLCDQKVLIVLDDVNDLKQLEALANETSWFGPGSRIIVTTED 286

Query:   120 KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
             K LL  H +++   Y++   S +EAL++F + AF+   P   + +L+KRV      LPL 
Sbjct:   287 KGLLEQHGINKT--YHVGFPSIEEALEIFCIYAFRKSSPPDGFKKLTKRVTNVFDNLPLG 344

Query:   180 LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
             L V+GS L G+  D W + L RL+      I   L++ +D LQ+ E+ +FL +A FF ++
Sbjct:   345 LRVMGSSLRGKGEDEWEALLDRLETSLDRNIEGALRVGYDSLQEEEQALFLHIAVFF-NY 403

Query:   240 DRD-HVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQP 298
             ++D HV  +L         G+++L  KSL+      ++ MH LLQ++G + +QRQ   +P
Sbjct:   404 NKDEHVIAMLADSNLDVKQGLKILTNKSLVYRSTSGKIVMHKLLQQVGRKAIQRQ---EP 460

Query:   299 GKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKI- 357
              KR  +    E+ ++L  +T +    GI +D   + N+  +S GA  F +M NLR L + 
Sbjct:   461 WKRHILIDAHEICYVLENDTDTRAALGISLDTSGI-NKVIISEGA--FKRMRNLRFLSVY 517

Query:   358 -------DNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN 410
                    D + +PE LE+  + LRLL W  YP  +LP+ F  E  VE +M  S++E+LW 
Sbjct:   518 NTRYVKNDQVDIPEDLEFPPH-LRLLRWEAYPSNALPTTFHPEYLVELDMKESQLEKLWQ 576

Query:   411 EIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNL 470
               + L  LK M L+ S +L + PD +   NLE L L  C  L EI  S     KL  L +
Sbjct:   577 GTQPLTNLKKMDLTRSSHLKELPDLSNATNLERLELSYCKSLVEIPSSFSELRKLETLVI 636

Query:   471 KDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI 530
              +CT L  +P  I++ SL    + GC +L K    F G    +S L +D T +EELP SI
Sbjct:   637 HNCTKLEVVPTLINLASLDFFNMHGCFQLKK----FPGISTHISRLVIDDTLVEELPTSI 692

Query:   531 QHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD 590
                T L  L +    N K+L++    L  L +L    C+ ++K P+ +  + +L  L + 
Sbjct:   693 ILCTRLRTLMISGSGNFKTLTYLPLSLTYL-DLR---CTGIEKIPDWIKDLHELSFLHIG 748

Query:   591 GT----SIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRSLKTLNLSGCSKL 642
             G     S+ ++P SI                     +C++ L S   LN + C KL
Sbjct:   749 GCRNLKSLPQLPLSIRWLNACDCESLESV-------ACVSSLNSFVDLNFTNCFKL 797

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

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

GO:0007165 "signal transduction" evidence=IEA;ISS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

GO:0035091 "phosphatidylinositol binding" evidence=ISS

TAIR|locus:2129236 SNC1 "SUPPRESSOR OF NPR1-1, CONSTITUTIVE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 902 (322.6 bits), Expect = 4.3e-92, Sum P(2) = 4.3e-92
 Identities = 290/958 (30%), Positives = 458/958 (47%)

Query:     1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGXXXXXXXXXXXXXXXX 60
             M+GIWG  G+GK+T+ R  Y  +S +F    F+     KS   G                
Sbjct:   207 MVGIWGQSGIGKSTIGRALYSKLSIQFHHRAFITY---KSTS-GSDVSGMKLRWEKELLS 262

Query:    61 XXXXXWNVD-DGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRD 119
                   ++  +   ++  RL+Q+KVL+++DDV  +E L+ L  K +WFG GS+I++ T+D
Sbjct:   263 EILGQKDIKIEHFGVVEQRLKQQKVLILLDDVDSLEFLKTLVGKAEWFGSGSRIIVITQD 322

Query:   120 KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA 179
             +QLL AHE+D   IY +E  S   AL +    AF    P  ++ EL+  V K AG LPL 
Sbjct:   323 RQLLKAHEIDL--IYEVEFPSEHLALTMLCRSAFGKDSPPDDFKELAFEVAKLAGNLPLG 380

Query:   180 LTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFLDVACFFKSW 239
             L+VLGS L GR+ + W   + RL+      I+  L++S+D L   ++ +FL +AC F  +
Sbjct:   381 LSVLGSSLKGRTKEWWMEMMPRLRNGLNGDIMKTLRVSYDRLHQKDQDMFLYIACLFNGF 440

Query:   240 DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPG 299
             +  +V+ +L+       +G  +L EKSL+ +     + MH+LL++LG +I + +S   PG
Sbjct:   441 EVSYVKDLLKDN-----VGFTMLTEKSLIRITPDGYIEMHNLLEKLGREIDRAKSKGNPG 495

Query:   300 KRSRIWRDEEVRHMLTENTGSEVVEGIIV--DAYFLENEGYLSAGAKAFSQMTNLRLLKI 357
             KR  +   E++  ++TE TG+E + GI +  + YF      L    ++F  M NL+ L+I
Sbjct:   496 KRRFLTNFEDIHEVVTEKTGTETLLGIRLPFEEYFSTRP--LLIDKESFKGMRNLQYLEI 553

Query:   358 DNL-QLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLN 416
                  LP+ L YL  KLRLLDW   PLKSLPS F+ E  V   M YS++E+LW     L 
Sbjct:   554 GYYGDLPQSLVYLPLKLRLLDWDDCPLKSLPSTFKAEYLVNLIMKYSKLEKLWEGTLPLG 613

Query:   417 MLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSL 476
              LK M L +S NL + PD +   NLEEL L GC  L  +  S+   +KL+ L++ DC  L
Sbjct:   614 SLKEMNLRYSNNLKEIPDLSLAINLEELDLVGCKSLVTLPSSIQNATKLIYLDMSDCKKL 673

Query:   477 TTLPGKISMKSLKTLVLSGC--------LKLTKKCLEFAGSMNDLSELFLDRTTIEELPL 528
              + P  ++++SL+ L L+GC        +K+    ++F    N++  +  D    + LP 
Sbjct:   674 ESFPTDLNLESLEYLNLTGCPNLRNFPAIKMGCSDVDFPEGRNEI--VVEDCFWNKNLPA 731

Query:   529 SIQHLT-------------GLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP 575
              + +L               L  LN++  K+ K L   ++ L  L+ + LS    L + P
Sbjct:   732 GLDYLDCLTRCMPCEFRPEQLAFLNVRGYKHEK-LWEGIQSLGSLEGMDLSESENLTEIP 790

Query:   576 ESLGSMKDLMELFLDGT-SIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRSLKTL 634
             + L     L  L L+   S+  +PS+I                    P+ +N L SL+TL
Sbjct:   791 D-LSKATKLESLILNNCKSLVTLPSTIGNLHRLVRLEMKECTGLEVLPTDVN-LSSLETL 848

Query:   635 NLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGP---PS 691
             +LSGCS L++ P     +  L    +  TAI   PS+I  ++ L  L    C G    P+
Sbjct:   849 DLSGCSSLRSFPLISTNIVWLY---LENTAIEEIPSTIGNLHRLVRLEMKKCTGLEVLPT 905

Query:   692 STSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQ 751
               +       +L G  S       P +S   S+  L L +  + E  IP D+    +LK 
Sbjct:   906 DVNLSSLETLDLSGCSSLR---SFPLIS--ESIKWLYLENTAIEE--IP-DLSKATNLKN 957

Query:   752 LNLSQ-NNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQV---NGCASLVT- 806
             L L+   + VTLP +I +L  L   ++++C  L+ +P +  NL  + +   +GC+SL T 
Sbjct:   958 LKLNNCKSLVTLPTTIGNLQKLVSFEMKECTGLEVLP-IDVNLSSLMILDLSGCSSLRTF 1016

Query:   807 --LSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIP 864
               +S  +     + T+I  I S    GN       L   +K          ++     + 
Sbjct:  1017 PLISTNIVWLYLENTAIEEIPST--IGN-------LHRLVKLEMKECTGLEVLPTDVNLS 1067

Query:   865 KWFMYQNEGSS------ITVTRPSYLYNMNKVVGYAICCVFHVPKRSTRSHLIQMLPC 916
                +    G S      +  TR   LY  N  +    CC+    +  TR  ++ M  C
Sbjct:  1068 SLMILDLSGCSSLRTFPLISTRIECLYLQNTAIEEVPCCI----EDFTRLTVLMMYCC 1121

GO:0000166 "nucleotide binding" evidence=IEA;ISS

GO:0005737 "cytoplasm" evidence=ISM;IDA

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

GO:0007165 "signal transduction" evidence=IEA

GO:0009816 "defense response to bacterium, incompatible interaction" evidence=NAS

GO:0017111 "nucleoside-triphosphatase activity" evidence=IEA

GO:0043531 "ADP binding" evidence=IEA

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

GO:0009733 "response to auxin stimulus" evidence=IGI

GO:0005515 "protein binding" evidence=IPI

GO:0005634 "nucleus" evidence=IDA

GO:0042742 "defense response to bacterium" evidence=IGI;IMP

GO:0043231 "intracellular membrane-bounded organelle" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

---

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

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	1046
PLN03210	1153	PLN03210, PLN03210, Resistant to P	1e-125
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	8e-38
PLN03210	1153	PLN03210, PLN03210, Resistant to P	6e-26
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	4e-12
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	1e-08
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-07
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-06
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	1e-05
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	8e-05
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	4e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	5e-04
pfam05729	165	pfam05729, NACHT, NACHT domain	8e-04
PLN03150	623	PLN03150, PLN03150, hypothetical protein; Provisio	0.001
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	0.002
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	0.002

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

 Score =  410 bits (1055), Expect = e-125
 Identities = 282/808 (34%), Positives = 416/808 (51%), Gaps = 86/808 (10%)

Query: 1   MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFL--ANVREKSEKEGSVVS--------LQ 50
           M+GIWG  G+GKTT+AR  +  +S +F  S F+  A + +  E   S           LQ
Sbjct: 209 MVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQ 268

Query: 51  KQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPG 110
           +  LS++L   DI I      +  +  RL+ +KVL+ IDD+ D + L  LA +  WFG G
Sbjct: 269 RAFLSEILDKKDIKI----YHLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSG 324

Query: 111 SKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVL 170
           S+I++ T+DK  L AH +D  HIY + + SN+ AL++F   AFK   P   ++EL+  V 
Sbjct: 325 SRIIVITKDKHFLRAHGID--HIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVA 382

Query: 171 KYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDL-EKKIF 229
             AG LPL L VLGS+L GR  + W   L RL+     +I   L++S+DGL +  +K IF
Sbjct: 383 LRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIF 442

Query: 230 LDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQI 289
             +AC F     + ++ +L        IG++ L++KSL+ V + + + MH LLQE+G +I
Sbjct: 443 RHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVRE-DIVEMHSLLQEMGKEI 501

Query: 290 VQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQM 349
           V+ QS E PG+R  +   +++  +L +NTG++ V GI +D   ++    L     AF  M
Sbjct: 502 VRAQSNE-PGEREFLVDAKDICDVLEDNTGTKKVLGITLD---IDEIDELHIHENAFKGM 557

Query: 350 TNLRLLKIDN----------LQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFN 399
            NL  LK               LPEG +YL  KLRLL W +YPL+ +PSNF+ E  V+  
Sbjct: 558 RNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNFRPENLVKLQ 617

Query: 400 MCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSL 459
           M  S++E+LW+ +  L  L+ + L  S+NL + PD +   NLE L L  C+ L E+  S+
Sbjct: 618 MQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSI 677

Query: 460 LLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLD 519
              +KL  L++  C +L  LP  I++KSL  L LSGC +L      F     ++S L LD
Sbjct: 678 QYLNKLEDLDMSRCENLEILPTGINLKSLYRLNLSGCSRLKS----FPDISTNISWLDLD 733

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
            T IEE P ++  L  L  L L + K+ K       R+Q L  L       +     S  
Sbjct: 734 ETAIEEFPSNL-RLENLDELILCEMKSEK----LWERVQPLTPL-------MTMLSPS-- 779

Query: 580 SMKDLMELFL-DGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSG 638
               L  LFL D  S+ E+PSSI+ L  L+ L + NC NL  LP+ IN L SL++L+LSG
Sbjct: 780 ----LTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETLPTGIN-LESLESLDLSG 834

Query: 639 CSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWH 698
           CS+L+  P+      ++ +L++S T I   P  I   +NL  L  +GCN           
Sbjct: 835 CSRLRTFPDI---STNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCN----------- 880

Query: 699 FPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNN 758
              NL          +  ++S L  L  +D SDCG    A  N        +    + N 
Sbjct: 881 ---NLQR--------VSLNISKLKHLETVDFSDCGALTEASWNGS----PSEVAMATDNI 925

Query: 759 FVTLPASI-NSLFNLGQLDLEDCKRLQS 785
              LP+++  +  N   LD E   + QS
Sbjct: 926 HSKLPSTVCINFINCFNLDQEALLQQQS 953

syringae 6; Provisional. Length = 1153

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

 Score =  143 bits (362), Expect = 8e-38
 Identities = 82/275 (29%), Positives = 133/275 (48%), Gaps = 26/275 (9%)

Query: 1   MMGIWGMGGLGKTTLARVAY--DLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL 58
           ++GI GMGG+GKTTLA+  Y  D +   FD   ++   +  +E       LQK +L +L 
Sbjct: 21  VVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFR-----LQKDILQELG 75

Query: 59  KLADISIWNVDDGINI----IGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIV 114
                    V+   +     I   L +K+ LLV+DDV +      +         GS+++
Sbjct: 76  LDDSDW---VEKNESELAVKIKEALLRKRFLLVLDDVWEKNDWDKIGVPFPDGENGSRVI 132

Query: 115 ITTRDKQLLVAHEVDEEH-IYNLEVLSNDEALQLFSMKAFKTRQPMG-EYVELSKRVLKY 172
           +TTR +   VA  +      + +E L  +E+ +LFS K F+   P   E  E++K +++ 
Sbjct: 133 VTTRSES--VAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPELEEVAKEIVEK 190

Query: 173 AGGLPLALTVLGSFLNGRS-VDLWRSTLKRLKKEPPNR-----IINILQISFDGLQDLEK 226
             GLPLAL VLG  L  +S V  W   L++L  E   R     +++IL +S+D L    K
Sbjct: 191 CKGLPLALKVLGGLLAFKSTVQEWEHVLEQLNNELAGRDGLNEVLSILSLSYDNLPMHLK 250

Query: 227 KIFLDVACFFK--SWDRDHVEKILEGCGFSPVIGI 259
           + FL +A F +  +  ++ + K+    GF     I
Sbjct: 251 RCFLYLALFPEDYNIRKEQLIKLWIAEGFVIPSDI 285

Length = 285

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

 Score =  115 bits (289), Expect = 6e-26
 Identities = 115/412 (27%), Positives = 182/412 (44%), Gaps = 76/412 (18%)

Query: 516 LFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP 575
           L  D+  +  +P S      LV L ++  K L+ L   +  L  L+N+ L G   LK+ P
Sbjct: 594 LRWDKYPLRCMP-SNFRPENLVKLQMQGSK-LEKLWDGVHSLTGLRNIDLRGSKNLKEIP 651

Query: 576 ESLGSMKDLMELFL-DGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTL 634
           + L    +L  L L D +S+ E+PSSI+ L  L+ L+++ C NL  LP+ IN L+SL  L
Sbjct: 652 D-LSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTGIN-LKSLYRL 709

Query: 635 NLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTS 694
           NLSGCS+L++ P+      ++  LD+  TAI   PS++  + NL  L    C    S   
Sbjct: 710 NLSGCSRLKSFPDI---STNISWLDLDETAIEEFPSNLR-LENLDELIL--CE-MKSEKL 762

Query: 695 WHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC-GLGEGAIPNDIGNLCSLKQLN 753
           W    P         P+  ML       SL++L LSD   L E  +P+ I NL  L+ L 
Sbjct: 763 WERVQPLT-------PLMTMLS-----PSLTRLFLSDIPSLVE--LPSSIQNLHKLEHLE 808

Query: 754 LSQ-NNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCA------SLVT 806
           +    N  TLP  IN L +L  LDL  C RL++ P + +N+ ++ ++          +  
Sbjct: 809 IENCINLETLPTGIN-LESLESLDLSGCSRLRTFPDISTNISDLNLSRTGIEEVPWWIEK 867

Query: 807 LSGALKLCKSKCTSINCI------------------GSLKLAGNNGLAISMLREY----- 843
            S    L  + C ++  +                  G+L  A  NG    +         
Sbjct: 868 FSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCGALTEASWNGSPSEVAMATDNIHS 927

Query: 844 -----------------LKAVSDPMKEFN-IVVPGSEIPKWFMYQNEGSSIT 877
                             +A+      F  +++ G E+P +F ++  G+S+T
Sbjct: 928 KLPSTVCINFINCFNLDQEALLQQQSIFKQLILSGEEVPSYFTHRTTGASLT 979

syringae 6; Provisional. Length = 1153

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

 Score = 68.8 bits (168), Expect = 4e-12
 Identities = 76/286 (26%), Positives = 123/286 (43%), Gaps = 39/286 (13%)

Query: 513 LSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLK 572
           L EL L    IE LP  +++L                          LKNL LS    L 
Sbjct: 142 LKELDLSDNKIESLPSPLRNLPN------------------------LKNLDLSFN-DLS 176

Query: 573 KFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLK 632
             P+ L ++ +L  L L G  I+++P  IELL+ L+ L+L+N ++++ L S ++ L++L 
Sbjct: 177 DLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSN-NSIIELLSSLSNLKNLS 235

Query: 633 TLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSG--CNGPP 690
            L LS  +KL+++PE++G + +LE LD+S   I    SS+  + NL+ L  SG   +   
Sbjct: 236 GLELS-NNKLEDLPESIGNLSNLETLDLSNNQISS-ISSLGSLTNLRELDLSGNSLSNAL 293

Query: 691 SSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLK 750
              +        L+       AL L   S L + + L       GE + P  +  L SL 
Sbjct: 294 PLIALLLLLLELLLNLLLTLKALELKLNSILLNNNILS-----NGETSSPEALSILESLN 348

Query: 751 QLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQ--SMPQLPSNLY 794
            L    N      +++N         +     L    + QL   + 
Sbjct: 349 NLWTLDNALD--ESNLNRYIVKNPNAIGSLLDLVKKHVNQLLEKVN 392

Length = 394

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

 Score = 58.1 bits (140), Expect = 1e-08
 Identities = 70/274 (25%), Positives = 111/274 (40%), Gaps = 53/274 (19%)

Query: 518 LDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPES 577
           L   T+  LP S+  L  L LL+     +L      L  L  L +L L+  ++L+     
Sbjct: 54  LSSNTLLLLPSSLSRLLSLDLLSPSGISSLDGSE-NLLNLLPLPSLDLN-LNRLRSNISE 111

Query: 578 LGSMKDLMELFLDGTSIAEVPSSIELLT-GLQLLNLNNCSNLVRLPSCINGLRSLKTLNL 636
           L  + +L  L LD  +I ++P  I LL   L+ L+L++ + +  LPS +  L +LK L+L
Sbjct: 112 LLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSD-NKIESLPSPLRNLPNLKNLDL 170

Query: 637 SGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWH 696
           S    L ++P+ L  + +L  LD+SG  I   P  I +++ L+ L               
Sbjct: 171 SFN-DLSDLPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELD-------------- 215

Query: 697 WHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQ 756
                                LS    +              + + + NL +L  L LS 
Sbjct: 216 ---------------------LSNNSIIE-------------LLSSLSNLKNLSGLELSN 241

Query: 757 NNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLP 790
           N    LP SI +L NL  LDL + +         
Sbjct: 242 NKLEDLPESIGNLSNLETLDLSNNQISSISSLGS 275

Length = 394

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 54.1 bits (130), Expect = 4e-07
 Identities = 61/197 (30%), Positives = 92/197 (46%), Gaps = 25/197 (12%)

Query: 604 LTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI-SG 662
           +  L+ L+L+N      +P+ I    SLK L+L G   +  +P +L  + SLE L + S 
Sbjct: 139 IPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASN 198

Query: 663 TAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLH 722
             + + P  +  M +LK + + G N              NL G+  Y        + GL 
Sbjct: 199 QLVGQIPRELGQMKSLKWI-YLGYN--------------NLSGEIPY-------EIGGLT 236

Query: 723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDLEDCK 781
           SL+ LDL    L  G IP+ +GNL +L+ L L QN     +P SI SL  L  LDL D  
Sbjct: 237 SLNHLDLVYNNL-TGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNS 295

Query: 782 RLQSMPQLPSNLYEVQV 798
               +P+L   L  +++
Sbjct: 296 LSGEIPELVIQLQNLEI 312

Length = 968

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 51.4 bits (123), Expect = 2e-06
 Identities = 69/244 (28%), Positives = 115/244 (47%), Gaps = 28/244 (11%)

Query: 546 NLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA-EVPSSIELL 604
           ++ + S +LR L  L N   +G           GS+ +L  L L    ++ E+P+ I   
Sbjct: 112 DIFTTSSSLRYLN-LSNNNFTG-------SIPRGSIPNLETLDLSNNMLSGEIPNDIGSF 163

Query: 605 TGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEEL-----D 659
           + L++L+L     + ++P+ +  L SL+ L L+    +  +P  LGQ++SL+ +     +
Sbjct: 164 SSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNN 223

Query: 660 ISGTAIRRPPSSIFVMNNLKTLSFSGCNGP-PSS----TSWHWHFPFNLMGQRSYPVALM 714
           +SG  I      +  +N+L  L ++   GP PSS     +  + F +        P    
Sbjct: 224 LSG-EIPYEIGGLTSLNHLD-LVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIP---- 277

Query: 715 LPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLG 773
            PS+  L  L  LDLSD  L  G IP  +  L +L+ L+L  NNF   +P ++ SL  L 
Sbjct: 278 -PSIFSLQKLISLDLSDNSL-SGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQ 335

Query: 774 QLDL 777
            L L
Sbjct: 336 VLQL 339

Length = 968

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

 Score = 48.8 bits (116), Expect = 1e-05
 Identities = 59/225 (26%), Positives = 102/225 (45%), Gaps = 27/225 (12%)

Query: 573 KFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLK 632
             P SL  +  L  L   G S  +   ++  L  L  L+LN  + L    S +  L +L 
Sbjct: 61  LLPSSLSRLLSLDLLSPSGISSLDGSENLLNLLPLPSLDLNL-NRLRSNISELLELTNLT 119

Query: 633 TLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSS 692
           +L+L   +     P       +L+ELD+S   I   PS +  + NLK L  S  +     
Sbjct: 120 SLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFND----- 174

Query: 693 TSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQL 752
                             ++ +   LS L +L+ LDLS   + +  +P +I  L +L++L
Sbjct: 175 ------------------LSDLPKLLSNLSNLNNLDLSGNKISD--LPPEIELLSALEEL 214

Query: 753 NLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQ 797
           +LS N+ + L +S+++L NL  L+L    +L+ +P+   NL  ++
Sbjct: 215 DLSNNSIIELLSSLSNLKNLSGLEL-SNNKLEDLPESIGNLSNLE 258

Length = 394

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 46.3 bits (110), Expect = 8e-05
 Identities = 28/80 (35%), Positives = 44/80 (55%), Gaps = 1/80 (1%)

Query: 550 LSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSI-AEVPSSIELLTGLQ 608
           + + + +L+ L+++ LSG S     P SLGS+  L  L L   S    +P S+  LT L+
Sbjct: 434 IPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSLR 493

Query: 609 LLNLNNCSNLVRLPSCINGL 628
           +LNLN  S   R+P+ + G 
Sbjct: 494 ILNLNGNSLSGRVPAALGGR 513

Length = 623

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 44.0 bits (104), Expect = 4e-04
 Identities = 28/77 (36%), Positives = 46/77 (59%), Gaps = 1/77 (1%)

Query: 610 LNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRP- 668
           L L+N      +P+ I+ LR L+++NLSG S   N+P +LG + SLE LD+S  +     
Sbjct: 423 LGLDNQGLRGFIPNDISKLRHLQSINLSGNSIRGNIPPSLGSITSLEVLDLSYNSFNGSI 482

Query: 669 PSSIFVMNNLKTLSFSG 685
           P S+  + +L+ L+ +G
Sbjct: 483 PESLGQLTSLRILNLNG 499

Length = 623

>gnl|CDD|215061 PLN00113, PLN00113, leucine-rich repeat receptor-like protein kinase; Provisional

 Score = 44.1 bits (104), Expect = 5e-04
 Identities = 82/307 (26%), Positives = 130/307 (42%), Gaps = 60/307 (19%)

Query: 508 GSMNDLSELFLDRTTIE-ELPLSI---QHLTGLVLL-NLKDCKNLKSLS--HTLRRLQCL 560
           G  N+L+ L L    +  E+P  +    +L  L+L  N  + +  KSL    +LRR++ L
Sbjct: 353 GKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVR-L 411

Query: 561 KNLTLSGCSKLKKFPESLGSMKDLMELFLDGTS---IAEVPSSIELLTGLQLLNLNNCSN 617
           ++ + SG     + P      K  +  FLD ++      + S    +  LQ+L+L     
Sbjct: 412 QDNSFSG-----ELPS--EFTKLPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKF 464

Query: 618 LVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIR-RPPSSIFVMN 676
              LP    G + L+ L+LS       VP  LG +  L +L +S   +    P  +    
Sbjct: 465 FGGLPDSF-GSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKLSGEIPDELSSCK 523

Query: 677 NLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLP-SLSGLHSLSKLDLSDCGLG 735
            L +L  S                  L GQ        +P S S +  LS+LDLS     
Sbjct: 524 KLVSLDLSHNQ---------------LSGQ--------IPASFSEMPVLSQLDLS-QNQL 559

Query: 736 EGAIPNDIGNLCSLKQLNLSQNNFV-TLPAS-----INSLFNLGQLD---------LEDC 780
            G IP ++GN+ SL Q+N+S N+   +LP++     IN+    G +D         L  C
Sbjct: 560 SGEIPKNLGNVESLVQVNISHNHLHGSLPSTGAFLAINASAVAGNIDLCGGDTTSGLPPC 619

Query: 781 KRLQSMP 787
           KR++  P
Sbjct: 620 KRVRKTP 626

Length = 968

>gnl|CDD|218719 pfam05729, NACHT, NACHT domain

 Score = 41.1 bits (97), Expect = 8e-04
 Identities = 32/157 (20%), Positives = 57/157 (36%), Gaps = 25/157 (15%)

Query: 9   GLGKTTLA-RVAYDLISHEFDGST---FLANVREKSEKEGSVVSLQKQLLSDLLKLADIS 64
           G GKTTL  ++A      +        F    RE S    +  SL   L S   + A   
Sbjct: 10  GSGKTTLLQKIALLWAQGKLPQDFDFVFFLPCRELSRSGEA--SLADLLFSQWPEPAA-- 65

Query: 65  IWNVDDGINIIGSRLRQKKVLLVIDD----VADVEQLQNLARKRDWFG--------PGSK 112
              V +   +I      +++LL++D      +D+ QL                   PG+ 
Sbjct: 66  --PVSEVWAVILE--LPERLLLILDGLDELASDLGQLDGPCPVLTLLSSLLRKKLLPGAS 121

Query: 113 IVITTR-DKQLLVAHEVDEEHIYNLEVLSNDEALQLF 148
           +++T+R D    +   ++E     +   S ++  Q  
Sbjct: 122 LLLTSRPDALRDLRRGLEEPRYLEVLGFSEEDRKQYV 158

This NTPase domain is found in apoptosis proteins as well as those involved in MHC transcription activation. This family is closely related to pfam00931. Length = 165

>gnl|CDD|178695 PLN03150, PLN03150, hypothetical protein; Provisional

 Score = 42.5 bits (100), Expect = 0.001
 Identities = 23/67 (34%), Positives = 40/67 (59%), Gaps = 3/67 (4%)

Query: 715 LPS-LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNL 772
           +P+ +S L  L  ++LS   +  G IP  +G++ SL+ L+LS N+F  ++P S+  L +L
Sbjct: 434 IPNDISKLRHLQSINLSGNSI-RGNIPPSLGSITSLEVLDLSYNSFNGSIPESLGQLTSL 492

Query: 773 GQLDLED 779
             L+L  
Sbjct: 493 RILNLNG 499

Length = 623

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

 Score = 41.9 bits (98), Expect = 0.002
 Identities = 61/260 (23%), Positives = 104/260 (40%), Gaps = 15/260 (5%)

Query: 354 LLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIK 413
           + ++  L     L+  +N +  +     PL  L  +   E  +  N    +IE L + ++
Sbjct: 109 ISELLELTNLTSLDLDNNNITDIP----PLIGLLKSNLKELDLSDN----KIESLPSPLR 160

Query: 414 YLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDC 473
            L  LK + LS +         + + NL  L L G  ++ ++ P + L S L  L+L + 
Sbjct: 161 NLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDLSGN-KISDLPPEIELLSALEELDLSNN 219

Query: 474 TSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHL 533
           + +  L    ++K+L  L LS   KL +   E  G++++L  L L    I  +  S+  L
Sbjct: 220 SIIELLSSLSNLKNLSGLELS-NNKL-EDLPESIGNLSNLETLDLSNNQISSIS-SLGSL 276

Query: 534 TGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTS 593
           T L  L+L    N  S +  L  L  L    L       K  E L     L+   +    
Sbjct: 277 TNLRELDL--SGNSLSNALPLIALLLLLLELLLNLLLTLKALE-LKLNSILLNNNILSNG 333

Query: 594 IAEVPSSIELLTGLQLLNLN 613
               P ++ +L  L  L   
Sbjct: 334 ETSSPEALSILESLNNLWTL 353

Length = 394

>gnl|CDD|206026 pfam13855, LRR_8, Leucine rich repeat

 Score = 37.1 bits (87), Expect = 0.002
 Identities = 18/59 (30%), Positives = 32/59 (54%), Gaps = 3/59 (5%)

Query: 584 LMELFLDGTSIAEVP-SSIELLTGLQLLNLNNCSNLVRLPS-CINGLRSLKTLNLSGCS 640
           L  L L    +  +P  + + L  L++L+L+   NL  +     +GL SL++L+LSG +
Sbjct: 2   LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGN-NLTSISPEAFSGLPSLRSLDLSGNN 59

Length = 60

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1046
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.97
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.96
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.96
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.96
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.95
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.94
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.93
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.93
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.91
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.74
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.71
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.7
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.67
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.67
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.65
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.56
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.46
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	99.46
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.41
PRK04841	903	transcriptional regulator MalT; Provisional	99.34
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.26
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.06
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	99.03
PF05729	166	NACHT: NACHT domain	99.02
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.96
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.93
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.92
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.89
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.88
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.85
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.85
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.84
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.8
PRK00411	394	cdc6 cell division control protein 6; Reviewed	98.76
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.76
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.71
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.7
PRK06893	229	DNA replication initiation factor; Validated	98.66
COG3903	414	Predicted ATPase [General function prediction only	98.65
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.62
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.61
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.61
COG3899	849	Predicted ATPase [General function prediction only	98.57
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	98.51
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.51
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.5
PF13173	128	AAA_14: AAA domain	98.43
PRK08727	233	hypothetical protein; Validated	98.37
PRK09087	226	hypothetical protein; Validated	98.37
PRK15386	426	type III secretion protein GogB; Provisional	98.35
PLN03150	623	hypothetical protein; Provisional	98.33
KOG4341	483	consensus F-box protein containing LRR [General fu	98.33
PRK15386	426	type III secretion protein GogB; Provisional	98.33
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.32
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.3
PLN03150	623	hypothetical protein; Provisional	98.27
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.26
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	98.26
KOG4341	483	consensus F-box protein containing LRR [General fu	98.25
PRK14087	450	dnaA chromosomal replication initiation protein; P	98.24
PRK13342	413	recombination factor protein RarA; Reviewed	98.23
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.22
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	98.21
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.18
PRK05642	234	DNA replication initiation factor; Validated	98.18
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.17
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.15
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.15
PRK08084	235	DNA replication initiation factor; Provisional	98.14
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.13
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.09
PRK07471	365	DNA polymerase III subunit delta'; Validated	98.09
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.09
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.08
PRK12402	337	replication factor C small subunit 2; Reviewed	98.06
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.06
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	98.05
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.05
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.05
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.02
PRK09376	416	rho transcription termination factor Rho; Provisio	98.02
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.02
cd01128	249	rho_factor Transcription termination factor rho is	98.01
PRK08903	227	DnaA regulatory inactivator Hda; Validated	98.01
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.0
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.99
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	97.98
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	97.98
PRK05564	313	DNA polymerase III subunit delta'; Validated	97.97
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	97.96
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	97.96
PF14516	331	AAA_35: AAA-like domain	97.96
PLN03025	319	replication factor C subunit; Provisional	97.95
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.93
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.93
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.91
KOG2028	554	consensus ATPase related to the helicase subunit o	97.9
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.88
PRK04195	482	replication factor C large subunit; Provisional	97.88
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.88
PRK12422	445	chromosomal replication initiation protein; Provis	97.87
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.86
PRK00440	319	rfc replication factor C small subunit; Reviewed	97.85
PRK08116	268	hypothetical protein; Validated	97.85
PRK13341	725	recombination factor protein RarA/unknown domain f	97.84
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.83
PRK06620	214	hypothetical protein; Validated	97.8
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.8
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.79
PTZ00112	1164	origin recognition complex 1 protein; Provisional	97.79
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.78
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.78
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.77
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.77
TIGR00767	415	rho transcription termination factor Rho. Members	97.76
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.75
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.73
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.73
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	97.72
PF00004	132	AAA: ATPase family associated with various cellula	97.71
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.71
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.7
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.68
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.66
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.65
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.61
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.61
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.59
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	97.59
PRK12377	248	putative replication protein; Provisional	97.56
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.56
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.56
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.55
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.53
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.52
PRK08181	269	transposase; Validated	97.52
CHL00181	287	cbbX CbbX; Provisional	97.51
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.5
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.5
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.5
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.49
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.49
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.48
PHA02544	316	44 clamp loader, small subunit; Provisional	97.48
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.45
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.43
PRK06526	254	transposase; Provisional	97.43
CHL00176	638	ftsH cell division protein; Validated	97.43
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.37
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.37
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.36
PRK09183	259	transposase/IS protein; Provisional	97.35
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	97.35
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	97.34
PRK07952	244	DNA replication protein DnaC; Validated	97.33
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.32
PRK10536	262	hypothetical protein; Provisional	97.31
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.29
PRK08769	319	DNA polymerase III subunit delta'; Validated	97.26
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	97.25
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.25
smart00382	148	AAA ATPases associated with a variety of cellular	97.23
PRK06921	266	hypothetical protein; Provisional	97.22
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.2
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.19
PRK06090	319	DNA polymerase III subunit delta'; Validated	97.18
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.17
CHL00195	489	ycf46 Ycf46; Provisional	97.16
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.13
PRK06835	329	DNA replication protein DnaC; Validated	97.12
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.09
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	97.09
PRK06871	325	DNA polymerase III subunit delta'; Validated	97.08
PHA00729	226	NTP-binding motif containing protein	97.07
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.05
PRK08939	306	primosomal protein DnaI; Reviewed	97.05
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.04
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.03
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.03
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.01
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	97.0
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.0
PRK12608	380	transcription termination factor Rho; Provisional	96.99
COG1484	254	DnaC DNA replication protein [DNA replication, rec	96.94
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.9
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.89
PRK07993	334	DNA polymerase III subunit delta'; Validated	96.88
PRK06964	342	DNA polymerase III subunit delta'; Validated	96.86
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	96.85
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.83
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.83
PRK08699	325	DNA polymerase III subunit delta'; Validated	96.82
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	96.82
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.82
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	96.82
PTZ00202	550	tuzin; Provisional	96.81
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	96.79
PRK07399	314	DNA polymerase III subunit delta'; Validated	96.78
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.77
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.75
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	96.74
PRK04132	846	replication factor C small subunit; Provisional	96.74
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.71
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	96.7
KOG1947	482	consensus Leucine rich repeat proteins, some prote	96.66
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.66
PRK05541	176	adenylylsulfate kinase; Provisional	96.6
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.6
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.59
PRK04296	190	thymidine kinase; Provisional	96.55
PRK08118	167	topology modulation protein; Reviewed	96.54
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	96.54
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.54
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.47
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	96.47
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	96.47
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.44
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	96.41
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	96.4
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	96.39
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.38
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.36
CHL00095	821	clpC Clp protease ATP binding subunit	96.33
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.32
PRK10865	857	protein disaggregation chaperone; Provisional	96.24
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	96.21
PRK07261	171	topology modulation protein; Provisional	96.2
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	96.13
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	96.11
PRK10865	857	protein disaggregation chaperone; Provisional	96.11
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	96.1
PRK06762	166	hypothetical protein; Provisional	96.09
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	96.09
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	96.04
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	95.98
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.97
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.94
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	95.9
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.86
cd03115	173	SRP The signal recognition particle (SRP) mediates	95.85
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	95.85
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	95.82
TIGR02237	209	recomb_radB DNA repair and recombination protein R	95.82
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.81
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.77
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.77
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	95.75
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.75
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	95.63
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	95.61
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	95.6
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	95.6
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.58
PRK05800	170	cobU adenosylcobinamide kinase/adenosylcobinamide-	95.57
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	95.55
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	95.55
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.54
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	95.53
KOG0651	388	consensus 26S proteasome regulatory complex, ATPas	95.53
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	95.52
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	95.5
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	95.5
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	95.49
PTZ00088	229	adenylate kinase 1; Provisional	95.45
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.45
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.44
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.42
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	95.42
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	95.41
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	95.39
PF07726	131	AAA_3: ATPase family associated with various cellu	95.38
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	95.37
PRK00889	175	adenylylsulfate kinase; Provisional	95.36
PRK06067	234	flagellar accessory protein FlaH; Validated	95.35
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	95.29
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	95.29
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.28
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.28
PRK08356	195	hypothetical protein; Provisional	95.27
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	95.26
PTZ00301	210	uridine kinase; Provisional	95.26
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	95.26
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	95.23
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	95.23
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.22
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	95.22
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.21
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	95.21
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	95.2
PRK14974	336	cell division protein FtsY; Provisional	95.19
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	95.15
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.13
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.12
cd03216	163	ABC_Carb_Monos_I This family represents the domain	95.08
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	95.07
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	95.07
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.04
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.02
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	95.02
TIGR01420	343	pilT_fam pilus retraction protein PilT. This model	95.01
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	94.99
PF13604	196	AAA_30: AAA domain; PDB: 1W36_G 3K70_G 3UPU_B 3GPL	94.98
COG1875	436	NYN ribonuclease and ATPase of PhoH family domains	94.98
PRK05480	209	uridine/cytidine kinase; Provisional	94.97
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	94.96
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	94.95
PRK03839	180	putative kinase; Provisional	94.95
PRK04040	188	adenylate kinase; Provisional	94.94
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	94.93
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	94.93
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.93
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.92
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.92
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	94.89
PRK00625	173	shikimate kinase; Provisional	94.86
PRK08233	182	hypothetical protein; Provisional	94.85
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.84
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	94.84
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.83
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	94.82
PRK07667	193	uridine kinase; Provisional	94.82
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	94.8
PRK10867	433	signal recognition particle protein; Provisional	94.8
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	94.79
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	94.76
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	94.75
PRK06696	223	uridine kinase; Validated	94.73
PRK00279	215	adk adenylate kinase; Reviewed	94.7
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	94.69
KOG2123	388	consensus Uncharacterized conserved protein [Funct	94.68
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	94.66
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	94.6
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	94.59
PRK14529	223	adenylate kinase; Provisional	94.59
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	94.58
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.58
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	94.58
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	94.58
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	94.57
PRK12678	672	transcription termination factor Rho; Provisional	94.56
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.55
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	94.54
PRK14526	211	adenylate kinase; Provisional	94.52
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	94.52
TIGR01351	210	adk adenylate kinases. Adenylate kinase (EC 2.7.4.	94.51
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.51
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.48
PRK13947	171	shikimate kinase; Provisional	94.46
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	94.44
cd00983	325	recA RecA is a bacterial enzyme which has roles in	94.43
TIGR00959	428	ffh signal recognition particle protein. This mode	94.42
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	94.37
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	94.36
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	94.34
cd03246	173	ABCC_Protease_Secretion This family represents the	94.34
CHL00206	2281	ycf2 Ycf2; Provisional	94.32
PRK08533	230	flagellar accessory protein FlaH; Reviewed	94.3
KOG1969	877	consensus DNA replication checkpoint protein CHL12	94.29
TIGR02902	531	spore_lonB ATP-dependent protease LonB. Members of	94.28
PRK06547	172	hypothetical protein; Provisional	94.28
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	94.26
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	94.25
PRK00131	175	aroK shikimate kinase; Reviewed	94.24
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	94.24
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	94.24
PF03969	362	AFG1_ATPase: AFG1-like ATPase; InterPro: IPR005654	94.22
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	94.22
PRK09354	349	recA recombinase A; Provisional	94.2
CHL00095	821	clpC Clp protease ATP binding subunit	94.2
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	94.19
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	94.19
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.17
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	94.17
PRK14528	186	adenylate kinase; Provisional	94.17
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.15
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	94.15
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	94.15
TIGR02782	299	TrbB_P P-type conjugative transfer ATPase TrbB. Th	94.14
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.11
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	94.05
PRK14527	191	adenylate kinase; Provisional	94.04
PRK03846	198	adenylylsulfate kinase; Provisional	94.02
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	94.01
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	93.99
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.99
PRK07132	299	DNA polymerase III subunit delta'; Validated	93.97
COG0396	251	sufC Cysteine desulfurase activator ATPase [Posttr	93.96
COG0529	197	CysC Adenylylsulfate kinase and related kinases [I	93.96
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	93.94
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	93.93
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.93
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	93.92
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	93.91
COG5635	824	Predicted NTPase (NACHT family) [Signal transducti	93.91
PRK05922	434	type III secretion system ATPase; Validated	93.91
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	93.9
PRK06217	183	hypothetical protein; Validated	93.9
PRK11823	446	DNA repair protein RadA; Provisional	93.88
COG0488	530	Uup ATPase components of ABC transporters with dup	93.83
PRK10416	318	signal recognition particle-docking protein FtsY;	93.82
PRK08149	428	ATP synthase SpaL; Validated	93.82
PRK13949	169	shikimate kinase; Provisional	93.79
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	93.78
TIGR03575	340	selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryoti	93.78
PRK01184	184	hypothetical protein; Provisional	93.74
CHL00060	494	atpB ATP synthase CF1 beta subunit	93.72
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	93.71
CHL00059	485	atpA ATP synthase CF1 alpha subunit	93.69
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	93.68
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	93.67
COG0055	468	AtpD F0F1-type ATP synthase, beta subunit [Energy	93.66
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	93.66
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	93.65
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	93.62
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	93.61
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	93.61
PRK04328	249	hypothetical protein; Provisional	93.61
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	93.6
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.59
KOG1051	898	consensus Chaperone HSP104 and related ATP-depende	93.57
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	93.56
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	93.56
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	93.55
KOG1514	767	consensus Origin recognition complex, subunit 1, a	93.54
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	93.54
PRK14531	183	adenylate kinase; Provisional	93.5
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	93.5
PF00437	270	T2SE: Type II/IV secretion system protein; InterPr	93.49
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	93.48
PRK06936	439	type III secretion system ATPase; Provisional	93.47
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.46
COG4240	300	Predicted kinase [General function prediction only	93.44
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	93.43
PRK02496	184	adk adenylate kinase; Provisional	93.43
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	93.42
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	93.39
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	93.36
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.36
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	93.28
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	93.24
PRK05057	172	aroK shikimate kinase I; Reviewed	93.21
PRK13946	184	shikimate kinase; Provisional	93.2
PRK04301	317	radA DNA repair and recombination protein RadA; Va	93.19
TIGR03324	497	alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit a	93.18
PF00154	322	RecA: recA bacterial DNA recombination protein; In	93.17
TIGR01041	458	ATP_syn_B_arch ATP synthase archaeal, B subunit. A	93.17
PRK13948	182	shikimate kinase; Provisional	93.17
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	93.16
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	93.15
cd02029	277	PRK_like Phosphoribulokinase-like (PRK-like) is a	93.13
PRK13975	196	thymidylate kinase; Provisional	93.12
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	93.12
cd00046	144	DEXDc DEAD-like helicases superfamily. A diverse f	93.12
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	93.11
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	93.09
TIGR02788	308	VirB11 P-type DNA transfer ATPase VirB11. The VirB	93.08
PLN02459	261	probable adenylate kinase	93.07
TIGR02524	358	dot_icm_DotB Dot/Icm secretion system ATPase DotB.	93.06
PRK15453	290	phosphoribulokinase; Provisional	93.04
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	93.03
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	93.02
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	92.96
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	92.93
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	92.93
COG2401	593	ABC-type ATPase fused to a predicted acetyltransfe	92.93
KOG0736	953	consensus Peroxisome assembly factor 2 containing	92.92
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	92.91
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	92.9
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	92.89
TIGR02525	372	plasmid_TraJ plasmid transfer ATPase TraJ. Members	92.89
cd02034	116	CooC The accessory protein CooC, which contains a	92.85
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	92.85
COG3638	258	ABC-type phosphate/phosphonate transport system, A	92.84
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	92.82
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	92.82
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	92.82
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.81
PRK09281	502	F0F1 ATP synthase subunit alpha; Validated	92.78
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	92.78
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	92.76
PRK00300	205	gmk guanylate kinase; Provisional	92.71
PRK13768	253	GTPase; Provisional	92.7
PRK07594	433	type III secretion system ATPase SsaN; Validated	92.67
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	92.66
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	92.66
COG1157	441	FliI Flagellar biosynthesis/type III secretory pat	92.64
PRK05439	311	pantothenate kinase; Provisional	92.58
COG3910	233	Predicted ATPase [General function prediction only	92.55
TIGR00708	173	cobA cob(I)alamin adenosyltransferase. Alternate n	92.54
COG0488	530	Uup ATPase components of ABC transporters with dup	92.54
PRK14530	215	adenylate kinase; Provisional	92.49
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	92.49
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	92.47
PRK04182	180	cytidylate kinase; Provisional	92.44
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	92.44

>PLN03210 Resistant to P

Probab=100.00  E-value=4.1e-98  Score=953.53  Aligned_cols=852  Identities=33%  Similarity=0.548  Sum_probs=639.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEec--hhh---hc-----ccCCHHHHHHHHHHHHhhccCcccccccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANV--REK---SE-----KEGSVVSLQKQLLSDLLKLADISIWNVDD   70 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~---~~-----~~~~~~~l~~~ll~~l~~~~~~~~~~~~~   70 (1046)
                      |||||||||+||||||+++|+++..+|++.+|+.+.  +..   ..     .......++++++.++....+....    
T Consensus       209 vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~~~~~l~~~~l~~il~~~~~~~~----  284 (1153)
T PLN03210        209 MVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIY----  284 (1153)
T ss_pred             EEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcccccccccchhHHHHHHHHHHHhCCCCcccC----
Confidence            689999999999999999999999999999998642  111   00     0111345677777777654433211    


Q ss_pred             hHHHHHHhhcCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHH
Q 001603           71 GINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSM  150 (1046)
Q Consensus        71 ~~~~i~~~L~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~  150 (1046)
                      ....+++++++||+||||||||+.++|+.+.+...|+++||+||||||+++++..++++.  +|+|+.|+.+|||+||++
T Consensus       285 ~~~~~~~~L~~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~~~~~~--~~~v~~l~~~ea~~LF~~  362 (1153)
T PLN03210        285 HLGAMEERLKHRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDH--IYEVCLPSNELALEMFCR  362 (1153)
T ss_pred             CHHHHHHHHhCCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHhcCCCe--EEEecCCCHHHHHHHHHH
Confidence            135688999999999999999999999999998889999999999999999987776665  999999999999999999


Q ss_pred             hhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCCChHHHHHHHHHHhcCCCCchHHHHhhcccccch-hhhhhh
Q 001603          151 KAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQD-LEKKIF  229 (1046)
Q Consensus       151 ~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~~~~~~i~~~l~~sy~~L~~-~~k~~f  229 (1046)
                      +||++..+.+++++++++|+++|+|+||||+++|++|++++.++|+.++++++..++.+|..+|++||++|++ .+|.||
T Consensus       363 ~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~~~~I~~~L~~SYd~L~~~~~k~~F  442 (1153)
T PLN03210        363 SAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGLDGKIEKTLRVSYDGLNNKKDKAIF  442 (1153)
T ss_pred             HhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCccHHHHHHHHHhhhccCccchhhhh
Confidence            9999887778899999999999999999999999999999999999999999998889999999999999986 589999


Q ss_pred             ceeecccCCCCHHHHHHHHHhcCCCcccchhheeccceEEEecCCeEEehHHHHHHHHHHHhhcCCCCCCCccccccchh
Q 001603          230 LDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEE  309 (1046)
Q Consensus       230 l~~a~f~~~~~~~~l~~~~~~~g~~~~~~l~~L~~~~Li~~~~~~~~~mHdli~e~~~~i~~~e~~~~~~~~~rl~~~~~  309 (1046)
                      +++||||.+++.+.+..++..+++.+..+++.|++++||+.. .++++|||++|+||++++++++ .+|++++|+|.+++
T Consensus       443 l~ia~ff~~~~~~~v~~~l~~~~~~~~~~l~~L~~ksLi~~~-~~~~~MHdLl~~~~r~i~~~~~-~~~~~r~~l~~~~d  520 (1153)
T PLN03210        443 RHIACLFNGEKVNDIKLLLANSDLDVNIGLKNLVDKSLIHVR-EDIVEMHSLLQEMGKEIVRAQS-NEPGEREFLVDAKD  520 (1153)
T ss_pred             heehhhcCCCCHHHHHHHHHhcCCCchhChHHHHhcCCEEEc-CCeEEhhhHHHHHHHHHHHhhc-CCCCcceeEeCHHH
Confidence            999999999999999999999999999999999999999987 6789999999999999999998 78999999999999


Q ss_pred             HHHHhccCCCceeEEEEEeeccccccccccccChhhhcCCCCccEEEeCCc----------cCCCchhccccCccEEEec
Q 001603          310 VRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNL----------QLPEGLEYLSNKLRLLDWH  379 (1046)
Q Consensus       310 ~~~~l~~~~~~~~~~~i~l~~~~~~~~~~~~~~~~~f~~l~~Lr~L~l~~~----------~l~~~~~~l~~~Lr~L~l~  379 (1046)
                      +++++..+.|++.+++|+++.....   .+.+...+|.+|++|++|++..+          ++|+++..+|.+||+|+|.
T Consensus       521 i~~vl~~~~g~~~v~~i~l~~~~~~---~~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~  597 (1153)
T PLN03210        521 ICDVLEDNTGTKKVLGITLDIDEID---ELHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWD  597 (1153)
T ss_pred             HHHHHHhCcccceeeEEEeccCccc---eeeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEec
Confidence            9999999999999999999988876   78899999999999999999654          3688899999999999999


Q ss_pred             CCCCCCCCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCCCCCccccccc
Q 001603          380 RYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSL  459 (1046)
Q Consensus       380 ~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~l  459 (1046)
                      +|+++.+|..+.+.+|++|+|++|+++.+|.++..+++|+.|+|+++..+..+|+++.+++|++|+|++|..+..+|..+
T Consensus       598 ~~~l~~lP~~f~~~~L~~L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si  677 (1153)
T PLN03210        598 KYPLRCMPSNFRPENLVKLQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSI  677 (1153)
T ss_pred             CCCCCCCCCcCCccCCcEEECcCccccccccccccCCCCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhh
Confidence            99999999999999999999999999999999999999999999999888999999999999999999999999999999


Q ss_pred             cCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCccccccccccCCCCCeEecccccccccchhcccCCCCcEE
Q 001603          460 LLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLL  539 (1046)
Q Consensus       460 ~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L  539 (1046)
                      +++++|+.|++++|+.+..+|..+.+++|+.|++++|..+....    ....+|+.|++++|.++.+|..+ .+++|+.|
T Consensus       678 ~~L~~L~~L~L~~c~~L~~Lp~~i~l~sL~~L~Lsgc~~L~~~p----~~~~nL~~L~L~~n~i~~lP~~~-~l~~L~~L  752 (1153)
T PLN03210        678 QYLNKLEDLDMSRCENLEILPTGINLKSLYRLNLSGCSRLKSFP----DISTNISWLDLDETAIEEFPSNL-RLENLDEL  752 (1153)
T ss_pred             hccCCCCEEeCCCCCCcCccCCcCCCCCCCEEeCCCCCCccccc----cccCCcCeeecCCCccccccccc-cccccccc
Confidence            99999999999999999999998899999999999996654321    22467888888888888887654 46666666


Q ss_pred             ecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCcc-ccccCcccccCCCCCEEecCCCCCC
Q 001603          540 NLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTS-IAEVPSSIELLTGLQLLNLNNCSNL  618 (1046)
Q Consensus       540 ~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~-i~~lp~~l~~l~~L~~L~L~~~~~~  618 (1046)
                      .+.++..... +..+                ....+......++|+.|++++|. +.++|.+++++++|+.|++++|..+
T Consensus       753 ~l~~~~~~~l-~~~~----------------~~l~~~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L  815 (1153)
T PLN03210        753 ILCEMKSEKL-WERV----------------QPLTPLMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINL  815 (1153)
T ss_pred             cccccchhhc-cccc----------------cccchhhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCc
Confidence            6655432110 0000                00001111122345555555542 3345555555666666666666555


Q ss_pred             CccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcchhhccCCceeecCCCCCCCCCCCcccC
Q 001603          619 VRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWH  698 (1046)
Q Consensus       619 ~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~  698 (1046)
                      +.+|..+ ++++|++|++++|..+..+|..   .++|+.|+|++|.++.                               
T Consensus       816 ~~LP~~~-~L~sL~~L~Ls~c~~L~~~p~~---~~nL~~L~Ls~n~i~~-------------------------------  860 (1153)
T PLN03210        816 ETLPTGI-NLESLESLDLSGCSRLRTFPDI---STNISDLNLSRTGIEE-------------------------------  860 (1153)
T ss_pred             CeeCCCC-CccccCEEECCCCCcccccccc---ccccCEeECCCCCCcc-------------------------------
Confidence            5555544 4556666666665555444432   2334444444444444                               


Q ss_pred             cccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCC-CCcccchhhhhccccCeecc
Q 001603          699 FPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQN-NFVTLPASINSLFNLGQLDL  777 (1046)
Q Consensus       699 ~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n-~l~~lp~~i~~l~~L~~L~L  777 (1046)
                                                              +|..+..+++|+.|+|++| ++..+|..+..+++|+.|++
T Consensus       861 ----------------------------------------iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l  900 (1153)
T PLN03210        861 ----------------------------------------VPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDF  900 (1153)
T ss_pred             ----------------------------------------ChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeec
Confidence                                                    4444445555555555542 44455555555666666666


Q ss_pred             ccccccccCCC--CCCCCceeecCCCcccccccccccccccccccccccccccccCCchhHHHHHHHHHhhccCCCcceE
Q 001603          778 EDCKRLQSMPQ--LPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLREYLKAVSDPMKEFN  855 (1046)
Q Consensus       778 ~~c~~l~~ip~--lp~~L~~L~~~~C~~L~~l~~~~~~~~~~~~~~~c~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  855 (1046)
                      ++|+.++.++-  .|.++.  .+.++. ...++.     .....+.||..   +....         ++++.   .....
T Consensus       901 ~~C~~L~~~~l~~~~~~~~--~~~~n~-~~~~p~-----~~~l~f~nC~~---L~~~a---------~l~~~---~~~~~  957 (1153)
T PLN03210        901 SDCGALTEASWNGSPSEVA--MATDNI-HSKLPS-----TVCINFINCFN---LDQEA---------LLQQQ---SIFKQ  957 (1153)
T ss_pred             CCCcccccccCCCCchhhh--hhcccc-cccCCc-----hhccccccccC---CCchh---------hhccc---ccceE
Confidence            66665554432  221111  111110 011111     11234556632   11100         11111   12346


Q ss_pred             EEecCCCCCCCCCcCCCCceEE-EEcCCCCcCCCceeeEEEEEEEecCCCCcc--cccccceeeEEccCCceEEEeeccc
Q 001603          856 IVVPGSEIPKWFMYQNEGSSIT-VTRPSYLYNMNKVVGYAICCVFHVPKRSTR--SHLIQMLPCFFNGSGVHYFIRFKEK  932 (1046)
Q Consensus       856 ~~~pg~~iP~wf~~~~~g~si~-~~lp~~~~~~~~~~gfa~c~v~~~~~~~~~--~~~~~~~~c~~~~~~~~~~~~~~~~  932 (1046)
                      +++||.++|+||.||+.|++++ |.+|+.|. ...|.||++|+|+++......  ...++|. |++.+..+..+.     
T Consensus       958 ~~l~g~evp~~f~hr~~g~sl~~i~l~~~~~-~~~~~~f~~c~v~~~~~~~~~~~~~~~~~~-c~~~~~~~~~~~----- 1030 (1153)
T PLN03210        958 LILSGEEVPSYFTHRTTGASLTNIPLLHISP-CQPFFRFRACAVVDSESFFIISVSFDIQVC-CRFIDRLGNHFD----- 1030 (1153)
T ss_pred             EECCCccCchhccCCcccceeeeeccCCccc-CCCccceEEEEEEecCccccCCCceeEEEE-EEEECCCCCccc-----
Confidence            7899999999999999999998 99999998 778999999999977653222  3344554 778766444332     


Q ss_pred             CCCCCCCeEEEEEEechhhh----------cc--CCCCCcceEEEEEecCCC-CCeEEEEeeeEEEeeccccc
Q 001603          933 FGQGRSDHLWLLYLSREACR----------ES--NWHFESNHIELAFKPMSG-PGLKVTRCGIHPVYMDEVEQ  992 (1046)
Q Consensus       933 ~~~~~s~h~~~~~~~~~~~~----------~~--~~~~~~~~~~~~f~~~~~-~~~~vk~cGv~l~y~~~~~~  992 (1046)
                        ....+|+|+.|....++.          +.  .....++|+++.|+.... ..++||+||||++|+.+..+
T Consensus      1031 --~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~~cg~~~~~~~~~~~ 1101 (1153)
T PLN03210       1031 --SPYQPHVFSVTKKGSHLVIFDCCFPLNEDNAPLAELNYDHVDIQFRLTNKNSQLKLKGCGIRLSEDDSSLN 1101 (1153)
T ss_pred             --cCCCceeEeeeccccceEEecccccccccccchhccCCceeeEEEEEecCCCCeEEEeeeEEEeccCCCcc
Confidence              223445554444322111          00  112357888888865432 34799999999999776543

syringae 6; Provisional

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=6.3e-59  Score=560.07  Aligned_cols=432  Identities=28%  Similarity=0.360  Sum_probs=341.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH---HccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhcc-CcccccccchHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL---ISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLA-DISIWNVDDGINIIG   76 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~---~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~-~~~~~~~~~~~~~i~   76 (1046)
                      +|||+||||+||||||++++|+   +.++|+.++|+.    +++.+. ...++++++..++... .......++....|.
T Consensus       181 iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~----VSk~f~-~~~iq~~Il~~l~~~~~~~~~~~~~~~~~~i~  255 (889)
T KOG4658|consen  181 IVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVV----VSKEFT-TRKIQQTILERLGLLDEEWEDKEEDELASKLL  255 (889)
T ss_pred             EEEEECCCcccHHHHHHHHhcccchhcccCceEEEEE----Eccccc-HHhHHHHHHHHhccCCcccchhhHHHHHHHHH
Confidence            5899999999999999999983   678999999999    444555 8999999999988422 222223367888999


Q ss_pred             HhhcCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhhHHH-hcCCCcceEecCCCChHHHHHHHHHhhcCC
Q 001603           77 SRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVA-HEVDEEHIYNLEVLSNDEALQLFSMKAFKT  155 (1046)
Q Consensus        77 ~~L~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~-~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~  155 (1046)
                      +.|++||++||+||||+..+|+.+..+++....|++|++|||++.|+.. ++++.  .++++.|+.+|||+||++.||..
T Consensus       256 ~~L~~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~--~~~v~~L~~~eaW~LF~~~v~~~  333 (889)
T KOG4658|consen  256 NLLEGKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDY--PIEVECLTPEEAWDLFQKKVGPN  333 (889)
T ss_pred             HHhccCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCc--cccccccCccccHHHHHHhhccc
Confidence            9999999999999999999999999999988889999999999999877 55544  89999999999999999999987


Q ss_pred             C-CCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCC-ChHHHHHHHHHHhcC-----C--CCchHHHHhhcccccchhhh
Q 001603          156 R-QPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGR-SVDLWRSTLKRLKKE-----P--PNRIINILQISFDGLQDLEK  226 (1046)
Q Consensus       156 ~-~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~-~~~~w~~~l~~l~~~-----~--~~~i~~~l~~sy~~L~~~~k  226 (1046)
                      . ...+..+++|++++++|+|+|||++++|+.|+.+ ++.+|+.+.+.+...     +  .+.|..+++.|||.||++.|
T Consensus       334 ~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~~~~~i~~iLklSyd~L~~~lK  413 (889)
T KOG4658|consen  334 TLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSGMEESILPILKLSYDNLPEELK  413 (889)
T ss_pred             cccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCchhhhhHHhhhccHhhhhHHHH
Confidence            3 3446689999999999999999999999999986 788999999988654     1  35788999999999998899


Q ss_pred             hhhceeecccCCC--CHHHHHHHHHhcCCCcc------------cchhheeccceEEEecC----CeEEehHHHHHHHHH
Q 001603          227 KIFLDVACFFKSW--DRDHVEKILEGCGFSPV------------IGIEVLIEKSLLTVDDG----NRLWMHDLLQELGHQ  288 (1046)
Q Consensus       227 ~~fl~~a~f~~~~--~~~~l~~~~~~~g~~~~------------~~l~~L~~~~Li~~~~~----~~~~mHdli~e~~~~  288 (1046)
                      .||+|||.||+++  +.+.++..|+++||+..            ..++.|++++|+.....    ..+.|||++||||.+
T Consensus       414 ~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~~~~~~~~~~kmHDvvRe~al~  493 (889)
T KOG4658|consen  414 SCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEERDEGRKETVKMHDVVREMALW  493 (889)
T ss_pred             HHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhcccccceeEEEeeHHHHHHHHH
Confidence            9999999999998  78999999999998743            23899999999988642    689999999999999


Q ss_pred             HHhhcCCCCCCCccccccchhHHHHhccCCCceeEEEEEeeccccccccccccChhhhcCCCCccEEEeCCcc--C---C
Q 001603          289 IVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQ--L---P  363 (1046)
Q Consensus       289 i~~~e~~~~~~~~~rl~~~~~~~~~l~~~~~~~~~~~i~l~~~~~~~~~~~~~~~~~f~~l~~Lr~L~l~~~~--l---~  363 (1046)
                      ++.+.......   .+.....-.+...+......++++++.......   +   ... ...++|++|-+.+|.  +   +
T Consensus       494 ias~~~~~~e~---~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~---~---~~~-~~~~~L~tLll~~n~~~l~~is  563 (889)
T KOG4658|consen  494 IASDFGKQEEN---QIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEH---I---AGS-SENPKLRTLLLQRNSDWLLEIS  563 (889)
T ss_pred             Hhccccccccc---eEEECCcCccccccccchhheeEEEEeccchhh---c---cCC-CCCCccceEEEeecchhhhhcC
Confidence            99854432222   111110000001222333455555554443321   1   111 123368888887774  2   4


Q ss_pred             CchhccccCccEEEecCC-CCCCCCCCC-CCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCCCCCCCC-CCC
Q 001603          364 EGLEYLSNKLRLLDWHRY-PLKSLPSNF-QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTG-VPN  440 (1046)
Q Consensus       364 ~~~~~l~~~Lr~L~l~~~-~l~~lp~~~-~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~l~~-l~~  440 (1046)
                      ..++...+.||+||+++| .+..+|..+ .+-+|++|+++++.|+.+|.++.+|++|.+||+..+.....++.+.. +++
T Consensus       564 ~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t~I~~LP~~l~~Lk~L~~Lnl~~~~~l~~~~~i~~~L~~  643 (889)
T KOG4658|consen  564 GEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDTGISHLPSGLGNLKKLIYLNLEVTGRLESIPGILLELQS  643 (889)
T ss_pred             HHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCCCccccchHHHHHHhhheeccccccccccccchhhhccc
Confidence            444444455999999965 478899998 69999999999999999999999999999999998887777766544 899


Q ss_pred             CCEEEeeCC
Q 001603          441 LEELILEGC  449 (1046)
Q Consensus       441 L~~L~L~~~  449 (1046)
                      ||+|.+...
T Consensus       644 Lr~L~l~~s  652 (889)
T KOG4658|consen  644 LRVLRLPRS  652 (889)
T ss_pred             ccEEEeecc
Confidence            999988764

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

Probab=100.00  E-value=3.1e-40  Score=423.91  Aligned_cols=505  Identities=23%  Similarity=0.250  Sum_probs=360.0

Q ss_pred             CCCCCccccccchh-HHHHhccCC--CceeEEEEEeeccccccccccccChhhhcCCCCccEEEeCCccC----CCchhc
Q 001603          296 EQPGKRSRIWRDEE-VRHMLTENT--GSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQL----PEGLEY  368 (1046)
Q Consensus       296 ~~~~~~~rl~~~~~-~~~~l~~~~--~~~~~~~i~l~~~~~~~~~~~~~~~~~f~~l~~Lr~L~l~~~~l----~~~~~~  368 (1046)
                      ..|.+..+.|...+ .+.+ ....  ....+..+.+....     .....+..|..+++|++|++++|++    |..+..
T Consensus        42 ~~~~~~~~~w~~~~~~c~w-~gv~c~~~~~v~~L~L~~~~-----i~~~~~~~~~~l~~L~~L~Ls~n~~~~~ip~~~~~  115 (968)
T PLN00113         42 NDPLKYLSNWNSSADVCLW-QGITCNNSSRVVSIDLSGKN-----ISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFT  115 (968)
T ss_pred             CCCcccCCCCCCCCCCCcC-cceecCCCCcEEEEEecCCC-----ccccCChHHhCCCCCCEEECCCCccCCcCChHHhc
Confidence            44666667786433 2322 1111  12234444433322     2233467899999999999999875    445554


Q ss_pred             cccCccEEEecCCCCCCCCCCCCCCCceEEEcCCCCch-hhcccccCCCCCcEEEcCCCcCCCCCCC-CCCCCCCCEEEe
Q 001603          369 LSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIE-ELWNEIKYLNMLKVMKLSHSQNLIKTPD-FTGVPNLEELIL  446 (1046)
Q Consensus       369 l~~~Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~-~l~~~~~~l~~L~~L~Ls~~~~~~~~~~-l~~l~~L~~L~L  446 (1046)
                      ...+|++|++++|.+....+...+++|++|++++|.+. .+|..+..+++|++|+|++|.+....|. +.++++|++|+|
T Consensus       116 ~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L  195 (968)
T PLN00113        116 TSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTL  195 (968)
T ss_pred             cCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeec
Confidence            45679999999999864333446889999999999987 6788899999999999999987766654 888999999999


Q ss_pred             eCCCCCccccccccCCCCccEEeccCCCCCCccCCcC-CccccceeeccCCcCCccccccccccCCCCCeEeccccccc-
Q 001603          447 EGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIE-  524 (1046)
Q Consensus       447 ~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~-~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~-  524 (1046)
                      ++|.....+|..++.+++|+.|++++|.....+|..+ .+++|++|++++| .+....+..++++++|+.|++++|.+. 
T Consensus       196 ~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n-~l~~~~p~~l~~l~~L~~L~L~~n~l~~  274 (968)
T PLN00113        196 ASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYN-NLTGPIPSSLGNLKNLQYLFLYQNKLSG  274 (968)
T ss_pred             cCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCc-eeccccChhHhCCCCCCEEECcCCeeec
Confidence            9998888888899999999999999887777777665 4888999999887 445556667788888888888888876 


Q ss_pred             ccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCcccc-ccCccccc
Q 001603          525 ELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA-EVPSSIEL  603 (1046)
Q Consensus       525 ~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~-~lp~~l~~  603 (1046)
                      .+|..+.++++|+.|++++|...+.+|..+.++++|+.|++++|.+.+..|..+..+++|+.|++++|.+. .+|..++.
T Consensus       275 ~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~~~p~~l~~  354 (968)
T PLN00113        275 PIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSGEIPKNLGK  354 (968)
T ss_pred             cCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcCcCChHHhC
Confidence            57777888888888888888877778887888888888888888877777777778888888888887776 56777777


Q ss_pred             CCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCC-CcchhhccCCceee
Q 001603          604 LTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRP-PSSIFVMNNLKTLS  682 (1046)
Q Consensus       604 l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~-p~~~~~l~~L~~L~  682 (1046)
                      +++|+.|++++|.+.+.+|..+..+++|+.|++++|+..+.+|..+..+++|+.|++++|.+++. |..+..+++|+.|+
T Consensus       355 ~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~  434 (968)
T PLN00113        355 HNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTKLPLVYFLD  434 (968)
T ss_pred             CCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeECChhHhcCCCCCEEE
Confidence            77777777777777666666666666666666666655555555555555555555555555432 44444455555555


Q ss_pred             cCCC------------------------CCCCCCCCcccCccccccc-CcCCcccccCCCccCCCCCCEEecCCCCCCCC
Q 001603          683 FSGC------------------------NGPPSSTSWHWHFPFNLMG-QRSYPVALMLPSLSGLHSLSKLDLSDCGLGEG  737 (1046)
Q Consensus       683 L~~~------------------------~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~  737 (1046)
                      +++|                        ......+.......+.... ..+......+..+..+++|+.|+|++|.+ .+
T Consensus       435 Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~n~l~~~~~~~~~~l~~L~~L~Ls~N~l-~~  513 (968)
T PLN00113        435 ISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKLSENKL-SG  513 (968)
T ss_pred             CcCCcccCccChhhccCCCCcEEECcCceeeeecCcccccccceEEECcCCccCCccChhhhhhhccCEEECcCCcc-ee
Confidence            5444                        4332221111111111111 11222234556677888899999999988 57


Q ss_pred             CCcccccCcCCCCeeeCCCCCCc-ccchhhhhccccCeeccccccccccCCCC---CCCCceeecCCCccccccc
Q 001603          738 AIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDLEDCKRLQSMPQL---PSNLYEVQVNGCASLVTLS  808 (1046)
Q Consensus       738 ~ip~~l~~l~~L~~L~Ls~n~l~-~lp~~i~~l~~L~~L~L~~c~~l~~ip~l---p~~L~~L~~~~C~~L~~l~  808 (1046)
                      .+|..+..+++|+.|+|++|.++ .+|..+..+++|+.|+|++|+....+|..   ..+|+.|++++|.-...+|
T Consensus       514 ~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~l~ls~N~l~~~~p  588 (968)
T PLN00113        514 EIPDELSSCKKLVSLDLSHNQLSGQIPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHGSLP  588 (968)
T ss_pred             eCChHHcCccCCCEEECCCCcccccCChhHhCcccCCEEECCCCcccccCChhHhcCcccCEEeccCCcceeeCC
Confidence            78888889999999999999988 57888889999999999999888888863   3568888998887554444

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

Probab=100.00  E-value=5.4e-38  Score=403.18  Aligned_cols=463  Identities=21%  Similarity=0.226  Sum_probs=288.5

Q ss_pred             ccChhhhcCCCCccEEEeCCccCCCchh-ccccCccEEEecCCCCC-CCCCCC-CCCCceEEEcCCCCch-hhcccccCC
Q 001603          340 SAGAKAFSQMTNLRLLKIDNLQLPEGLE-YLSNKLRLLDWHRYPLK-SLPSNF-QLEKTVEFNMCYSRIE-ELWNEIKYL  415 (1046)
Q Consensus       340 ~~~~~~f~~l~~Lr~L~l~~~~l~~~~~-~l~~~Lr~L~l~~~~l~-~lp~~~-~l~~L~~L~L~~~~i~-~l~~~~~~l  415 (1046)
                      .++...|.++++||+|++++|.+...+. .....|++|++++|.+. .+|..+ .+.+|++|++++|.+. .+|..+.++
T Consensus       108 ~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l  187 (968)
T PLN00113        108 PIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNL  187 (968)
T ss_pred             cCChHHhccCCCCCEEECcCCccccccCccccCCCCEEECcCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhC
Confidence            3455566677777777777766532111 11234666666666664 455545 5666666666666654 455666666


Q ss_pred             CCCcEEEcCCCcCCCCCCC-CCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcC-Cccccceeec
Q 001603          416 NMLKVMKLSHSQNLIKTPD-FTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKI-SMKSLKTLVL  493 (1046)
Q Consensus       416 ~~L~~L~Ls~~~~~~~~~~-l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~-~l~~L~~L~L  493 (1046)
                      ++|++|+|++|.+....|. +.++++|++|+|++|.....+|..++.+++|++|++++|.....+|..+ .+++|++|++
T Consensus       188 ~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L  267 (968)
T PLN00113        188 TSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFL  267 (968)
T ss_pred             cCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEEC
Confidence            6666666666665544433 5566666666666666555566666666666666666655444455433 3555555555


Q ss_pred             cCCcCCccccccccccCCCCCeEeccccccc-ccchhcccCCCCcEEecCCCCCCc------------------------
Q 001603          494 SGCLKLTKKCLEFAGSMNDLSELFLDRTTIE-ELPLSIQHLTGLVLLNLKDCKNLK------------------------  548 (1046)
Q Consensus       494 ~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~-~lp~~~~~l~~L~~L~L~~~~~~~------------------------  548 (1046)
                      ++| .+....+..+.++++|+.|++++|.+. .+|..+.++++|+.|++++|...+                        
T Consensus       268 ~~n-~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n~~~~~~~~~~~~l~~L~~L~L~~n~l~~  346 (968)
T PLN00113        268 YQN-KLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSNNFTGKIPVALTSLPRLQVLQLWSNKFSG  346 (968)
T ss_pred             cCC-eeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCCccCCcCChhHhcCCCCCEEECcCCCCcC
Confidence            554 222233334444555555555555444 344444444455555554444444                        


Q ss_pred             cchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCcccc-ccCcccccCCCCCEEecCCCCCCCccCCccCC
Q 001603          549 SLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA-EVPSSIELLTGLQLLNLNNCSNLVRLPSCING  627 (1046)
Q Consensus       549 ~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~-~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~  627 (1046)
                      .+|..+..+++|+.|++++|.+.+.+|..+..+++|+.|++++|.+. .+|..+..+++|+.|++++|.+.+.+|..+..
T Consensus       347 ~~p~~l~~~~~L~~L~Ls~n~l~~~~p~~~~~~~~L~~L~l~~n~l~~~~p~~~~~~~~L~~L~L~~n~l~~~~p~~~~~  426 (968)
T PLN00113        347 EIPKNLGKHNNLTVLDLSTNNLTGEIPEGLCSSGNLFKLILFSNSLEGEIPKSLGACRSLRRVRLQDNSFSGELPSEFTK  426 (968)
T ss_pred             cCChHHhCCCCCcEEECCCCeeEeeCChhHhCcCCCCEEECcCCEecccCCHHHhCCCCCCEEECcCCEeeeECChhHhc
Confidence            44444444455555555554444444444444455555555555444 44555666677777777777777677777777


Q ss_pred             CCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcchhhccCCceeecCCCCCCCCCCCccc-Cccc-cccc
Q 001603          628 LRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHW-HFPF-NLMG  705 (1046)
Q Consensus       628 l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~-~~~~-~~~~  705 (1046)
                      +++|+.|++++|...+.++..+..+++|+.|++++|.+.+........++|+.|++++|......+.... ...+ .+..
T Consensus       427 l~~L~~L~Ls~N~l~~~~~~~~~~l~~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~n~l~~~~~~~~~~l~~L~~L~L  506 (968)
T PLN00113        427 LPLVYFLDISNNNLQGRINSRKWDMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLSELMQLKL  506 (968)
T ss_pred             CCCCCEEECcCCcccCccChhhccCCCCcEEECcCceeeeecCcccccccceEEECcCCccCCccChhhhhhhccCEEEC
Confidence            7777777777777777777766777777777777777765533344567899999999887654332211 1111 1222


Q ss_pred             CcCCcccccCCCccCCCCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCc-ccchhhhhccccCeeccccccccc
Q 001603          706 QRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDLEDCKRLQ  784 (1046)
Q Consensus       706 ~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~-~lp~~i~~l~~L~~L~L~~c~~l~  784 (1046)
                      ..+.....+|..+.++++|++|+|++|.+ .+.+|..+..+++|+.|+|++|+++ .+|..+..+++|+.|++++|+..+
T Consensus       507 s~N~l~~~~p~~~~~l~~L~~L~Ls~N~l-~~~~p~~~~~l~~L~~L~Ls~N~l~~~~p~~l~~l~~L~~l~ls~N~l~~  585 (968)
T PLN00113        507 SENKLSGEIPDELSSCKKLVSLDLSHNQL-SGQIPASFSEMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHG  585 (968)
T ss_pred             cCCcceeeCChHHcCccCCCEEECCCCcc-cccCChhHhCcccCCEEECCCCcccccCChhHhcCcccCEEeccCCccee
Confidence            22333445677889999999999999999 6889999999999999999999998 789999999999999999999999


Q ss_pred             cCCCC--CCCCceeecCCCccc
Q 001603          785 SMPQL--PSNLYEVQVNGCASL  804 (1046)
Q Consensus       785 ~ip~l--p~~L~~L~~~~C~~L  804 (1046)
                      .+|..  +.++....+.+.+.+
T Consensus       586 ~~p~~~~~~~~~~~~~~~n~~l  607 (968)
T PLN00113        586 SLPSTGAFLAINASAVAGNIDL  607 (968)
T ss_pred             eCCCcchhcccChhhhcCCccc
Confidence            89863  233333344454444

>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=5e-36  Score=329.26  Aligned_cols=250  Identities=32%  Similarity=0.522  Sum_probs=197.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH--HccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccC-c-ccccccchHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL--ISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLAD-I-SIWNVDDGINIIG   76 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~--~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~-~-~~~~~~~~~~~i~   76 (1046)
                      +|+|+||||+||||||++++++  ++++|+.++|+...+    ... ..+++++++.++..... . ...+..+....++
T Consensus        21 ~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~----~~~-~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~l~   95 (287)
T PF00931_consen   21 VVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSK----NPS-LEQLLEQILRQLGEPDSSISDPKDIEELQDQLR   95 (287)
T ss_dssp             EEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-----SC-CHHHHHHHHHHHTCC-STSSCCSSHHHHHHHHH
T ss_pred             EEEEEcCCcCCcceeeeeccccccccccccccccccccc----ccc-cccccccccccccccccccccccccccccccch
Confidence            5899999999999999999987  889999999987432    222 57888889988885422 1 2356667889999


Q ss_pred             HhhcCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCC
Q 001603           77 SRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        77 ~~L~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      +.|+++++||||||||+..+|+.+...++.+..|++||||||++.++...... ...|+|++|+.+||++||.+.++...
T Consensus        96 ~~L~~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~-~~~~~l~~L~~~ea~~L~~~~~~~~~  174 (287)
T PF00931_consen   96 ELLKDKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGT-DKVIELEPLSEEEALELFKKRAGRKE  174 (287)
T ss_dssp             HHHCCTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSC-EEEEECSS--HHHHHHHHHHHHTSHS
T ss_pred             hhhccccceeeeeeecccccccccccccccccccccccccccccccccccccc-cccccccccccccccccccccccccc
Confidence            99999999999999999999999888777777899999999999887655432 34899999999999999999998766


Q ss_pred             -CCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCC-ChHHHHHHHHHHhcCC------CCchHHHHhhcccccchhhhhh
Q 001603          157 -QPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGR-SVDLWRSTLKRLKKEP------PNRIINILQISFDGLQDLEKKI  228 (1046)
Q Consensus       157 -~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~-~~~~w~~~l~~l~~~~------~~~i~~~l~~sy~~L~~~~k~~  228 (1046)
                       ...+...+.+++|+++|+|+||||+++|++|+.+ +..+|+.+++++....      ...+..++..||+.|+++.|+|
T Consensus       175 ~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~~~~~~~~~~~~l~~s~~~L~~~~~~~  254 (287)
T PF00931_consen  175 SESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRESRDYDRSVFSALELSYDSLPDELRRC  254 (287)
T ss_dssp             ----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTCSSGSCHHHHHHHHHHHHSSHTCCHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccceechhcCCccHHHH
Confidence             2334445788999999999999999999999543 7789999998876543      4679999999999999999999


Q ss_pred             hceeecccCCC--CHHHHHHHHHhcCCCcc
Q 001603          229 FLDVACFFKSW--DRDHVEKILEGCGFSPV  256 (1046)
Q Consensus       229 fl~~a~f~~~~--~~~~l~~~~~~~g~~~~  256 (1046)
                      |++||+||.++  +.+.++++|.++|++..
T Consensus       255 f~~L~~f~~~~~i~~~~li~lW~~e~~i~~  284 (287)
T PF00931_consen  255 FLYLSIFPEGVPIPRERLIRLWVAEGFISS  284 (287)
T ss_dssp             HHHGGGSGTTS-EEHHHHHHHHTT-HHTC-
T ss_pred             HhhCcCCCCCceECHHHHHHHHHHCCCCcc
Confidence            99999999986  68999999999998764

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.

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

Probab=99.97  E-value=8.3e-31  Score=281.86  Aligned_cols=419  Identities=24%  Similarity=0.283  Sum_probs=257.2

Q ss_pred             CccEEEecCCCCCCCCCC----CCCCCceEEEcCCCCchhh-cccccCCCCCcEEEcCCCcCCCCCCCCCC-CCCCCEEE
Q 001603          372 KLRLLDWHRYPLKSLPSN----FQLEKTVEFNMCYSRIEEL-WNEIKYLNMLKVMKLSHSQNLIKTPDFTG-VPNLEELI  445 (1046)
Q Consensus       372 ~Lr~L~l~~~~l~~lp~~----~~l~~L~~L~L~~~~i~~l-~~~~~~l~~L~~L~Ls~~~~~~~~~~l~~-l~~L~~L~  445 (1046)
                      .-+.|+++++.+..+...    +-+..-+.||+++|++..+ +..|.++++|+.+++.+|. +..+|.++. ..+|+.|+
T Consensus        53 ~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~-Lt~IP~f~~~sghl~~L~  131 (873)
T KOG4194|consen   53 NTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNE-LTRIPRFGHESGHLEKLD  131 (873)
T ss_pred             CceeeecCccccccccccccCCcCccceeeeeccccccccCcHHHHhcCCcceeeeeccch-hhhcccccccccceeEEe
Confidence            445566666665554322    2344556677777777655 4456777777777777776 444555444 34577777


Q ss_pred             eeCCCCCccccccccCCCCccEEeccCCCCCCccCCcC--CccccceeeccCCcCCccccccccccCCCCCeEecccccc
Q 001603          446 LEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTI  523 (1046)
Q Consensus       446 L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~--~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i  523 (1046)
                      |.+|.+...-.+++..++.|+.|+|+. +.+..+|...  .-.++++|+|++| .++......+.++.+|..|.|++|.+
T Consensus       132 L~~N~I~sv~se~L~~l~alrslDLSr-N~is~i~~~sfp~~~ni~~L~La~N-~It~l~~~~F~~lnsL~tlkLsrNri  209 (873)
T KOG4194|consen  132 LRHNLISSVTSEELSALPALRSLDLSR-NLISEIPKPSFPAKVNIKKLNLASN-RITTLETGHFDSLNSLLTLKLSRNRI  209 (873)
T ss_pred             eeccccccccHHHHHhHhhhhhhhhhh-chhhcccCCCCCCCCCceEEeeccc-cccccccccccccchheeeecccCcc
Confidence            777666555556666677777777776 3444444321  1234555555544 33333334444444555555555555


Q ss_pred             cccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCccccccCcc-cc
Q 001603          524 EELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSS-IE  602 (1046)
Q Consensus       524 ~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~~lp~~-l~  602 (1046)
                      +.+|                       +..|.+|++|+.|+|..|.+...-.-.|.++++|+.|.|..|.|..+.++ |-
T Consensus       210 ttLp-----------------------~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy  266 (873)
T KOG4194|consen  210 TTLP-----------------------QRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFY  266 (873)
T ss_pred             cccC-----------------------HHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCccee
Confidence            5554                       44455555555555555444333233455566666666666666655543 45


Q ss_pred             cCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCC-CcchhhccCCcee
Q 001603          603 LLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRP-PSSIFVMNNLKTL  681 (1046)
Q Consensus       603 ~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~-p~~~~~l~~L~~L  681 (1046)
                      .+.++++|+|+.|.+...-..++.++++|+.|+++.|.+...-+.....+++|++|+|++|+++.+ +.++..+..|+.|
T Consensus       267 ~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~L  346 (873)
T KOG4194|consen  267 GLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEEL  346 (873)
T ss_pred             eecccceeecccchhhhhhcccccccchhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhh
Confidence            566666666666666655556667777777777777777666666677778888888888888887 4566778888888


Q ss_pred             ecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCc---ccccCcCCCCeeeCCCCC
Q 001603          682 SFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP---NDIGNLCSLKQLNLSQNN  758 (1046)
Q Consensus       682 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip---~~l~~l~~L~~L~Ls~n~  758 (1046)
                      +|+.|......                      -..|.++++|++|||++|.+. ..|.   ..+.++++|+.|.|.||+
T Consensus       347 nLs~Nsi~~l~----------------------e~af~~lssL~~LdLr~N~ls-~~IEDaa~~f~gl~~LrkL~l~gNq  403 (873)
T KOG4194|consen  347 NLSHNSIDHLA----------------------EGAFVGLSSLHKLDLRSNELS-WCIEDAAVAFNGLPSLRKLRLTGNQ  403 (873)
T ss_pred             cccccchHHHH----------------------hhHHHHhhhhhhhcCcCCeEE-EEEecchhhhccchhhhheeecCce
Confidence            88887643321                      234677888888999888773 3332   346779999999999999


Q ss_pred             Ccccch-hhhhccccCeeccccccccccCCCCCC--CCceeecCCCcccccccccccccccccccccccccccccCCchh
Q 001603          759 FVTLPA-SINSLFNLGQLDLEDCKRLQSMPQLPS--NLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGL  835 (1046)
Q Consensus       759 l~~lp~-~i~~l~~L~~L~L~~c~~l~~ip~lp~--~L~~L~~~~C~~L~~l~~~~~~~~~~~~~~~c~~~~~~~~~~~~  835 (1046)
                      +..+|. .+..++.|+.|+|.+|..-.--|.-+.  .|++|.+..        .        -..-.|            
T Consensus       404 lk~I~krAfsgl~~LE~LdL~~NaiaSIq~nAFe~m~Lk~Lv~nS--------s--------sflCDC------------  455 (873)
T KOG4194|consen  404 LKSIPKRAFSGLEALEHLDLGDNAIASIQPNAFEPMELKELVMNS--------S--------SFLCDC------------  455 (873)
T ss_pred             eeecchhhhccCcccceecCCCCcceeecccccccchhhhhhhcc--------c--------ceEEec------------
Confidence            998885 588899999999999865544443222  333332211        0        001123            


Q ss_pred             HHHHHHHHHhhccCCCcceEEEecCCCCCCCCCcCC
Q 001603          836 AISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQN  871 (1046)
Q Consensus       836 ~~~~l~~~~~~~~~~~~~~~~~~pg~~iP~wf~~~~  871 (1046)
                      .++|+..|+......    ..+..-...|+|...|+
T Consensus       456 ql~Wl~qWl~~~~lq----~sv~a~CayPe~Lad~~  487 (873)
T KOG4194|consen  456 QLKWLAQWLYRRKLQ----SSVIAKCAYPEPLADQS  487 (873)
T ss_pred             cHHHHHHHHHhcccc----cceeeeccCCcccccce
Confidence            246666666654221    33556678999998886

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

Probab=99.96  E-value=7e-31  Score=282.46  Aligned_cols=378  Identities=23%  Similarity=0.223  Sum_probs=259.2

Q ss_pred             cEEEeCCccCCCc-----hhccccCccEEEecCCCCCCCCCCC--CCCCceEEEcCCCCchhhcccccCCCCCcEEEcCC
Q 001603          353 RLLKIDNLQLPEG-----LEYLSNKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSH  425 (1046)
Q Consensus       353 r~L~l~~~~l~~~-----~~~l~~~Lr~L~l~~~~l~~lp~~~--~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~  425 (1046)
                      +.|+.+++.++.-     ...+|..-+.|++++|.+..+...+  ++++|+++++.+|.++.+|.......+|+.|+|.+
T Consensus        55 ~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~  134 (873)
T KOG4194|consen   55 RLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRH  134 (873)
T ss_pred             eeeecCccccccccccccCCcCccceeeeeccccccccCcHHHHhcCCcceeeeeccchhhhcccccccccceeEEeeec
Confidence            3455555555331     2334445566677777666665553  66777777777777777766666666677777776


Q ss_pred             CcCCCCCCC-CCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCC-cC-CccccceeeccCCcCCccc
Q 001603          426 SQNLIKTPD-FTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPG-KI-SMKSLKTLVLSGCLKLTKK  502 (1046)
Q Consensus       426 ~~~~~~~~~-l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~-~~-~l~~L~~L~L~~~~~l~~~  502 (1046)
                      |.+...... ++.++.|+.|||+.|.....--+++..-.++++|+|++|. ++.+.. .+ ++.+|-.|.|+.| .++..
T Consensus       135 N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~-It~l~~~~F~~lnsL~tlkLsrN-rittL  212 (873)
T KOG4194|consen  135 NLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNR-ITTLETGHFDSLNSLLTLKLSRN-RITTL  212 (873)
T ss_pred             cccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeecccc-ccccccccccccchheeeecccC-ccccc
Confidence            665444333 6666677777777654444333455555667777776643 333322 22 3567777777766 55556


Q ss_pred             cccccccCCCCCeEeccccccccc-chhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCC
Q 001603          503 CLEFAGSMNDLSELFLDRTTIEEL-PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSM  581 (1046)
Q Consensus       503 ~~~~~~~l~~L~~L~l~~~~i~~l-p~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l  581 (1046)
                      ....+.++++|+.|+|..|.|..+ -..+..+++|+.|.|..|...+.-...|..+.++++|+|..|+....-..++-++
T Consensus       213 p~r~Fk~L~~L~~LdLnrN~irive~ltFqgL~Sl~nlklqrN~I~kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgL  292 (873)
T KOG4194|consen  213 PQRSFKRLPKLESLDLNRNRIRIVEGLTFQGLPSLQNLKLQRNDISKLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGL  292 (873)
T ss_pred             CHHHhhhcchhhhhhccccceeeehhhhhcCchhhhhhhhhhcCcccccCcceeeecccceeecccchhhhhhccccccc
Confidence            667788899999999999999977 5568888999999999888877777788888888888888888777777788888


Q ss_pred             cccceeeccCcccccc-CcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeec
Q 001603          582 KDLMELFLDGTSIAEV-PSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI  660 (1046)
Q Consensus       582 ~~L~~L~L~~~~i~~l-p~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~L  660 (1046)
                      +.|+.|+++.|.|..+ +++.+..++|+.|+|++|.+....+..+..+..|++|+|++|+....-...|..+++|++|||
T Consensus       293 t~L~~L~lS~NaI~rih~d~WsftqkL~~LdLs~N~i~~l~~~sf~~L~~Le~LnLs~Nsi~~l~e~af~~lssL~~LdL  372 (873)
T KOG4194|consen  293 TSLEQLDLSYNAIQRIHIDSWSFTQKLKELDLSSNRITRLDEGSFRVLSQLEELNLSHNSIDHLAEGAFVGLSSLHKLDL  372 (873)
T ss_pred             chhhhhccchhhhheeecchhhhcccceeEeccccccccCChhHHHHHHHhhhhcccccchHHHHhhHHHHhhhhhhhcC
Confidence            8888888888888755 445677788888888888887777777777888888888887766555556677788888888


Q ss_pred             cCccccCC----CcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCC
Q 001603          661 SGTAIRRP----PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGE  736 (1046)
Q Consensus       661 s~n~l~~~----p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~  736 (1046)
                      +.|.+...    ...+..+++|+.|.+.||+.....                      ...|.++++|++|||.+|.| .
T Consensus       373 r~N~ls~~IEDaa~~f~gl~~LrkL~l~gNqlk~I~----------------------krAfsgl~~LE~LdL~~Nai-a  429 (873)
T KOG4194|consen  373 RSNELSWCIEDAAVAFNGLPSLRKLRLTGNQLKSIP----------------------KRAFSGLEALEHLDLGDNAI-A  429 (873)
T ss_pred             cCCeEEEEEecchhhhccchhhhheeecCceeeecc----------------------hhhhccCcccceecCCCCcc-e
Confidence            88876643    233445777777777777644321                      23466777777777777776 3


Q ss_pred             CCCcccccCcCCCCeeeCCC
Q 001603          737 GAIPNDIGNLCSLKQLNLSQ  756 (1046)
Q Consensus       737 ~~ip~~l~~l~~L~~L~Ls~  756 (1046)
                      ..-|++|..+ .|++|.+..
T Consensus       430 SIq~nAFe~m-~Lk~Lv~nS  448 (873)
T KOG4194|consen  430 SIQPNAFEPM-ELKELVMNS  448 (873)
T ss_pred             eecccccccc-hhhhhhhcc
Confidence            4556666666 677766654

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

Probab=99.96  E-value=3.7e-33  Score=287.65  Aligned_cols=257  Identities=25%  Similarity=0.295  Sum_probs=123.6

Q ss_pred             ccEEEeCCccC---CCchhccccCccEEEecCCCCCCCCCCC-CCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCc
Q 001603          352 LRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSNF-QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQ  427 (1046)
Q Consensus       352 Lr~L~l~~~~l---~~~~~~l~~~Lr~L~l~~~~l~~lp~~~-~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~  427 (1046)
                      |..|.+++|.+   .+.+..+.. |.+|+.+.|.+..+|+.+ .+..++.|+.++|++.++|+.+..+..|+.+++++|.
T Consensus        47 l~~lils~N~l~~l~~dl~nL~~-l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~  125 (565)
T KOG0472|consen   47 LQKLILSHNDLEVLREDLKNLAC-LTVLNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNE  125 (565)
T ss_pred             hhhhhhccCchhhccHhhhcccc-eeEEEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccc
Confidence            34444444432   233333333 555555555555555555 4555555555555555555555555555555555555


Q ss_pred             CCCCCCCCCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCcccccccc
Q 001603          428 NLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFA  507 (1046)
Q Consensus       428 ~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~  507 (1046)
                      ....+++++.+..|+.|+..+| ....+|.+++++.+|..|++.+++.....|..+.++.|+.|+...|  +-...+..+
T Consensus       126 ~~el~~~i~~~~~l~dl~~~~N-~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N--~L~tlP~~l  202 (565)
T KOG0472|consen  126 LKELPDSIGRLLDLEDLDATNN-QISSLPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSN--LLETLPPEL  202 (565)
T ss_pred             eeecCchHHHHhhhhhhhcccc-ccccCchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchh--hhhcCChhh
Confidence            5555555555555555554443 2334455555555555555555333333333334555555544332  223334444


Q ss_pred             ccCCCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCccccee
Q 001603          508 GSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMEL  587 (1046)
Q Consensus       508 ~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L  587 (1046)
                      +.+..|..|++..|.+..+| .|..+..|+.|.++.|...........++++|.+|++..|. +++.|..+..+.+|..|
T Consensus       203 g~l~~L~~LyL~~Nki~~lP-ef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNk-lke~Pde~clLrsL~rL  280 (565)
T KOG0472|consen  203 GGLESLELLYLRRNKIRFLP-EFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNK-LKEVPDEICLLRSLERL  280 (565)
T ss_pred             cchhhhHHHHhhhcccccCC-CCCccHHHHHHHhcccHHHhhHHHHhcccccceeeeccccc-cccCchHHHHhhhhhhh
Confidence            55555555555555555555 44444445555444433222211222244555555555432 33444444445555555


Q ss_pred             eccCccccccCcccccCCCCCEEecCCC
Q 001603          588 FLDGTSIAEVPSSIELLTGLQLLNLNNC  615 (1046)
Q Consensus       588 ~L~~~~i~~lp~~l~~l~~L~~L~L~~~  615 (1046)
                      ++++|.|+.+|.+++++ .|+.|.+.+|
T Consensus       281 DlSNN~is~Lp~sLgnl-hL~~L~leGN  307 (565)
T KOG0472|consen  281 DLSNNDISSLPYSLGNL-HLKFLALEGN  307 (565)
T ss_pred             cccCCccccCCcccccc-eeeehhhcCC
Confidence            55555555555555555 4555555444

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

Probab=99.96  E-value=1.9e-31  Score=287.78  Aligned_cols=364  Identities=25%  Similarity=0.382  Sum_probs=240.3

Q ss_pred             cEEEecCCCCC--CCCCCC-CCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCCC
Q 001603          374 RLLDWHRYPLK--SLPSNF-QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCT  450 (1046)
Q Consensus       374 r~L~l~~~~l~--~lp~~~-~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~~  450 (1046)
                      |-.|+++|.++  .+|.+. ++..++-|.|..+++..+|+.++.|.+|++|.+++|++......++.+|.|+.+++..|+
T Consensus        10 rGvDfsgNDFsg~~FP~~v~qMt~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~   89 (1255)
T KOG0444|consen   10 RGVDFSGNDFSGDRFPHDVEQMTQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNN   89 (1255)
T ss_pred             ecccccCCcCCCCcCchhHHHhhheeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccc
Confidence            33444444443  345444 555555666666666666666666666666666666655555556666666666666554


Q ss_pred             C-CccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCccccccccccCCCCCeEecccccccccchh
Q 001603          451 R-LHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLS  529 (1046)
Q Consensus       451 ~-~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~  529 (1046)
                      . ...+|..+..+..|..|+|+. +.++..|...                        ..-+++-.|+|++|+|..+|.+
T Consensus        90 LKnsGiP~diF~l~dLt~lDLSh-NqL~EvP~~L------------------------E~AKn~iVLNLS~N~IetIPn~  144 (1255)
T KOG0444|consen   90 LKNSGIPTDIFRLKDLTILDLSH-NQLREVPTNL------------------------EYAKNSIVLNLSYNNIETIPNS  144 (1255)
T ss_pred             cccCCCCchhcccccceeeecch-hhhhhcchhh------------------------hhhcCcEEEEcccCccccCCch
Confidence            2 344566666666666666666 3455555432                        1223333444444455555543


Q ss_pred             -cccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCcccc--ccCcccccCCC
Q 001603          530 -IQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA--EVPSSIELLTG  606 (1046)
Q Consensus       530 -~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~--~lp~~l~~l~~  606 (1046)
                       +.+++.|-.|+|++|. +..+|+.+..+..|++|.|++|++...-...+..|++|+.|.+++++-+  .+|.++..+.+
T Consensus       145 lfinLtDLLfLDLS~Nr-Le~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~N  223 (1255)
T KOG0444|consen  145 LFINLTDLLFLDLSNNR-LEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHN  223 (1255)
T ss_pred             HHHhhHhHhhhccccch-hhhcCHHHHHHhhhhhhhcCCChhhHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhh
Confidence             2345555555555432 3444445555555555555555544333333445566666666665433  56666666677


Q ss_pred             CCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcchhhccCCceeecCCC
Q 001603          607 LQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGC  686 (1046)
Q Consensus       607 L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~~~~l~~L~~L~L~~~  686 (1046)
                      |..++++.|. +..+|..+..+++|+.|+|++|.+.+ +....+...+|++|++|.|+++.+|+.+..++.|+.|.+.+|
T Consensus       224 L~dvDlS~N~-Lp~vPecly~l~~LrrLNLS~N~ite-L~~~~~~W~~lEtLNlSrNQLt~LP~avcKL~kL~kLy~n~N  301 (1255)
T KOG0444|consen  224 LRDVDLSENN-LPIVPECLYKLRNLRRLNLSGNKITE-LNMTEGEWENLETLNLSRNQLTVLPDAVCKLTKLTKLYANNN  301 (1255)
T ss_pred             hhhccccccC-CCcchHHHhhhhhhheeccCcCceee-eeccHHHHhhhhhhccccchhccchHHHhhhHHHHHHHhccC
Confidence            7777776543 44566666777777777777765443 333455567889999999999999999999999999988887


Q ss_pred             CCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCcccchhh
Q 001603          687 NGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI  766 (1046)
Q Consensus       687 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i  766 (1046)
                      +..-.                     .+|+.++.+..|+.+..++|.+  ...|..++.|..|+.|.|++|++.++|+.|
T Consensus       302 kL~Fe---------------------GiPSGIGKL~~Levf~aanN~L--ElVPEglcRC~kL~kL~L~~NrLiTLPeaI  358 (1255)
T KOG0444|consen  302 KLTFE---------------------GIPSGIGKLIQLEVFHAANNKL--ELVPEGLCRCVKLQKLKLDHNRLITLPEAI  358 (1255)
T ss_pred             ccccc---------------------CCccchhhhhhhHHHHhhcccc--ccCchhhhhhHHHHHhcccccceeechhhh
Confidence            75432                     2478889999999999999998  679999999999999999999999999999


Q ss_pred             hhccccCeeccccccccccCCC
Q 001603          767 NSLFNLGQLDLEDCKRLQSMPQ  788 (1046)
Q Consensus       767 ~~l~~L~~L~L~~c~~l~~ip~  788 (1046)
                      .-|+.|+.||+..|+.|.-.|.
T Consensus       359 HlL~~l~vLDlreNpnLVMPPK  380 (1255)
T KOG0444|consen  359 HLLPDLKVLDLRENPNLVMPPK  380 (1255)
T ss_pred             hhcCCcceeeccCCcCccCCCC
Confidence            9999999999999999986664

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

Probab=99.95  E-value=9.8e-32  Score=277.17  Aligned_cols=412  Identities=23%  Similarity=0.270  Sum_probs=332.9

Q ss_pred             ccChhhhcCCCCccEEEeCCccC---CCchhccccCccEEEecCCCCCCCCCCC-CCCCceEEEcCCCCchhhcccccCC
Q 001603          340 SAGAKAFSQMTNLRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSNF-QLEKTVEFNMCYSRIEELWNEIKYL  415 (1046)
Q Consensus       340 ~~~~~~f~~l~~Lr~L~l~~~~l---~~~~~~l~~~Lr~L~l~~~~l~~lp~~~-~l~~L~~L~L~~~~i~~l~~~~~~l  415 (1046)
                      ...+.+.+++..++.|+.+.|++   |+.+..++. |+.|+++.|.++.+|+++ .+..|..++..+|+|..+|+++..+
T Consensus        81 ~~lp~aig~l~~l~~l~vs~n~ls~lp~~i~s~~~-l~~l~~s~n~~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~  159 (565)
T KOG0472|consen   81 SQLPAAIGELEALKSLNVSHNKLSELPEQIGSLIS-LVKLDCSSNELKELPDSIGRLLDLEDLDATNNQISSLPEDMVNL  159 (565)
T ss_pred             hhCCHHHHHHHHHHHhhcccchHhhccHHHhhhhh-hhhhhccccceeecCchHHHHhhhhhhhccccccccCchHHHHH
Confidence            34456777788888888888864   677777766 899999999999999998 8889999999999999999999999


Q ss_pred             CCCcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccC
Q 001603          416 NMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSG  495 (1046)
Q Consensus       416 ~~L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~  495 (1046)
                      .+|..+++.+|+....+++.-++..|++|+... +.++.+|+.++.+.+|..|++.. +.+..+|..-++..|++|.+..
T Consensus       160 ~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~-N~L~tlP~~lg~l~~L~~LyL~~-Nki~~lPef~gcs~L~Elh~g~  237 (565)
T KOG0472|consen  160 SKLSKLDLEGNKLKALPENHIAMKRLKHLDCNS-NLLETLPPELGGLESLELLYLRR-NKIRFLPEFPGCSLLKELHVGE  237 (565)
T ss_pred             HHHHHhhccccchhhCCHHHHHHHHHHhcccch-hhhhcCChhhcchhhhHHHHhhh-cccccCCCCCccHHHHHHHhcc
Confidence            999999999999888888877799999999887 47788999999999999999999 6788899777899999999987


Q ss_pred             CcCCccccccccccCCCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcC-
Q 001603          496 CLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKF-  574 (1046)
Q Consensus       496 ~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~-  574 (1046)
                      | .+.....+....+++|..|++..|+++++|..+..+.+|++||+++|.. ..+|..++++ +|+.|.+.||++.+.- 
T Consensus       238 N-~i~~lpae~~~~L~~l~vLDLRdNklke~Pde~clLrsL~rLDlSNN~i-s~Lp~sLgnl-hL~~L~leGNPlrTiRr  314 (565)
T KOG0472|consen  238 N-QIEMLPAEHLKHLNSLLVLDLRDNKLKEVPDEICLLRSLERLDLSNNDI-SSLPYSLGNL-HLKFLALEGNPLRTIRR  314 (565)
T ss_pred             c-HHHhhHHHHhcccccceeeeccccccccCchHHHHhhhhhhhcccCCcc-ccCCcccccc-eeeehhhcCCchHHHHH
Confidence            6 5555666677799999999999999999999999999999999998764 5677789999 9999999988743210 


Q ss_pred             ------------------------------------C-c---cccCCcccceeeccCccccccCcccccCC---CCCEEe
Q 001603          575 ------------------------------------P-E---SLGSMKDLMELFLDGTSIAEVPSSIELLT---GLQLLN  611 (1046)
Q Consensus       575 ------------------------------------p-~---~~~~l~~L~~L~L~~~~i~~lp~~l~~l~---~L~~L~  611 (1046)
                                                          | .   ....+.+.+.|.+++-+++.+|.....-.   -....+
T Consensus       315 ~ii~~gT~~vLKyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~~qlt~VPdEVfea~~~~~Vt~Vn  394 (565)
T KOG0472|consen  315 EIISKGTQEVLKYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSDKQLTLVPDEVFEAAKSEIVTSVN  394 (565)
T ss_pred             HHHcccHHHHHHHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccccccccCCHHHHHHhhhcceEEEe
Confidence                                                0 0   01134577888888888888887643222   367778


Q ss_pred             cCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcchhhccCCceeecCCCCCCCC
Q 001603          612 LNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPS  691 (1046)
Q Consensus       612 L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~  691 (1046)
                      ++.|++ ..+|..+..+..+.+.-+..++..+.+|..+..+++|..|++++|.+.++|..++.+..|+.|+++.|.... 
T Consensus       395 fskNqL-~elPk~L~~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN~Ln~LP~e~~~lv~Lq~LnlS~NrFr~-  472 (565)
T KOG0472|consen  395 FSKNQL-CELPKRLVELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNNLLNDLPEEMGSLVRLQTLNLSFNRFRM-  472 (565)
T ss_pred             cccchH-hhhhhhhHHHHHHHHHHHhhcCccccchHHHHhhhcceeeecccchhhhcchhhhhhhhhheeccccccccc-
Confidence            888765 456777777777777777777888888888899999999999999999999999999999999999875322 


Q ss_pred             CCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCc-ccccCcCCCCeeeCCCCCCcccchhhhhcc
Q 001603          692 STSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP-NDIGNLCSLKQLNLSQNNFVTLPASINSLF  770 (1046)
Q Consensus       692 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip-~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~  770 (1046)
                                            +|..+-.+..|+.+-.++|++  +.++ +.+.+|.+|..|+|.+|.+..+|..+++++
T Consensus       473 ----------------------lP~~~y~lq~lEtllas~nqi--~~vd~~~l~nm~nL~tLDL~nNdlq~IPp~Lgnmt  528 (565)
T KOG0472|consen  473 ----------------------LPECLYELQTLETLLASNNQI--GSVDPSGLKNMRNLTTLDLQNNDLQQIPPILGNMT  528 (565)
T ss_pred             ----------------------chHHHhhHHHHHHHHhccccc--cccChHHhhhhhhcceeccCCCchhhCChhhcccc
Confidence                                  122233344566666677887  3344 448888899999999999989998899999


Q ss_pred             ccCeecccccccc
Q 001603          771 NLGQLDLEDCKRL  783 (1046)
Q Consensus       771 ~L~~L~L~~c~~l  783 (1046)
                      +|++|++++|+.-
T Consensus       529 nL~hLeL~gNpfr  541 (565)
T KOG0472|consen  529 NLRHLELDGNPFR  541 (565)
T ss_pred             ceeEEEecCCccC
Confidence            9999999988765

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

Probab=99.94  E-value=1.2e-28  Score=266.32  Aligned_cols=349  Identities=21%  Similarity=0.278  Sum_probs=272.4

Q ss_pred             CCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCccccccccccCCCCC
Q 001603          435 FTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLS  514 (1046)
Q Consensus       435 l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~  514 (1046)
                      +..++.++.|.|.. ..+..+|..++.+.+|++|.+.+|+..+..-....++.|+.+.+..|..-....+..+-.+..|+
T Consensus        28 v~qMt~~~WLkLnr-t~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt  106 (1255)
T KOG0444|consen   28 VEQMTQMTWLKLNR-TKLEQVPEELSRLQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLT  106 (1255)
T ss_pred             HHHhhheeEEEech-hhhhhChHHHHHHhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhcccccce
Confidence            44445555555544 34445555555555566665555433332222334666666666666555555666677888899


Q ss_pred             eEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCccc
Q 001603          515 ELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSI  594 (1046)
Q Consensus       515 ~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i  594 (1046)
                      .|+|++|.++++|..+..-+++-.|+|++|++.......+.++..|-.|+|++| .++.+|..+..+.+|+.|.|++|.+
T Consensus       107 ~lDLShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~N-rLe~LPPQ~RRL~~LqtL~Ls~NPL  185 (1255)
T KOG0444|consen  107 ILDLSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNN-RLEMLPPQIRRLSMLQTLKLSNNPL  185 (1255)
T ss_pred             eeecchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccc-hhhhcCHHHHHHhhhhhhhcCCChh
Confidence            999999999999999999999999999998877766677888999999999985 4677888888899999999999877


Q ss_pred             cccC-cccccCCCCCEEecCCCCCC-CccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcch
Q 001603          595 AEVP-SSIELLTGLQLLNLNNCSNL-VRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSI  672 (1046)
Q Consensus       595 ~~lp-~~l~~l~~L~~L~L~~~~~~-~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~~  672 (1046)
                      ..+. ..+..+++|+.|.+++.+.+ ..+|.++..+.+|..++++.|+ +..+|+.+..+++|+.|+||+|.|+++....
T Consensus       186 ~hfQLrQLPsmtsL~vLhms~TqRTl~N~Ptsld~l~NL~dvDlS~N~-Lp~vPecly~l~~LrrLNLS~N~iteL~~~~  264 (1255)
T KOG0444|consen  186 NHFQLRQLPSMTSLSVLHMSNTQRTLDNIPTSLDDLHNLRDVDLSENN-LPIVPECLYKLRNLRRLNLSGNKITELNMTE  264 (1255)
T ss_pred             hHHHHhcCccchhhhhhhcccccchhhcCCCchhhhhhhhhccccccC-CCcchHHHhhhhhhheeccCcCceeeeeccH
Confidence            5221 12334677888888876543 4588888889999999998754 5667888888999999999999999988888


Q ss_pred             hhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCcccccCcCCCCee
Q 001603          673 FVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQL  752 (1046)
Q Consensus       673 ~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L  752 (1046)
                      ....+|++|+++.|..+.                       +|..+..++.|+.|.+.+|.+.-..||+.++.+.+|+.+
T Consensus       265 ~~W~~lEtLNlSrNQLt~-----------------------LP~avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf  321 (1255)
T KOG0444|consen  265 GEWENLETLNLSRNQLTV-----------------------LPDAVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVF  321 (1255)
T ss_pred             HHHhhhhhhccccchhcc-----------------------chHHHhhhHHHHHHHhccCcccccCCccchhhhhhhHHH
Confidence            888899999999887554                       377889999999999999999888999999999999999


Q ss_pred             eCCCCCCcccchhhhhccccCeeccccccccccCCC---CCCCCceeecCCCccccccccc
Q 001603          753 NLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQ---LPSNLYEVQVNGCASLVTLSGA  810 (1046)
Q Consensus       753 ~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip~---lp~~L~~L~~~~C~~L~~l~~~  810 (1046)
                      ..++|++.-+|+++..+..|+.|.|++|+. -.+|+   +.+.|+.|+++..++|.--|.+
T Consensus       322 ~aanN~LElVPEglcRC~kL~kL~L~~NrL-iTLPeaIHlL~~l~vLDlreNpnLVMPPKP  381 (1255)
T KOG0444|consen  322 HAANNKLELVPEGLCRCVKLQKLKLDHNRL-ITLPEAIHLLPDLKVLDLRENPNLVMPPKP  381 (1255)
T ss_pred             HhhccccccCchhhhhhHHHHHhcccccce-eechhhhhhcCCcceeeccCCcCccCCCCc
Confidence            999999999999999999999999998864 45665   6788999999999999865544

>PLN03210 Resistant to P

Probab=99.93  E-value=1.4e-24  Score=278.45  Aligned_cols=326  Identities=30%  Similarity=0.425  Sum_probs=215.0

Q ss_pred             hcccccCCC-CCcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCcc
Q 001603          408 LWNEIKYLN-MLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMK  486 (1046)
Q Consensus       408 l~~~~~~l~-~L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~  486 (1046)
                      +|+++..++ +|+.|++.++.....+..+ ...+|++|++.+|. +..++..+..+++|+.|++++|..++.+|....++
T Consensus       580 lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f-~~~~L~~L~L~~s~-l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~ls~l~  657 (1153)
T PLN03210        580 LPEGFDYLPPKLRLLRWDKYPLRCMPSNF-RPENLVKLQMQGSK-LEKLWDGVHSLTGLRNIDLRGSKNLKEIPDLSMAT  657 (1153)
T ss_pred             cCcchhhcCcccEEEEecCCCCCCCCCcC-CccCCcEEECcCcc-ccccccccccCCCCCEEECCCCCCcCcCCccccCC
Confidence            444444443 3666666555543333333 34566666666543 34455555666666666666666566666544455


Q ss_pred             ccceeeccCCcCCccccccccccCCCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEecc
Q 001603          487 SLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLS  566 (1046)
Q Consensus       487 ~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~  566 (1046)
                      +|+.|++++|.                        .+..+|..+.++++|+.|++++|..++.+|..+ ++++|+.|+++
T Consensus       658 ~Le~L~L~~c~------------------------~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~i-~l~sL~~L~Ls  712 (1153)
T PLN03210        658 NLETLKLSDCS------------------------SLVELPSSIQYLNKLEDLDMSRCENLEILPTGI-NLKSLYRLNLS  712 (1153)
T ss_pred             cccEEEecCCC------------------------CccccchhhhccCCCCEEeCCCCCCcCccCCcC-CCCCCCEEeCC
Confidence            55555555542                        234567778888888888888888888888765 78899999999


Q ss_pred             CCCCCCcCCccccCCcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcC
Q 001603          567 GCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVP  646 (1046)
Q Consensus       567 ~~~~~~~~p~~~~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~  646 (1046)
                      +|..++.+|..   ..+|+.|++++|.+..+|..+ .+++|+.|.+.++.... ++..+..+                .+
T Consensus       713 gc~~L~~~p~~---~~nL~~L~L~~n~i~~lP~~~-~l~~L~~L~l~~~~~~~-l~~~~~~l----------------~~  771 (1153)
T PLN03210        713 GCSRLKSFPDI---STNISWLDLDETAIEEFPSNL-RLENLDELILCEMKSEK-LWERVQPL----------------TP  771 (1153)
T ss_pred             CCCCccccccc---cCCcCeeecCCCccccccccc-cccccccccccccchhh-cccccccc----------------ch
Confidence            99888777754   457888899999888888765 57788888877654321 11111000                00


Q ss_pred             cccCCCCCCceeeccCcc-ccCCCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCC
Q 001603          647 ETLGQVESLEELDISGTA-IRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLS  725 (1046)
Q Consensus       647 ~~~~~l~~L~~L~Ls~n~-l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~  725 (1046)
                      .....+++|+.|++++|. +..+|.++.++++|+.|++++|..+...                      |..+ ++++|+
T Consensus       772 ~~~~~~~sL~~L~Ls~n~~l~~lP~si~~L~~L~~L~Ls~C~~L~~L----------------------P~~~-~L~sL~  828 (1153)
T PLN03210        772 LMTMLSPSLTRLFLSDIPSLVELPSSIQNLHKLEHLEIENCINLETL----------------------PTGI-NLESLE  828 (1153)
T ss_pred             hhhhccccchheeCCCCCCccccChhhhCCCCCCEEECCCCCCcCee----------------------CCCC-CccccC
Confidence            111123455555555553 3345666666666666666666543321                      2222 567888


Q ss_pred             EEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCcccchhhhhccccCeeccccccccccCCCCC---CCCceeecCCCc
Q 001603          726 KLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLP---SNLYEVQVNGCA  802 (1046)
Q Consensus       726 ~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip~lp---~~L~~L~~~~C~  802 (1046)
                      .|++++|.. ...+|..   .++|+.|+|++|.++.+|.++..+++|+.|++++|+.++.+|..+   ++|+.+++.+|.
T Consensus       829 ~L~Ls~c~~-L~~~p~~---~~nL~~L~Ls~n~i~~iP~si~~l~~L~~L~L~~C~~L~~l~~~~~~L~~L~~L~l~~C~  904 (1153)
T PLN03210        829 SLDLSGCSR-LRTFPDI---STNISDLNLSRTGIEEVPWWIEKFSNLSFLDMNGCNNLQRVSLNISKLKHLETVDFSDCG  904 (1153)
T ss_pred             EEECCCCCc-ccccccc---ccccCEeECCCCCCccChHHHhcCCCCCEEECCCCCCcCccCcccccccCCCeeecCCCc
Confidence            888888765 2344432   468999999999999999999999999999999999999998754   467778999999


Q ss_pred             cccccc
Q 001603          803 SLVTLS  808 (1046)
Q Consensus       803 ~L~~l~  808 (1046)
                      +|+.++
T Consensus       905 ~L~~~~  910 (1153)
T PLN03210        905 ALTEAS  910 (1153)
T ss_pred             cccccc
Confidence            998765

syringae 6; Provisional

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

Probab=99.93  E-value=4.7e-28  Score=275.12  Aligned_cols=401  Identities=21%  Similarity=0.213  Sum_probs=213.1

Q ss_pred             ChhhhcCCCCccEEEeCCccC---CCchhccccCccEEEecCCCCCCCCCCC-CCCCceEEEcCCCCchhhcccccCCCC
Q 001603          342 GAKAFSQMTNLRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSNF-QLEKTVEFNMCYSRIEELWNEIKYLNM  417 (1046)
Q Consensus       342 ~~~~f~~l~~Lr~L~l~~~~l---~~~~~~l~~~Lr~L~l~~~~l~~lp~~~-~l~~L~~L~L~~~~i~~l~~~~~~l~~  417 (1046)
                      +-++.++.-+|+.|++++|++   |..+..+++ |+.|+++.|.+.++|... .+.+|++|+|.+|.+..+|.++..+++
T Consensus        37 pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~-L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lkn  115 (1081)
T KOG0618|consen   37 PLEFVEKRVKLKSLDLSNNQISSFPIQITLLSH-LRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKN  115 (1081)
T ss_pred             chHHhhheeeeEEeeccccccccCCchhhhHHH-HhhcccchhhHhhCchhhhhhhcchhheeccchhhcCchhHHhhhc
Confidence            344444555699999999986   556666655 999999999999999887 899999999999999999999999999


Q ss_pred             CcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCCCC-------------------CccccccccCCCCccEEeccCCCCCCc
Q 001603          418 LKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTR-------------------LHEIHPSLLLHSKLVILNLKDCTSLTT  478 (1046)
Q Consensus       418 L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~~~-------------------~~~~~~~l~~l~~L~~L~L~~~~~l~~  478 (1046)
                      |++|++++|++...+..+..+..++.+..++|..                   ...++..+.+++.  .|+|++|...  
T Consensus       116 l~~LdlS~N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~--  191 (1081)
T KOG0618|consen  116 LQYLDLSFNHFGPIPLVIEVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLIDIYNLTH--QLDLRYNEME--  191 (1081)
T ss_pred             ccccccchhccCCCchhHHhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcchhhhhe--eeecccchhh--
Confidence            9999999999777766666666666666666522                   2223333333333  3444443322  


Q ss_pred             cCCcCCccccceeeccCCcCCccccccccccCCCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccC
Q 001603          479 LPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQ  558 (1046)
Q Consensus       479 lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~  558 (1046)
                      .-....+..|+.|....|....     ..-..++|+.|+.+.|.+..+- .-..-.+|++++++.+.. ..+|.++..+.
T Consensus       192 ~~dls~~~~l~~l~c~rn~ls~-----l~~~g~~l~~L~a~~n~l~~~~-~~p~p~nl~~~dis~n~l-~~lp~wi~~~~  264 (1081)
T KOG0618|consen  192 VLDLSNLANLEVLHCERNQLSE-----LEISGPSLTALYADHNPLTTLD-VHPVPLNLQYLDISHNNL-SNLPEWIGACA  264 (1081)
T ss_pred             hhhhhhccchhhhhhhhcccce-----EEecCcchheeeeccCcceeec-cccccccceeeecchhhh-hcchHHHHhcc
Confidence            1111122333333222211000     0001122222222222222110 001123444444444332 22334444555


Q ss_pred             cCcEEeccCCCCCCcCCccccCCcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccC----------------
Q 001603          559 CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP----------------  622 (1046)
Q Consensus       559 ~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~----------------  622 (1046)
                      +|+.|...+|.+ ..+|..+..+++|+.|.+..|.++.+|...+.+++|++|+|..|.+....+                
T Consensus       265 nle~l~~n~N~l-~~lp~ri~~~~~L~~l~~~~nel~yip~~le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~~ln~s  343 (1081)
T KOG0618|consen  265 NLEALNANHNRL-VALPLRISRITSLVSLSAAYNELEYIPPFLEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLNTLNVS  343 (1081)
T ss_pred             cceEecccchhH-HhhHHHHhhhhhHHHHHhhhhhhhhCCCcccccceeeeeeehhccccccchHHHhhhhHHHHHHhhh
Confidence            555555544443 344444444445555555555555554444445555555554443322111                


Q ss_pred             ---------CccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcc-hhhccCCceeecCCCCCCCCC
Q 001603          623 ---------SCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSS-IFVMNNLKTLSFSGCNGPPSS  692 (1046)
Q Consensus       623 ---------~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~-~~~l~~L~~L~L~~~~~~~~~  692 (1046)
                               ..-..++.|+.|.+.+|.........+.++++|+.|+|++|++..+|++ +.++..|+.|+|+||+.... 
T Consensus       344 ~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL~~fpas~~~kle~LeeL~LSGNkL~~L-  422 (1081)
T KOG0618|consen  344 SNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRLNSFPASKLRKLEELEELNLSGNKLTTL-  422 (1081)
T ss_pred             hccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeecccccccCCHHHHhchHHhHHHhcccchhhhh-
Confidence                     1112234555555555555555545555556666666666666655543 33455555555655554331 


Q ss_pred             CCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCc--ccchhhhhcc
Q 001603          693 TSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV--TLPASINSLF  770 (1046)
Q Consensus       693 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~--~lp~~i~~l~  770 (1046)
                                            +..+..+..|++|...+|.+  ..+| .+..++.|+.+|+|.|+++  .+|..... +
T Consensus       423 ----------------------p~tva~~~~L~tL~ahsN~l--~~fP-e~~~l~qL~~lDlS~N~L~~~~l~~~~p~-p  476 (1081)
T KOG0618|consen  423 ----------------------PDTVANLGRLHTLRAHSNQL--LSFP-ELAQLPQLKVLDLSCNNLSEVTLPEALPS-P  476 (1081)
T ss_pred             ----------------------hHHHHhhhhhHHHhhcCCce--eech-hhhhcCcceEEecccchhhhhhhhhhCCC-c
Confidence                                  33444555555555555555  2345 4555555666666655555  22222111 4


Q ss_pred             ccCeeccccccc
Q 001603          771 NLGQLDLEDCKR  782 (1046)
Q Consensus       771 ~L~~L~L~~c~~  782 (1046)
                      +|++||+++|..
T Consensus       477 ~LkyLdlSGN~~  488 (1081)
T KOG0618|consen  477 NLKYLDLSGNTR  488 (1081)
T ss_pred             ccceeeccCCcc
Confidence            555666655553

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

Probab=99.91  E-value=1.3e-26  Score=263.47  Aligned_cols=433  Identities=22%  Similarity=0.219  Sum_probs=301.2

Q ss_pred             ccEEEeCCccC---CCchhccccCccEEEecCCCCCCCCCCC-CCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCc
Q 001603          352 LRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSNF-QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQ  427 (1046)
Q Consensus       352 Lr~L~l~~~~l---~~~~~~l~~~Lr~L~l~~~~l~~lp~~~-~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~  427 (1046)
                      |..|++..|.+   |-.+..-.-+|+.|++++|.+...|..+ .+.+|+.|+++.|.|..+|.+..++.+|++++|.+|.
T Consensus        23 ~~~ln~~~N~~l~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n~  102 (1081)
T KOG0618|consen   23 LQILNLRRNSLLSRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNNR  102 (1081)
T ss_pred             HHhhhccccccccCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccchhhHhhCchhhhhhhcchhheeccch
Confidence            67777777754   3222222334999999999999999998 8899999999999999999999999999999999998


Q ss_pred             CCCCCCCCCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCcccccccc
Q 001603          428 NLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFA  507 (1046)
Q Consensus       428 ~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~  507 (1046)
                      ....+..+..+.+|+.|++++|.. ..+|.-+..++.+..+..++|..+..++...    ++.+++..+ .+........
T Consensus       103 l~~lP~~~~~lknl~~LdlS~N~f-~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~----ik~~~l~~n-~l~~~~~~~i  176 (1081)
T KOG0618|consen  103 LQSLPASISELKNLQYLDLSFNHF-GPIPLVIEVLTAEEELAASNNEKIQRLGQTS----IKKLDLRLN-VLGGSFLIDI  176 (1081)
T ss_pred             hhcCchhHHhhhcccccccchhcc-CCCchhHHhhhHHHHHhhhcchhhhhhcccc----chhhhhhhh-hcccchhcch
Confidence            777777799999999999999654 4567778888888888888874444444322    566666554 2222233333


Q ss_pred             ccCCCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCccccee
Q 001603          508 GSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMEL  587 (1046)
Q Consensus       508 ~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L  587 (1046)
                      ..+.+  .|+|..|.+.  -..+..+.+|+.|....|......    -.-++|+.|+.++|.+....+.  ..-.+|+.+
T Consensus       177 ~~l~~--~ldLr~N~~~--~~dls~~~~l~~l~c~rn~ls~l~----~~g~~l~~L~a~~n~l~~~~~~--p~p~nl~~~  246 (1081)
T KOG0618|consen  177 YNLTH--QLDLRYNEME--VLDLSNLANLEVLHCERNQLSELE----ISGPSLTALYADHNPLTTLDVH--PVPLNLQYL  246 (1081)
T ss_pred             hhhhe--eeecccchhh--hhhhhhccchhhhhhhhcccceEE----ecCcchheeeeccCcceeeccc--cccccceee
Confidence            44444  5888888887  344566777777777776654332    2346788888888877744332  234578888


Q ss_pred             eccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccC
Q 001603          588 FLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRR  667 (1046)
Q Consensus       588 ~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~  667 (1046)
                      +++.|.++.+|.+++.+.+|+.|.+.+|.+ ..+|..+....+|+.|.+..|. +..+|.....+++|+.|+|..|.+..
T Consensus       247 dis~n~l~~lp~wi~~~~nle~l~~n~N~l-~~lp~ri~~~~~L~~l~~~~ne-l~yip~~le~~~sL~tLdL~~N~L~~  324 (1081)
T KOG0618|consen  247 DISHNNLSNLPEWIGACANLEALNANHNRL-VALPLRISRITSLVSLSAAYNE-LEYIPPFLEGLKSLRTLDLQSNNLPS  324 (1081)
T ss_pred             ecchhhhhcchHHHHhcccceEecccchhH-HhhHHHHhhhhhHHHHHhhhhh-hhhCCCcccccceeeeeeehhccccc
Confidence            888888888888888888888888888776 6677777778888888888764 45566677778888888888888888


Q ss_pred             CCcchhhcc--CCceeecCCCCCCCCCCCcc--cCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCcc-c
Q 001603          668 PPSSIFVMN--NLKTLSFSGCNGPPSSTSWH--WHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPN-D  742 (1046)
Q Consensus       668 ~p~~~~~l~--~L~~L~L~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip~-~  742 (1046)
                      +|..+....  .|..|+.+.++.........  ......+....+.......+.+.++.+|+.|+|++|.+  +.+|+ .
T Consensus       325 lp~~~l~v~~~~l~~ln~s~n~l~~lp~~~e~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNrL--~~fpas~  402 (1081)
T KOG0618|consen  325 LPDNFLAVLNASLNTLNVSSNKLSTLPSYEENNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNRL--NSFPASK  402 (1081)
T ss_pred             cchHHHhhhhHHHHHHhhhhccccccccccchhhHHHHHHHHhcCcccccchhhhccccceeeeeeccccc--ccCCHHH
Confidence            876544322  35666666555433221111  00111122223333444567788888999999999988  44664 4


Q ss_pred             ccCcCCCCeeeCCCCCCcccchhhhh----------------------ccccCeeccccccccc-cCCC-CC-CCCceee
Q 001603          743 IGNLCSLKQLNLSQNNFVTLPASINS----------------------LFNLGQLDLEDCKRLQ-SMPQ-LP-SNLYEVQ  797 (1046)
Q Consensus       743 l~~l~~L~~L~Ls~n~l~~lp~~i~~----------------------l~~L~~L~L~~c~~l~-~ip~-lp-~~L~~L~  797 (1046)
                      +.+++.|+.|+||||+++.+|.++..                      ++.|+.+|++.|.... .+|+ +| ++|++|+
T Consensus       403 ~~kle~LeeL~LSGNkL~~Lp~tva~~~~L~tL~ahsN~l~~fPe~~~l~qL~~lDlS~N~L~~~~l~~~~p~p~LkyLd  482 (1081)
T KOG0618|consen  403 LRKLEELEELNLSGNKLTTLPDTVANLGRLHTLRAHSNQLLSFPELAQLPQLKVLDLSCNNLSEVTLPEALPSPNLKYLD  482 (1081)
T ss_pred             HhchHHhHHHhcccchhhhhhHHHHhhhhhHHHhhcCCceeechhhhhcCcceEEecccchhhhhhhhhhCCCcccceee
Confidence            67888888999999888877765544                      4555556665553322 2232 56 7777777


Q ss_pred             cCCCccc
Q 001603          798 VNGCASL  804 (1046)
Q Consensus       798 ~~~C~~L  804 (1046)
                      +.|.+.+
T Consensus       483 lSGN~~l  489 (1081)
T KOG0618|consen  483 LSGNTRL  489 (1081)
T ss_pred             ccCCccc
Confidence            7777653

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.74  E-value=3.3e-17  Score=194.69  Aligned_cols=71  Identities=18%  Similarity=0.148  Sum_probs=43.5

Q ss_pred             CccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCC
Q 001603          372 KLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGC  449 (1046)
Q Consensus       372 ~Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~  449 (1046)
                      .-..|+++++.++++|..+. .+|+.|++++|+++.+|..   +++|++|+|++|++... |.+  .++|+.|++++|
T Consensus       202 ~~~~LdLs~~~LtsLP~~l~-~~L~~L~L~~N~Lt~LP~l---p~~Lk~LdLs~N~LtsL-P~l--p~sL~~L~Ls~N  272 (788)
T PRK15387        202 GNAVLNVGESGLTTLPDCLP-AHITTLVIPDNNLTSLPAL---PPELRTLEVSGNQLTSL-PVL--PPGLLELSIFSN  272 (788)
T ss_pred             CCcEEEcCCCCCCcCCcchh-cCCCEEEccCCcCCCCCCC---CCCCcEEEecCCccCcc-cCc--ccccceeeccCC
Confidence            35567777788888887663 4677788888877777642   45666666666654322 221  234555555544

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=99.71  E-value=9.5e-19  Score=181.73  Aligned_cols=276  Identities=19%  Similarity=0.159  Sum_probs=179.8

Q ss_pred             hhccccCccEEEecCCCCCCCCCCC--CCCCceEEEcCCCCchhh-cccccCCCCCcEEEcCC-CcCCCCCCC-CCCCCC
Q 001603          366 LEYLSNKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIEEL-WNEIKYLNMLKVMKLSH-SQNLIKTPD-FTGVPN  440 (1046)
Q Consensus       366 ~~~l~~~Lr~L~l~~~~l~~lp~~~--~l~~L~~L~L~~~~i~~l-~~~~~~l~~L~~L~Ls~-~~~~~~~~~-l~~l~~  440 (1046)
                      ...+|..-..++|..|.|++||+..  .+++|+.||||+|+|+.+ |..|+.++.|..|-+-+ |++...+.+ |.++..
T Consensus        62 P~~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~s  141 (498)
T KOG4237|consen   62 PANLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSS  141 (498)
T ss_pred             cccCCCcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHH
Confidence            3445556677777778888777765  777777888888777776 55677777777766665 443333333 777777


Q ss_pred             CCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCc-C-CccccceeeccCCcCCcccccc-----------cc
Q 001603          441 LEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGK-I-SMKSLKTLVLSGCLKLTKKCLE-----------FA  507 (1046)
Q Consensus       441 L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~-~-~l~~L~~L~L~~~~~l~~~~~~-----------~~  507 (1046)
                      |+.|.+.-|...-.....+..+++|..|.+.+ +.+..++.. + .+..++.+.+..|..+..-...           .+
T Consensus       142 lqrLllNan~i~Cir~~al~dL~~l~lLslyD-n~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~iet  220 (498)
T KOG4237|consen  142 LQRLLLNANHINCIRQDALRDLPSLSLLSLYD-NKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIET  220 (498)
T ss_pred             HHHHhcChhhhcchhHHHHHHhhhcchhcccc-hhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhc
Confidence            77777776665555556677777777777776 344555542 2 3666666666655322211111           11


Q ss_pred             ccCCCCCeEecccccccccchhc--ccCCCCcEEecCCCCCCccch-hhhhccCcCcEEeccCCCCCCcCCccccCCccc
Q 001603          508 GSMNDLSELFLDRTTIEELPLSI--QHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDL  584 (1046)
Q Consensus       508 ~~l~~L~~L~l~~~~i~~lp~~~--~~l~~L~~L~L~~~~~~~~l~-~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L  584 (1046)
                      +......-..+....+..++..-  ..+..+..--.+.|......| ..|..+++|+.|++++|.+...-+.+|.++..+
T Consensus       221 sgarc~~p~rl~~~Ri~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l  300 (498)
T KOG4237|consen  221 SGARCVSPYRLYYKRINQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAEL  300 (498)
T ss_pred             ccceecchHHHHHHHhcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhh
Confidence            11111111122222222222211  111122111222333333333 568999999999999999999999999999999


Q ss_pred             ceeeccCccccccCcc-cccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCC
Q 001603          585 MELFLDGTSIAEVPSS-IELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKL  642 (1046)
Q Consensus       585 ~~L~L~~~~i~~lp~~-l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l  642 (1046)
                      ++|.|..|++..+... |..+.+|+.|+|.+|+++...|..|..+.+|.+|++-.|+..
T Consensus       301 ~eL~L~~N~l~~v~~~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~~  359 (498)
T KOG4237|consen  301 QELYLTRNKLEFVSSGMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPFN  359 (498)
T ss_pred             hhhhcCcchHHHHHHHhhhccccceeeeecCCeeEEEecccccccceeeeeehccCccc
Confidence            9999999999977654 788999999999999999999999999999999999887653

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.70  E-value=1.3e-16  Score=189.62  Aligned_cols=257  Identities=19%  Similarity=0.165  Sum_probs=122.0

Q ss_pred             cEEEeCCccCCCchhccccCccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCCC
Q 001603          353 RLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKT  432 (1046)
Q Consensus       353 r~L~l~~~~l~~~~~~l~~~Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~  432 (1046)
                      ..|+++++.+..-...++..|+.|.+.+|.++.+|..  +++|++|++++|+|+.+|..   .++|+.|++++|.+.. +
T Consensus       204 ~~LdLs~~~LtsLP~~l~~~L~~L~L~~N~Lt~LP~l--p~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls~N~L~~-L  277 (788)
T PRK15387        204 AVLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLPAL--PPELRTLEVSGNQLTSLPVL---PPGLLELSIFSNPLTH-L  277 (788)
T ss_pred             cEEEcCCCCCCcCCcchhcCCCEEEccCCcCCCCCCC--CCCCcEEEecCCccCcccCc---ccccceeeccCCchhh-h
Confidence            3455555544222222333566666666666666643  45666666666666666532   3456666666665332 2


Q ss_pred             CCCCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCccccccccccCCC
Q 001603          433 PDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMND  512 (1046)
Q Consensus       433 ~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l~~  512 (1046)
                      |.  ..++|+.|++++|... .+|.   .+++|+.|++++| .+..+|..  ..+|+.|++++|. ++.. +.   ...+
T Consensus       278 p~--lp~~L~~L~Ls~N~Lt-~LP~---~p~~L~~LdLS~N-~L~~Lp~l--p~~L~~L~Ls~N~-L~~L-P~---lp~~  343 (788)
T PRK15387        278 PA--LPSGLCKLWIFGNQLT-SLPV---LPPGLQELSVSDN-QLASLPAL--PSELCKLWAYNNQ-LTSL-PT---LPSG  343 (788)
T ss_pred             hh--chhhcCEEECcCCccc-cccc---cccccceeECCCC-ccccCCCC--cccccccccccCc-cccc-cc---cccc
Confidence            22  1245556666665332 3332   1345666666653 33344431  1234444444431 1110 00   0123


Q ss_pred             CCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCc
Q 001603          513 LSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGT  592 (1046)
Q Consensus       513 L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~  592 (1046)
                      |+.|++++|.++.+|..   ..                        +|+.|++++|.+. .+|..   ..+|+.|++++|
T Consensus       344 Lq~LdLS~N~Ls~LP~l---p~------------------------~L~~L~Ls~N~L~-~LP~l---~~~L~~LdLs~N  392 (788)
T PRK15387        344 LQELSVSDNQLASLPTL---PS------------------------ELYKLWAYNNRLT-SLPAL---PSGLKELIVSGN  392 (788)
T ss_pred             cceEecCCCccCCCCCC---Cc------------------------ccceehhhccccc-cCccc---ccccceEEecCC
Confidence            44444444444444431   12                        3344444443322 23322   134555555555


Q ss_pred             cccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCC
Q 001603          593 SIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRP  668 (1046)
Q Consensus       593 ~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~  668 (1046)
                      .++.+|..   .++|+.|++++|.+.. +|..   +.+|+.|++++|.+. .+|..+..+++|+.|++++|.+++.
T Consensus       393 ~Lt~LP~l---~s~L~~LdLS~N~Lss-IP~l---~~~L~~L~Ls~NqLt-~LP~sl~~L~~L~~LdLs~N~Ls~~  460 (788)
T PRK15387        393 RLTSLPVL---PSELKELMVSGNRLTS-LPML---PSGLLSLSVYRNQLT-RLPESLIHLSSETTVNLEGNPLSER  460 (788)
T ss_pred             cccCCCCc---ccCCCEEEccCCcCCC-CCcc---hhhhhhhhhccCccc-ccChHHhhccCCCeEECCCCCCCch
Confidence            55555432   2355556666655432 3432   234555666655433 4566666666666666666666543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.67  E-value=1.8e-16  Score=189.89  Aligned_cols=53  Identities=13%  Similarity=0.165  Sum_probs=28.9

Q ss_pred             ccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcC
Q 001603          373 LRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQN  428 (1046)
Q Consensus       373 Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~  428 (1046)
                      ...|+++++.++++|..+ +++|+.|++++|+|+.+|..+.  .+|++|++++|.+
T Consensus       180 ~~~L~L~~~~LtsLP~~I-p~~L~~L~Ls~N~LtsLP~~l~--~nL~~L~Ls~N~L  232 (754)
T PRK15370        180 KTELRLKILGLTTIPACI-PEQITTLILDNNELKSLPENLQ--GNIKTLYANSNQL  232 (754)
T ss_pred             ceEEEeCCCCcCcCCccc-ccCCcEEEecCCCCCcCChhhc--cCCCEEECCCCcc
Confidence            445555555555555544 3455666666666665555433  3566666665543

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.67  E-value=2.6e-16  Score=188.65  Aligned_cols=227  Identities=21%  Similarity=0.226  Sum_probs=133.2

Q ss_pred             CccEEEeCCccCCCchhccccCccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCC
Q 001603          351 NLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLI  430 (1046)
Q Consensus       351 ~Lr~L~l~~~~l~~~~~~l~~~Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~  430 (1046)
                      +...|+++++.+..-...++..|+.|++++|.++++|..+. .+|++|++++|+++.+|..+.  .+|+.|+|++|.+..
T Consensus       179 ~~~~L~L~~~~LtsLP~~Ip~~L~~L~Ls~N~LtsLP~~l~-~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls~N~L~~  255 (754)
T PRK15370        179 NKTELRLKILGLTTIPACIPEQITTLILDNNELKSLPENLQ-GNIKTLYANSNQLTSIPATLP--DTIQEMELSINRITE  255 (754)
T ss_pred             CceEEEeCCCCcCcCCcccccCCcEEEecCCCCCcCChhhc-cCCCEEECCCCccccCChhhh--ccccEEECcCCccCc
Confidence            44567777766544334456678899999999998888764 588999999998888887654  478889998888654


Q ss_pred             CCCCCCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCccccccccccC
Q 001603          431 KTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSM  510 (1046)
Q Consensus       431 ~~~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l  510 (1046)
                      .+..+.  .+|+.|++++|... .+|..+.  ++|+.|++++| .+..+|..+ .++|+.|++++|. +... +..  -.
T Consensus       256 LP~~l~--s~L~~L~Ls~N~L~-~LP~~l~--~sL~~L~Ls~N-~Lt~LP~~l-p~sL~~L~Ls~N~-Lt~L-P~~--l~  324 (754)
T PRK15370        256 LPERLP--SALQSLDLFHNKIS-CLPENLP--EELRYLSVYDN-SIRTLPAHL-PSGITHLNVQSNS-LTAL-PET--LP  324 (754)
T ss_pred             CChhHh--CCCCEEECcCCccC-ccccccC--CCCcEEECCCC-ccccCcccc-hhhHHHHHhcCCc-cccC-Ccc--cc
Confidence            333332  47888888876444 5666543  47888888875 455565433 2356666666652 2211 111  12


Q ss_pred             CCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcccceeecc
Q 001603          511 NDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD  590 (1046)
Q Consensus       511 ~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~  590 (1046)
                      ++|+.|++++|.++.+|..+.  ++|+.|++++|... .+|..+  .++|+.|++++|.+. .+|..+.  ..|+.|+++
T Consensus       325 ~sL~~L~Ls~N~Lt~LP~~l~--~sL~~L~Ls~N~L~-~LP~~l--p~~L~~LdLs~N~Lt-~LP~~l~--~sL~~LdLs  396 (754)
T PRK15370        325 PGLKTLEAGENALTSLPASLP--PELQVLDVSKNQIT-VLPETL--PPTITTLDVSRNALT-NLPENLP--AALQIMQAS  396 (754)
T ss_pred             ccceeccccCCccccCChhhc--CcccEEECCCCCCC-cCChhh--cCCcCEEECCCCcCC-CCCHhHH--HHHHHHhhc
Confidence            455566666666655554432  45555555555432 233332  134555555554433 2333222  234455555


Q ss_pred             CccccccCc
Q 001603          591 GTSIAEVPS  599 (1046)
Q Consensus       591 ~~~i~~lp~  599 (1046)
                      +|.+..+|.
T Consensus       397 ~N~L~~LP~  405 (754)
T PRK15370        397 RNNLVRLPE  405 (754)
T ss_pred             cCCcccCch
Confidence            555544443

>KOG4237 consensus Extracellular matrix protein slit, contains leucine-rich and EGF-like repeats [Extracellular structures; Signal transduction mechanisms]

Probab=99.65  E-value=3.1e-18  Score=177.98  Aligned_cols=369  Identities=18%  Similarity=0.141  Sum_probs=240.1

Q ss_pred             ccccccChhhhcCCCCccEEEeCCccC----CCchhccccCccEEEecCCCCCCCCCCC--CCCCceEEEcCCCCchhhc
Q 001603          336 EGYLSAGAKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIEELW  409 (1046)
Q Consensus       336 ~~~~~~~~~~f~~l~~Lr~L~l~~~~l----~~~~~~l~~~Lr~L~l~~~~l~~lp~~~--~l~~L~~L~L~~~~i~~l~  409 (1046)
                      ++...+++.+|+.+++||.|+|++|.|    |+.|..+...++.++.++|+|+++|+..  .+..|+.|.+.-|++..++
T Consensus        77 N~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~gL~slqrLllNan~i~Cir  156 (498)
T KOG4237|consen   77 NQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFGGLSSLQRLLLNANHINCIR  156 (498)
T ss_pred             CCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhhhHHHHHHHhcChhhhcchh
Confidence            337789999999999999999999997    6678888776777778889999999986  8999999999999998665


Q ss_pred             -ccccCCCCCcEEEcCCCcCCCCCC-CCCCCCCCCEEEeeCCCCCcc------------ccccccCCCCccEEeccCCCC
Q 001603          410 -NEIKYLNMLKVMKLSHSQNLIKTP-DFTGVPNLEELILEGCTRLHE------------IHPSLLLHSKLVILNLKDCTS  475 (1046)
Q Consensus       410 -~~~~~l~~L~~L~Ls~~~~~~~~~-~l~~l~~L~~L~L~~~~~~~~------------~~~~l~~l~~L~~L~L~~~~~  475 (1046)
                       +.+..+++|..|.+..|.+..... .|..+..++.+.+..|.....            .|..++.........+.+ +.
T Consensus       157 ~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np~icdCnL~wla~~~a~~~ietsgarc~~p~rl~~-~R  235 (498)
T KOG4237|consen  157 QDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNPFICDCNLPWLADDLAMNPIETSGARCVSPYRLYY-KR  235 (498)
T ss_pred             HHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCccccccccchhhhHHhhchhhcccceecchHHHHH-HH
Confidence             468999999999999998655554 488889999998887653221            111122221111111211 11


Q ss_pred             CCccCCcCCcccccee---eccCCcCCccccccccccCCCCCeEecccccccccc-hhcccCCCCcEEecCCCCCCccch
Q 001603          476 LTTLPGKISMKSLKTL---VLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSLS  551 (1046)
Q Consensus       476 l~~lp~~~~l~~L~~L---~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp-~~~~~l~~L~~L~L~~~~~~~~l~  551 (1046)
                      +..++..-...+++.+   ..+.|.....-....+..+++|+.|++++|.++.+. .++..+..++.|.|..|+....-.
T Consensus       236 i~q~~a~kf~c~~esl~s~~~~~d~~d~~cP~~cf~~L~~L~~lnlsnN~i~~i~~~aFe~~a~l~eL~L~~N~l~~v~~  315 (498)
T KOG4237|consen  236 INQEDARKFLCSLESLPSRLSSEDFPDSICPAKCFKKLPNLRKLNLSNNKITRIEDGAFEGAAELQELYLTRNKLEFVSS  315 (498)
T ss_pred             hcccchhhhhhhHHhHHHhhccccCcCCcChHHHHhhcccceEeccCCCccchhhhhhhcchhhhhhhhcCcchHHHHHH
Confidence            1111111111112222   112221222222334677888888888888888774 457788888888888887777667


Q ss_pred             hhhhccCcCcEEeccCCCCCCcCCccccCCcccceeeccCcccc------ccCccc-----------ccCCCCCEEecCC
Q 001603          552 HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA------EVPSSI-----------ELLTGLQLLNLNN  614 (1046)
Q Consensus       552 ~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~------~lp~~l-----------~~l~~L~~L~L~~  614 (1046)
                      ..|.++..|+.|+|++|++....|.+|..+..|..|++-.|.+.      -+-.++           +....++.+.+++
T Consensus       316 ~~f~~ls~L~tL~L~~N~it~~~~~aF~~~~~l~~l~l~~Np~~CnC~l~wl~~Wlr~~~~~~~~~Cq~p~~~~~~~~~d  395 (498)
T KOG4237|consen  316 GMFQGLSGLKTLSLYDNQITTVAPGAFQTLFSLSTLNLLSNPFNCNCRLAWLGEWLRKKSVVGNPRCQSPGFVRQIPISD  395 (498)
T ss_pred             HhhhccccceeeeecCCeeEEEecccccccceeeeeehccCcccCccchHHHHHHHhhCCCCCCCCCCCCchhccccchh
Confidence            77888888888888888888888888888888888888766443      111111           1122355555554


Q ss_pred             CCCCCc---cCCc---------cCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcchhhccCCceee
Q 001603          615 CSNLVR---LPSC---------INGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLS  682 (1046)
Q Consensus       615 ~~~~~~---l~~~---------~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~~~~l~~L~~L~  682 (1046)
                      ..+...   .|..         -..++-+.+..=-.|..+..+|..+  ...-.+|++.+|.++.+|..  .+.+| .++
T Consensus       396 v~~~~~~c~~~ee~~~~~s~~cP~~c~c~~tVvRcSnk~lk~lp~~i--P~d~telyl~gn~~~~vp~~--~~~~l-~~d  470 (498)
T KOG4237|consen  396 VAFGDFRCGGPEELGCLTSSPCPPPCTCLDTVVRCSNKLLKLLPRGI--PVDVTELYLDGNAITSVPDE--LLRSL-LLD  470 (498)
T ss_pred             ccccccccCCccccCCCCCCCCCCCcchhhhhHhhcccchhhcCCCC--CchhHHHhcccchhcccCHH--HHhhh-hcc
Confidence            432211   1111         1112334433323334455566554  35667899999999999987  67788 889


Q ss_pred             cCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCC
Q 001603          683 FSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC  732 (1046)
Q Consensus       683 L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n  732 (1046)
                      +++|++....                      -..|.+++.|.+|-||+|
T Consensus       471 ls~n~i~~Ls----------------------n~tf~n~tql~tlilsyn  498 (498)
T KOG4237|consen  471 LSNNRISSLS----------------------NYTFSNMTQLSTLILSYN  498 (498)
T ss_pred             cccCceehhh----------------------cccccchhhhheeEEecC
Confidence            9988754321                      123566777777777664

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=99.56  E-value=5.2e-16  Score=173.64  Aligned_cols=258  Identities=23%  Similarity=0.202  Sum_probs=140.8

Q ss_pred             ccccCCCCCeEeccccccc-----ccchhcccCCCCcEEecCCCCCC------ccchhhhhccCcCcEEeccCCCCCCcC
Q 001603          506 FAGSMNDLSELFLDRTTIE-----ELPLSIQHLTGLVLLNLKDCKNL------KSLSHTLRRLQCLKNLTLSGCSKLKKF  574 (1046)
Q Consensus       506 ~~~~l~~L~~L~l~~~~i~-----~lp~~~~~l~~L~~L~L~~~~~~------~~l~~~l~~l~~L~~L~L~~~~~~~~~  574 (1046)
                      .+..+.+|+.|.++++.++     .++..+...++|+.|+++++...      ..++..+..+++|+.|++++|.+....
T Consensus        18 ~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~   97 (319)
T cd00116          18 LLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDG   97 (319)
T ss_pred             HHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhH
Confidence            3344455666666666553     34555566666777777665543      223445666677777777777666554


Q ss_pred             CccccCCcc---cceeeccCccccc-----cCcccccC-CCCCEEecCCCCCCC----ccCCccCCCCCCCEEeccCCCC
Q 001603          575 PESLGSMKD---LMELFLDGTSIAE-----VPSSIELL-TGLQLLNLNNCSNLV----RLPSCINGLRSLKTLNLSGCSK  641 (1046)
Q Consensus       575 p~~~~~l~~---L~~L~L~~~~i~~-----lp~~l~~l-~~L~~L~L~~~~~~~----~l~~~~~~l~~L~~L~Ls~c~~  641 (1046)
                      +..+..+..   |+.|++++|.+..     +...+..+ ++|+.|++++|.+..    .++..+..+++|++|++++|..
T Consensus        98 ~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~~~~~L~~L~l~~n~l  177 (319)
T cd00116          98 CGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALRANRDLKELNLANNGI  177 (319)
T ss_pred             HHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHHhCCCcCEEECcCCCC
Confidence            444444433   7777777766652     22234455 677777777776652    2233445556677777777665


Q ss_pred             CC----CcCcccCCCCCCceeeccCccccCC-----CcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCccc
Q 001603          642 LQ----NVPETLGQVESLEELDISGTAIRRP-----PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVA  712 (1046)
Q Consensus       642 l~----~~~~~~~~l~~L~~L~Ls~n~l~~~-----p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  712 (1046)
                      .+    .++..+..+++|+.|++++|.++..     ...+..+++|++|++++|.......                  .
T Consensus       178 ~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n~l~~~~~------------------~  239 (319)
T cd00116         178 GDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDNNLTDAGA------------------A  239 (319)
T ss_pred             chHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCCcCchHHH------------------H
Confidence            53    1233344455777777777766533     2233445667777776665322000                  0


Q ss_pred             ccCCC-ccCCCCCCEEecCCCCCCC---CCCcccccCcCCCCeeeCCCCCCccc-----chhhhhc-cccCeecccccc
Q 001603          713 LMLPS-LSGLHSLSKLDLSDCGLGE---GAIPNDIGNLCSLKQLNLSQNNFVTL-----PASINSL-FNLGQLDLEDCK  781 (1046)
Q Consensus       713 ~~~~~-l~~l~~L~~L~Ls~n~l~~---~~ip~~l~~l~~L~~L~Ls~n~l~~l-----p~~i~~l-~~L~~L~L~~c~  781 (1046)
                      .+... ....+.|++|++++|.+.+   ..+...+..+++|+.|++++|.++.-     ...+... +.|++|++.+++
T Consensus       240 ~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (319)
T cd00116         240 ALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKFGEEGAQLLAESLLEPGNELESLWVKDDS  318 (319)
T ss_pred             HHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCCCcHHHHHHHHHHHhhcCCchhhcccCCCC
Confidence            00000 0123567777777776632   12233444556777777777777632     2223333 566777766654

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).

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.46  E-value=3.5e-15  Score=137.58  Aligned_cols=169  Identities=30%  Similarity=0.520  Sum_probs=109.1

Q ss_pred             CCcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceee
Q 001603          580 SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELD  659 (1046)
Q Consensus       580 ~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~  659 (1046)
                      .+.+++.|.+++|+++.+|+.+..+.+|+.|++.+|++ +.+|.+++.+++|+.|+++-| .+..+|..|+.++.|+.||
T Consensus        31 ~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqi-e~lp~~issl~klr~lnvgmn-rl~~lprgfgs~p~levld  108 (264)
T KOG0617|consen   31 NMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQI-EELPTSISSLPKLRILNVGMN-RLNILPRGFGSFPALEVLD  108 (264)
T ss_pred             chhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchh-hhcChhhhhchhhhheecchh-hhhcCccccCCCchhhhhh
Confidence            44556666666677766666666666777776666543 345566666666666666543 3455677777777777777


Q ss_pred             ccCccccC--CCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCC
Q 001603          660 ISGTAIRR--PPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEG  737 (1046)
Q Consensus       660 Ls~n~l~~--~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~  737 (1046)
                      +++|.+.+  +|..++.+..                                              |+.|.|++|.+  .
T Consensus       109 ltynnl~e~~lpgnff~m~t----------------------------------------------lralyl~dndf--e  140 (264)
T KOG0617|consen  109 LTYNNLNENSLPGNFFYMTT----------------------------------------------LRALYLGDNDF--E  140 (264)
T ss_pred             ccccccccccCCcchhHHHH----------------------------------------------HHHHHhcCCCc--c
Confidence            77776654  2544444444                                              44455555555  4


Q ss_pred             CCcccccCcCCCCeeeCCCCCCcccchhhhhccccCeeccccccccccCCCCCCCCceeecCCCc
Q 001603          738 AIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCA  802 (1046)
Q Consensus       738 ~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip~lp~~L~~L~~~~C~  802 (1046)
                      .+|.+++.+++|+.|.+..|.+-++|..++.++.|++|.+.+|+. +   .+|+.|-.|+..+..
T Consensus       141 ~lp~dvg~lt~lqil~lrdndll~lpkeig~lt~lrelhiqgnrl-~---vlppel~~l~l~~~k  201 (264)
T KOG0617|consen  141 ILPPDVGKLTNLQILSLRDNDLLSLPKEIGDLTRLRELHIQGNRL-T---VLPPELANLDLVGNK  201 (264)
T ss_pred             cCChhhhhhcceeEEeeccCchhhCcHHHHHHHHHHHHhccccee-e---ecChhhhhhhhhhhH
Confidence            577777788888888888888888888888888888888887743 2   234444455554443

>cd00116 LRR_RI Leucine-rich repeats (LRRs), ribonuclease inhibitor (RI)-like subfamily

Probab=99.46  E-value=1.1e-14  Score=162.99  Aligned_cols=250  Identities=24%  Similarity=0.220  Sum_probs=148.1

Q ss_pred             Eeccccccc--ccchhcccCCCCcEEecCCCCCCc----cchhhhhccCcCcEEeccCCCCCC------cCCccccCCcc
Q 001603          516 LFLDRTTIE--ELPLSIQHLTGLVLLNLKDCKNLK----SLSHTLRRLQCLKNLTLSGCSKLK------KFPESLGSMKD  583 (1046)
Q Consensus       516 L~l~~~~i~--~lp~~~~~l~~L~~L~L~~~~~~~----~l~~~l~~l~~L~~L~L~~~~~~~------~~p~~~~~l~~  583 (1046)
                      |+|..+.++  .....+..+.+|+.|++++|....    .++..+...++|++|+++++...+      .++..+..+++
T Consensus         3 l~L~~~~l~~~~~~~~~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~   82 (319)
T cd00116           3 LSLKGELLKTERATELLPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCG   82 (319)
T ss_pred             cccccCcccccchHHHHHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCc
Confidence            444444443  344455667779999999887643    355667777888999888876542      23345566778


Q ss_pred             cceeeccCcccc-ccCcccccCC---CCCEEecCCCCCCC----ccCCccCCC-CCCCEEeccCCCCCC----CcCcccC
Q 001603          584 LMELFLDGTSIA-EVPSSIELLT---GLQLLNLNNCSNLV----RLPSCINGL-RSLKTLNLSGCSKLQ----NVPETLG  650 (1046)
Q Consensus       584 L~~L~L~~~~i~-~lp~~l~~l~---~L~~L~L~~~~~~~----~l~~~~~~l-~~L~~L~Ls~c~~l~----~~~~~~~  650 (1046)
                      |+.|++++|.+. ..+..+..+.   +|+.|++++|....    .+...+..+ ++|+.|++++|....    .++..+.
T Consensus        83 L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~~~~  162 (319)
T cd00116          83 LQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAKALR  162 (319)
T ss_pred             eeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHHHHH
Confidence            888888887776 2333333333   38888888776652    222334455 777778887777653    2334455


Q ss_pred             CCCCCceeeccCccccCC-----CcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCC
Q 001603          651 QVESLEELDISGTAIRRP-----PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLS  725 (1046)
Q Consensus       651 ~l~~L~~L~Ls~n~l~~~-----p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~  725 (1046)
                      .+++|++|++++|.++..     +..+..+++|+.|++++|......                  ...+...+..+++|+
T Consensus       163 ~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~------------------~~~l~~~~~~~~~L~  224 (319)
T cd00116         163 ANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEG------------------ASALAETLASLKSLE  224 (319)
T ss_pred             hCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHH------------------HHHHHHHhcccCCCC
Confidence            666777777777776632     223344457777777776543210                  001122345566777


Q ss_pred             EEecCCCCCCCCCCccccc----CcCCCCeeeCCCCCCc-----ccchhhhhccccCeecccccccc
Q 001603          726 KLDLSDCGLGEGAIPNDIG----NLCSLKQLNLSQNNFV-----TLPASINSLFNLGQLDLEDCKRL  783 (1046)
Q Consensus       726 ~L~Ls~n~l~~~~ip~~l~----~l~~L~~L~Ls~n~l~-----~lp~~i~~l~~L~~L~L~~c~~l  783 (1046)
                      +|++++|.+.+..+.....    ..+.|+.|++++|.++     .+...+..+++|+++++++|+..
T Consensus       225 ~L~ls~n~l~~~~~~~l~~~~~~~~~~L~~L~l~~n~i~~~~~~~l~~~~~~~~~L~~l~l~~N~l~  291 (319)
T cd00116         225 VLNLGDNNLTDAGAAALASALLSPNISLLTLSLSCNDITDDGAKDLAEVLAEKESLLELDLRGNKFG  291 (319)
T ss_pred             EEecCCCcCchHHHHHHHHHHhccCCCceEEEccCCCCCcHHHHHHHHHHhcCCCccEEECCCCCCc
Confidence            7777777763211111111    1357777777777765     23444555667777777776543

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).

>KOG0617 consensus Ras suppressor protein (contains leucine-rich repeats) [Signal transduction mechanisms]

Probab=99.41  E-value=5.9e-15  Score=136.06  Aligned_cols=156  Identities=26%  Similarity=0.374  Sum_probs=79.8

Q ss_pred             CCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCCCCCccccccccCCCCc
Q 001603          386 LPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKL  465 (1046)
Q Consensus       386 lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L  465 (1046)
                      +|..|.+.+...|-||+|+++.+|..+..+.+|+.|++++|++...++.++.+++|+.|++.-| .+..+|..++.++.|
T Consensus        26 ~~gLf~~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~issl~klr~lnvgmn-rl~~lprgfgs~p~l  104 (264)
T KOG0617|consen   26 LPGLFNMSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMN-RLNILPRGFGSFPAL  104 (264)
T ss_pred             cccccchhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhhhhchhhhheecchh-hhhcCccccCCCchh
Confidence            4444445555555555555555555555555555555555554444444555555555555432 333445555555555


Q ss_pred             cEEeccCCCC-CCccCCcCCccccceeeccCCcCCccccccccccCCCCCeEecccccccccchhcccCCCCcEEecCCC
Q 001603          466 VILNLKDCTS-LTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDC  544 (1046)
Q Consensus       466 ~~L~L~~~~~-l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~  544 (1046)
                      +.|++.+|+. -..+|+.+                        -.|..|+-|+++.|.++-+|..++++++|+.|.+++|
T Consensus       105 evldltynnl~e~~lpgnf------------------------f~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdn  160 (264)
T KOG0617|consen  105 EVLDLTYNNLNENSLPGNF------------------------FYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDN  160 (264)
T ss_pred             hhhhccccccccccCCcch------------------------hHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccC
Confidence            5555554332 12344332                        2334445556666667777777777777777777665


Q ss_pred             CCCccchhhhhccCcCcEEeccC
Q 001603          545 KNLKSLSHTLRRLQCLKNLTLSG  567 (1046)
Q Consensus       545 ~~~~~l~~~l~~l~~L~~L~L~~  567 (1046)
                      ..+ .+|..++.+..|++|.+.+
T Consensus       161 dll-~lpkeig~lt~lrelhiqg  182 (264)
T KOG0617|consen  161 DLL-SLPKEIGDLTRLRELHIQG  182 (264)
T ss_pred             chh-hCcHHHHHHHHHHHHhccc
Confidence            432 2333333333333333333

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.34  E-value=4.3e-11  Score=153.76  Aligned_cols=272  Identities=16%  Similarity=0.181  Sum_probs=167.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCc------------ccccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI------------SIWNV   68 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~------------~~~~~   68 (1046)
                      ++.|.|++|.||||++..+.+.    ++.++|+. +.+   ...+...+...++..+......            ...+.
T Consensus        34 ~~~v~apaG~GKTtl~~~~~~~----~~~~~w~~-l~~---~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~  105 (903)
T PRK04841         34 LVLVTSPAGYGKTTLISQWAAG----KNNLGWYS-LDE---SDNQPERFASYLIAALQQATNGHCSKSEALAQKRQYASL  105 (903)
T ss_pred             eEEEECCCCCCHHHHHHHHHHh----CCCeEEEe-cCc---ccCCHHHHHHHHHHHHHHhcCcccchhhhhhccCCcCCH
Confidence            4789999999999999998763    33577875 322   2222455556666666411100            00011


Q ss_pred             cchHHHHHHhhc--CCeEEEEEecCCChH------HHHHHhhccCCCCCCCEEEEEeCChhhH--HHhcCCCcceEecC-
Q 001603           69 DDGINIIGSRLR--QKKVLLVIDDVADVE------QLQNLARKRDWFGPGSKIVITTRDKQLL--VAHEVDEEHIYNLE-  137 (1046)
Q Consensus        69 ~~~~~~i~~~L~--~kr~LlVlDdv~~~~------~~~~l~~~~~~~~~gs~IiiTTR~~~~~--~~~~~~~~~~~~l~-  137 (1046)
                      ......+...+.  +.+++|||||+...+      .+..+...   ..++.++|||||...-.  ....... ...++. 
T Consensus       106 ~~~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~---~~~~~~lv~~sR~~~~~~~~~l~~~~-~~~~l~~  181 (903)
T PRK04841        106 SSLFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRH---QPENLTLVVLSRNLPPLGIANLRVRD-QLLEIGS  181 (903)
T ss_pred             HHHHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHh---CCCCeEEEEEeCCCCCCchHhHHhcC-cceecCH
Confidence            112222323332  689999999996542      33444433   34677888999985321  1111111 155666 


Q ss_pred             ---CCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCCChHHHHHHHHHHhcCCCCchHHHH
Q 001603          138 ---VLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINIL  214 (1046)
Q Consensus       138 ---~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~~~~~~~i~~~l  214 (1046)
                         +|+.+|+.+||.......-     ..+.+.++.+.++|+|+++..++..+..... ........+...+...+...+
T Consensus       182 ~~l~f~~~e~~~ll~~~~~~~~-----~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l  255 (903)
T PRK04841        182 QQLAFDHQEAQQFFDQRLSSPI-----EAAESSRLCDDVEGWATALQLIALSARQNNS-SLHDSARRLAGINASHLSDYL  255 (903)
T ss_pred             HhCCCCHHHHHHHHHhccCCCC-----CHHHHHHHHHHhCChHHHHHHHHHHHhhCCC-chhhhhHhhcCCCchhHHHHH
Confidence               9999999999987653221     2255788999999999999998877654321 011112222222234566654


Q ss_pred             hh-cccccchhhhhhhceeecccCCCCHHHHHHHHHhcCCCcccchhheeccceEEE-ec--CCeEEehHHHHHHHHHHH
Q 001603          215 QI-SFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTV-DD--GNRLWMHDLLQELGHQIV  290 (1046)
Q Consensus       215 ~~-sy~~L~~~~k~~fl~~a~f~~~~~~~~l~~~~~~~g~~~~~~l~~L~~~~Li~~-~~--~~~~~mHdli~e~~~~i~  290 (1046)
                      .- .++.||+..++.+...|+++ .++.+....+....  .....++.|.+.+++.. .+  ..+|.+|++++++.+...
T Consensus       256 ~~~v~~~l~~~~~~~l~~~a~~~-~~~~~l~~~l~~~~--~~~~~L~~l~~~~l~~~~~~~~~~~yr~H~L~r~~l~~~l  332 (903)
T PRK04841        256 VEEVLDNVDLETRHFLLRCSVLR-SMNDALIVRVTGEE--NGQMRLEELERQGLFIQRMDDSGEWFRYHPLFASFLRHRC  332 (903)
T ss_pred             HHHHHhcCCHHHHHHHHHhcccc-cCCHHHHHHHcCCC--cHHHHHHHHHHCCCeeEeecCCCCEEehhHHHHHHHHHHH
Confidence            44 48999999999999999986 66655444443211  12345888889998653 32  237899999999999877


Q ss_pred             hhc
Q 001603          291 QRQ  293 (1046)
Q Consensus       291 ~~e  293 (1046)
                      ..+
T Consensus       333 ~~~  335 (903)
T PRK04841        333 QWE  335 (903)
T ss_pred             Hhc
Confidence            544

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.26  E-value=5.8e-12  Score=153.84  Aligned_cols=134  Identities=26%  Similarity=0.375  Sum_probs=72.3

Q ss_pred             CCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcC-CCCCCC--CCCCCCCCEEEeeCCCCCccccccccCC
Q 001603          386 LPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQN-LIKTPD--FTGVPNLEELILEGCTRLHEIHPSLLLH  462 (1046)
Q Consensus       386 lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~-~~~~~~--l~~l~~L~~L~L~~~~~~~~~~~~l~~l  462 (1046)
                      .|........+...+-+|.+..++....+ ++|++|-+..|.. ....+.  |..+|.|+.|||++|.....+|.+++.+
T Consensus       516 ~~~~~~~~~~rr~s~~~~~~~~~~~~~~~-~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~L  594 (889)
T KOG4658|consen  516 IPQVKSWNSVRRMSLMNNKIEHIAGSSEN-PKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGEL  594 (889)
T ss_pred             cccccchhheeEEEEeccchhhccCCCCC-CccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhh
Confidence            34333444455555555555554433222 2455555555531 222222  4555555555555555555555555555


Q ss_pred             CCccEEeccCCCCCCccCCcCCccccceeeccCCcCCccccccccccCCCCCeEecccccccccchhcccCCCCcEEecC
Q 001603          463 SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLK  542 (1046)
Q Consensus       463 ~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~  542 (1046)
                      -+|++|++++                                                +.++.+|.++.++..|.+|++.
T Consensus       595 i~LryL~L~~------------------------------------------------t~I~~LP~~l~~Lk~L~~Lnl~  626 (889)
T KOG4658|consen  595 VHLRYLDLSD------------------------------------------------TGISHLPSGLGNLKKLIYLNLE  626 (889)
T ss_pred             hhhhcccccC------------------------------------------------CCccccchHHHHHHhhheeccc
Confidence            5554444444                                                4455566666666667777776


Q ss_pred             CCCCCccchhhhhccCcCcEEeccCC
Q 001603          543 DCKNLKSLSHTLRRLQCLKNLTLSGC  568 (1046)
Q Consensus       543 ~~~~~~~l~~~l~~l~~L~~L~L~~~  568 (1046)
                      .+..+..+|.....+++|++|.+..-
T Consensus       627 ~~~~l~~~~~i~~~L~~Lr~L~l~~s  652 (889)
T KOG4658|consen  627 VTGRLESIPGILLELQSLRVLRLPRS  652 (889)
T ss_pred             cccccccccchhhhcccccEEEeecc
Confidence            66666666666666777777776653

>TIGR03015 pepcterm_ATPase putative secretion ATPase, PEP-CTERM locus subfamily

Probab=99.06  E-value=6.1e-09  Score=113.13  Aligned_cols=178  Identities=16%  Similarity=0.136  Sum_probs=105.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHh--
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSR--   78 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~--   78 (1046)
                      ++.|+|++|+||||+|+.+++.+...=-..+++.+.     .. +..+++..++..++.....  .+.......+.+.  
T Consensus        45 ~~~l~G~~G~GKTtl~~~l~~~l~~~~~~~~~~~~~-----~~-~~~~~l~~i~~~lG~~~~~--~~~~~~~~~l~~~l~  116 (269)
T TIGR03015        45 FILITGEVGAGKTTLIRNLLKRLDQERVVAAKLVNT-----RV-DAEDLLRMVAADFGLETEG--RDKAALLRELEDFLI  116 (269)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCCeEEeeeeCC-----CC-CHHHHHHHHHHHcCCCCCC--CCHHHHHHHHHHHHH
Confidence            478999999999999999998765321111222211     11 2556777777766532211  1111222233322  


Q ss_pred             ---hcCCeEEEEEecCCChH--HHHHHhhccC---CCCCCCEEEEEeCChhhHHHhc--------CCCcceEecCCCChH
Q 001603           79 ---LRQKKVLLVIDDVADVE--QLQNLARKRD---WFGPGSKIVITTRDKQLLVAHE--------VDEEHIYNLEVLSND  142 (1046)
Q Consensus        79 ---L~~kr~LlVlDdv~~~~--~~~~l~~~~~---~~~~gs~IiiTTR~~~~~~~~~--------~~~~~~~~l~~L~~~  142 (1046)
                         ..+++.++|+||++...  .++.+..-..   .......|++|.... ......        ......+++++++.+
T Consensus       117 ~~~~~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~  195 (269)
T TIGR03015       117 EQFAAGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDRE  195 (269)
T ss_pred             HHHhCCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHH
Confidence               25788999999998753  3444432111   112223455555433 211111        111236899999999


Q ss_pred             HHHHHHHHhhcCCCC--CCchHHHHHHHHHHHhCCCchHHHHHhhhc
Q 001603          143 EALQLFSMKAFKTRQ--PMGEYVELSKRVLKYAGGLPLALTVLGSFL  187 (1046)
Q Consensus       143 ea~~Lf~~~a~~~~~--~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  187 (1046)
                      |..+++...+.....  ...-..+..+.|++.++|.|..+..++..+
T Consensus       196 e~~~~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       196 ETREYIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            999999877643221  112334788899999999999999988765

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.

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=99.03  E-value=7.6e-11  Score=125.40  Aligned_cols=187  Identities=24%  Similarity=0.191  Sum_probs=122.8

Q ss_pred             cccCCcccceeeccCcccccc---CcccccCCCCCEEecCCCCCCCccCCcc-CCCCCCCEEeccCCCCCC-CcCcccCC
Q 001603          577 SLGSMKDLMELFLDGTSIAEV---PSSIELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGCSKLQ-NVPETLGQ  651 (1046)
Q Consensus       577 ~~~~l~~L~~L~L~~~~i~~l---p~~l~~l~~L~~L~L~~~~~~~~l~~~~-~~l~~L~~L~Ls~c~~l~-~~~~~~~~  651 (1046)
                      ....+++++.|+|+.|-+...   -.....+|+|+.|+|+.|.+.-...+.. ..++.|+.|.|++|.... .+...+..
T Consensus       141 ~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~lK~L~l~~CGls~k~V~~~~~~  220 (505)
T KOG3207|consen  141 YSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHLKQLVLNSCGLSWKDVQWILLT  220 (505)
T ss_pred             hhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhhheEEeccCCCCHHHHHHHHHh
Confidence            344556666666666655432   2334567777777777766543222211 246778888888887663 23334456


Q ss_pred             CCCCceeeccCcc-ccCCCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecC
Q 001603          652 VESLEELDISGTA-IRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLS  730 (1046)
Q Consensus       652 l~~L~~L~Ls~n~-l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls  730 (1046)
                      +|+|+.|+|.+|. +.........+..|+.|+|++|+......                     ......|+.|..|+++
T Consensus       221 fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~---------------------~~~~~~l~~L~~Lnls  279 (505)
T KOG3207|consen  221 FPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQ---------------------GYKVGTLPGLNQLNLS  279 (505)
T ss_pred             CCcHHHhhhhcccccceecchhhhhhHHhhccccCCccccccc---------------------ccccccccchhhhhcc
Confidence            7888888888884 32223444557788888888887654311                     2345678888999999


Q ss_pred             CCCCCCCCCccc-----ccCcCCCCeeeCCCCCCcccch--hhhhccccCeeccccccccc
Q 001603          731 DCGLGEGAIPND-----IGNLCSLKQLNLSQNNFVTLPA--SINSLFNLGQLDLEDCKRLQ  784 (1046)
Q Consensus       731 ~n~l~~~~ip~~-----l~~l~~L~~L~Ls~n~l~~lp~--~i~~l~~L~~L~L~~c~~l~  784 (1046)
                      .|++.+-.+|+.     ...+++|++|+++.|++..+++  .+..+++|+.|.+..|+..+
T Consensus       280 ~tgi~si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~ln~  340 (505)
T KOG3207|consen  280 STGIASIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNYLNK  340 (505)
T ss_pred             ccCcchhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhcccccccc
Confidence            998866566655     5678899999999999876663  46677888888877776544

>PF05729 NACHT: NACHT domain

Probab=99.02  E-value=2.7e-09  Score=106.61  Aligned_cols=144  Identities=24%  Similarity=0.369  Sum_probs=86.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccc-----eeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFD-----GSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~-----~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      ++.|.|.+|+||||+++.++..+.....     ...|+...+....... ...+...+.........    ....   .+
T Consensus         2 ~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~~~l~~~~~~~~~----~~~~---~~   73 (166)
T PF05729_consen    2 VLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNN-SRSLADLLFDQLPESIA----PIEE---LL   73 (166)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccc-cchHHHHHHHhhccchh----hhHH---HH
Confidence            5789999999999999999987755432     2344444554443322 12333333333321111    1111   12


Q ss_pred             HHh-hcCCeEEEEEecCCChHH---------HHHHhhccC--CCCCCCEEEEEeCChhhHHHh-cCCCcceEecCCCChH
Q 001603           76 GSR-LRQKKVLLVIDDVADVEQ---------LQNLARKRD--WFGPGSKIVITTRDKQLLVAH-EVDEEHIYNLEVLSND  142 (1046)
Q Consensus        76 ~~~-L~~kr~LlVlDdv~~~~~---------~~~l~~~~~--~~~~gs~IiiTTR~~~~~~~~-~~~~~~~~~l~~L~~~  142 (1046)
                      ... .+.++++||||++|+...         +..+...+.  ...++.+||||+|........ .......+++++|+++
T Consensus        74 ~~~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~  153 (166)
T PF05729_consen   74 QELLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEE  153 (166)
T ss_pred             HHHHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHH
Confidence            222 257899999999986532         222222211  125789999999998762221 1222248999999999


Q ss_pred             HHHHHHHHhh
Q 001603          143 EALQLFSMKA  152 (1046)
Q Consensus       143 ea~~Lf~~~a  152 (1046)
                      +..+++.++.
T Consensus       154 ~~~~~~~~~f  163 (166)
T PF05729_consen  154 DIKQYLRKYF  163 (166)
T ss_pred             HHHHHHHHHh
Confidence            9999987653

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.96  E-value=1.4e-10  Score=116.89  Aligned_cols=133  Identities=30%  Similarity=0.343  Sum_probs=79.7

Q ss_pred             CcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeec
Q 001603          581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI  660 (1046)
Q Consensus       581 l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~L  660 (1046)
                      .+.|++++|++|.|+.+..+..-.|.++.|++++|.+...                          ..+..+++|+.|||
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v--------------------------~nLa~L~~L~~LDL  336 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTV--------------------------QNLAELPQLQLLDL  336 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccceeee--------------------------hhhhhcccceEeec
Confidence            3567777777777777777666666666666666554332                          12445677777888


Q ss_pred             cCccccCCCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCc
Q 001603          661 SGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP  740 (1046)
Q Consensus       661 s~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip  740 (1046)
                      ++|.++.+..+-..+.|.+.|.|++|.+.+                        .+.+..+-+|..||+++|+|..-.--
T Consensus       337 S~N~Ls~~~Gwh~KLGNIKtL~La~N~iE~------------------------LSGL~KLYSLvnLDl~~N~Ie~ldeV  392 (490)
T KOG1259|consen  337 SGNLLAECVGWHLKLGNIKTLKLAQNKIET------------------------LSGLRKLYSLVNLDLSSNQIEELDEV  392 (490)
T ss_pred             ccchhHhhhhhHhhhcCEeeeehhhhhHhh------------------------hhhhHhhhhheeccccccchhhHHHh
Confidence            888777776666667777777777665332                        23344555666666666665221222


Q ss_pred             ccccCcCCCCeeeCCCCCCcccc
Q 001603          741 NDIGNLCSLKQLNLSQNNFVTLP  763 (1046)
Q Consensus       741 ~~l~~l~~L~~L~Ls~n~l~~lp  763 (1046)
                      ..++++|.|+.|.|.+|.+..+|
T Consensus       393 ~~IG~LPCLE~l~L~~NPl~~~v  415 (490)
T KOG1259|consen  393 NHIGNLPCLETLRLTGNPLAGSV  415 (490)
T ss_pred             cccccccHHHHHhhcCCCccccc
Confidence            34455555555555555555444

>KOG3207 consensus Beta-tubulin folding cofactor E [Posttranslational modification, protein turnover, chaperones]

Probab=98.93  E-value=3.1e-10  Score=120.84  Aligned_cols=211  Identities=19%  Similarity=0.212  Sum_probs=101.6

Q ss_pred             CCCCCeEecccccccccch--hcccCCCCcEEecCCCCCCcc--chhhhhccCcCcEEeccCCCCCCcCCc-cccCCccc
Q 001603          510 MNDLSELFLDRTTIEELPL--SIQHLTGLVLLNLKDCKNLKS--LSHTLRRLQCLKNLTLSGCSKLKKFPE-SLGSMKDL  584 (1046)
Q Consensus       510 l~~L~~L~l~~~~i~~lp~--~~~~l~~L~~L~L~~~~~~~~--l~~~l~~l~~L~~L~L~~~~~~~~~p~-~~~~l~~L  584 (1046)
                      +++|++..|+...+...+.  -...|++++.|+|+.|-....  +-.....||+|+.|+++.|.+.-.... .-..++.|
T Consensus       120 ~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~~l  199 (505)
T KOG3207|consen  120 LKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLSHL  199 (505)
T ss_pred             HHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhhhh
Confidence            4444555555555544442  344556666666665443222  223345556666666665543321111 01123444


Q ss_pred             ceeeccCcccc--ccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccC
Q 001603          585 MELFLDGTSIA--EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISG  662 (1046)
Q Consensus       585 ~~L~L~~~~i~--~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~  662 (1046)
                      +.|.++.|.++  ++...+..+|+|+.|++..|..                        .........-+..|++|+|++
T Consensus       200 K~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~------------------------~~~~~~~~~i~~~L~~LdLs~  255 (505)
T KOG3207|consen  200 KQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEI------------------------ILIKATSTKILQTLQELDLSN  255 (505)
T ss_pred             heEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccc------------------------cceecchhhhhhHHhhccccC
Confidence            45555555444  2222233445555555554432                        221111222234455555555


Q ss_pred             ccccCCC--cchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCc
Q 001603          663 TAIRRPP--SSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP  740 (1046)
Q Consensus       663 n~l~~~p--~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip  740 (1046)
                      |.+-..+  .....++.|..|+++.|.+.....                +......-...+++|+.|+++.|++.+-..-
T Consensus       256 N~li~~~~~~~~~~l~~L~~Lnls~tgi~si~~----------------~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl  319 (505)
T KOG3207|consen  256 NNLIDFDQGYKVGTLPGLNQLNLSSTGIASIAE----------------PDVESLDKTHTFPKLEYLNISENNIRDWRSL  319 (505)
T ss_pred             CcccccccccccccccchhhhhccccCcchhcC----------------CCccchhhhcccccceeeecccCcccccccc
Confidence            5544443  334445555555555544322100                0000011134567888888888888443333


Q ss_pred             ccccCcCCCCeeeCCCCCCc
Q 001603          741 NDIGNLCSLKQLNLSQNNFV  760 (1046)
Q Consensus       741 ~~l~~l~~L~~L~Ls~n~l~  760 (1046)
                      ..+..+++|+.|.+.+|.++
T Consensus       320 ~~l~~l~nlk~l~~~~n~ln  339 (505)
T KOG3207|consen  320 NHLRTLENLKHLRITLNYLN  339 (505)
T ss_pred             chhhccchhhhhhccccccc
Confidence            45666788888888888776

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.92  E-value=1.3e-10  Score=127.42  Aligned_cols=177  Identities=25%  Similarity=0.392  Sum_probs=116.3

Q ss_pred             cCCccccCCcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCC
Q 001603          573 KFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQV  652 (1046)
Q Consensus       573 ~~p~~~~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l  652 (1046)
                      .+|+.+.++..|+.|+|+.|++..+|..+..++                         |+.|.+++ ++++.+|+.++..
T Consensus       112 ~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC~lp-------------------------Lkvli~sN-Nkl~~lp~~ig~~  165 (722)
T KOG0532|consen  112 TIPEAICNLEALTFLDLSSNQLSHLPDGLCDLP-------------------------LKVLIVSN-NKLTSLPEEIGLL  165 (722)
T ss_pred             ecchhhhhhhHHHHhhhccchhhcCChhhhcCc-------------------------ceeEEEec-CccccCCcccccc
Confidence            344555555555555555555555555444333                         44444444 3455566667777


Q ss_pred             CCCceeeccCccccCCCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCC
Q 001603          653 ESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC  732 (1046)
Q Consensus       653 ~~L~~L~Ls~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n  732 (1046)
                      ..|..||.+.|.+..+|+.+..+.+|+.|++..|.....                       |+.+..| .|..||+|+|
T Consensus       166 ~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~l~~l-----------------------p~El~~L-pLi~lDfScN  221 (722)
T KOG0532|consen  166 PTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNHLEDL-----------------------PEELCSL-PLIRLDFSCN  221 (722)
T ss_pred             hhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhhhhhC-----------------------CHHHhCC-ceeeeecccC
Confidence            777778888888888888888888888887777664432                       4444533 4888999999


Q ss_pred             CCCCCCCcccccCcCCCCeeeCCCCCCcccchhh---hhccccCeeccccccccccCCCCCCCCceeecCCCc
Q 001603          733 GLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI---NSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCA  802 (1046)
Q Consensus       733 ~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i---~~l~~L~~L~L~~c~~l~~ip~lp~~L~~L~~~~C~  802 (1046)
                      ++  ..||-.|..|..|++|-|.+|.+++-|+.|   +...-.++|+..-|+ ...-+.++..++=.....|.
T Consensus       222 ki--s~iPv~fr~m~~Lq~l~LenNPLqSPPAqIC~kGkVHIFKyL~~qA~q-~~~a~~~~t~~RP~~~~~c~  291 (722)
T KOG0532|consen  222 KI--SYLPVDFRKMRHLQVLQLENNPLQSPPAQICEKGKVHIFKYLSTQACQ-SGGALDLYTTLRPRHFSSCH  291 (722)
T ss_pred             ce--eecchhhhhhhhheeeeeccCCCCCChHHHHhccceeeeeeecchhcc-ccCCcccccccCCcccCCcc
Confidence            98  469999999999999999999999888765   445567888888884 33333444444433333443

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.89  E-value=2e-09  Score=124.00  Aligned_cols=182  Identities=35%  Similarity=0.500  Sum_probs=139.3

Q ss_pred             cCCcccceeeccCccccccCcccccCC-CCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCce
Q 001603          579 GSMKDLMELFLDGTSIAEVPSSIELLT-GLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEE  657 (1046)
Q Consensus       579 ~~l~~L~~L~L~~~~i~~lp~~l~~l~-~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~  657 (1046)
                      ..++.++.|.+.++.+++++.....+. +|+.|++++|.+.. +|..+..+++|+.|++++|+... +|...+..++|+.
T Consensus       113 ~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~-l~~~~~~l~~L~~L~l~~N~l~~-l~~~~~~~~~L~~  190 (394)
T COG4886         113 LELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIES-LPSPLRNLPNLKNLDLSFNDLSD-LPKLLSNLSNLNN  190 (394)
T ss_pred             hcccceeEEecCCcccccCccccccchhhcccccccccchhh-hhhhhhccccccccccCCchhhh-hhhhhhhhhhhhh
Confidence            344667777788888887777777774 78888888766543 33456778888888888876544 4444446788999


Q ss_pred             eeccCccccCCCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCC
Q 001603          658 LDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEG  737 (1046)
Q Consensus       658 L~Ls~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~  737 (1046)
                      |++++|.++.+|..+..+..|++|.+++|.....                       +..+..+.++..|.+.+|.+  .
T Consensus       191 L~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~-----------------------~~~~~~~~~l~~l~l~~n~~--~  245 (394)
T COG4886         191 LDLSGNKISDLPPEIELLSALEELDLSNNSIIEL-----------------------LSSLSNLKNLSGLELSNNKL--E  245 (394)
T ss_pred             eeccCCccccCchhhhhhhhhhhhhhcCCcceec-----------------------chhhhhcccccccccCCcee--e
Confidence            9999999999988887778899999998853322                       45577788888888888887  3


Q ss_pred             CCcccccCcCCCCeeeCCCCCCcccchhhhhccccCeeccccccccccCCC
Q 001603          738 AIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQ  788 (1046)
Q Consensus       738 ~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip~  788 (1046)
                      .++..++.+++|+.|++++|.++.++. +..+.+|+.|+++++.....+|.
T Consensus       246 ~~~~~~~~l~~l~~L~~s~n~i~~i~~-~~~~~~l~~L~~s~n~~~~~~~~  295 (394)
T COG4886         246 DLPESIGNLSNLETLDLSNNQISSISS-LGSLTNLRELDLSGNSLSNALPL  295 (394)
T ss_pred             eccchhccccccceecccccccccccc-ccccCccCEEeccCccccccchh
Confidence            347788889999999999999999886 88899999999999877665554

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=98.88  E-value=1.4e-10  Score=120.38  Aligned_cols=246  Identities=22%  Similarity=0.233  Sum_probs=139.5

Q ss_pred             ccCCCCCeEeccccccc-----ccchhcccCCCCcEEecCCCCCC---cc-------chhhhhccCcCcEEeccCCCCCC
Q 001603          508 GSMNDLSELFLDRTTIE-----ELPLSIQHLTGLVLLNLKDCKNL---KS-------LSHTLRRLQCLKNLTLSGCSKLK  572 (1046)
Q Consensus       508 ~~l~~L~~L~l~~~~i~-----~lp~~~~~l~~L~~L~L~~~~~~---~~-------l~~~l~~l~~L~~L~L~~~~~~~  572 (1046)
                      ..+..++.+++++|.+.     .+...+.+.++|+..++++..--   ..       +..++...++|++|+||.|.+..
T Consensus        27 ~~~~s~~~l~lsgnt~G~EAa~~i~~~L~~~~~L~~v~~sd~ftGR~~~Ei~e~L~~l~~aL~~~~~L~~ldLSDNA~G~  106 (382)
T KOG1909|consen   27 EPMDSLTKLDLSGNTFGTEAARAIAKVLASKKELREVNLSDMFTGRLKDEIPEALKMLSKALLGCPKLQKLDLSDNAFGP  106 (382)
T ss_pred             cccCceEEEeccCCchhHHHHHHHHHHHhhcccceeeehHhhhcCCcHHHHHHHHHHHHHHHhcCCceeEeeccccccCc
Confidence            34455555555555554     23344555556666666542211   11       22344455566666666665554


Q ss_pred             cCCccc----cCCcccceeeccCccccccCcc-cccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCC----
Q 001603          573 KFPESL----GSMKDLMELFLDGTSIAEVPSS-IELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQ----  643 (1046)
Q Consensus       573 ~~p~~~----~~l~~L~~L~L~~~~i~~lp~~-l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~----  643 (1046)
                      ..+..+    ..+..|++|+|.+|.+...-.. ++.  .|..|.         ...-...-+.|+++...+|+.-.    
T Consensus       107 ~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~--al~~l~---------~~kk~~~~~~Lrv~i~~rNrlen~ga~  175 (382)
T KOG1909|consen  107 KGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGR--ALFELA---------VNKKAASKPKLRVFICGRNRLENGGAT  175 (382)
T ss_pred             cchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHH--HHHHHH---------HHhccCCCcceEEEEeeccccccccHH
Confidence            443322    2344555555555544421110 000  000000         01112335677777777765432    


Q ss_pred             CcCcccCCCCCCceeeccCccccCC-----CcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCc
Q 001603          644 NVPETLGQVESLEELDISGTAIRRP-----PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSL  718 (1046)
Q Consensus       644 ~~~~~~~~l~~L~~L~Ls~n~l~~~-----p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  718 (1046)
                      .+...|...+.|+.+.+..|.|..-     -..+..+++|+.|+|..|.....-.                  ..+...+
T Consensus       176 ~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs------------------~~LakaL  237 (382)
T KOG1909|consen  176 ALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGS------------------VALAKAL  237 (382)
T ss_pred             HHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHH------------------HHHHHHh
Confidence            2334566678888888888876643     3456678888888888875432110                  1123346


Q ss_pred             cCCCCCCEEecCCCCCCCCCCc---ccc-cCcCCCCeeeCCCCCCc-----ccchhhhhccccCeeccccccc
Q 001603          719 SGLHSLSKLDLSDCGLGEGAIP---NDI-GNLCSLKQLNLSQNNFV-----TLPASINSLFNLGQLDLEDCKR  782 (1046)
Q Consensus       719 ~~l~~L~~L~Ls~n~l~~~~ip---~~l-~~l~~L~~L~Ls~n~l~-----~lp~~i~~l~~L~~L~L~~c~~  782 (1046)
                      +.+++|++|++++|.+.+..--   ..+ ...|+|+.|.|.+|.++     .+-.++...+.|+.|+|++|..
T Consensus       238 ~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  238 SSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             cccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            6778999999999988543221   222 34789999999999987     3445677789999999999954

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.85  E-value=1.3e-09  Score=110.16  Aligned_cols=110  Identities=25%  Similarity=0.199  Sum_probs=79.0

Q ss_pred             ccccccCCCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCCccccCCcc
Q 001603          504 LEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKD  583 (1046)
Q Consensus       504 ~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p~~~~~l~~  583 (1046)
                      .........|++++|++|.|+.+..+..-.|.++.|+++.|.....-  .+..+++|+.|+|++|. +..+..+-.++.|
T Consensus       277 ~~~~dTWq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~--nLa~L~~L~~LDLS~N~-Ls~~~Gwh~KLGN  353 (490)
T KOG1259|consen  277 LVSADTWQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQ--NLAELPQLQLLDLSGNL-LAECVGWHLKLGN  353 (490)
T ss_pred             EEecchHhhhhhccccccchhhhhhhhhhccceeEEeccccceeeeh--hhhhcccceEeecccch-hHhhhhhHhhhcC
Confidence            33444567789999999999999999888999999999988765442  26778888888888764 3344445556677


Q ss_pred             cceeeccCccccccCcccccCCCCCEEecCCCCC
Q 001603          584 LMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSN  617 (1046)
Q Consensus       584 L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~  617 (1046)
                      ++.|.|.+|.+..+ +.++.+-+|..|++++|++
T Consensus       354 IKtL~La~N~iE~L-SGL~KLYSLvnLDl~~N~I  386 (490)
T KOG1259|consen  354 IKTLKLAQNKIETL-SGLRKLYSLVNLDLSSNQI  386 (490)
T ss_pred             EeeeehhhhhHhhh-hhhHhhhhheeccccccch
Confidence            77788887777765 3455666666666666554

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.85  E-value=9e-11  Score=128.53  Aligned_cols=192  Identities=24%  Similarity=0.315  Sum_probs=153.3

Q ss_pred             CcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeec
Q 001603          581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI  660 (1046)
Q Consensus       581 l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~L  660 (1046)
                      +.--...+++.|.+.++|..+..+..|+.|.+..|.+ ..+|..++++..|+.|+|+.|. +..+|..++.++ |+.|-+
T Consensus        74 ltdt~~aDlsrNR~~elp~~~~~f~~Le~liLy~n~~-r~ip~~i~~L~~lt~l~ls~Nq-lS~lp~~lC~lp-Lkvli~  150 (722)
T KOG0532|consen   74 LTDTVFADLSRNRFSELPEEACAFVSLESLILYHNCI-RTIPEAICNLEALTFLDLSSNQ-LSHLPDGLCDLP-LKVLIV  150 (722)
T ss_pred             ccchhhhhccccccccCchHHHHHHHHHHHHHHhccc-eecchhhhhhhHHHHhhhccch-hhcCChhhhcCc-ceeEEE
Confidence            3344556777788888887777777777777776554 4567777888888888888865 445677777665 999999


Q ss_pred             cCccccCCCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCCccCCCCCCEEecCCCCCCCCCCc
Q 001603          661 SGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP  740 (1046)
Q Consensus       661 s~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip  740 (1046)
                      ++|+++.+|..++....|..|+.+.|.+.+.                       ++.++++.+|+.|.+..|++  ..+|
T Consensus       151 sNNkl~~lp~~ig~~~tl~~ld~s~nei~sl-----------------------psql~~l~slr~l~vrRn~l--~~lp  205 (722)
T KOG0532|consen  151 SNNKLTSLPEEIGLLPTLAHLDVSKNEIQSL-----------------------PSQLGYLTSLRDLNVRRNHL--EDLP  205 (722)
T ss_pred             ecCccccCCcccccchhHHHhhhhhhhhhhc-----------------------hHHhhhHHHHHHHHHhhhhh--hhCC
Confidence            9999999999999999999999999886543                       67789999999999999998  4588


Q ss_pred             ccccCcCCCCeeeCCCCCCcccchhhhhccccCeeccccccccccCCC------CCCCCceeecCCCc
Q 001603          741 NDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQ------LPSNLYEVQVNGCA  802 (1046)
Q Consensus       741 ~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip~------lp~~L~~L~~~~C~  802 (1046)
                      ..+. .-.|..||+|+|+++.||..|.+|..|++|-|.+|+ |++-|.      .-.=.++|++.-|.
T Consensus       206 ~El~-~LpLi~lDfScNkis~iPv~fr~m~~Lq~l~LenNP-LqSPPAqIC~kGkVHIFKyL~~qA~q  271 (722)
T KOG0532|consen  206 EELC-SLPLIRLDFSCNKISYLPVDFRKMRHLQVLQLENNP-LQSPPAQICEKGKVHIFKYLSTQACQ  271 (722)
T ss_pred             HHHh-CCceeeeecccCceeecchhhhhhhhheeeeeccCC-CCCChHHHHhccceeeeeeecchhcc
Confidence            8888 557999999999999999999999999999999997 455553      11224677887774

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.84  E-value=3.8e-09  Score=121.64  Aligned_cols=194  Identities=27%  Similarity=0.348  Sum_probs=120.3

Q ss_pred             EEEeCCccCCCchhccc--cCccEEEecCCCCCCCCCCCCCC--CceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCC
Q 001603          354 LLKIDNLQLPEGLEYLS--NKLRLLDWHRYPLKSLPSNFQLE--KTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNL  429 (1046)
Q Consensus       354 ~L~l~~~~l~~~~~~l~--~~Lr~L~l~~~~l~~lp~~~~l~--~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~  429 (1046)
                      .|++..+.+......+.  ..+..|++.++++.++|....+.  +|++|++++|.++.+|..+..+++|+.|++++|++.
T Consensus        97 ~l~~~~~~~~~~~~~~~~~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~  176 (394)
T COG4886          97 SLDLNLNRLRSNISELLELTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLS  176 (394)
T ss_pred             eeeccccccccCchhhhcccceeEEecCCcccccCccccccchhhcccccccccchhhhhhhhhccccccccccCCchhh
Confidence            46677776633222222  25888888999999888888554  899999999999988888888899999999888865


Q ss_pred             CCCCCCCCCCCCCEEEeeCCCCCccccccccCCCCccEEeccCCCCCCccCCcCCccccceeeccCCcCCcccccccccc
Q 001603          430 IKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGS  509 (1046)
Q Consensus       430 ~~~~~l~~l~~L~~L~L~~~~~~~~~~~~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L~~~~~l~~~~~~~~~~  509 (1046)
                      ..++....+++|+.|++++| ....+|..+..+..|++|.++++..+..+.....+..+..+.                 
T Consensus       177 ~l~~~~~~~~~L~~L~ls~N-~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~-----------------  238 (394)
T COG4886         177 DLPKLLSNLSNLNNLDLSGN-KISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLE-----------------  238 (394)
T ss_pred             hhhhhhhhhhhhhheeccCC-ccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccc-----------------
Confidence            55555557888888888885 344555555556667777777654333333333344444444                 


Q ss_pred             CCCCCeEecccccccccchhcccCCCCcEEecCCCCCCccchhhhhccCcCcEEeccCCCCCCcCC
Q 001603          510 MNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP  575 (1046)
Q Consensus       510 l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~~l~~~l~~l~~L~~L~L~~~~~~~~~p  575 (1046)
                              +..|.+..++..+..+++++.|++++|.......  +..+.+|+.|+++++......|
T Consensus       239 --------l~~n~~~~~~~~~~~l~~l~~L~~s~n~i~~i~~--~~~~~~l~~L~~s~n~~~~~~~  294 (394)
T COG4886         239 --------LSNNKLEDLPESIGNLSNLETLDLSNNQISSISS--LGSLTNLRELDLSGNSLSNALP  294 (394)
T ss_pred             --------cCCceeeeccchhccccccceecccccccccccc--ccccCccCEEeccCccccccch
Confidence                    4444444444444455555555555544333322  4455555555555554444433

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.80  E-value=4e-08  Score=108.66  Aligned_cols=244  Identities=18%  Similarity=0.145  Sum_probs=131.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccc----cchHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNV----DDGINIIGS   77 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~----~~~~~~i~~   77 (1046)
                      +.|+|++|+|||+||+++++.+...+.   +.. .... ..   ...+ ...+..+....-.-..+.    ....+.+..
T Consensus        33 ~ll~Gp~G~GKT~la~~ia~~~~~~~~---~~~-~~~~-~~---~~~l-~~~l~~~~~~~vl~iDEi~~l~~~~~e~l~~  103 (305)
T TIGR00635        33 LLLYGPPGLGKTTLAHIIANEMGVNLK---ITS-GPAL-EK---PGDL-AAILTNLEEGDVLFIDEIHRLSPAVEELLYP  103 (305)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEE---Eec-cchh-cC---chhH-HHHHHhcccCCEEEEehHhhhCHHHHHHhhH
Confidence            679999999999999999998764422   111 0000 01   1111 111222211000000000    011222333


Q ss_pred             hhcCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           78 RLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        78 ~L~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      .+.+.+..+|+|+..+..++...      ..+..-|.+||+...+.......-...+++++++.+|..+++.+.+.....
T Consensus       104 ~~~~~~~~~v~~~~~~~~~~~~~------~~~~~li~~t~~~~~l~~~l~sR~~~~~~l~~l~~~e~~~il~~~~~~~~~  177 (305)
T TIGR00635       104 AMEDFRLDIVIGKGPSARSVRLD------LPPFTLVGATTRAGMLTSPLRDRFGIILRLEFYTVEELAEIVSRSAGLLNV  177 (305)
T ss_pred             HHhhhheeeeeccCccccceeec------CCCeEEEEecCCccccCHHHHhhcceEEEeCCCCHHHHHHHHHHHHHHhCC
Confidence            44444555555554444333211      123455666777654433221111227899999999999999988764332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHHhhhcC------C-C--ChHHHHHHHHHHhcCCCCchHHHHhhcccccchhhhhh
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVLGSFLN------G-R--SVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKI  228 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~------~-~--~~~~w~~~l~~l~~~~~~~i~~~l~~sy~~L~~~~k~~  228 (1046)
                        .-..+....|++.++|.|-.+..++..+.      + .  +.+..+.            ....+...|.++++.++..
T Consensus       178 --~~~~~al~~ia~~~~G~pR~~~~ll~~~~~~a~~~~~~~it~~~v~~------------~l~~l~~~~~~l~~~~~~~  243 (305)
T TIGR00635       178 --EIEPEAALEIARRSRGTPRIANRLLRRVRDFAQVRGQKIINRDIALK------------ALEMLMIDELGLDEIDRKL  243 (305)
T ss_pred             --CcCHHHHHHHHHHhCCCcchHHHHHHHHHHHHHHcCCCCcCHHHHHH------------HHHHhCCCCCCCCHHHHHH
Confidence              22246678899999999977655554321      0 0  1111111            2222566788899888776


Q ss_pred             hc-eeecccCC-CCHHHHHHHHHhcCCCcccchh-heeccceEEEecCC
Q 001603          229 FL-DVACFFKS-WDRDHVEKILEGCGFSPVIGIE-VLIEKSLLTVDDGN  274 (1046)
Q Consensus       229 fl-~~a~f~~~-~~~~~l~~~~~~~g~~~~~~l~-~L~~~~Li~~~~~~  274 (1046)
                      +. .++.+..+ ...+.+...+..........++ .|++++||.....+
T Consensus       244 L~al~~~~~~~~~~~~~ia~~lg~~~~~~~~~~e~~Li~~~li~~~~~g  292 (305)
T TIGR00635       244 LSVLIEQFQGGPVGLKTLAAALGEDADTIEDVYEPYLLQIGFLQRTPRG  292 (305)
T ss_pred             HHHHHHHhCCCcccHHHHHHHhCCCcchHHHhhhHHHHHcCCcccCCch
Confidence            65 44555433 4566666666554444445567 69999999755443

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.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=98.76  E-value=1.7e-07  Score=107.87  Aligned_cols=221  Identities=16%  Similarity=0.181  Sum_probs=127.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccc--eeEEEEechhhhcccCCHHHHHHHHHHHHhhc-cCcccccccchHHHHHHh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD--GSTFLANVREKSEKEGSVVSLQKQLLSDLLKL-ADISIWNVDDGINIIGSR   78 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~-~~~~~~~~~~~~~~i~~~   78 (1046)
                      +.|+|++|+|||++++.+++.+..+..  ..+++. +...    .+...+..+++.++... ......+..+....+.+.
T Consensus        58 ~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in-~~~~----~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~  132 (394)
T PRK00411         58 VLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYIN-CQID----RTRYAIFSEIARQLFGHPPPSSGLSFDELFDKIAEY  132 (394)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEE-CCcC----CCHHHHHHHHHHHhcCCCCCCCCCCHHHHHHHHHHH
Confidence            679999999999999999998766542  223332 2222    22566777788877531 111112334455666666


Q ss_pred             hc--CCeEEEEEecCCChH------HHHHHhhccCCCCCCCE--EEEEeCChhhHHHhc-----CCCcceEecCCCChHH
Q 001603           79 LR--QKKVLLVIDDVADVE------QLQNLARKRDWFGPGSK--IVITTRDKQLLVAHE-----VDEEHIYNLEVLSNDE  143 (1046)
Q Consensus        79 L~--~kr~LlVlDdv~~~~------~~~~l~~~~~~~~~gs~--IiiTTR~~~~~~~~~-----~~~~~~~~l~~L~~~e  143 (1046)
                      +.  +++++||||+++...      .+..+...... .++++  +|.++.+..+.....     .-....+.+++++.++
T Consensus       133 l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~~~-~~~~~v~vI~i~~~~~~~~~l~~~~~s~~~~~~i~f~py~~~e  211 (394)
T PRK00411        133 LDERDRVLIVALDDINYLFEKEGNDVLYSLLRAHEE-YPGARIGVIGISSDLTFLYILDPRVKSVFRPEEIYFPPYTADE  211 (394)
T ss_pred             HHhcCCEEEEEECCHhHhhccCCchHHHHHHHhhhc-cCCCeEEEEEEECCcchhhhcCHHHHhcCCcceeecCCCCHHH
Confidence            64  467999999998753      35555443222 13333  566666544322210     1112368999999999


Q ss_pred             HHHHHHHhhcCCCCCCchHHHHHHHHHHH----hCCCchHHHHHhhhc-----CC---CChHHHHHHHHHHhcCCCCchH
Q 001603          144 ALQLFSMKAFKTRQPMGEYVELSKRVLKY----AGGLPLALTVLGSFL-----NG---RSVDLWRSTLKRLKKEPPNRII  211 (1046)
Q Consensus       144 a~~Lf~~~a~~~~~~~~~~~~~~~~i~~~----~~GlPLal~~~~~~L-----~~---~~~~~w~~~l~~l~~~~~~~i~  211 (1046)
                      ..+++..++...-.+..-..+..+.+++.    .|..+.|+.++-...     .+   -+.+.++.++++..       .
T Consensus       212 ~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I~~~~v~~a~~~~~-------~  284 (394)
T PRK00411        212 IFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKVTEEDVRKAYEKSE-------I  284 (394)
T ss_pred             HHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCcCHHHHHHHHHHHH-------H
Confidence            99999887632211111112233334333    455677776654321     11   15666777666652       2


Q ss_pred             HHHhhcccccchhhhhhhceeecc
Q 001603          212 NILQISFDGLQDLEKKIFLDVACF  235 (1046)
Q Consensus       212 ~~l~~sy~~L~~~~k~~fl~~a~f  235 (1046)
                      ....-.+..||.++|..+..++..
T Consensus       285 ~~~~~~~~~L~~~~k~~L~ai~~~  308 (394)
T PRK00411        285 VHLSEVLRTLPLHEKLLLRAIVRL  308 (394)
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHH
Confidence            233456789999888777665533

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.76  E-value=7.8e-09  Score=101.41  Aligned_cols=62  Identities=35%  Similarity=0.464  Sum_probs=16.5

Q ss_pred             cCCCCCCEEecCCCCCCCCCCcccc-cCcCCCCeeeCCCCCCcccc--hhhhhccccCeeccccccc
Q 001603          719 SGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLP--ASINSLFNLGQLDLEDCKR  782 (1046)
Q Consensus       719 ~~l~~L~~L~Ls~n~l~~~~ip~~l-~~l~~L~~L~Ls~n~l~~lp--~~i~~l~~L~~L~L~~c~~  782 (1046)
                      ..++.|++|++++|.+.  .++..+ ..+++|+.|+|++|++..+.  ..++.+++|+.|++.+||.
T Consensus        61 ~~L~~L~~L~L~~N~I~--~i~~~l~~~lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv  125 (175)
T PF14580_consen   61 PGLPRLKTLDLSNNRIS--SISEGLDKNLPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPV  125 (175)
T ss_dssp             ---TT--EEE--SS-----S-CHHHHHH-TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GG
T ss_pred             cChhhhhhcccCCCCCC--ccccchHHhCCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCcc
Confidence            33444455555555442  122222 23445555555555444322  1344455555555555543

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.71  E-value=4.3e-08  Score=109.08  Aligned_cols=157  Identities=15%  Similarity=0.033  Sum_probs=94.7

Q ss_pred             CCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcCC
Q 001603          110 GSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNG  189 (1046)
Q Consensus       110 gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~  189 (1046)
                      .+-|..|||...+.......-...+++++++.++..+++.+.+......  -..+.+..|++.|+|.|-.+..+...+  
T Consensus       151 ~~li~at~~~~~l~~~L~sRf~~~~~l~~~~~~e~~~il~~~~~~~~~~--~~~~~~~~ia~~~~G~pR~a~~~l~~~--  226 (328)
T PRK00080        151 FTLIGATTRAGLLTSPLRDRFGIVQRLEFYTVEELEKIVKRSARILGVE--IDEEGALEIARRSRGTPRIANRLLRRV--  226 (328)
T ss_pred             ceEEeecCCcccCCHHHHHhcCeeeecCCCCHHHHHHHHHHHHHHcCCC--cCHHHHHHHHHHcCCCchHHHHHHHHH--
Confidence            3456667775544332211111278999999999999999887654322  233678899999999997655554432  


Q ss_pred             CChHHHHHHHHHHhcCCC---CchHHHHhhcccccchhhhhhhc-eeecccCC-CCHHHHHHHHHhcCCCcccchh-hee
Q 001603          190 RSVDLWRSTLKRLKKEPP---NRIINILQISFDGLQDLEKKIFL-DVACFFKS-WDRDHVEKILEGCGFSPVIGIE-VLI  263 (1046)
Q Consensus       190 ~~~~~w~~~l~~l~~~~~---~~i~~~l~~sy~~L~~~~k~~fl-~~a~f~~~-~~~~~l~~~~~~~g~~~~~~l~-~L~  263 (1046)
                         ..|.... .-.....   ......+...+.+|++..++.+. ....|..+ +..+.+...+.......+..++ .|+
T Consensus       227 ---~~~a~~~-~~~~I~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~~~~~~~~a~~lg~~~~~~~~~~e~~Li  302 (328)
T PRK00080        227 ---RDFAQVK-GDGVITKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGGPVGLDTLAAALGEERDTIEDVYEPYLI  302 (328)
T ss_pred             ---HHHHHHc-CCCCCCHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCCceeHHHHHHHHCCCcchHHHHhhHHHH
Confidence               1111110 0000001   12334456778889888888775 55556544 4667776666554444444566 899


Q ss_pred             ccceEEEecCC
Q 001603          264 EKSLLTVDDGN  274 (1046)
Q Consensus       264 ~~~Li~~~~~~  274 (1046)
                      +.+||.....+
T Consensus       303 ~~~li~~~~~g  313 (328)
T PRK00080        303 QQGFIQRTPRG  313 (328)
T ss_pred             HcCCcccCCch
Confidence            99999765433

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.70  E-value=8.8e-09  Score=101.04  Aligned_cols=124  Identities=21%  Similarity=0.236  Sum_probs=43.0

Q ss_pred             CCCCccEEEeCCccCCC--chhccccCccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcccc-cCCCCCcEEEcC
Q 001603          348 QMTNLRLLKIDNLQLPE--GLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEI-KYLNMLKVMKLS  424 (1046)
Q Consensus       348 ~l~~Lr~L~l~~~~l~~--~~~~l~~~Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~-~~l~~L~~L~Ls  424 (1046)
                      +..++|.|++.+|.++.  .+.....+|+.|++++|.+++++..-.+++|++|++++|+|+.+.+.+ ..+++|+.|+++
T Consensus        17 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~~L~L~   96 (175)
T PF14580_consen   17 NPVKLRELNLRGNQISTIENLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQELYLS   96 (175)
T ss_dssp             -------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EEE-T
T ss_pred             cccccccccccccccccccchhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEEECc
Confidence            44567888888888763  444333458888888888888876557888888888888888876555 357888888888


Q ss_pred             CCcCCCC--CCCCCCCCCCCEEEeeCCCCCcccc---ccccCCCCccEEecc
Q 001603          425 HSQNLIK--TPDFTGVPNLEELILEGCTRLHEIH---PSLLLHSKLVILNLK  471 (1046)
Q Consensus       425 ~~~~~~~--~~~l~~l~~L~~L~L~~~~~~~~~~---~~l~~l~~L~~L~L~  471 (1046)
                      +|++...  ...+..+++|+.|+|.+|+....-.   ..+..+++|+.||-.
T Consensus        97 ~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   97 NNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             TS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETTE
T ss_pred             CCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCCE
Confidence            8874332  2235667777777777765543211   123345555555543

>PRK06893 DNA replication initiation factor; Validated

Probab=98.66  E-value=3.2e-07  Score=96.13  Aligned_cols=148  Identities=17%  Similarity=0.201  Sum_probs=90.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|||++|+|||+||+++++.+..+...+.|+....        ......                      .+.+.++ 
T Consensus        42 l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~--------~~~~~~----------------------~~~~~~~-   90 (229)
T PRK06893         42 FYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSK--------SQYFSP----------------------AVLENLE-   90 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHH--------hhhhhH----------------------HHHhhcc-
Confidence            579999999999999999998766555566765210        000000                      1111222 


Q ss_pred             CeEEEEEecCCCh---HHHHH-HhhccCC-CCCCCEEEEEeCCh----------hhHHHhcCCCcceEecCCCChHHHHH
Q 001603           82 KKVLLVIDDVADV---EQLQN-LARKRDW-FGPGSKIVITTRDK----------QLLVAHEVDEEHIYNLEVLSNDEALQ  146 (1046)
Q Consensus        82 kr~LlVlDdv~~~---~~~~~-l~~~~~~-~~~gs~IiiTTR~~----------~~~~~~~~~~~~~~~l~~L~~~ea~~  146 (1046)
                      +.-+|||||++..   .+|+. +...++. ...|..+||+|.+.          .+........  .+++++++.++.++
T Consensus        91 ~~dlLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~--~~~l~~pd~e~~~~  168 (229)
T PRK06893         91 QQDLVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGE--IYQLNDLTDEQKII  168 (229)
T ss_pred             cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCC--eeeCCCCCHHHHHH
Confidence            2348999999863   33432 2222221 12456665554443          3333333333  89999999999999


Q ss_pred             HHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          147 LFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       147 Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                      ++.+.++...-  .-.+++..-|++++.|..-++..+-
T Consensus       169 iL~~~a~~~~l--~l~~~v~~~L~~~~~~d~r~l~~~l  204 (229)
T PRK06893        169 VLQRNAYQRGI--ELSDEVANFLLKRLDRDMHTLFDAL  204 (229)
T ss_pred             HHHHHHHHcCC--CCCHHHHHHHHHhccCCHHHHHHHH
Confidence            99999875442  2234667788888887776665443

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.65  E-value=2e-08  Score=107.99  Aligned_cols=275  Identities=21%  Similarity=0.261  Sum_probs=182.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.++|.|||||||++-++.. ++..|+...++.+.+...+..    .+.-.+...+.-    ...+-+.....+..+..+
T Consensus        17 vtL~g~ggvgkttl~~~~a~-~~~~~~~~v~~vdl~pitD~~----~v~~~~ag~~gl----~~~~g~~~~~~~~~~~~~   87 (414)
T COG3903          17 VTLTGAGGVGKTTLALQAAH-AASEYADGVAFVDLAPITDPA----LVFPTLAGALGL----HVQPGDSAVDTLVRRIGD   87 (414)
T ss_pred             eeeeccCccceehhhhhhHh-HhhhcccceeeeeccccCchh----HhHHHHHhhccc----ccccchHHHHHHHHHHhh
Confidence            68999999999999999999 888898887777666654422    222222222321    112222344456677788


Q ss_pred             CeEEEEEecCCChH-HHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChH-HHHHHHHHhhcCCCCC-
Q 001603           82 KKVLLVIDDVADVE-QLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSND-EALQLFSMKAFKTRQP-  158 (1046)
Q Consensus        82 kr~LlVlDdv~~~~-~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~-ea~~Lf~~~a~~~~~~-  158 (1046)
                      +|.++|+||-.+.. +-..+...+....+.-+|+.|+|...     .+.....+.+..|+.. ++.++|...+.....+ 
T Consensus        88 rr~llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~-----l~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f  162 (414)
T COG3903          88 RRALLVLDNCEHLLDACAALIVALLGACPRLAILATSREAI-----LVAGEVHRRVPSLSLFDEAIELFVCRAVLVALSF  162 (414)
T ss_pred             hhHHHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhh-----cccccccccCCccccCCchhHHHHHHHHHhccce
Confidence            99999999987653 23333333333456678899999743     3444448899999876 7999998876433221 


Q ss_pred             --CchHHHHHHHHHHHhCCCchHHHHHhhhcCCCChHHHHHHHHH----HhcC------CCCchHHHHhhcccccchhhh
Q 001603          159 --MGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKR----LKKE------PPNRIINILQISFDGLQDLEK  226 (1046)
Q Consensus       159 --~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~----l~~~------~~~~i~~~l~~sy~~L~~~~k  226 (1046)
                        .........+|.++.+|.|++|...++..+.-..++...-++.    +...      ........+.+||.-|..-++
T Consensus       163 ~l~~~~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~~r~a~~~~qtl~asl~ws~~lLtgwe~  242 (414)
T COG3903         163 WLTDDNAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGGARLAVLRQQTLRASLDWSYALLTGWER  242 (414)
T ss_pred             eecCCchHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcccccchhHHHhccchhhhhhHhhhhHHH
Confidence              2333466789999999999999999998887665554444332    2222      124456678999999999999


Q ss_pred             hhhceeecccCCCCHHHHHHHHHhcCCCc-------ccchhheeccceEEEec---CCeEEehHHHHHHHHHHHhh
Q 001603          227 KIFLDVACFFKSWDRDHVEKILEGCGFSP-------VIGIEVLIEKSLLTVDD---GNRLWMHDLLQELGHQIVQR  292 (1046)
Q Consensus       227 ~~fl~~a~f~~~~~~~~l~~~~~~~g~~~-------~~~l~~L~~~~Li~~~~---~~~~~mHdli~e~~~~i~~~  292 (1046)
                      ..|..++.|...|+.+.  ..+.+.|-..       -..+..+++++++...+   .-.++.-+..+.|+.+.+.+
T Consensus       243 ~~~~rLa~~~g~f~~~l--~~~~a~g~~~~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~r  316 (414)
T COG3903         243 ALFGRLAVFVGGFDLGL--ALAVAAGADVDVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELHR  316 (414)
T ss_pred             HHhcchhhhhhhhcccH--HHHHhcCCccccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHHh
Confidence            99999999999887762  3333333221       22366788888887654   22456666666666665543

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.62  E-value=6.7e-07  Score=104.12  Aligned_cols=273  Identities=19%  Similarity=0.242  Sum_probs=163.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCc------------ccccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI------------SIWNV   68 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~------------~~~~~   68 (1046)
                      ++.|..++|.|||||+.+...+ ..+=..+.|+.    .++.......+...++..+......            +..+.
T Consensus        39 L~li~APAGfGKttl~aq~~~~-~~~~~~v~Wls----lde~dndp~rF~~yLi~al~~~~p~~~~~a~~l~q~~~~~~l  113 (894)
T COG2909          39 LILISAPAGFGKTTLLAQWREL-AADGAAVAWLS----LDESDNDPARFLSYLIAALQQATPTLGDEAQTLLQKHQYVSL  113 (894)
T ss_pred             EEEEeCCCCCcHHHHHHHHHHh-cCcccceeEee----cCCccCCHHHHHHHHHHHHHHhCccccHHHHHHHHhcccccH
Confidence            3789999999999999999883 33445678887    3333334667777777777621111            00111


Q ss_pred             cchHHHHHHhhc--CCeEEEEEecCCCh------HHHHHHhhccCCCCCCCEEEEEeCChhhHHHh--cCCCcceEecC-
Q 001603           69 DDGINIIGSRLR--QKKVLLVIDDVADV------EQLQNLARKRDWFGPGSKIVITTRDKQLLVAH--EVDEEHIYNLE-  137 (1046)
Q Consensus        69 ~~~~~~i~~~L~--~kr~LlVlDdv~~~------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~--~~~~~~~~~l~-  137 (1046)
                      ....+.+..-+.  .++..+||||..-.      +.++.+...   ..++-..|||||.+.-+...  .+. +...++. 
T Consensus       114 ~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~---~P~~l~lvv~SR~rP~l~la~lRlr-~~llEi~~  189 (894)
T COG2909         114 ESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKH---APENLTLVVTSRSRPQLGLARLRLR-DELLEIGS  189 (894)
T ss_pred             HHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHh---CCCCeEEEEEeccCCCCcccceeeh-hhHHhcCh
Confidence            222333333332  57899999998532      335555544   34788999999987532111  111 1133332 


Q ss_pred             ---CCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCC-ChHHHHHHHHHHhcCCCCchHHH
Q 001603          138 ---VLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGR-SVDLWRSTLKRLKKEPPNRIINI  213 (1046)
Q Consensus       138 ---~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~-~~~~w~~~l~~l~~~~~~~i~~~  213 (1046)
                         .++.+|+.++|......     +-.+.-++.+.++.+|-+-|+..++=.+++. +.+.-...+.   .. .+.+.+-
T Consensus       190 ~~Lrf~~eE~~~fl~~~~~l-----~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~Ls---G~-~~~l~dY  260 (894)
T COG2909         190 EELRFDTEEAAAFLNDRGSL-----PLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGLS---GA-ASHLSDY  260 (894)
T ss_pred             HhhcCChHHHHHHHHHcCCC-----CCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhcc---ch-HHHHHHH
Confidence               57899999999876521     2223457889999999999999988877733 3222111111   11 1122221


Q ss_pred             -HhhcccccchhhhhhhceeecccCCCCHHHHHHHHHhcCCCcccchhheeccceEE--Eec-CCeEEehHHHHHHHHHH
Q 001603          214 -LQISFDGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLT--VDD-GNRLWMHDLLQELGHQI  289 (1046)
Q Consensus       214 -l~~sy~~L~~~~k~~fl~~a~f~~~~~~~~l~~~~~~~g~~~~~~l~~L~~~~Li~--~~~-~~~~~mHdli~e~~~~i  289 (1046)
                       ..--+|.||++.|..++-+|++.. +. +.+...+.+.+- ...-++.|-.++|+-  .++ .++|..|.++.||-+..
T Consensus       261 L~eeVld~Lp~~l~~FLl~~svl~~-f~-~eL~~~Ltg~~n-g~amLe~L~~~gLFl~~Ldd~~~WfryH~LFaeFL~~r  337 (894)
T COG2909         261 LVEEVLDRLPPELRDFLLQTSVLSR-FN-DELCNALTGEEN-GQAMLEELERRGLFLQRLDDEGQWFRYHHLFAEFLRQR  337 (894)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHhHHH-hh-HHHHHHHhcCCc-HHHHHHHHHhCCCceeeecCCCceeehhHHHHHHHHhh
Confidence             223468999999999999998843 11 122222221110 011266777777654  232 67899999999999887


Q ss_pred             HhhcC
Q 001603          290 VQRQS  294 (1046)
Q Consensus       290 ~~~e~  294 (1046)
                      ...+.
T Consensus       338 ~~~~~  342 (894)
T COG2909         338 LQREL  342 (894)
T ss_pred             hcccc
Confidence            76643

>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=98.61  E-value=2.3e-07  Score=98.51  Aligned_cols=178  Identities=20%  Similarity=0.188  Sum_probs=87.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHH------HHHHHHHHhhc-cCc--------cc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSL------QKQLLSDLLKL-ADI--------SI   65 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l------~~~ll~~l~~~-~~~--------~~   65 (1046)
                      .+.|+|+.|+|||+|++.+.+.....-...+|+..........  ....      ...+...+... .+.        ..
T Consensus        22 ~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~   99 (234)
T PF01637_consen   22 HILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESS--LRSFIEETSLADELSEALGISIPSITLEKISKDLS   99 (234)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHH--HHHHHHHHHHHCHCHHHHHHHCCTSTTEEEECTS-
T ss_pred             EEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhH--HHHHHHHHHHHHHHHHHHhhhcccccchhhhhcch
Confidence            3789999999999999999998754322344444322211100  1111      11111222211 010        00


Q ss_pred             ccccchHHHHHHhhc--CCeEEEEEecCCChH-----------HHHHHhhccCCCCCCCEEEEEeCChhhHHHh------
Q 001603           66 WNVDDGINIIGSRLR--QKKVLLVIDDVADVE-----------QLQNLARKRDWFGPGSKIVITTRDKQLLVAH------  126 (1046)
Q Consensus        66 ~~~~~~~~~i~~~L~--~kr~LlVlDdv~~~~-----------~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~------  126 (1046)
                      .........+.+.+.  +++++||+||++...           .+..+...... ...-.+|+++....+....      
T Consensus       100 ~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~~~v~~~S~~~~~~~~~~~~~~  178 (234)
T PF01637_consen  100 EDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS-QQNVSIVITGSSDSLMEEFLDDKSP  178 (234)
T ss_dssp             GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-----TTEEEEEEESSHHHHHHTT-TTST
T ss_pred             hhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc-cCCceEEEECCchHHHHHhhcccCc
Confidence            122233344444443  356999999997655           12222222221 2334455555555444330      


Q ss_pred             cCCCcceEecCCCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHH
Q 001603          127 EVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       127 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~  182 (1046)
                      .......+.|++|+.+++++++...+-.. ..-+...+..++|+..+||+|..|..
T Consensus       179 ~~~~~~~~~l~~l~~~e~~~~~~~~~~~~-~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  179 LFGRFSHIELKPLSKEEAREFLKELFKEL-IKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             TTT---EEEE----HHHHHHHHHHHHHCC-------HHHHHHHHHHHTT-HHHHHH
T ss_pred             cccccceEEEeeCCHHHHHHHHHHHHHHh-hcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            11222359999999999999999865433 11122345678999999999998864

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.61  E-value=1.7e-06  Score=98.56  Aligned_cols=220  Identities=14%  Similarity=0.131  Sum_probs=119.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccc-----e-eEEEEechhhhcccCCHHHHHHHHHHHHhh-ccCc--ccccccchH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD-----G-STFLANVREKSEKEGSVVSLQKQLLSDLLK-LADI--SIWNVDDGI   72 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~-----~-~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~-~~~~--~~~~~~~~~   72 (1046)
                      +.|+|++|+|||++++++++.+.....     . .+++. +...    .+...+...++.++.. ....  ...+..+..
T Consensus        43 i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in-~~~~----~~~~~~~~~i~~~l~~~~~~~~~~~~~~~~~~  117 (365)
T TIGR02928        43 VFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVN-CQIL----DTLYQVLVELANQLRGSGEEVPTTGLSTSEVF  117 (365)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEE-CCCC----CCHHHHHHHHHHHHhhcCCCCCCCCCCHHHHH
Confidence            689999999999999999987654322     1 23333 2222    1255677777777742 1111  001222334


Q ss_pred             HHHHHhhc--CCeEEEEEecCCChH-----HHHHHhhccCC-CC--CCCEEEEEeCChhhHHHh----c-CCCcceEecC
Q 001603           73 NIIGSRLR--QKKVLLVIDDVADVE-----QLQNLARKRDW-FG--PGSKIVITTRDKQLLVAH----E-VDEEHIYNLE  137 (1046)
Q Consensus        73 ~~i~~~L~--~kr~LlVlDdv~~~~-----~~~~l~~~~~~-~~--~gs~IiiTTR~~~~~~~~----~-~~~~~~~~l~  137 (1046)
                      ..+.+.+.  +++++||||++|...     .+..+.....+ ..  ....+|.+|.........    . .-....+.++
T Consensus       118 ~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~~~~~l~~~~~s~~~~~~i~f~  197 (365)
T TIGR02928       118 RRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLKFRENLDPRVKSSLCEEEIIFP  197 (365)
T ss_pred             HHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcchHhhcCHHHhccCCcceeeeC
Confidence            45555553  578999999998761     23344332111 11  223445555444321111    0 0011368999


Q ss_pred             CCChHHHHHHHHHhhcC---CCCCCchHHHHHHHHHHHhCCCchHHHHHhhh-c-----CC---CChHHHHHHHHHHhcC
Q 001603          138 VLSNDEALQLFSMKAFK---TRQPMGEYVELSKRVLKYAGGLPLALTVLGSF-L-----NG---RSVDLWRSTLKRLKKE  205 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a~~---~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~-L-----~~---~~~~~w~~~l~~l~~~  205 (1046)
                      +++.+|..+++..++..   ...-.++..+...+++....|.|..+..+... .     .+   -+.+..+.+.+.+.  
T Consensus       198 p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~~~~~~it~~~v~~a~~~~~--  275 (365)
T TIGR02928       198 PYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAEREGAERVTEDHVEKAQEKIE--  275 (365)
T ss_pred             CCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHHH--
Confidence            99999999999988631   12223333445566777778888544332211 1     11   24555555555542  


Q ss_pred             CCCchHHHHhhcccccchhhhhhhceee
Q 001603          206 PPNRIINILQISFDGLQDLEKKIFLDVA  233 (1046)
Q Consensus       206 ~~~~i~~~l~~sy~~L~~~~k~~fl~~a  233 (1046)
                           .....-...+||.++|.++..++
T Consensus       276 -----~~~~~~~i~~l~~~~~~~l~ai~  298 (365)
T TIGR02928       276 -----KDRLLELIRGLPTHSKLVLLAIA  298 (365)
T ss_pred             -----HHHHHHHHHcCCHHHHHHHHHHH
Confidence                 12333455688887776665444

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.

>COG3899 Predicted ATPase [General function prediction only]

Probab=98.57  E-value=1.9e-07  Score=115.27  Aligned_cols=209  Identities=15%  Similarity=0.206  Sum_probs=130.0

Q ss_pred             cCCeEEEEEecCC-Ch----HHHHHHhhccC--CC-CCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHh
Q 001603           80 RQKKVLLVIDDVA-DV----EQLQNLARKRD--WF-GPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMK  151 (1046)
Q Consensus        80 ~~kr~LlVlDdv~-~~----~~~~~l~~~~~--~~-~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  151 (1046)
                      +.++.++|+||+. -.    +-++.+.....  .+ ....-.+.|.+...-...........+.+.||+..+.-++....
T Consensus       152 ~~~plVi~leDlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~  231 (849)
T COG3899         152 EEHPLVIVLEDLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAAT  231 (849)
T ss_pred             ccCCeEEEEecccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHH
Confidence            3569999999994 22    22444443322  00 01122333444332112222233348999999999999998877


Q ss_pred             hcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCC-------ChHHHHHHHHHHhcCC-CCchHHHHhhcccccch
Q 001603          152 AFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGR-------SVDLWRSTLKRLKKEP-PNRIINILQISFDGLQD  223 (1046)
Q Consensus       152 a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~-------~~~~w~~~l~~l~~~~-~~~i~~~l~~sy~~L~~  223 (1046)
                      .....   ....+....|+++..|+|+.+..+-..+...       ....|..-...+.... .+.+.+.+..-.+.||.
T Consensus       232 l~~~~---~~~~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~~~~~~~~vv~~l~~rl~kL~~  308 (849)
T COG3899         232 LGCTK---LLPAPLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLGILATTDAVVEFLAARLQKLPG  308 (849)
T ss_pred             hCCcc---cccchHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcCCchhhHHHHHHHHHHHhcCCH
Confidence            64422   2234678899999999999999998888653       3344554433333222 13356678889999999


Q ss_pred             hhhhhhceeecccCCCCHHHHHHHHHhcCCCcccc-hhheeccceEEEec--------CC---eEEehHHHHHHHHHHHh
Q 001603          224 LEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIG-IEVLIEKSLLTVDD--------GN---RLWMHDLLQELGHQIVQ  291 (1046)
Q Consensus       224 ~~k~~fl~~a~f~~~~~~~~l~~~~~~~g~~~~~~-l~~L~~~~Li~~~~--------~~---~~~mHdli~e~~~~i~~  291 (1046)
                      ..|+++...||+...|+.+.+..++.........+ ++.|.+ ++|.+..        ..   +-..||.+|+.+-....
T Consensus       309 ~t~~Vl~~AA~iG~~F~l~~La~l~~~~~~~~a~~l~~al~e-~lI~~~~~~yr~~~~~~~~~Y~F~H~~vqqaaY~~i~  387 (849)
T COG3899         309 TTREVLKAAACIGNRFDLDTLAALAEDSPALEAAALLDALQE-GLILPLSETYRFGSNVDIATYKFLHDRVQQAAYNLIP  387 (849)
T ss_pred             HHHHHHHHHHHhCccCCHHHHHHHHhhchHHHHHHHHHHhHh-hceeccccccccccccchhhHHhhHHHHHHHHhccCc
Confidence            99999999999999999888888777533332222 333333 3333311        11   23689999998876544


Q ss_pred             h
Q 001603          292 R  292 (1046)
Q Consensus       292 ~  292 (1046)
                      +
T Consensus       388 ~  388 (849)
T COG3899         388 E  388 (849)
T ss_pred             h
Confidence            3

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=98.51  E-value=1.7e-08  Score=105.15  Aligned_cols=112  Identities=22%  Similarity=0.249  Sum_probs=54.2

Q ss_pred             cccCCCCcEEecCCCCCCc----cchhhhhccCcCcEEeccCCCCCCc----CCccccCCcccceeeccCccccc-----
Q 001603          530 IQHLTGLVLLNLKDCKNLK----SLSHTLRRLQCLKNLTLSGCSKLKK----FPESLGSMKDLMELFLDGTSIAE-----  596 (1046)
Q Consensus       530 ~~~l~~L~~L~L~~~~~~~----~l~~~l~~l~~L~~L~L~~~~~~~~----~p~~~~~l~~L~~L~L~~~~i~~-----  596 (1046)
                      +...+.|+.+.+..|.+..    .+...+..+++|+.|+|..|.+...    +...+..+++|+.|++++|.++.     
T Consensus       181 ~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~dcll~~~Ga~a  260 (382)
T KOG1909|consen  181 FQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLGDCLLENEGAIA  260 (382)
T ss_pred             HHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeecccccccccccHHH
Confidence            3334444444444443321    1223344445555555555443322    12233344455555555554441     


Q ss_pred             cCccc-ccCCCCCEEecCCCCCCCc----cCCccCCCCCCCEEeccCCCC
Q 001603          597 VPSSI-ELLTGLQLLNLNNCSNLVR----LPSCINGLRSLKTLNLSGCSK  641 (1046)
Q Consensus       597 lp~~l-~~l~~L~~L~L~~~~~~~~----l~~~~~~l~~L~~L~Ls~c~~  641 (1046)
                      +-..+ ...|+|+.|.+.+|.+...    +...+...|.|+.|+|++|..
T Consensus       261 ~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~l  310 (382)
T KOG1909|consen  261 FVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNRL  310 (382)
T ss_pred             HHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCcccc
Confidence            11111 3356777777777766532    223344567777888887765

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.51  E-value=4.5e-07  Score=96.88  Aligned_cols=216  Identities=19%  Similarity=0.260  Sum_probs=117.3

Q ss_pred             EEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcCC
Q 001603            3 GIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQK   82 (1046)
Q Consensus         3 ~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~k   82 (1046)
                      -.||++|+||||||+.+.......|....-+         ...+.++.+-+ ++-                 -+.+..++
T Consensus        52 Il~GPPG~GKTTlA~liA~~~~~~f~~~sAv---------~~gvkdlr~i~-e~a-----------------~~~~~~gr  104 (436)
T COG2256          52 ILWGPPGTGKTTLARLIAGTTNAAFEALSAV---------TSGVKDLREII-EEA-----------------RKNRLLGR  104 (436)
T ss_pred             EEECCCCCCHHHHHHHHHHhhCCceEEeccc---------cccHHHHHHHH-HHH-----------------HHHHhcCC
Confidence            4799999999999999999877766532211         11144333222 111                 12233589


Q ss_pred             eEEEEEecCCC--hHHHHHHhhccCCCCCCCEEEE--EeCChhhHHHhc-CCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           83 KVLLVIDDVAD--VEQLQNLARKRDWFGPGSKIVI--TTRDKQLLVAHE-VDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        83 r~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~Iii--TTR~~~~~~~~~-~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +.+|++|.|..  ..|-+.|++.   ...|.-|+|  ||.+........ .....++++++|+.+|-.+++.+-+.....
T Consensus       105 ~tiLflDEIHRfnK~QQD~lLp~---vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~ra~~~~~r  181 (436)
T COG2256         105 RTILFLDEIHRFNKAQQDALLPH---VENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKRALLDEER  181 (436)
T ss_pred             ceEEEEehhhhcChhhhhhhhhh---hcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHHHHhhhhc
Confidence            99999999964  3455556554   347777776  555554322111 122348999999999999999884322221


Q ss_pred             CCc-----hHHHHHHHHHHHhCCCchHH----HHHhhhcCCC---ChHHHHHHHHHHhcCC------CCchHHHHhhccc
Q 001603          158 PMG-----EYVELSKRVLKYAGGLPLAL----TVLGSFLNGR---SVDLWRSTLKRLKKEP------PNRIINILQISFD  219 (1046)
Q Consensus       158 ~~~-----~~~~~~~~i~~~~~GlPLal----~~~~~~L~~~---~~~~w~~~l~~l~~~~------~~~i~~~l~~sy~  219 (1046)
                      .-+     -.++....++..++|--.+.    .+++..-...   ..+..++.+++-...-      .-++..++.-|..
T Consensus       182 gl~~~~~~i~~~a~~~l~~~s~GD~R~aLN~LE~~~~~~~~~~~~~~~~l~~~l~~~~~~~Dk~gD~hYdliSA~hKSvR  261 (436)
T COG2256         182 GLGGQIIVLDEEALDYLVRLSNGDARRALNLLELAALSAEPDEVLILELLEEILQRRSARFDKDGDAHYDLISALHKSVR  261 (436)
T ss_pred             CCCcccccCCHHHHHHHHHhcCchHHHHHHHHHHHHHhcCCCcccCHHHHHHHHhhhhhccCCCcchHHHHHHHHHHhhc
Confidence            111     22356667888888865443    2222222221   2344444443321111      1235556666666


Q ss_pred             ccchhhhhhhceeecccCCCCHHHHHHHHH
Q 001603          220 GLQDLEKKIFLDVACFFKSWDRDHVEKILE  249 (1046)
Q Consensus       220 ~L~~~~k~~fl~~a~f~~~~~~~~l~~~~~  249 (1046)
                      +-+++.- .+...-++-.|.+...+.|.+.
T Consensus       262 GSD~dAA-LyylARmi~~GeDp~yiARRlv  290 (436)
T COG2256         262 GSDPDAA-LYYLARMIEAGEDPLYIARRLV  290 (436)
T ss_pred             cCCcCHH-HHHHHHHHhcCCCHHHHHHHHH
Confidence            6554432 1222223344455555554443

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.50  E-value=1.8e-06  Score=91.06  Aligned_cols=149  Identities=20%  Similarity=0.269  Sum_probs=88.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.|+|+.|+||||+|+.+++..........++. +..          +.... ..                  +.+.+.+
T Consensus        41 lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~-~~~----------~~~~~-~~------------------~~~~~~~   90 (226)
T TIGR03420        41 LYLWGESGSGKSHLLQAACAAAEERGKSAIYLP-LAE----------LAQAD-PE------------------VLEGLEQ   90 (226)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEe-HHH----------HHHhH-HH------------------HHhhccc
Confidence            679999999999999999987655444445554 111          11110 00                  1111222


Q ss_pred             CeEEEEEecCCChH---H-HHHHhhccCC-CCCCCEEEEEeCChh---------hHHHhcCCCcceEecCCCChHHHHHH
Q 001603           82 KKVLLVIDDVADVE---Q-LQNLARKRDW-FGPGSKIVITTRDKQ---------LLVAHEVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        82 kr~LlVlDdv~~~~---~-~~~l~~~~~~-~~~gs~IiiTTR~~~---------~~~~~~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                       .-+|||||++...   . .+.+...+.. ...+.++|+||+...         +......  ...+++.+++.+|...+
T Consensus        91 -~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~--~~~i~l~~l~~~e~~~~  167 (226)
T TIGR03420        91 -ADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAW--GLVFQLPPLSDEEKIAA  167 (226)
T ss_pred             -CCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhc--CeeEecCCCCHHHHHHH
Confidence             2389999997643   2 2233322211 123457888887532         1111111  23799999999999999


Q ss_pred             HHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhh
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGS  185 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~  185 (1046)
                      +...+-+...  .-..+..+.+++.+.|+|..+..+..
T Consensus       168 l~~~~~~~~~--~~~~~~l~~L~~~~~gn~r~L~~~l~  203 (226)
T TIGR03420       168 LQSRAARRGL--QLPDEVADYLLRHGSRDMGSLMALLD  203 (226)
T ss_pred             HHHHHHHcCC--CCCHHHHHHHHHhccCCHHHHHHHHH
Confidence            8876532221  12235667788889999988876643

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.

>PF13173 AAA_14: AAA domain

Probab=98.43  E-value=6.8e-07  Score=84.43  Aligned_cols=120  Identities=18%  Similarity=0.174  Sum_probs=76.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      ++.|.|+-|+||||+++++++... .....+++. ....       ......              ..+ ..+.+.+...
T Consensus         4 ~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~-~~~~-------~~~~~~--------------~~~-~~~~~~~~~~   59 (128)
T PF13173_consen    4 IIILTGPRGVGKTTLLKQLAKDLL-PPENILYIN-FDDP-------RDRRLA--------------DPD-LLEYFLELIK   59 (128)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhc-ccccceeec-cCCH-------HHHHHh--------------hhh-hHHHHHHhhc
Confidence            588999999999999999998765 223344443 1111       100000              000 1233333334


Q ss_pred             CCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhc----CCCcceEecCCCChHHH
Q 001603           81 QKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHE----VDEEHIYNLEVLSNDEA  144 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~----~~~~~~~~l~~L~~~ea  144 (1046)
                      .++.+|+||+|....+|......+...++..+|++|+..........    ......+++.||+..|-
T Consensus        60 ~~~~~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   60 PGKKYIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             cCCcEEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            47789999999998888877776665566789999999887653311    12224689999998773

>PRK08727 hypothetical protein; Validated

Probab=98.37  E-value=6.8e-06  Score=86.31  Aligned_cols=144  Identities=17%  Similarity=0.129  Sum_probs=86.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.|+|..|+|||+||+++++....+...+.|+.           ..+....+..                   +.+.+ .
T Consensus        44 l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~-----------~~~~~~~~~~-------------------~~~~l-~   92 (233)
T PRK08727         44 LYLSGPAGTGKTHLALALCAAAEQAGRSSAYLP-----------LQAAAGRLRD-------------------ALEAL-E   92 (233)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEe-----------HHHhhhhHHH-------------------HHHHH-h
Confidence            789999999999999999987766654556665           1111111111                   11111 2


Q ss_pred             CeEEEEEecCCCh---HHHH-HHhhccCC-CCCCCEEEEEeCChh---------hHHHhcCCCcceEecCCCChHHHHHH
Q 001603           82 KKVLLVIDDVADV---EQLQ-NLARKRDW-FGPGSKIVITTRDKQ---------LLVAHEVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        82 kr~LlVlDdv~~~---~~~~-~l~~~~~~-~~~gs~IiiTTR~~~---------~~~~~~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                      +.-+|||||++..   .+++ .+...... ...|..||+|++...         +......  ...+++++++.++-.++
T Consensus        93 ~~dlLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~--~~~~~l~~~~~e~~~~i  170 (233)
T PRK08727         93 GRSLVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQ--CIRIGLPVLDDVARAAV  170 (233)
T ss_pred             cCCEEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhc--CceEEecCCCHHHHHHH
Confidence            2348999999743   1222 22222111 134667999998532         1111111  23799999999999999


Q ss_pred             HHHhhcCCCCCCchHHHHHHHHHHHhCCCchHH
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      +.+++....-  .-.++...-|++.+.|-.-.+
T Consensus       171 L~~~a~~~~l--~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        171 LRERAQRRGL--ALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHHHHHHcCC--CCCHHHHHHHHHhCCCCHHHH
Confidence            9987754322  222356677788877655544

>PRK09087 hypothetical protein; Validated

Probab=98.37  E-value=1.1e-05  Score=84.08  Aligned_cols=136  Identities=13%  Similarity=0.066  Sum_probs=83.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|||++|+|||+|++++++...     ..++.           ...+...+...+                      .+
T Consensus        47 l~l~G~~GsGKThLl~~~~~~~~-----~~~i~-----------~~~~~~~~~~~~----------------------~~   88 (226)
T PRK09087         47 VVLAGPVGSGKTHLASIWREKSD-----ALLIH-----------PNEIGSDAANAA----------------------AE   88 (226)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcC-----CEEec-----------HHHcchHHHHhh----------------------hc
Confidence            78999999999999998887532     23444           111111111111                      11


Q ss_pred             CeEEEEEecCCCh----HHHHHHhhccCCCCCCCEEEEEeCCh---------hhHHHhcCCCcceEecCCCChHHHHHHH
Q 001603           82 KKVLLVIDDVADV----EQLQNLARKRDWFGPGSKIVITTRDK---------QLLVAHEVDEEHIYNLEVLSNDEALQLF  148 (1046)
Q Consensus        82 kr~LlVlDdv~~~----~~~~~l~~~~~~~~~gs~IiiTTR~~---------~~~~~~~~~~~~~~~l~~L~~~ea~~Lf  148 (1046)
                        -+|++||++..    +.+-.+.....  ..|..||+|++..         .+.......  .++++++++.++-.+++
T Consensus        89 --~~l~iDDi~~~~~~~~~lf~l~n~~~--~~g~~ilits~~~p~~~~~~~~dL~SRl~~g--l~~~l~~pd~e~~~~iL  162 (226)
T PRK09087         89 --GPVLIEDIDAGGFDETGLFHLINSVR--QAGTSLLMTSRLWPSSWNVKLPDLKSRLKAA--TVVEIGEPDDALLSQVI  162 (226)
T ss_pred             --CeEEEECCCCCCCCHHHHHHHHHHHH--hCCCeEEEECCCChHHhccccccHHHHHhCC--ceeecCCCCHHHHHHHH
Confidence              27888999643    22322222221  3467899988742         222222222  38999999999999999


Q ss_pred             HHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          149 SMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       149 ~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      .+.+-...-  .-.+++..-|++++.|..-++..+
T Consensus       163 ~~~~~~~~~--~l~~ev~~~La~~~~r~~~~l~~~  195 (226)
T PRK09087        163 FKLFADRQL--YVDPHVVYYLVSRMERSLFAAQTI  195 (226)
T ss_pred             HHHHHHcCC--CCCHHHHHHHHHHhhhhHHHHHHH
Confidence            988854322  223467778888888877776643

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.35  E-value=1.8e-06  Score=95.06  Aligned_cols=61  Identities=26%  Similarity=0.579  Sum_probs=32.3

Q ss_pred             CcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcC
Q 001603          581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVP  646 (1046)
Q Consensus       581 l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~  646 (1046)
                      +.+++.|++++|.++.+|.   -.++|+.|.+++|..+..+|..+  .++|++|++++|..+..+|
T Consensus        51 ~~~l~~L~Is~c~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~sLP  111 (426)
T PRK15386         51 ARASGRLYIKDCDIESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISGLP  111 (426)
T ss_pred             hcCCCEEEeCCCCCcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccccc
Confidence            4556666666666666551   22346666666655555555433  2455555555554444333

>PLN03150 hypothetical protein; Provisional

Probab=98.33  E-value=1e-06  Score=106.32  Aligned_cols=105  Identities=28%  Similarity=0.419  Sum_probs=54.1

Q ss_pred             CcEEeccCCCCCCcCCccccCCcccceeeccCcccc-ccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccC
Q 001603          560 LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA-EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSG  638 (1046)
Q Consensus       560 L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~-~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~  638 (1046)
                      ++.|+|++|.+.+.+|..+..+++|+.|+|++|.+. .+|..++.+++|+.|+|++|.+.+.+|..++++++|+.|+|++
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            344444444444444444455555555555555544 4444455555555555555555555555555555555555555


Q ss_pred             CCCCCCcCcccCCC-CCCceeeccCcc
Q 001603          639 CSKLQNVPETLGQV-ESLEELDISGTA  664 (1046)
Q Consensus       639 c~~l~~~~~~~~~l-~~L~~L~Ls~n~  664 (1046)
                      |...+.+|..++.. .++..+++.+|.
T Consensus       500 N~l~g~iP~~l~~~~~~~~~l~~~~N~  526 (623)
T PLN03150        500 NSLSGRVPAALGGRLLHRASFNFTDNA  526 (623)
T ss_pred             CcccccCChHHhhccccCceEEecCCc
Confidence            55555555544432 344455555553

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=98.33  E-value=2.1e-08  Score=106.56  Aligned_cols=63  Identities=24%  Similarity=0.318  Sum_probs=30.3

Q ss_pred             CCCEEEeeCCCCCccc--cccccCCCCccEEeccCCCCCCccCCcC---CccccceeeccCCcCCccc
Q 001603          440 NLEELILEGCTRLHEI--HPSLLLHSKLVILNLKDCTSLTTLPGKI---SMKSLKTLVLSGCLKLTKK  502 (1046)
Q Consensus       440 ~L~~L~L~~~~~~~~~--~~~l~~l~~L~~L~L~~~~~l~~lp~~~---~l~~L~~L~L~~~~~l~~~  502 (1046)
                      .|+.|.+.||.....-  -....+++++++|++.+|..++.-.-..   .++.|+.|++..|..++..
T Consensus       139 ~lk~LSlrG~r~v~~sslrt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~  206 (483)
T KOG4341|consen  139 FLKELSLRGCRAVGDSSLRTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDV  206 (483)
T ss_pred             ccccccccccccCCcchhhHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHH
Confidence            4667777776543322  1223455566666666655443321110   2455555555555444443

>PRK15386 type III secretion protein GogB; Provisional

Probab=98.33  E-value=1.2e-06  Score=96.49  Aligned_cols=156  Identities=18%  Similarity=0.268  Sum_probs=98.7

Q ss_pred             cCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeeccC-ccccCCCcchhhccCCceeecCCCCCCCCCCCcccCccccc
Q 001603          625 INGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISG-TAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNL  703 (1046)
Q Consensus       625 ~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~-n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~  703 (1046)
                      +..+++++.|++++| .+..+|.   -.++|+.|.+++ +.++.+|..+  .++|++|.+++|..+..            
T Consensus        48 ~~~~~~l~~L~Is~c-~L~sLP~---LP~sLtsL~Lsnc~nLtsLP~~L--P~nLe~L~Ls~Cs~L~s------------  109 (426)
T PRK15386         48 IEEARASGRLYIKDC-DIESLPV---LPNELTEITIENCNNLTTLPGSI--PEGLEKLTVCHCPEISG------------  109 (426)
T ss_pred             HHHhcCCCEEEeCCC-CCcccCC---CCCCCcEEEccCCCCcccCCchh--hhhhhheEccCcccccc------------
Confidence            344688999999998 5666673   245799999987 4566667655  36899999998854321            


Q ss_pred             ccCcCCcccccCCCccCCCCCCEEecCCCCCCC-CCCcccccCcCCCCeeeCCCCCCc---ccchhhhhccccCeecccc
Q 001603          704 MGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGE-GAIPNDIGNLCSLKQLNLSQNNFV---TLPASINSLFNLGQLDLED  779 (1046)
Q Consensus       704 ~~~~~~~~~~~~~~l~~l~~L~~L~Ls~n~l~~-~~ip~~l~~l~~L~~L~Ls~n~l~---~lp~~i~~l~~L~~L~L~~  779 (1046)
                                +|      ++|+.|+++++.... ..+|      ++|+.|.+.+++..   .+|..  --++|++|++++
T Consensus       110 ----------LP------~sLe~L~L~~n~~~~L~~LP------ssLk~L~I~~~n~~~~~~lp~~--LPsSLk~L~Is~  165 (426)
T PRK15386        110 ----------LP------ESVRSLEIKGSATDSIKNVP------NGLTSLSINSYNPENQARIDNL--ISPSLKTLSLTG  165 (426)
T ss_pred             ----------cc------cccceEEeCCCCCcccccCc------chHhheeccccccccccccccc--cCCcccEEEecC
Confidence                      11      357888887665411 2233      36777877543311   22211  115799999999


Q ss_pred             ccccccCCCCCCCCceeecCC--Ccccccccccccccccccccccc
Q 001603          780 CKRLQSMPQLPSNLYEVQVNG--CASLVTLSGALKLCKSKCTSINC  823 (1046)
Q Consensus       780 c~~l~~ip~lp~~L~~L~~~~--C~~L~~l~~~~~~~~~~~~~~~c  823 (1046)
                      |..+...+.+|.+|+.|.+..  |.+++.....++... .+.+.+|
T Consensus       166 c~~i~LP~~LP~SLk~L~ls~n~~~sLeI~~~sLP~nl-~L~f~n~  210 (426)
T PRK15386        166 CSNIILPEKLPESLQSITLHIEQKTTWNISFEGFPDGL-DIDLQNS  210 (426)
T ss_pred             CCcccCcccccccCcEEEecccccccccCccccccccc-Eechhhh
Confidence            987764445999999999865  344444333333322 5566666

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.32  E-value=1e-08  Score=103.89  Aligned_cols=106  Identities=23%  Similarity=0.231  Sum_probs=69.8

Q ss_pred             cccceeeccCcccc--ccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcC--cccCCCCCCce
Q 001603          582 KDLMELFLDGTSIA--EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVP--ETLGQVESLEE  657 (1046)
Q Consensus       582 ~~L~~L~L~~~~i~--~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~--~~~~~l~~L~~  657 (1046)
                      +.|+.|+|+...|+  .+...+..+.+|+.|.|.++.....+...+..-.+|+.|+|+.|+......  -.+.+++.|..
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            35778888887776  455556788888888888888877777777777888888888887665432  23456667777


Q ss_pred             eeccCccccCC--Ccchhh-ccCCceeecCCCC
Q 001603          658 LDISGTAIRRP--PSSIFV-MNNLKTLSFSGCN  687 (1046)
Q Consensus       658 L~Ls~n~l~~~--p~~~~~-l~~L~~L~L~~~~  687 (1046)
                      |+|+-|.+..-  ...+.+ -++|+.|+|+||.
T Consensus       265 LNlsWc~l~~~~Vtv~V~hise~l~~LNlsG~r  297 (419)
T KOG2120|consen  265 LNLSWCFLFTEKVTVAVAHISETLTQLNLSGYR  297 (419)
T ss_pred             cCchHhhccchhhhHHHhhhchhhhhhhhhhhH
Confidence            77766655432  111111 2356666666654

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.30  E-value=3.3e-06  Score=80.39  Aligned_cols=111  Identities=22%  Similarity=0.245  Sum_probs=70.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc-----cceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE-----FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~-----f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      ++.|+|.+|+|||++++.+.+....+     -...+|+. +.   ... ....+.+.++.++...... ..+..+..+.+
T Consensus         6 ~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~-~~---~~~-~~~~~~~~i~~~l~~~~~~-~~~~~~l~~~~   79 (131)
T PF13401_consen    6 ILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVN-CP---SSR-TPRDFAQEILEALGLPLKS-RQTSDELRSLL   79 (131)
T ss_dssp             -EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEE-HH---HHS-SHHHHHHHHHHHHT-SSSS-TS-HHHHHHHH
T ss_pred             ccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEE-eC---CCC-CHHHHHHHHHHHhCccccc-cCCHHHHHHHH
Confidence            47899999999999999999876543     22334444 22   222 3788899999988743332 13445555666


Q ss_pred             HHhhcC-CeEEEEEecCCCh---HHHHHHhhccCCCCCCCEEEEEeCC
Q 001603           76 GSRLRQ-KKVLLVIDDVADV---EQLQNLARKRDWFGPGSKIVITTRD  119 (1046)
Q Consensus        76 ~~~L~~-kr~LlVlDdv~~~---~~~~~l~~~~~~~~~gs~IiiTTR~  119 (1046)
                      .+.+.. +..+||+|+++..   +.++.+..-..  ..+.++|+..+.
T Consensus        80 ~~~l~~~~~~~lviDe~~~l~~~~~l~~l~~l~~--~~~~~vvl~G~~  125 (131)
T PF13401_consen   80 IDALDRRRVVLLVIDEADHLFSDEFLEFLRSLLN--ESNIKVVLVGTP  125 (131)
T ss_dssp             HHHHHHCTEEEEEEETTHHHHTHHHHHHHHHHTC--SCBEEEEEEESS
T ss_pred             HHHHHhcCCeEEEEeChHhcCCHHHHHHHHHHHh--CCCCeEEEEECh
Confidence            666654 4469999999876   33444433333  566777777765

>PLN03150 hypothetical protein; Provisional

Probab=98.27  E-value=1.3e-06  Score=105.47  Aligned_cols=106  Identities=28%  Similarity=0.384  Sum_probs=89.6

Q ss_pred             ccceeeccCcccc-ccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCceeecc
Q 001603          583 DLMELFLDGTSIA-EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDIS  661 (1046)
Q Consensus       583 ~L~~L~L~~~~i~-~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls  661 (1046)
                      .++.|+|++|.+. .+|..+..+++|+.|+|++|.+.+.+|..++.+++|+.|+|++|...+.+|..++.+++|+.|+|+
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            4778889988887 778888899999999999999888899889999999999999999888999999999999999999


Q ss_pred             CccccC-CCcchhhc-cCCceeecCCCCC
Q 001603          662 GTAIRR-PPSSIFVM-NNLKTLSFSGCNG  688 (1046)
Q Consensus       662 ~n~l~~-~p~~~~~l-~~L~~L~L~~~~~  688 (1046)
                      +|.+++ +|..+... .++..+++.+|..
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~~  527 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNAG  527 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCcc
Confidence            998884 47776653 4677888888764

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=98.26  E-value=1.4e-07  Score=108.74  Aligned_cols=191  Identities=28%  Similarity=0.284  Sum_probs=105.4

Q ss_pred             CcCcEEeccCCCCCCcCCccccCCcccceeeccCccccccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEecc
Q 001603          558 QCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLS  637 (1046)
Q Consensus       558 ~~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls  637 (1046)
                      ..++.+.+..|.+.. +-..+..+++|..|++.+|.|..+...+..+++|+.|++++|.+...-  .+..++.|+.|+++
T Consensus        72 ~~l~~l~l~~n~i~~-~~~~l~~~~~l~~l~l~~n~i~~i~~~l~~~~~L~~L~ls~N~I~~i~--~l~~l~~L~~L~l~  148 (414)
T KOG0531|consen   72 TSLKELNLRQNLIAK-ILNHLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLE--GLSTLTLLKELNLS  148 (414)
T ss_pred             HhHHhhccchhhhhh-hhcccccccceeeeeccccchhhcccchhhhhcchheecccccccccc--chhhccchhhheec
Confidence            334444444433322 222355566677777777777666555666777777777776665442  23445567777777


Q ss_pred             CCCCCCCcCcccCCCCCCceeeccCccccCCCcc-hhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCC
Q 001603          638 GCSKLQNVPETLGQVESLEELDISGTAIRRPPSS-IFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLP  716 (1046)
Q Consensus       638 ~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~-~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  716 (1046)
                      +|.+...  ..+..+++|+.+++++|.+..+... ...+.+|+.+.+.+|.+....                        
T Consensus       149 ~N~i~~~--~~~~~l~~L~~l~l~~n~i~~ie~~~~~~~~~l~~l~l~~n~i~~i~------------------------  202 (414)
T KOG0531|consen  149 GNLISDI--SGLESLKSLKLLDLSYNRIVDIENDELSELISLEELDLGGNSIREIE------------------------  202 (414)
T ss_pred             cCcchhc--cCCccchhhhcccCCcchhhhhhhhhhhhccchHHHhccCCchhccc------------------------
Confidence            7665442  2344477778888888877777543 466777777777777654421                        


Q ss_pred             CccCCCCCCEEecCCCCCCCCCCcccccCcCC--CCeeeCCCCCCcccchhhhhccccCeeccccc
Q 001603          717 SLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCS--LKQLNLSQNNFVTLPASINSLFNLGQLDLEDC  780 (1046)
Q Consensus       717 ~l~~l~~L~~L~Ls~n~l~~~~ip~~l~~l~~--L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c  780 (1046)
                      .+..+..+..+++.+|.+..   -..+..+..  |+.+++++|.+..++..+..+..+..|++.++
T Consensus       203 ~~~~~~~l~~~~l~~n~i~~---~~~l~~~~~~~L~~l~l~~n~i~~~~~~~~~~~~l~~l~~~~n  265 (414)
T KOG0531|consen  203 GLDLLKKLVLLSLLDNKISK---LEGLNELVMLHLRELYLSGNRISRSPEGLENLKNLPVLDLSSN  265 (414)
T ss_pred             chHHHHHHHHhhccccccee---ccCcccchhHHHHHHhcccCccccccccccccccccccchhhc
Confidence            12222233333555554411   011112222  55666666666555445555555555555555

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=98.26  E-value=1.9e-07  Score=107.70  Aligned_cols=34  Identities=35%  Similarity=0.587  Sum_probs=21.9

Q ss_pred             cceeeccCccccccCcccccCCCCCEEecCCCCC
Q 001603          584 LMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSN  617 (1046)
Q Consensus       584 L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~  617 (1046)
                      |+.+++.+|.+...+..+..+..+..|++.++..
T Consensus       234 L~~l~l~~n~i~~~~~~~~~~~~l~~l~~~~n~~  267 (414)
T KOG0531|consen  234 LRELYLSGNRISRSPEGLENLKNLPVLDLSSNRI  267 (414)
T ss_pred             HHHHhcccCccccccccccccccccccchhhccc
Confidence            6666777777666655566666666666666544

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=98.25  E-value=4.7e-08  Score=104.04  Aligned_cols=135  Identities=19%  Similarity=0.279  Sum_probs=71.8

Q ss_pred             ccCcCcEEeccCCCCCCcCC--ccccCCcccceeeccCccc-ccc--CcccccCCCCCEEecCCCCCCCc--cCCccCCC
Q 001603          556 RLQCLKNLTLSGCSKLKKFP--ESLGSMKDLMELFLDGTSI-AEV--PSSIELLTGLQLLNLNNCSNLVR--LPSCINGL  628 (1046)
Q Consensus       556 ~l~~L~~L~L~~~~~~~~~p--~~~~~l~~L~~L~L~~~~i-~~l--p~~l~~l~~L~~L~L~~~~~~~~--l~~~~~~l  628 (1046)
                      .+..|+.|+.++|...+..+  .--.+..+|+.|.+.+++- +..  ..--.+.+.|+.+++..|.....  +...-.++
T Consensus       292 ~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C  371 (483)
T KOG4341|consen  292 GCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGTLASLSRNC  371 (483)
T ss_pred             hhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhhHhhhccCC
Confidence            34455555555554432221  1112345555555555432 111  11123556677777766654332  22233456


Q ss_pred             CCCCEEeccCCCCCCCc-----CcccCCCCCCceeeccCccccCC--CcchhhccCCceeecCCCCCCC
Q 001603          629 RSLKTLNLSGCSKLQNV-----PETLGQVESLEELDISGTAIRRP--PSSIFVMNNLKTLSFSGCNGPP  690 (1046)
Q Consensus       629 ~~L~~L~Ls~c~~l~~~-----~~~~~~l~~L~~L~Ls~n~l~~~--p~~~~~l~~L~~L~L~~~~~~~  690 (1046)
                      +.|+.|.+++|......     ...-..+..|+.+.|+++....-  ...+..+++|+.+++.+|....
T Consensus       372 ~~lr~lslshce~itD~gi~~l~~~~c~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri~l~~~q~vt  440 (483)
T KOG4341|consen  372 PRLRVLSLSHCELITDEGIRHLSSSSCSLEGLEVLELDNCPLITDATLEHLSICRNLERIELIDCQDVT  440 (483)
T ss_pred             chhccCChhhhhhhhhhhhhhhhhccccccccceeeecCCCCchHHHHHHHhhCcccceeeeechhhhh
Confidence            77777777777655432     33334566777777777765432  3445567788888888876543

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=98.24  E-value=3.9e-05  Score=88.30  Aligned_cols=164  Identities=16%  Similarity=0.173  Sum_probs=99.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc--ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF--DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +.|+|..|+|||+|++++++.+....  ..++++.           ..++...+...+....        .....+++.+
T Consensus       144 l~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~-----------~~~f~~~~~~~l~~~~--------~~~~~~~~~~  204 (450)
T PRK14087        144 LFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS-----------GDEFARKAVDILQKTH--------KEIEQFKNEI  204 (450)
T ss_pred             eEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE-----------HHHHHHHHHHHHHHhh--------hHHHHHHHHh
Confidence            57999999999999999999765432  2234443           4455555555543210        1223344444


Q ss_pred             cCCeEEEEEecCCCh---HH-HHHHhhccCC-CCCCCEEEEEeCChh-hHHHh------cCCCcceEecCCCChHHHHHH
Q 001603           80 RQKKVLLVIDDVADV---EQ-LQNLARKRDW-FGPGSKIVITTRDKQ-LLVAH------EVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~---~~-~~~l~~~~~~-~~~gs~IiiTTR~~~-~~~~~------~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                      + +.-+|||||++..   +. .+.+..-++. ...|..||+|+.... .....      .....-++++++++.++-.++
T Consensus       205 ~-~~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~i  283 (450)
T PRK14087        205 C-QNDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAI  283 (450)
T ss_pred             c-cCCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHH
Confidence            4 3458889999643   12 2333332221 234557888865432 11111      111223788999999999999


Q ss_pred             HHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhh
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGS  185 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~  185 (1046)
                      +.+++-.......-.+++..-|++.++|.|-.+..+..
T Consensus       284 L~~~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL~  321 (450)
T PRK14087        284 IKKEIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSVS  321 (450)
T ss_pred             HHHHHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHHH
Confidence            99988543211123357788999999999988866553

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.23  E-value=1e-05  Score=92.90  Aligned_cols=152  Identities=24%  Similarity=0.332  Sum_probs=88.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|+|++|+||||+|+.+++.....|..   +...     ..+ ...+ ++++.....                 ....+
T Consensus        39 ilL~GppGtGKTtLA~~ia~~~~~~~~~---l~a~-----~~~-~~~i-r~ii~~~~~-----------------~~~~g   91 (413)
T PRK13342         39 MILWGPPGTGKTTLARIIAGATDAPFEA---LSAV-----TSG-VKDL-REVIEEARQ-----------------RRSAG   91 (413)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCEEE---Eecc-----ccc-HHHH-HHHHHHHHH-----------------hhhcC
Confidence            5789999999999999999876554321   1111     011 2211 122221110                 01145


Q ss_pred             CeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEE--eCChh--hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCC
Q 001603           82 KKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVIT--TRDKQ--LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKT  155 (1046)
Q Consensus        82 kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiT--TR~~~--~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~  155 (1046)
                      ++.+|+||+++..  .+.+.+.....   .|..++|.  |.+..  +..... .....+++.+++.++..+++.+.+...
T Consensus        92 ~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~-SR~~~~~~~~ls~e~i~~lL~~~l~~~  167 (413)
T PRK13342         92 RRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALL-SRAQVFELKPLSEEDIEQLLKRALEDK  167 (413)
T ss_pred             CceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHh-ccceeeEeCCCCHHHHHHHHHHHHHHh
Confidence            7889999999865  44555555433   35555553  33332  111111 112379999999999999998865331


Q ss_pred             CCCC-chHHHHHHHHHHHhCCCchHHHHHh
Q 001603          156 RQPM-GEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       156 ~~~~-~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                      .... .-..+....+++.++|.+..+..+.
T Consensus       168 ~~~~i~i~~~al~~l~~~s~Gd~R~aln~L  197 (413)
T PRK13342        168 ERGLVELDDEALDALARLANGDARRALNLL  197 (413)
T ss_pred             hcCCCCCCHHHHHHHHHhCCCCHHHHHHHH
Confidence            1111 2224567789999999998765443

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.22  E-value=2.3e-05  Score=79.71  Aligned_cols=90  Identities=20%  Similarity=0.273  Sum_probs=61.8

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +.+-++|+||++..  +..+.+...+....+.+.+|++|++. .+..... .....+++.+++.++..+.+.+..   - 
T Consensus        95 ~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~-sr~~~~~~~~~~~~~~~~~l~~~g---i-  169 (188)
T TIGR00678        95 SGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIR-SRCQVLPFPPLSEEALLQWLIRQG---I-  169 (188)
T ss_pred             CCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHH-hhcEEeeCCCCCHHHHHHHHHHcC---C-
Confidence            56678999999865  34566666665555667777777654 3322222 222489999999999998888761   1 


Q ss_pred             CCchHHHHHHHHHHHhCCCchH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLa  179 (1046)
                          ..+.+..|++.++|.|..
T Consensus       170 ----~~~~~~~i~~~~~g~~r~  187 (188)
T TIGR00678       170 ----SEEAAELLLALAGGSPGA  187 (188)
T ss_pred             ----CHHHHHHHHHHcCCCccc
Confidence                135688999999998853

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.

>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=98.21  E-value=2.3e-05  Score=81.20  Aligned_cols=154  Identities=18%  Similarity=0.227  Sum_probs=88.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccc-e-eEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD-G-STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~-~-~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +.|||..|+|||.|++++++.+....+ . ++++.           ..++...+...+..          .....+++.+
T Consensus        37 l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~-----------~~~f~~~~~~~~~~----------~~~~~~~~~~   95 (219)
T PF00308_consen   37 LFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS-----------AEEFIREFADALRD----------GEIEEFKDRL   95 (219)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE-----------HHHHHHHHHHHHHT----------TSHHHHHHHH
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhccccccceeec-----------HHHHHHHHHHHHHc----------ccchhhhhhh
Confidence            579999999999999999998765433 2 34444           34444454444432          1234455666


Q ss_pred             cCCeEEEEEecCCCh---HHHH-HHhhccCC-CCCCCEEEEEeCChh---------hHHHhcCCCcceEecCCCChHHHH
Q 001603           80 RQKKVLLVIDDVADV---EQLQ-NLARKRDW-FGPGSKIVITTRDKQ---------LLVAHEVDEEHIYNLEVLSNDEAL  145 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~---~~~~-~l~~~~~~-~~~gs~IiiTTR~~~---------~~~~~~~~~~~~~~l~~L~~~ea~  145 (1046)
                      ++ -=+|+|||++..   ..|+ ++..-++. ...|-+||+|++...         +......  .-++++++++.++..
T Consensus        96 ~~-~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~--Gl~~~l~~pd~~~r~  172 (219)
T PF00308_consen   96 RS-ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSW--GLVVELQPPDDEDRR  172 (219)
T ss_dssp             CT-SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHC--SEEEEE----HHHHH
T ss_pred             hc-CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhh--cchhhcCCCCHHHHH
Confidence            53 347789999754   2222 22222211 135778999996432         1112222  238999999999999


Q ss_pred             HHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHH
Q 001603          146 QLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       146 ~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                      +++.+.|....-.  -.+++++-|++.+.+..-.|.
T Consensus       173 ~il~~~a~~~~~~--l~~~v~~~l~~~~~~~~r~L~  206 (219)
T PF00308_consen  173 RILQKKAKERGIE--LPEEVIEYLARRFRRDVRELE  206 (219)
T ss_dssp             HHHHHHHHHTT----S-HHHHHHHHHHTTSSHHHHH
T ss_pred             HHHHHHHHHhCCC--CcHHHHHHHHHhhcCCHHHHH
Confidence            9999988654432  334566667777655554443

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.

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=4.4e-05  Score=85.98  Aligned_cols=98  Identities=13%  Similarity=0.107  Sum_probs=64.9

Q ss_pred             CCeEEEEEecCCChH--HHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++...  .++.+...+....+..++|++|.+.. +..... .....+++++++.++..+.+...+.....
T Consensus       118 ~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI~-SRc~~~~~~~l~~~el~~~L~~~~~~~g~  196 (363)
T PRK14961        118 SRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTIL-SRCLQFKLKIISEEKIFNFLKYILIKESI  196 (363)
T ss_pred             CCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHHH-hhceEEeCCCCCHHHHHHHHHHHHHHcCC
Confidence            456689999998764  46666666655556677777776543 322221 11238999999999999888876644332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                        .-..+.+..|++.++|.|..+.
T Consensus       197 --~i~~~al~~ia~~s~G~~R~al  218 (363)
T PRK14961        197 --DTDEYALKLIAYHAHGSMRDAL  218 (363)
T ss_pred             --CCCHHHHHHHHHHcCCCHHHHH
Confidence              1223567789999999886443

>PRK05642 DNA replication initiation factor; Validated

Probab=98.18  E-value=3.4e-05  Score=81.09  Aligned_cols=150  Identities=16%  Similarity=0.239  Sum_probs=88.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|||..|+|||+||+++++.+..+-..++|+.           ..++....                   ..+.+.+++
T Consensus        48 l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~-----------~~~~~~~~-------------------~~~~~~~~~   97 (234)
T PRK05642         48 IYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLP-----------LAELLDRG-------------------PELLDNLEQ   97 (234)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCcEEEee-----------HHHHHhhh-------------------HHHHHhhhh
Confidence            579999999999999999987765434456655           22222110                   112233332


Q ss_pred             CeEEEEEecCCCh---HHHHH-HhhccCC-CCCCCEEEEEeCChhhHHHh-------cCCCcceEecCCCChHHHHHHHH
Q 001603           82 KKVLLVIDDVADV---EQLQN-LARKRDW-FGPGSKIVITTRDKQLLVAH-------EVDEEHIYNLEVLSNDEALQLFS  149 (1046)
Q Consensus        82 kr~LlVlDdv~~~---~~~~~-l~~~~~~-~~~gs~IiiTTR~~~~~~~~-------~~~~~~~~~l~~L~~~ea~~Lf~  149 (1046)
                      -. +||+||++..   .+|++ +..-++. ...|.+||+|++...-.-..       ......++++++++.++-.+.+.
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 6788999632   23332 3332221 23567889988754311000       01111379999999999999998


Q ss_pred             HhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          150 MKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       150 ~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                      .++....-  .-.+++..-|++++.|..-++..+-
T Consensus       177 ~ka~~~~~--~l~~ev~~~L~~~~~~d~r~l~~~l  209 (234)
T PRK05642        177 LRASRRGL--HLTDEVGHFILTRGTRSMSALFDLL  209 (234)
T ss_pred             HHHHHcCC--CCCHHHHHHHHHhcCCCHHHHHHHH
Confidence            77654322  2224667778888877766554443

>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=98.17  E-value=9.4e-07  Score=71.02  Aligned_cols=59  Identities=37%  Similarity=0.558  Sum_probs=51.7

Q ss_pred             CCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCcccch-hhhhccccCeecccccc
Q 001603          722 HSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPA-SINSLFNLGQLDLEDCK  781 (1046)
Q Consensus       722 ~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~-~i~~l~~L~~L~L~~c~  781 (1046)
                      |+|++|++++|++ ...-+..+.++++|+.|++++|+++.+|. .+..+++|++|++++|+
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 PNLESLDLSNNKL-TEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTE-SEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCC-CccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            5799999999999 33344688999999999999999998875 68999999999999996

...

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=5.9e-05  Score=87.71  Aligned_cols=97  Identities=9%  Similarity=0.074  Sum_probs=64.8

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|||+++..  +.+..+...+....+...+|++|... .+..... .....+++.+++.++..+.+.+.+.+...
T Consensus       115 ~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~-SRc~~~~f~~ls~~el~~~L~~i~~~egi  193 (504)
T PRK14963        115 GGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTIL-SRTQHFRFRRLTEEEIAGKLRRLLEAEGR  193 (504)
T ss_pred             CCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHh-cceEEEEecCCCHHHHHHHHHHHHHHcCC
Confidence            45668999999865  45677776665445556666665443 3322222 22248999999999999999887754432


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .  ...+....|++.++|.+--+
T Consensus       194 ~--i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        194 E--AEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHH
Confidence            2  12356788999999988655

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.15  E-value=1.3e-07  Score=96.09  Aligned_cols=175  Identities=23%  Similarity=0.269  Sum_probs=108.5

Q ss_pred             ccceeeccCCcCCccccccccccCCCCCeEeccccccc-ccchhcccCCCCcEEecCCCCCCccc--hhhhhccCcCcEE
Q 001603          487 SLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIE-ELPLSIQHLTGLVLLNLKDCKNLKSL--SHTLRRLQCLKNL  563 (1046)
Q Consensus       487 ~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~-~lp~~~~~l~~L~~L~L~~~~~~~~l--~~~l~~l~~L~~L  563 (1046)
                      .|+.|||+............+..+.+|+.|.+.++.+. .+...+..-.+|+.|+|+.|......  .-.+.+++.|..|
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~iAkN~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~L  265 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNTIAKNSNLVRLNLSMCSGFTENALQLLLSSCSRLDEL  265 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHHHhccccceeeccccccccchhHHHHHHHhhhhHhhc
Confidence            35666665543323333345566777777777777776 45666777788888888887766543  2346778888888


Q ss_pred             eccCCCCCCcCCccc-c-CCcccceeeccCcccc----ccCcccccCCCCCEEecCCCCCCCc-cCCccCCCCCCCEEec
Q 001603          564 TLSGCSKLKKFPESL-G-SMKDLMELFLDGTSIA----EVPSSIELLTGLQLLNLNNCSNLVR-LPSCINGLRSLKTLNL  636 (1046)
Q Consensus       564 ~L~~~~~~~~~p~~~-~-~l~~L~~L~L~~~~i~----~lp~~l~~l~~L~~L~L~~~~~~~~-l~~~~~~l~~L~~L~L  636 (1046)
                      ++++|......-... . --++|+.|+++|+.-.    .+.--...+|+|..|||++|..+.. ....+..++.|++|.+
T Consensus       266 NlsWc~l~~~~Vtv~V~hise~l~~LNlsG~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSl  345 (419)
T KOG2120|consen  266 NLSWCFLFTEKVTVAVAHISETLTQLNLSGYRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSL  345 (419)
T ss_pred             CchHhhccchhhhHHHhhhchhhhhhhhhhhHhhhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeeh
Confidence            888887665432211 1 1256778888775321    2222235678888888888765543 3344566788888888


Q ss_pred             cCCCCCCCcCc---ccCCCCCCceeeccCc
Q 001603          637 SGCSKLQNVPE---TLGQVESLEELDISGT  663 (1046)
Q Consensus       637 s~c~~l~~~~~---~~~~l~~L~~L~Ls~n  663 (1046)
                      +.|..+  +|+   .+...|+|.+|++.++
T Consensus       346 sRCY~i--~p~~~~~l~s~psl~yLdv~g~  373 (419)
T KOG2120|consen  346 SRCYDI--IPETLLELNSKPSLVYLDVFGC  373 (419)
T ss_pred             hhhcCC--ChHHeeeeccCcceEEEEeccc
Confidence            887543  232   2345566666665543

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.14  E-value=3e-05  Score=81.59  Aligned_cols=147  Identities=18%  Similarity=0.225  Sum_probs=85.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|+|+.|+|||+||+++++....+-..+.|+..           ...... ..                  .+.+.+.+
T Consensus        48 l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~-----------~~~~~~-~~------------------~~~~~~~~   97 (235)
T PRK08084         48 IYLWSREGAGRSHLLHAACAELSQRGRAVGYVPL-----------DKRAWF-VP------------------EVLEGMEQ   97 (235)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEH-----------HHHhhh-hH------------------HHHHHhhh
Confidence            6799999999999999999877654334455541           110000 00                  01111111


Q ss_pred             CeEEEEEecCCCh---HHHHHHh-hccCC-CCCC-CEEEEEeCChh---------hHHHhcCCCcceEecCCCChHHHHH
Q 001603           82 KKVLLVIDDVADV---EQLQNLA-RKRDW-FGPG-SKIVITTRDKQ---------LLVAHEVDEEHIYNLEVLSNDEALQ  146 (1046)
Q Consensus        82 kr~LlVlDdv~~~---~~~~~l~-~~~~~-~~~g-s~IiiTTR~~~---------~~~~~~~~~~~~~~l~~L~~~ea~~  146 (1046)
                       .-+|+|||++..   .+|+... ..+.. ...| .++|+||+...         +...+...  .++++++++.++-.+
T Consensus        98 -~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g--~~~~l~~~~~~~~~~  174 (235)
T PRK08084         98 -LSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWG--QIYKLQPLSDEEKLQ  174 (235)
T ss_pred             -CCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCC--ceeeecCCCHHHHHH
Confidence             237899999653   3333221 11111 1133 47999997542         11222222  389999999999999


Q ss_pred             HHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          147 LFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       147 Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      ++.+++....  ..-.+++..-|++++.|..-++..+
T Consensus       175 ~l~~~a~~~~--~~l~~~v~~~L~~~~~~d~r~l~~~  209 (235)
T PRK08084        175 ALQLRARLRG--FELPEDVGRFLLKRLDREMRTLFMT  209 (235)
T ss_pred             HHHHHHHHcC--CCCCHHHHHHHHHhhcCCHHHHHHH
Confidence            9888664432  2223466777888887766655444

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=3.4e-05  Score=92.56  Aligned_cols=101  Identities=21%  Similarity=0.145  Sum_probs=67.9

Q ss_pred             cCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCC
Q 001603           80 RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      .+++-++|||+++..  +....|+..+.......++|++|.+.+ +...... ....|++++++.++..+.+.+.+-...
T Consensus       117 ~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFILaTTe~~kLl~TIlS-RCq~f~fkpLs~eEI~~~L~~il~~Eg  195 (944)
T PRK14949        117 RGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFLLATTDPQKLPVTVLS-RCLQFNLKSLTQDEIGTQLNHILTQEQ  195 (944)
T ss_pred             cCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEEEECCCchhchHHHHH-hheEEeCCCCCHHHHHHHHHHHHHHcC
Confidence            367789999999865  556777766655556677776665544 3322221 223899999999999999887664322


Q ss_pred             CCCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          157 QPMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       157 ~~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                        .....+....|++.++|.|.-+..+
T Consensus       196 --I~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        196 --LPFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             --CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence              1223356788999999988644433

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=0.00011  Score=85.61  Aligned_cols=99  Identities=16%  Similarity=0.098  Sum_probs=66.0

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQP  158 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  158 (1046)
                      +++-++|||+|+..  .....+...+.....+.++|++|.+.+-...........+++++++.++..+.+.+.+.+... 
T Consensus       117 gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~TIlSRCq~feFkpLs~eEI~k~L~~Il~kEgI-  195 (702)
T PRK14960        117 GRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPITVISRCLQFTLRPLAVDEITKHLGAILEKEQI-  195 (702)
T ss_pred             CCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHHHHHhhheeeccCCCHHHHHHHHHHHHHHcCC-
Confidence            56678999999865  445566655554456677887777654322221233348999999999999988877644332 


Q ss_pred             CchHHHHHHHHHHHhCCCchHHH
Q 001603          159 MGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       159 ~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                       ....+....|+++++|.+..+.
T Consensus       196 -~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        196 -AADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             -CCCHHHHHHHHHHcCCCHHHHH
Confidence             2223567789999999875543

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=98.09  E-value=0.00019  Score=80.15  Aligned_cols=98  Identities=9%  Similarity=0.054  Sum_probs=64.2

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQP  158 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  158 (1046)
                      +++.++|+|+++..  .....|...+.....++.+|++|.+.+............+++.+++.++..+++.......   
T Consensus       140 ~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~---  216 (365)
T PRK07471        140 GGWRVVIVDTADEMNANAANALLKVLEEPPARSLFLLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL---  216 (365)
T ss_pred             CCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEEEEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC---
Confidence            56778999999864  3444555544433456777777766643322223333489999999999999998764211   


Q ss_pred             CchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          159 MGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       159 ~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                        . .+....+++.++|.|+....+.
T Consensus       217 --~-~~~~~~l~~~s~Gsp~~Al~ll  239 (365)
T PRK07471        217 --P-DDPRAALAALAEGSVGRALRLA  239 (365)
T ss_pred             --C-HHHHHHHHHHcCCCHHHHHHHh
Confidence              1 1222678999999998766554

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.09  E-value=7.8e-07  Score=90.51  Aligned_cols=86  Identities=15%  Similarity=0.154  Sum_probs=45.3

Q ss_pred             CCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCcccc--hhhhhccccCeeccccccccccCCCCCCCCceeecC
Q 001603          722 HSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLP--ASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVN  799 (1046)
Q Consensus       722 ~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp--~~i~~l~~L~~L~L~~c~~l~~ip~lp~~L~~L~~~  799 (1046)
                      |++..+-+..|.+.+..-......+|.+-.|+|+.|++.++.  +.+..+++|..|.+++++....+..  .-=+.|-+.
T Consensus       199 pnv~sv~v~e~PlK~~s~ek~se~~p~~~~LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~d~l~~--~err~llIa  276 (418)
T KOG2982|consen  199 PNVNSVFVCEGPLKTESSEKGSEPFPSLSCLNLGANNIDSWASVDALNGFPQLVDLRVSENPLSDPLRG--GERRFLLIA  276 (418)
T ss_pred             ccchheeeecCcccchhhcccCCCCCcchhhhhcccccccHHHHHHHcCCchhheeeccCCcccccccC--CcceEEEEe
Confidence            344444444554433333333445556666777777666443  2466777777777777776665543  111223344


Q ss_pred             CCcccccccc
Q 001603          800 GCASLVTLSG  809 (1046)
Q Consensus       800 ~C~~L~~l~~  809 (1046)
                      ..++++-+.|
T Consensus       277 RL~~v~vLNG  286 (418)
T KOG2982|consen  277 RLTKVQVLNG  286 (418)
T ss_pred             eccceEEecC
Confidence            4444544444

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=98.08  E-value=7.4e-08  Score=108.72  Aligned_cols=174  Identities=26%  Similarity=0.295  Sum_probs=99.2

Q ss_pred             cCCCCccEEEeCCccCCC--chhccccCccEEEecCC----------CCCCCCCCCCCCCceEEEcCCCCchhhcccccC
Q 001603          347 SQMTNLRLLKIDNLQLPE--GLEYLSNKLRLLDWHRY----------PLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKY  414 (1046)
Q Consensus       347 ~~l~~Lr~L~l~~~~l~~--~~~~l~~~Lr~L~l~~~----------~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~~~  414 (1046)
                      -.++.||+|.+.++.+..  ++..+-..|..|-+++.          ....+...+....|...+.++|.+..+-.++.-
T Consensus       106 fpF~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~~Wn~L~~a~fsyN~L~~mD~SLql  185 (1096)
T KOG1859|consen  106 FPFRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSPVWNKLATASFSYNRLVLMDESLQL  185 (1096)
T ss_pred             ccccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccchhhhhHhhhhcchhhHHhHHHHHHH
Confidence            356788888888876632  44444444555544321          112223333344566666666666666666666


Q ss_pred             CCCCcEEEcCCCcCCCCCCCCCCCCCCCEEEeeCCCCCccccc-cccCCCCccEEeccCCCCCCccCCcCCccccceeec
Q 001603          415 LNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHP-SLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVL  493 (1046)
Q Consensus       415 l~~L~~L~Ls~~~~~~~~~~l~~l~~L~~L~L~~~~~~~~~~~-~l~~l~~L~~L~L~~~~~l~~lp~~~~l~~L~~L~L  493 (1046)
                      ++.|+.|||++|++.... .+..++.|++|||+.|... .+|. +...+ +|+.|++++ +.++++-+.-++.+|+.||+
T Consensus       186 l~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~L~-~vp~l~~~gc-~L~~L~lrn-N~l~tL~gie~LksL~~LDl  261 (1096)
T KOG1859|consen  186 LPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNCLR-HVPQLSMVGC-KLQLLNLRN-NALTTLRGIENLKSLYGLDL  261 (1096)
T ss_pred             HHHhhhhccchhhhhhhH-HHHhcccccccccccchhc-cccccchhhh-hheeeeecc-cHHHhhhhHHhhhhhhccch
Confidence            666677777766643332 5666666666666665332 2221 11222 366666666 45555555556677777777


Q ss_pred             cCCcCCccccccccccCCCCCeEeccccccc
Q 001603          494 SGCLKLTKKCLEFAGSMNDLSELFLDRTTIE  524 (1046)
Q Consensus       494 ~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~  524 (1046)
                      +.|-.........+..+..|+.|+|.+|.+-
T Consensus       262 syNll~~hseL~pLwsLs~L~~L~LeGNPl~  292 (1096)
T KOG1859|consen  262 SYNLLSEHSELEPLWSLSSLIVLWLEGNPLC  292 (1096)
T ss_pred             hHhhhhcchhhhHHHHHHHHHHHhhcCCccc
Confidence            7664444445555666666667777766654

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.06  E-value=4.8e-05  Score=85.61  Aligned_cols=98  Identities=15%  Similarity=0.149  Sum_probs=61.0

Q ss_pred             CeEEEEEecCCChH--HHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCC
Q 001603           82 KKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQP  158 (1046)
Q Consensus        82 kr~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  158 (1046)
                      .+-+||+||++...  ..+.+...+.......++|+||.... +..... .....+++.+++.++..+++...+......
T Consensus       125 ~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~L~-sr~~~v~~~~~~~~~~~~~l~~~~~~~~~~  203 (337)
T PRK12402        125 DYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPPIR-SRCLPLFFRAPTDDELVDVLESIAEAEGVD  203 (337)
T ss_pred             CCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchhhc-CCceEEEecCCCHHHHHHHHHHHHHHcCCC
Confidence            44589999997652  23334433333345677888775432 222222 122378999999999999988876443322


Q ss_pred             CchHHHHHHHHHHHhCCCchHHHH
Q 001603          159 MGEYVELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       159 ~~~~~~~~~~i~~~~~GlPLal~~  182 (1046)
                        -..+....++++++|.+-.+..
T Consensus       204 --~~~~al~~l~~~~~gdlr~l~~  225 (337)
T PRK12402        204 --YDDDGLELIAYYAGGDLRKAIL  225 (337)
T ss_pred             --CCHHHHHHHHHHcCCCHHHHHH
Confidence              2246678889999888766544

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.06  E-value=0.00018  Score=83.01  Aligned_cols=102  Identities=18%  Similarity=0.114  Sum_probs=62.5

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  ++...+...+........+|++|.+ ..+..... .....+++++++.++....+...+.....
T Consensus       116 ~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~Ilattn~~kl~~~L~-SR~~vv~f~~l~~~el~~~L~~i~~~egi  194 (472)
T PRK14962        116 GKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFVLATTNLEKVPPTII-SRCQVIEFRNISDELIIKRLQEVAEAEGI  194 (472)
T ss_pred             CCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEEEEeCChHhhhHHHh-cCcEEEEECCccHHHHHHHHHHHHHHcCC
Confidence            56679999999865  3455565555433344444444444 33333322 22348999999999998888887744332


Q ss_pred             CCchHHHHHHHHHHHhCCC-chHHHHHhh
Q 001603          158 PMGEYVELSKRVLKYAGGL-PLALTVLGS  185 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~Gl-PLal~~~~~  185 (1046)
                      .  -..+....|+++++|- +.|+..+..
T Consensus       195 ~--i~~eal~~Ia~~s~GdlR~aln~Le~  221 (472)
T PRK14962        195 E--IDREALSFIAKRASGGLRDALTMLEQ  221 (472)
T ss_pred             C--CCHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            1  2235677788877654 566655544

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=98.05  E-value=9.7e-08  Score=107.82  Aligned_cols=125  Identities=28%  Similarity=0.215  Sum_probs=76.6

Q ss_pred             CCCEEeccCCCCCCCcCcccCCCCCCceeeccCccccCCCcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCC
Q 001603          630 SLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSY  709 (1046)
Q Consensus       630 ~L~~L~Ls~c~~l~~~~~~~~~l~~L~~L~Ls~n~l~~~p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~  709 (1046)
                      .|.+.+.+.|. +..+.+.+.-++.|+.|+|++|+++... .+..++.|++|+|+.|......                 
T Consensus       165 ~L~~a~fsyN~-L~~mD~SLqll~ale~LnLshNk~~~v~-~Lr~l~~LkhLDlsyN~L~~vp-----------------  225 (1096)
T KOG1859|consen  165 KLATASFSYNR-LVLMDESLQLLPALESLNLSHNKFTKVD-NLRRLPKLKHLDLSYNCLRHVP-----------------  225 (1096)
T ss_pred             hHhhhhcchhh-HHhHHHHHHHHHHhhhhccchhhhhhhH-HHHhcccccccccccchhcccc-----------------
Confidence            44555555433 3344455566677777888888777765 6677777788887777643320                 


Q ss_pred             cccccCCCccCCCCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCcccc--hhhhhccccCeeccccccc
Q 001603          710 PVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLP--ASINSLFNLGQLDLEDCKR  782 (1046)
Q Consensus       710 ~~~~~~~~l~~l~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp--~~i~~l~~L~~L~L~~c~~  782 (1046)
                           --+..++. |+.|.|+||.+.+   -..+.++.+|+.|||++|-+....  .-+..|..|+.|+|.+|+.
T Consensus       226 -----~l~~~gc~-L~~L~lrnN~l~t---L~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  226 -----QLSMVGCK-LQLLNLRNNALTT---LRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             -----ccchhhhh-heeeeecccHHHh---hhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence                 00112233 7777777777621   234667777788888877655321  1356677777888887764

>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=98.05  E-value=3e-06  Score=68.06  Aligned_cols=57  Identities=30%  Similarity=0.419  Sum_probs=23.9

Q ss_pred             ccceeeccCccccccCc-ccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCC
Q 001603          583 DLMELFLDGTSIAEVPS-SIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGC  639 (1046)
Q Consensus       583 ~L~~L~L~~~~i~~lp~-~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c  639 (1046)
                      +|+.|++++|.++.+|. .+..+++|+.|++++|.+....+..|.++++|++|++++|
T Consensus         2 ~L~~L~l~~n~l~~i~~~~f~~l~~L~~L~l~~N~l~~i~~~~f~~l~~L~~L~l~~N   59 (61)
T PF13855_consen    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNN   59 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCC
Confidence            34444444444444442 2344444444444444443333333344444444444333

...

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.05  E-value=2.3e-05  Score=88.69  Aligned_cols=145  Identities=18%  Similarity=0.243  Sum_probs=81.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHh-hc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSR-LR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~-L~   80 (1046)
                      |.|+|++|+|||++|+++++.....|-     ...         ...+......+           .......+.+. -.
T Consensus       159 vLL~GppGtGKT~lakaia~~l~~~~~-----~v~---------~~~l~~~~~g~-----------~~~~i~~~f~~a~~  213 (364)
T TIGR01242       159 VLLYGPPGTGKTLLAKAVAHETNATFI-----RVV---------GSELVRKYIGE-----------GARLVREIFELAKE  213 (364)
T ss_pred             EEEECCCCCCHHHHHHHHHHhCCCCEE-----ecc---------hHHHHHHhhhH-----------HHHHHHHHHHHHHh
Confidence            679999999999999999997765432     110         01111110000           00011111111 13


Q ss_pred             CCeEEEEEecCCCh----------------HHHHHHhhccCCC--CCCCEEEEEeCChhhHHHh-----cCCCcceEecC
Q 001603           81 QKKVLLVIDDVADV----------------EQLQNLARKRDWF--GPGSKIVITTRDKQLLVAH-----EVDEEHIYNLE  137 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~----------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~~-----~~~~~~~~~l~  137 (1046)
                      ..+.+|+||++|..                ..+..+......+  ..+.+||.||.........     ..+.  .+++.
T Consensus       214 ~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v~vI~ttn~~~~ld~al~r~grfd~--~i~v~  291 (364)
T TIGR01242       214 KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNVKVIAATNRPDILDPALLRPGRFDR--IIEVP  291 (364)
T ss_pred             cCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCEEEEEecCChhhCChhhcCcccCce--EEEeC
Confidence            46689999999753                1133333332211  2456788888754322111     2233  79999


Q ss_pred             CCChHHHHHHHHHhhcCCCCCC-chHHHHHHHHHHHhCCCc
Q 001603          138 VLSNDEALQLFSMKAFKTRQPM-GEYVELSKRVLKYAGGLP  177 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~i~~~~~GlP  177 (1046)
                      ..+.++..++|+.++.+..... .+    ...+++.+.|..
T Consensus       292 ~P~~~~r~~Il~~~~~~~~l~~~~~----~~~la~~t~g~s  328 (364)
T TIGR01242       292 LPDFEGRLEILKIHTRKMKLAEDVD----LEAIAKMTEGAS  328 (364)
T ss_pred             CcCHHHHHHHHHHHHhcCCCCccCC----HHHHHHHcCCCC
Confidence            9999999999998876544322 12    345667777654

Many proteins may score above the trusted cutoff because an internal

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.02  E-value=0.00012  Score=86.20  Aligned_cols=100  Identities=15%  Similarity=0.145  Sum_probs=67.5

Q ss_pred             CCeEEEEEecCCChH--HHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCC
Q 001603           81 QKKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQP  158 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  158 (1046)
                      ++.-++|||+++...  .+..|+..+.......++|+||++.+.....-......++++.++.++..+.+.+.+..... 
T Consensus       118 gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FILaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~EgI-  196 (830)
T PRK07003        118 ARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFILATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEERI-  196 (830)
T ss_pred             CCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEEEEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcCC-
Confidence            455688899998763  46667666555556788888888765432222222347999999999999998887644332 


Q ss_pred             CchHHHHHHHHHHHhCCCch-HHHH
Q 001603          159 MGEYVELSKRVLKYAGGLPL-ALTV  182 (1046)
Q Consensus       159 ~~~~~~~~~~i~~~~~GlPL-al~~  182 (1046)
                       ....+....|++.++|... |+..
T Consensus       197 -~id~eAL~lIA~~A~GsmRdALsL  220 (830)
T PRK07003        197 -AFEPQALRLLARAAQGSMRDALSL  220 (830)
T ss_pred             -CCCHHHHHHHHHHcCCCHHHHHHH
Confidence             2223667789999988654 5544

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.02  E-value=6.3e-06  Score=89.73  Aligned_cols=90  Identities=17%  Similarity=0.157  Sum_probs=58.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc-ccceeEEEEechhhhcccCCHHHHHHHHHHHHhhcc-Cccc----ccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH-EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLA-DISI----WNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~-~~~~----~~~~~~~~~i   75 (1046)
                      ++|+|++|+||||||+++|+.+.. +|+..+|+..+++..+  . +.++++++...+.... +...    .-.....+..
T Consensus       172 ~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~--E-VtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~A  248 (416)
T PRK09376        172 GLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPE--E-VTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEKA  248 (416)
T ss_pred             EEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchh--H-HHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHHH
Confidence            589999999999999999997754 6999999987766322  2 7788888864332111 1100    0001111112


Q ss_pred             HHh-hcCCeEEEEEecCCCh
Q 001603           76 GSR-LRQKKVLLVIDDVADV   94 (1046)
Q Consensus        76 ~~~-L~~kr~LlVlDdv~~~   94 (1046)
                      +.. -.+++++|++|++...
T Consensus       249 e~~~e~G~dVlL~iDsItR~  268 (416)
T PRK09376        249 KRLVEHGKDVVILLDSITRL  268 (416)
T ss_pred             HHHHHcCCCEEEEEEChHHH
Confidence            222 2579999999999654

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.02  E-value=1.1e-06  Score=89.36  Aligned_cols=181  Identities=24%  Similarity=0.240  Sum_probs=91.0

Q ss_pred             CCcccceeeccCcccc---ccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCC-CCcCcccCCCCCC
Q 001603          580 SMKDLMELFLDGTSIA---EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKL-QNVPETLGQVESL  655 (1046)
Q Consensus       580 ~l~~L~~L~L~~~~i~---~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l-~~~~~~~~~l~~L  655 (1046)
                      ..+.+++++|.+|.|+   ++...+.++|.|+.|+|+.|+....+...-....+|++|.|.|-... ......+..+|.+
T Consensus        69 ~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp~p~~nl~~lVLNgT~L~w~~~~s~l~~lP~v  148 (418)
T KOG2982|consen   69 SVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLPLPLKNLRVLVLNGTGLSWTQSTSSLDDLPKV  148 (418)
T ss_pred             HhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCcccccceEEEEEcCCCCChhhhhhhhhcchhh
Confidence            4566777777777776   33344567777777777777665443222123457777777664332 1222334556677


Q ss_pred             ceeeccCccccCC---Ccchhh-ccCCceeecCCCCCCCCCCC--cccCcc-cccccCcCCccc--ccCCCccCCCCCCE
Q 001603          656 EELDISGTAIRRP---PSSIFV-MNNLKTLSFSGCNGPPSSTS--WHWHFP-FNLMGQRSYPVA--LMLPSLSGLHSLSK  726 (1046)
Q Consensus       656 ~~L~Ls~n~l~~~---p~~~~~-l~~L~~L~L~~~~~~~~~~~--~~~~~~-~~~~~~~~~~~~--~~~~~l~~l~~L~~  726 (1046)
                      ++|+++.|.++.+   ...+.. -+.+++|.+.+|........  ....++ ........+|..  ..-.++..++++..
T Consensus       149 telHmS~N~~rq~n~Dd~c~e~~s~~v~tlh~~~c~~~~w~~~~~l~r~Fpnv~sv~v~e~PlK~~s~ek~se~~p~~~~  228 (418)
T KOG2982|consen  149 TELHMSDNSLRQLNLDDNCIEDWSTEVLTLHQLPCLEQLWLNKNKLSRIFPNVNSVFVCEGPLKTESSEKGSEPFPSLSC  228 (418)
T ss_pred             hhhhhccchhhhhccccccccccchhhhhhhcCCcHHHHHHHHHhHHhhcccchheeeecCcccchhhcccCCCCCcchh
Confidence            7777777754433   011110 11233333333321100000  000000 000000000000  01123455667778


Q ss_pred             EecCCCCCCCCCCcccccCcCCCCeeeCCCCCCc
Q 001603          727 LDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV  760 (1046)
Q Consensus       727 L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~  760 (1046)
                      |+|+.++|.+-.--+.+..++.|..|.+++|.+.
T Consensus       229 LnL~~~~idswasvD~Ln~f~~l~dlRv~~~Pl~  262 (418)
T KOG2982|consen  229 LNLGANNIDSWASVDALNGFPQLVDLRVSENPLS  262 (418)
T ss_pred             hhhcccccccHHHHHHHcCCchhheeeccCCccc
Confidence            8888888854444567788888888888888765

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.01  E-value=6.3e-06  Score=86.44  Aligned_cols=90  Identities=16%  Similarity=0.163  Sum_probs=57.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc-ccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCcc----cccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH-EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADIS----IWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~----~~~~~~~~~~i   75 (1046)
                      ++|+|++|+|||||++++++.+.. +|+..+|+..+.+.   ...+.++++++...+. ...+..    ..-.....+..
T Consensus        19 ~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er---~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~a   95 (249)
T cd01128          19 GLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDER---PEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEKA   95 (249)
T ss_pred             EEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCC---CccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            689999999999999999997654 68988898865542   1237888888833332 111110    00111222222


Q ss_pred             HHh-hcCCeEEEEEecCCCh
Q 001603           76 GSR-LRQKKVLLVIDDVADV   94 (1046)
Q Consensus        76 ~~~-L~~kr~LlVlDdv~~~   94 (1046)
                      +.. -.++++++++|++...
T Consensus        96 ~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          96 KRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHCCCCEEEEEECHHHh
Confidence            222 2489999999998654

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.

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=98.01  E-value=5.4e-05  Score=79.65  Aligned_cols=149  Identities=17%  Similarity=0.165  Sum_probs=84.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.|+|..|+|||+||+++++.....-....++...           .....    +                   ... .
T Consensus        45 ~~l~G~~G~GKT~La~ai~~~~~~~~~~~~~i~~~-----------~~~~~----~-------------------~~~-~   89 (227)
T PRK08903         45 FYLWGEAGSGRSHLLQALVADASYGGRNARYLDAA-----------SPLLA----F-------------------DFD-P   89 (227)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhCCCcEEEEehH-----------HhHHH----H-------------------hhc-c
Confidence            68999999999999999998764332234444411           11100    0                   011 2


Q ss_pred             CeEEEEEecCCCh--HHHHHHhhccCC-CCCCC-EEEEEeCChhhHHHh------cCCCcceEecCCCChHHHHHHHHHh
Q 001603           82 KKVLLVIDDVADV--EQLQNLARKRDW-FGPGS-KIVITTRDKQLLVAH------EVDEEHIYNLEVLSNDEALQLFSMK  151 (1046)
Q Consensus        82 kr~LlVlDdv~~~--~~~~~l~~~~~~-~~~gs-~IiiTTR~~~~~~~~------~~~~~~~~~l~~L~~~ea~~Lf~~~  151 (1046)
                      +.-+||+||++..  .+.+.+...... ...+. .||+|++........      .......+++.++++++-.+++.+.
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            2347889999754  222223222211 12344 366666643211100      1111238999999998877777665


Q ss_pred             hcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhc
Q 001603          152 AFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFL  187 (1046)
Q Consensus       152 a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  187 (1046)
                      +-...  ..-.++....+++...|++..+..+...+
T Consensus       170 ~~~~~--v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        170 AAERG--LQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             HHHcC--CCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            43222  12223667788889999999887776544

>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=98.00  E-value=5.8e-05  Score=75.81  Aligned_cols=152  Identities=24%  Similarity=0.268  Sum_probs=81.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +-.||++|+||||||..+++.....|.   +...  ...++.   .++.                      ..+ ..++ 
T Consensus        53 ~lf~GPPG~GKTTLA~IIA~e~~~~~~---~~sg--~~i~k~---~dl~----------------------~il-~~l~-  100 (233)
T PF05496_consen   53 MLFYGPPGLGKTTLARIIANELGVNFK---ITSG--PAIEKA---GDLA----------------------AIL-TNLK-  100 (233)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHCT--EE---EEEC--CC--SC---HHHH----------------------HHH-HT---
T ss_pred             EEEECCCccchhHHHHHHHhccCCCeE---eccc--hhhhhH---HHHH----------------------HHH-HhcC-
Confidence            568999999999999999998877653   1221  011111   1111                      111 1122 


Q ss_pred             CeEEEEEecCCCh--HHHHHHhhccCC--------CCCCC-----------EEEEEeCChhhHHHhcCCCcceEecCCCC
Q 001603           82 KKVLLVIDDVADV--EQLQNLARKRDW--------FGPGS-----------KIVITTRDKQLLVAHEVDEEHIYNLEVLS  140 (1046)
Q Consensus        82 kr~LlVlDdv~~~--~~~~~l~~~~~~--------~~~gs-----------~IiiTTR~~~~~~~~~~~~~~~~~l~~L~  140 (1046)
                      ++-+|.+|++...  .+-+.|.+....        .++++           -|=.|||...+.....-.-..+.+++..+
T Consensus       101 ~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~~FTligATTr~g~ls~pLrdRFgi~~~l~~Y~  180 (233)
T PF05496_consen  101 EGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLPPFTLIGATTRAGLLSSPLRDRFGIVLRLEFYS  180 (233)
T ss_dssp             TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE----EEEEEESSGCCTSHCCCTTSSEEEE----T
T ss_pred             CCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCCCceEeeeeccccccchhHHhhcceecchhcCC
Confidence            3446777999754  222223222111        12222           23468887554433332222356899999


Q ss_pred             hHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhc
Q 001603          141 NDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFL  187 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  187 (1046)
                      .+|-.++..+.|..-.  .+-.++.+.+|++++.|-|--..-+-...
T Consensus       181 ~~el~~Iv~r~a~~l~--i~i~~~~~~~Ia~rsrGtPRiAnrll~rv  225 (233)
T PF05496_consen  181 EEELAKIVKRSARILN--IEIDEDAAEEIARRSRGTPRIANRLLRRV  225 (233)
T ss_dssp             HHHHHHHHHHCCHCTT---EE-HHHHHHHHHCTTTSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhC--CCcCHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            9999999988875443  23445788999999999997655544433

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.

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.99  E-value=0.00011  Score=84.67  Aligned_cols=157  Identities=18%  Similarity=0.165  Sum_probs=91.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccc-e-eEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD-G-STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~-~-~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +.|||.+|+|||+||+++++.+..+.+ . +.|+.           ..++..++...+...          ....+++.+
T Consensus       133 l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~-----------~~~f~~~~~~~~~~~----------~~~~f~~~~  191 (440)
T PRK14088        133 LFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYIT-----------SEKFLNDLVDSMKEG----------KLNEFREKY  191 (440)
T ss_pred             EEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE-----------HHHHHHHHHHHHhcc----------cHHHHHHHH
Confidence            579999999999999999998766543 2 34443           333444444443211          112334444


Q ss_pred             cCCeEEEEEecCCCh---HHH-HHHhhccCC-CCCCCEEEEEeC-ChhhHHHh------cCCCcceEecCCCChHHHHHH
Q 001603           80 RQKKVLLVIDDVADV---EQL-QNLARKRDW-FGPGSKIVITTR-DKQLLVAH------EVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~---~~~-~~l~~~~~~-~~~gs~IiiTTR-~~~~~~~~------~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                      +.+.-+||+||++..   ... +++...+.. ...|..||+||. ...-+...      ......++++++.+.++-.++
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            444558999999743   111 222222111 123557888875 33221111      112223789999999999999


Q ss_pred             HHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHH
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                      +.+.+......  -.+++...|++++.|.--.+.
T Consensus       272 L~~~~~~~~~~--l~~ev~~~Ia~~~~~~~R~L~  303 (440)
T PRK14088        272 ARKMLEIEHGE--LPEEVLNFVAENVDDNLRRLR  303 (440)
T ss_pred             HHHHHHhcCCC--CCHHHHHHHHhccccCHHHHH
Confidence            99887543222  224677788888887655543

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=97.98  E-value=0.00017  Score=83.56  Aligned_cols=97  Identities=16%  Similarity=0.171  Sum_probs=64.7

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEE-EeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVI-TTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~Iii-TTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  ..+..|...+....+.+++|+ ||+.+.+...... ....+++++++.+|..+.+.+.+.....
T Consensus       127 ~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~kI~~tI~S-Rc~~~ef~~ls~~el~~~L~~i~~~egi  205 (507)
T PRK06645        127 GKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQKIPATIIS-RCQRYDLRRLSFEEIFKLLEYITKQENL  205 (507)
T ss_pred             CCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHHhhHHHHh-cceEEEccCCCHHHHHHHHHHHHHHcCC
Confidence            56778999999874  457777766554455666655 4444444333222 2237999999999999999888754432


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .  ...+....|++.++|.+.-+
T Consensus       206 ~--ie~eAL~~Ia~~s~GslR~a  226 (507)
T PRK06645        206 K--TDIEALRIIAYKSEGSARDA  226 (507)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHH
Confidence            2  22355677999999977554

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.98  E-value=3.5e-05  Score=87.17  Aligned_cols=98  Identities=9%  Similarity=-0.019  Sum_probs=63.3

Q ss_pred             cCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCC
Q 001603           80 RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      .++.-++|+|+++..  +.+..|+..+.........|.+|.. ..+..... .....|.+++++.++..+.+.+.+....
T Consensus       119 ~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI~-SRCq~~~f~~ls~~~i~~~L~~i~~~Eg  197 (484)
T PRK14956        119 GGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETIL-SRCQDFIFKKVPLSVLQDYSEKLCKIEN  197 (484)
T ss_pred             cCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHHH-hhhheeeecCCCHHHHHHHHHHHHHHcC
Confidence            356678999999865  5577777666543445555545544 33333322 2223799999999999888887764332


Q ss_pred             CCCchHHHHHHHHHHHhCCCchHH
Q 001603          157 QPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       157 ~~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .  .-..+....|++.++|.+.-.
T Consensus       198 i--~~e~eAL~~Ia~~S~Gd~RdA  219 (484)
T PRK14956        198 V--QYDQEGLFWIAKKGDGSVRDM  219 (484)
T ss_pred             C--CCCHHHHHHHHHHcCChHHHH
Confidence            2  222356788999999988543

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=97.97  E-value=0.00013  Score=80.69  Aligned_cols=154  Identities=19%  Similarity=0.233  Sum_probs=91.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc------ccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH------EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      ..++|+.|+||||+|+.+++.+-.      +.+...|.. ..  ..... +.++ +++...+...               
T Consensus        29 ~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~-~~--~~~i~-v~~i-r~~~~~~~~~---------------   88 (313)
T PRK05564         29 HIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKP-IN--KKSIG-VDDI-RNIIEEVNKK---------------   88 (313)
T ss_pred             EEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEecc-cc--CCCCC-HHHH-HHHHHHHhcC---------------
Confidence            468999999999999999986532      223222321 00  01111 2222 2222222110               


Q ss_pred             HHhhcCCeEEEEEecCCC--hHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhc
Q 001603           76 GSRLRQKKVLLVIDDVAD--VEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAF  153 (1046)
Q Consensus        76 ~~~L~~kr~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  153 (1046)
                        -..+++-++|+|+++.  ...+..+...+....+++.+|++|.+.+.+...-......+++.+++.++..+.+.+...
T Consensus        89 --p~~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~l~~~~~  166 (313)
T PRK05564         89 --PYEGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQIYKLNRLSKEEIEKFISYKYN  166 (313)
T ss_pred             --cccCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhceeeeCCCcCHHHHHHHHHHHhc
Confidence              0123455666677654  456777887777667889998888766433221122224899999999999888865532


Q ss_pred             CCCCCCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          154 KTRQPMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       154 ~~~~~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      +      ...+.++.++.+++|.|..+...
T Consensus       167 ~------~~~~~~~~l~~~~~g~~~~a~~~  190 (313)
T PRK05564        167 D------IKEEEKKSAIAFSDGIPGKVEKF  190 (313)
T ss_pred             C------CCHHHHHHHHHHcCCCHHHHHHH
Confidence            1      11234678899999998765544

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=0.00017  Score=83.97  Aligned_cols=101  Identities=16%  Similarity=0.151  Sum_probs=63.5

Q ss_pred             cCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCC
Q 001603           80 RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      .+++-++|+|+++..  ...+.|...+......+++|.+|.+. .+.... ......+++++++.++..+.+.+.+-...
T Consensus       117 ~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fIL~Ttd~~kil~tI-~SRc~~~~f~~Ls~~eI~~~L~~il~~eg  195 (546)
T PRK14957        117 QGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFILATTDYHKIPVTI-LSRCIQLHLKHISQADIKDQLKIILAKEN  195 (546)
T ss_pred             cCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEEEEECChhhhhhhH-HHheeeEEeCCCCHHHHHHHHHHHHHHcC
Confidence            356679999999854  45666666665545566666555444 333231 22224899999999998888777553322


Q ss_pred             CCCchHHHHHHHHHHHhCCCch-HHHHH
Q 001603          157 QPMGEYVELSKRVLKYAGGLPL-ALTVL  183 (1046)
Q Consensus       157 ~~~~~~~~~~~~i~~~~~GlPL-al~~~  183 (1046)
                        .....+....|++.++|.+- |+..+
T Consensus       196 --i~~e~~Al~~Ia~~s~GdlR~alnlL  221 (546)
T PRK14957        196 --INSDEQSLEYIAYHAKGSLRDALSLL  221 (546)
T ss_pred             --CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence              12223556788999999664 44443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.96  E-value=0.00011  Score=85.46  Aligned_cols=100  Identities=12%  Similarity=0.078  Sum_probs=65.3

Q ss_pred             cCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCC
Q 001603           80 RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      .++.-++|||+++..  .....|+..+.....+.++|++|.+. .+..... .....++++.++.++..+.+.+.+....
T Consensus       122 ~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlpTIr-SRCq~f~f~~ls~eei~~~L~~Il~~Eg  200 (700)
T PRK12323        122 AGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPVTVL-SRCLQFNLKQMPPGHIVSHLDAILGEEG  200 (700)
T ss_pred             cCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhhHHH-HHHHhcccCCCChHHHHHHHHHHHHHcC
Confidence            356678999999865  45677777666555666666555544 4433221 2223799999999999998887664332


Q ss_pred             CCCchHHHHHHHHHHHhCCCchHHHH
Q 001603          157 QPMGEYVELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       157 ~~~~~~~~~~~~i~~~~~GlPLal~~  182 (1046)
                      ..  ...+..+.|++.++|.|.....
T Consensus       201 i~--~d~eAL~~IA~~A~Gs~RdALs  224 (700)
T PRK12323        201 IA--HEVNALRLLAQAAQGSMRDALS  224 (700)
T ss_pred             CC--CCHHHHHHHHHHcCCCHHHHHH
Confidence            21  2234567899999999965433

>PF14516 AAA_35: AAA-like domain

Probab=97.96  E-value=0.00056  Score=75.94  Aligned_cols=181  Identities=12%  Similarity=0.229  Sum_probs=103.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-cceeEEEEechhhhc-ccCCHHHHHHHHHHHHhhccCcc-----cc-----ccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLANVREKSE-KEGSVVSLQKQLLSDLLKLADIS-----IW-----NVD   69 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~-~~~~~~~l~~~ll~~l~~~~~~~-----~~-----~~~   69 (1046)
                      +.|.|+=.+|||||...+.+..+.+ +. ++++ +...... ...+...+.+.+...+....+..     .|     ...
T Consensus        34 ~~I~apRq~GKTSll~~l~~~l~~~~~~-~v~i-d~~~~~~~~~~~~~~f~~~~~~~i~~~L~l~~~l~~~w~~~~~~~~  111 (331)
T PF14516_consen   34 IRIKAPRQMGKTSLLLRLLERLQQQGYR-CVYI-DLQQLGSAIFSDLEQFLRWFCEEISRQLKLDEKLDEYWDEEIGSKI  111 (331)
T ss_pred             EEEECcccCCHHHHHHHHHHHHHHCCCE-EEEE-EeecCCCcccCCHHHHHHHHHHHHHHHcCCChhHHHHHHHhcCChh
Confidence            6799999999999999999877654 33 3343 3443322 23336666666666665322211     01     111


Q ss_pred             chHHHHHHhh---cCCeEEEEEecCCChHH----HHHHhhcc-CCCC---------CCCEEEEEeCChhhHHHh---cCC
Q 001603           70 DGINIIGSRL---RQKKVLLVIDDVADVEQ----LQNLARKR-DWFG---------PGSKIVITTRDKQLLVAH---EVD  129 (1046)
Q Consensus        70 ~~~~~i~~~L---~~kr~LlVlDdv~~~~~----~~~l~~~~-~~~~---------~gs~IiiTTR~~~~~~~~---~~~  129 (1046)
                      .....+.+.+   .+++++|+||+||..-.    ..++.+.+ .|..         .-+-|++.+.........   ...
T Consensus       112 ~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~li~~~~t~~~~~~~~~~SPFN  191 (331)
T PF14516_consen  112 SCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLRLILAGSTEDYIILDINQSPFN  191 (331)
T ss_pred             hHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEEEEEecCcccccccCCCCCCcc
Confidence            2233444433   26899999999986421    11111111 0111         111122222111111100   011


Q ss_pred             CcceEecCCCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCC
Q 001603          130 EEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGR  190 (1046)
Q Consensus       130 ~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~  190 (1046)
                      -...+++++++.+|..+|...+...-      ..+..++|...++|+|.-+..++..+...
T Consensus       192 Ig~~i~L~~Ft~~ev~~L~~~~~~~~------~~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  192 IGQPIELPDFTPEEVQELAQRYGLEF------SQEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             cccceeCCCCCHHHHHHHHHhhhccC------CHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            12379999999999999998775321      12338899999999999999999988653

>PLN03025 replication factor C subunit; Provisional

Probab=97.95  E-value=0.00011  Score=81.41  Aligned_cols=157  Identities=14%  Similarity=0.160  Sum_probs=87.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc-ccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH-EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      +.++|++|+||||+|+++++.+.. .|...+.-.+   .+...+ .. ..++.+.........              .-.
T Consensus        37 lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln---~sd~~~-~~-~vr~~i~~~~~~~~~--------------~~~   97 (319)
T PLN03025         37 LILSGPPGTGKTTSILALAHELLGPNYKEAVLELN---ASDDRG-ID-VVRNKIKMFAQKKVT--------------LPP   97 (319)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhcccCccceeeec---cccccc-HH-HHHHHHHHHHhcccc--------------CCC
Confidence            468999999999999999987633 2332211111   111111 22 122222222110000              002


Q ss_pred             CCeEEEEEecCCChH--HHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      ++.-++|||+++...  .-..+........+.+++|++|.... +...... ....+++++++.++..+.+...+-+..-
T Consensus        98 ~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~S-Rc~~i~f~~l~~~~l~~~L~~i~~~egi  176 (319)
T PLN03025         98 GRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQS-RCAIVRFSRLSDQEILGRLMKVVEAEKV  176 (319)
T ss_pred             CCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHH-hhhcccCCCCCHHHHHHHHHHHHHHcCC
Confidence            456689999998752  33344443333456678877775432 2121111 1137999999999999988887754332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .-  ..+....|++.++|..-.+
T Consensus       177 ~i--~~~~l~~i~~~~~gDlR~a  197 (319)
T PLN03025        177 PY--VPEGLEAIIFTADGDMRQA  197 (319)
T ss_pred             CC--CHHHHHHHHHHcCCCHHHH
Confidence            21  2356778899998876444

>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=97.93  E-value=6.1e-05  Score=73.14  Aligned_cols=103  Identities=17%  Similarity=0.153  Sum_probs=55.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      .|.|+|++|+||||+|+++++.+...-...+++. ..+.....    ......  ..        .   ...........
T Consensus        21 ~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~-~~~~~~~~----~~~~~~--~~--------~---~~~~~~~~~~~   82 (151)
T cd00009          21 NLLLYGPPGTGKTTLARAIANELFRPGAPFLYLN-ASDLLEGL----VVAELF--GH--------F---LVRLLFELAEK   82 (151)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEe-hhhhhhhh----HHHHHh--hh--------h---hHhHHHHhhcc
Confidence            3789999999999999999998753323333433 22211100    000000  00        0   00011112224


Q ss_pred             CCeEEEEEecCCCh-----HHHHHHhhccCCC---CCCCEEEEEeCChh
Q 001603           81 QKKVLLVIDDVADV-----EQLQNLARKRDWF---GPGSKIVITTRDKQ  121 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~-----~~~~~l~~~~~~~---~~gs~IiiTTR~~~  121 (1046)
                      .++.++|+||++..     ..+..+.......   ..+.+||+||....
T Consensus        83 ~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          83 AKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             CCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence            56789999999863     2233333333221   36778888888654

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.

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.93  E-value=0.00026  Score=81.39  Aligned_cols=156  Identities=18%  Similarity=0.178  Sum_probs=90.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccce--eEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDG--STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +.|+|..|+|||+||+++++.+.++...  ++|+.           ..++..++...+...          ....+++.+
T Consensus       139 l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~-----------~~~~~~~~~~~~~~~----------~~~~~~~~~  197 (405)
T TIGR00362       139 LFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVS-----------SEKFTNDFVNALRNN----------KMEEFKEKY  197 (405)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEE-----------HHHHHHHHHHHHHcC----------CHHHHHHHH
Confidence            5799999999999999999987665432  33443           233333444443211          122334444


Q ss_pred             cCCeEEEEEecCCChH---H-HHHHhhccCC-CCCCCEEEEEeCCh-hhHHHh------cCCCcceEecCCCChHHHHHH
Q 001603           80 RQKKVLLVIDDVADVE---Q-LQNLARKRDW-FGPGSKIVITTRDK-QLLVAH------EVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~~---~-~~~l~~~~~~-~~~gs~IiiTTR~~-~~~~~~------~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                      ++ .-+|||||++...   . -+++...+.. ...|..||||+... ......      .......+++++.+.++-.++
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            33 3378899997531   1 1223222211 12355677777642 111111      111123689999999999999


Q ss_pred             HHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHH
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                      +...+......  -.+++...|++.+.|..-.+.
T Consensus       277 l~~~~~~~~~~--l~~e~l~~ia~~~~~~~r~l~  308 (405)
T TIGR00362       277 LQKKAEEEGLE--LPDEVLEFIAKNIRSNVRELE  308 (405)
T ss_pred             HHHHHHHcCCC--CCHHHHHHHHHhcCCCHHHHH
Confidence            99888554322  224677788888888776543

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).

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.91  E-value=0.00023  Score=80.16  Aligned_cols=95  Identities=13%  Similarity=0.103  Sum_probs=61.3

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  .....|...+....++..+|++|.+.. +..... .....+.+++++.++..+.+.....    
T Consensus       116 ~~~kViiIDead~m~~~aanaLLk~LEep~~~~~fIL~a~~~~~llpTIr-SRc~~i~f~~~~~~~i~~~L~~~~~----  190 (394)
T PRK07940        116 GRWRIVVIEDADRLTERAANALLKAVEEPPPRTVWLLCAPSPEDVLPTIR-SRCRHVALRTPSVEAVAEVLVRRDG----  190 (394)
T ss_pred             CCcEEEEEechhhcCHHHHHHHHHHhhcCCCCCeEEEEECChHHChHHHH-hhCeEEECCCCCHHHHHHHHHHhcC----
Confidence            45557888999865  334445555444456676776666643 333322 2224899999999999988874421    


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                       .  ..+.+..++..++|.|.....+
T Consensus       191 -~--~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        191 -V--DPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             -C--CHHHHHHHHHHcCCCHHHHHHH
Confidence             1  1245778999999999765444

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=97.90  E-value=0.00011  Score=77.23  Aligned_cols=124  Identities=21%  Similarity=0.332  Sum_probs=74.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.+||++|+||||||+.+...-+.+-  ..|+.-    +.+.....+ .+.++++-..                ...+.+
T Consensus       165 mIlWGppG~GKTtlArlia~tsk~~S--yrfvel----SAt~a~t~d-vR~ife~aq~----------------~~~l~k  221 (554)
T KOG2028|consen  165 MILWGPPGTGKTTLARLIASTSKKHS--YRFVEL----SATNAKTND-VRDIFEQAQN----------------EKSLTK  221 (554)
T ss_pred             eEEecCCCCchHHHHHHHHhhcCCCc--eEEEEE----eccccchHH-HHHHHHHHHH----------------HHhhhc
Confidence            56899999999999999998554431  344442    221111221 2222222211                123457


Q ss_pred             CeEEEEEecCCC--hHHHHHHhhccCCCCCCCEEEE--EeCChhhHHHh-cCCCcceEecCCCChHHHHHHHHHh
Q 001603           82 KKVLLVIDDVAD--VEQLQNLARKRDWFGPGSKIVI--TTRDKQLLVAH-EVDEEHIYNLEVLSNDEALQLFSMK  151 (1046)
Q Consensus        82 kr~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~Iii--TTR~~~~~~~~-~~~~~~~~~l~~L~~~ea~~Lf~~~  151 (1046)
                      +|.+|++|.|..  ..|-+.+++.   ...|..++|  ||.+...-... -...-.++-+++|+.++-..++.+-
T Consensus       222 rkTilFiDEiHRFNksQQD~fLP~---VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~ra  293 (554)
T KOG2028|consen  222 RKTILFIDEIHRFNKSQQDTFLPH---VENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRA  293 (554)
T ss_pred             ceeEEEeHHhhhhhhhhhhcccce---eccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHH
Confidence            899999999964  3444444433   357777776  66666432111 1222348999999999999988873

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.88  E-value=0.00023  Score=81.66  Aligned_cols=97  Identities=16%  Similarity=0.170  Sum_probs=64.7

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....|...+....+..++|++|.+. .+..... .....+++++++.++..+.+.+.+.+...
T Consensus       115 ~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fIlatte~~Kl~~tI~-SRc~~~~f~~l~~~el~~~L~~ia~~Egi  193 (491)
T PRK14964        115 SKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFILATTEVKKIPVTII-SRCQRFDLQKIPTDKLVEHLVDIAKKENI  193 (491)
T ss_pred             CCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEEEEeCChHHHHHHHH-HhheeeecccccHHHHHHHHHHHHHHcCC
Confidence            45668999999764  44666666665555677777666443 4333222 22247999999999999999887754432


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .  -..+....|++.++|.+..+
T Consensus       194 ~--i~~eAL~lIa~~s~GslR~a  214 (491)
T PRK14964        194 E--HDEESLKLIAENSSGSMRNA  214 (491)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHH
Confidence            2  22356778999999987644

>PRK04195 replication factor C large subunit; Provisional

Probab=97.88  E-value=0.00023  Score=83.50  Aligned_cols=186  Identities=14%  Similarity=0.187  Sum_probs=100.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|+|++|+||||+|+++++.+.  ++. +.+. .   +.. . ......+++........               ....
T Consensus        42 lLL~GppG~GKTtla~ala~el~--~~~-ieln-a---sd~-r-~~~~i~~~i~~~~~~~s---------------l~~~   97 (482)
T PRK04195         42 LLLYGPPGVGKTSLAHALANDYG--WEV-IELN-A---SDQ-R-TADVIERVAGEAATSGS---------------LFGA   97 (482)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC--CCE-EEEc-c---ccc-c-cHHHHHHHHHHhhccCc---------------ccCC
Confidence            67999999999999999999763  222 1221 1   111 1 11222222222211100               0113


Q ss_pred             CeEEEEEecCCChH------HHHHHhhccCCCCCCCEEEEEeCChh-hHH-HhcCCCcceEecCCCChHHHHHHHHHhhc
Q 001603           82 KKVLLVIDDVADVE------QLQNLARKRDWFGPGSKIVITTRDKQ-LLV-AHEVDEEHIYNLEVLSNDEALQLFSMKAF  153 (1046)
Q Consensus        82 kr~LlVlDdv~~~~------~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~-~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  153 (1046)
                      ++-+||||+++...      .++.+.....  ..+..||+|+.+.. ... ... .....+++.+++.++....+...+.
T Consensus        98 ~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lr-sr~~~I~f~~~~~~~i~~~L~~i~~  174 (482)
T PRK04195         98 RRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELR-NACLMIEFKRLSTRSIVPVLKRICR  174 (482)
T ss_pred             CCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHh-ccceEEEecCCCHHHHHHHHHHHHH
Confidence            67799999998642      2444444333  23445666664432 111 111 1223799999999999888887765


Q ss_pred             CCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcC-CC---ChHHHHHHHHHHhcCCCCchHHHHhhccc
Q 001603          154 KTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLN-GR---SVDLWRSTLKRLKKEPPNRIINILQISFD  219 (1046)
Q Consensus       154 ~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~-~~---~~~~w~~~l~~l~~~~~~~i~~~l~~sy~  219 (1046)
                      ......  ..+....|++.++|..-.+......+. +.   +.+..+...   .......+++++..-+.
T Consensus       175 ~egi~i--~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~---~~d~~~~if~~l~~i~~  239 (482)
T PRK04195        175 KEGIEC--DDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLG---RRDREESIFDALDAVFK  239 (482)
T ss_pred             HcCCCC--CHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhh---cCCCCCCHHHHHHHHHC
Confidence            433222  236678899999997766644333332 22   233322221   13344566666654443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.88  E-value=9e-05  Score=87.15  Aligned_cols=99  Identities=11%  Similarity=0.059  Sum_probs=62.7

Q ss_pred             CCeEEEEEecCCChH--HHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|||+++...  ....|+..+.......++|++|.+.+ +.... ......++++.++.++..+.+.+.+-+...
T Consensus       118 gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~fILaTtd~~kL~~TI-rSRC~~f~f~~Ls~eeI~~~L~~Il~kEgi  196 (709)
T PRK08691        118 GKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPHKVPVTV-LSRCLQFVLRNMTAQQVADHLAHVLDSEKI  196 (709)
T ss_pred             CCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEEEEEeCCccccchHH-HHHHhhhhcCCCCHHHHHHHHHHHHHHcCC
Confidence            566789999998653  34445554443345667777776543 22221 112236888999999999988877654332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~  182 (1046)
                      .  -..+....|+++++|.+.-+..
T Consensus       197 ~--id~eAL~~Ia~~A~GslRdAln  219 (709)
T PRK08691        197 A--YEPPALQLLGRAAAGSMRDALS  219 (709)
T ss_pred             C--cCHHHHHHHHHHhCCCHHHHHH
Confidence            1  2235678899999998855433

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.87  E-value=0.00034  Score=80.28  Aligned_cols=152  Identities=14%  Similarity=0.092  Sum_probs=85.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|+|+.|+|||+||+++++.+..+-..+.++.           ...+...+...+...          ....++..++ 
T Consensus       144 l~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~-----------~~~f~~~~~~~l~~~----------~~~~f~~~~~-  201 (445)
T PRK12422        144 IYLFGPEGSGKTHLMQAAVHALRESGGKILYVR-----------SELFTEHLVSAIRSG----------EMQRFRQFYR-  201 (445)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEee-----------HHHHHHHHHHHHhcc----------hHHHHHHHcc-
Confidence            579999999999999999998765433345554           233333443333210          1123444443 


Q ss_pred             CeEEEEEecCCChH----HHHHHhhccCC-CCCCCEEEEEeCCh-h----hHHHh--cCCCcceEecCCCChHHHHHHHH
Q 001603           82 KKVLLVIDDVADVE----QLQNLARKRDW-FGPGSKIVITTRDK-Q----LLVAH--EVDEEHIYNLEVLSNDEALQLFS  149 (1046)
Q Consensus        82 kr~LlVlDdv~~~~----~~~~l~~~~~~-~~~gs~IiiTTR~~-~----~~~~~--~~~~~~~~~l~~L~~~ea~~Lf~  149 (1046)
                      +.-+|++||++...    .-+++...++. ...|..||+||... .    +....  .......+++++++.++..+++.
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            34478889986531    11222222111 12356788888542 1    11111  12222489999999999999999


Q ss_pred             HhhcCCCCCCchHHHHHHHHHHHhCCCc
Q 001603          150 MKAFKTRQPMGEYVELSKRVLKYAGGLP  177 (1046)
Q Consensus       150 ~~a~~~~~~~~~~~~~~~~i~~~~~GlP  177 (1046)
                      +++-....  .-.+++..-|++.+.|.-
T Consensus       282 ~k~~~~~~--~l~~evl~~la~~~~~di  307 (445)
T PRK12422        282 RKAEALSI--RIEETALDFLIEALSSNV  307 (445)
T ss_pred             HHHHHcCC--CCCHHHHHHHHHhcCCCH
Confidence            88754332  122345555666665543

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.86  E-value=0.00031  Score=77.26  Aligned_cols=96  Identities=16%  Similarity=0.169  Sum_probs=61.3

Q ss_pred             CeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCCC
Q 001603           82 KKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPM  159 (1046)
Q Consensus        82 kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~  159 (1046)
                      ++-++|+|+++..  +....++..+....+++.+|+||.+.......-...-..+++.+++.+++.+.+...... .   
T Consensus       106 ~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~-~---  181 (328)
T PRK05707        106 GRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE-S---  181 (328)
T ss_pred             CCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc-C---
Confidence            3344567999864  445556555554456777777777764332222222237999999999999988765311 1   


Q ss_pred             chHHHHHHHHHHHhCCCchHHHHH
Q 001603          160 GEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       160 ~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                        ..+.+..++..++|.|+....+
T Consensus       182 --~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        182 --DERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             --ChHHHHHHHHHcCCCHHHHHHH
Confidence              1234567789999999866554

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=97.85  E-value=0.0003  Score=78.52  Aligned_cols=158  Identities=13%  Similarity=0.146  Sum_probs=87.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|+|..|+||||+|+.+++.+........++.. . .+...+ .. ...+.+.++.....               ....
T Consensus        41 ~ll~G~~G~GKt~~~~~l~~~l~~~~~~~~~i~~-~-~~~~~~-~~-~~~~~i~~~~~~~~---------------~~~~  101 (319)
T PRK00440         41 LLFAGPPGTGKTTAALALARELYGEDWRENFLEL-N-ASDERG-ID-VIRNKIKEFARTAP---------------VGGA  101 (319)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHcCCccccceEEe-c-cccccc-hH-HHHHHHHHHHhcCC---------------CCCC
Confidence            5799999999999999999876433111112211 0 011111 11 11111111111000               0012


Q ss_pred             CeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCC
Q 001603           82 KKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQP  158 (1046)
Q Consensus        82 kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  158 (1046)
                      .+-++|+|+++..  +..+.+........+.+++|+++.... +..... .....+++++++.++....+...+......
T Consensus       102 ~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~-sr~~~~~~~~l~~~ei~~~l~~~~~~~~~~  180 (319)
T PRK00440        102 PFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQ-SRCAVFRFSPLKKEAVAERLRYIAENEGIE  180 (319)
T ss_pred             CceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHH-HHhheeeeCCCCHHHHHHHHHHHHHHcCCC
Confidence            3568999999754  234445444444455677777775432 211111 112278999999999988888877543321


Q ss_pred             CchHHHHHHHHHHHhCCCchHHH
Q 001603          159 MGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       159 ~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                        -..+....+++.++|.+.-+.
T Consensus       181 --i~~~al~~l~~~~~gd~r~~~  201 (319)
T PRK00440        181 --ITDDALEAIYYVSEGDMRKAI  201 (319)
T ss_pred             --CCHHHHHHHHHHcCCCHHHHH
Confidence              223567788999999877643

>PRK08116 hypothetical protein; Validated

Probab=97.85  E-value=6.5e-05  Score=80.37  Aligned_cols=100  Identities=22%  Similarity=0.255  Sum_probs=57.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|+|..|+|||+||.++++.+..+-..++|+.           ..++...+.......       .......+.+.+.+
T Consensus       117 l~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~-----------~~~ll~~i~~~~~~~-------~~~~~~~~~~~l~~  178 (268)
T PRK08116        117 LLLWGSVGTGKTYLAACIANELIEKGVPVIFVN-----------FPQLLNRIKSTYKSS-------GKEDENEIIRSLVN  178 (268)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE-----------HHHHHHHHHHHHhcc-------ccccHHHHHHHhcC
Confidence            679999999999999999998876544455554           334444443332211       11122334444554


Q ss_pred             CeEEEEEecCC--ChHHH--HHHhhccC-CCCCCCEEEEEeCCh
Q 001603           82 KKVLLVIDDVA--DVEQL--QNLARKRD-WFGPGSKIVITTRDK  120 (1046)
Q Consensus        82 kr~LlVlDdv~--~~~~~--~~l~~~~~-~~~~gs~IiiTTR~~  120 (1046)
                      -. ||||||+.  ...+|  +.+...++ ....|..+||||...
T Consensus       179 ~d-lLviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~~  221 (268)
T PRK08116        179 AD-LLILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNLS  221 (268)
T ss_pred             CC-EEEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCCC
Confidence            44 89999993  22222  22222221 123566789998754

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=97.84  E-value=0.0002  Score=86.72  Aligned_cols=147  Identities=26%  Similarity=0.321  Sum_probs=83.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L--   79 (1046)
                      +.|+|++|+||||+|+.+++.....|.   .+..+   .  .+ +.++ ++++.                  .+++.+  
T Consensus        55 lLL~GPpGtGKTTLA~aIA~~~~~~f~---~lna~---~--~~-i~di-r~~i~------------------~a~~~l~~  106 (725)
T PRK13341         55 LILYGPPGVGKTTLARIIANHTRAHFS---SLNAV---L--AG-VKDL-RAEVD------------------RAKERLER  106 (725)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCcce---eehhh---h--hh-hHHH-HHHHH------------------HHHHHhhh
Confidence            578999999999999999987765542   12110   0  01 1111 11111                  111111  


Q ss_pred             cCCeEEEEEecCCC--hHHHHHHhhccCCCCCCCEEEEE--eCChh--hHHHhcCCCcceEecCCCChHHHHHHHHHhhc
Q 001603           80 RQKKVLLVIDDVAD--VEQLQNLARKRDWFGPGSKIVIT--TRDKQ--LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAF  153 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~--~~~~~~l~~~~~~~~~gs~IiiT--TR~~~--~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~  153 (1046)
                      .+++.+|||||++.  ..+.+.+....   ..|..++|+  |.+..  +..... .....+++++++.++..+++.+.+-
T Consensus       107 ~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~-SR~~v~~l~pLs~edi~~IL~~~l~  182 (725)
T PRK13341        107 HGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALV-SRSRLFRLKSLSDEDLHQLLKRALQ  182 (725)
T ss_pred             cCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhh-ccccceecCCCCHHHHHHHHHHHHH
Confidence            24677999999975  34555665543   245656654  33332  111111 1123799999999999999887663


Q ss_pred             CC-----CCCCchHHHHHHHHHHHhCCCchHH
Q 001603          154 KT-----RQPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       154 ~~-----~~~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      ..     .....-..+....|++++.|..-.+
T Consensus       183 ~~~~~~g~~~v~I~deaL~~La~~s~GD~R~l  214 (725)
T PRK13341        183 DKERGYGDRKVDLEPEAEKHLVDVANGDARSL  214 (725)
T ss_pred             HHHhhcCCcccCCCHHHHHHHHHhCCCCHHHH
Confidence            10     1111223456678888888865443

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.83  E-value=0.00024  Score=82.83  Aligned_cols=156  Identities=17%  Similarity=0.177  Sum_probs=92.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccce--eEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDG--STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +.|+|..|+|||+||+++++.+..++..  +.|+.           ..++..++...+..      .    ....+++.+
T Consensus       151 l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~-----------~~~~~~~~~~~~~~------~----~~~~~~~~~  209 (450)
T PRK00149        151 LFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVT-----------SEKFTNDFVNALRN------N----TMEEFKEKY  209 (450)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEE-----------HHHHHHHHHHHHHc------C----cHHHHHHHH
Confidence            5799999999999999999988776533  33443           23333344333321      0    123344444


Q ss_pred             cCCeEEEEEecCCCh---H-HHHHHhhccCC-CCCCCEEEEEeCChh-hH----HHh--cCCCcceEecCCCChHHHHHH
Q 001603           80 RQKKVLLVIDDVADV---E-QLQNLARKRDW-FGPGSKIVITTRDKQ-LL----VAH--EVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~---~-~~~~l~~~~~~-~~~gs~IiiTTR~~~-~~----~~~--~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                      + +.-+|||||++..   + ..+++...+.. ...|..|||||.... .+    ...  .......+++++.+.++-.++
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            4 3448899999643   1 12233322111 123556788776532 11    111  122223799999999999999


Q ss_pred             HHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHH
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                      +...+....  ..-.+++...|++.+.|..-.+.
T Consensus       289 l~~~~~~~~--~~l~~e~l~~ia~~~~~~~R~l~  320 (450)
T PRK00149        289 LKKKAEEEG--IDLPDEVLEFIAKNITSNVRELE  320 (450)
T ss_pred             HHHHHHHcC--CCCCHHHHHHHHcCcCCCHHHHH
Confidence            999885432  22234677888888888776543

>PRK06620 hypothetical protein; Validated

Probab=97.80  E-value=0.00012  Score=75.42  Aligned_cols=134  Identities=13%  Similarity=0.072  Sum_probs=75.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|||++|+|||+||+++++....     .++...      .  .   ..                         +.. +
T Consensus        47 l~l~Gp~G~GKThLl~a~~~~~~~-----~~~~~~------~--~---~~-------------------------~~~-~   84 (214)
T PRK06620         47 LLIKGPSSSGKTYLTKIWQNLSNA-----YIIKDI------F--F---NE-------------------------EIL-E   84 (214)
T ss_pred             EEEECCCCCCHHHHHHHHHhccCC-----EEcchh------h--h---ch-------------------------hHH-h
Confidence            679999999999999987764321     222100      0  0   00                         011 1


Q ss_pred             CeEEEEEecCCChHHHHHHhhccCC-CCCCCEEEEEeCChhhH---HHh--cCCCcceEecCCCChHHHHHHHHHhhcCC
Q 001603           82 KKVLLVIDDVADVEQLQNLARKRDW-FGPGSKIVITTRDKQLL---VAH--EVDEEHIYNLEVLSNDEALQLFSMKAFKT  155 (1046)
Q Consensus        82 kr~LlVlDdv~~~~~~~~l~~~~~~-~~~gs~IiiTTR~~~~~---~~~--~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~  155 (1046)
                      ..-++++||++...+ +.+..-++. ...|..||+|++.....   ...  .....-++++++++.++-.+++.+.+...
T Consensus        85 ~~d~lliDdi~~~~~-~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~  163 (214)
T PRK06620         85 KYNAFIIEDIENWQE-PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS  163 (214)
T ss_pred             cCCEEEEeccccchH-HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc
Confidence            234788899985432 122221110 13567899998854321   111  11112379999999999888888776432


Q ss_pred             CCCCchHHHHHHHHHHHhCCCchHH
Q 001603          156 RQPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       156 ~~~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .  ..-.+++..-|++++.|.--.+
T Consensus       164 ~--l~l~~ev~~~L~~~~~~d~r~l  186 (214)
T PRK06620        164 S--VTISRQIIDFLLVNLPREYSKI  186 (214)
T ss_pred             C--CCCCHHHHHHHHHHccCCHHHH
Confidence            2  1122356667777776655444

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.80  E-value=0.00043  Score=76.86  Aligned_cols=99  Identities=15%  Similarity=0.132  Sum_probs=63.2

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEE-EEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKI-VITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~I-iiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  .....|...+.....+..+ ++|++...+...... ....+++.+++.++..+++.+.+.... 
T Consensus       140 g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLit~~~~~llptIrS-Rc~~i~l~pl~~~~~~~~L~~~~~~~~-  217 (351)
T PRK09112        140 GNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILISHSSGRLLPTIRS-RCQPISLKPLDDDELKKALSHLGSSQG-  217 (351)
T ss_pred             CCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEEECChhhccHHHHh-hccEEEecCCCHHHHHHHHHHhhcccC-
Confidence            56678999999865  3344555444433345554 455454444433322 224899999999999999987432111 


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                         ...+....+++.++|.|.....+.
T Consensus       218 ---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        218 ---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             ---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence               113456789999999998766554

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.79  E-value=0.00023  Score=84.25  Aligned_cols=101  Identities=17%  Similarity=0.090  Sum_probs=65.3

Q ss_pred             cCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCC
Q 001603           80 RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      .+++-++|||+++..  +....|+..+.......++|.+|.+.+ +...... ....|++++++.++..+.+.+.+-...
T Consensus       117 ~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~TI~S-RC~~~~f~~Ls~~ei~~~L~~il~~e~  195 (647)
T PRK07994        117 RGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILS-RCLQFHLKALDVEQIRQQLEHILQAEQ  195 (647)
T ss_pred             cCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchHHHh-hheEeeCCCCCHHHHHHHHHHHHHHcC
Confidence            356778999999865  456666665554455666665555543 3322221 224899999999999998887653322


Q ss_pred             CCCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          157 QPMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       157 ~~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      .  ....+....|++.++|.+-.+..+
T Consensus       196 i--~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        196 I--PFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             C--CCCHHHHHHHHHHcCCCHHHHHHH
Confidence            1  122355678999999988754443

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=97.79  E-value=0.0004  Score=82.32  Aligned_cols=215  Identities=15%  Similarity=0.106  Sum_probs=104.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-----cc-e-eEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-----FD-G-STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINI   74 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-----f~-~-~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~   74 (1046)
                      +-|+|++|+|||+.++.|.+++++.     .+ . .+++ ++....    ....+...+..++............+....
T Consensus       784 LYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYI-NCm~Ls----tp~sIYqvI~qqL~g~~P~~GlsS~evLer  858 (1164)
T PTZ00112        784 LYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEI-NGMNVV----HPNAAYQVLYKQLFNKKPPNALNSFKILDR  858 (1164)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEE-eCCccC----CHHHHHHHHHHHHcCCCCCccccHHHHHHH
Confidence            4699999999999999999876431     22 1 2233 222211    145566666666642211111122233344


Q ss_pred             HHHhhc---CCeEEEEEecCCChH-----HHHHHhhccCCCCCCCEEEE--EeCChh----hHHHhcCC-CcceEecCCC
Q 001603           75 IGSRLR---QKKVLLVIDDVADVE-----QLQNLARKRDWFGPGSKIVI--TTRDKQ----LLVAHEVD-EEHIYNLEVL  139 (1046)
Q Consensus        75 i~~~L~---~kr~LlVlDdv~~~~-----~~~~l~~~~~~~~~gs~Iii--TTR~~~----~~~~~~~~-~~~~~~l~~L  139 (1046)
                      +.+.+.   +...+||||+|+...     .+-.|.....  ..+++|+|  +|.+..    +....... ....+..+++
T Consensus       859 LF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~~~--~s~SKLiLIGISNdlDLperLdPRLRSRLg~eeIvF~PY  936 (1164)
T PTZ00112        859 LFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDWPT--KINSKLVLIAISNTMDLPERLIPRCRSRLAFGRLVFSPY  936 (1164)
T ss_pred             HHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHHhh--ccCCeEEEEEecCchhcchhhhhhhhhccccccccCCCC
Confidence            444431   234689999998642     2333333211  24556544  332211    11111110 1114677999


Q ss_pred             ChHHHHHHHHHhhcCCCC-CCch-HHHHHHHHHHHhCCCchHHHHHhhhcCC-----CChHHHHHHHHHHhcCCCCchHH
Q 001603          140 SNDEALQLFSMKAFKTRQ-PMGE-YVELSKRVLKYAGGLPLALTVLGSFLNG-----RSVDLWRSTLKRLKKEPPNRIIN  212 (1046)
Q Consensus       140 ~~~ea~~Lf~~~a~~~~~-~~~~-~~~~~~~i~~~~~GlPLal~~~~~~L~~-----~~~~~w~~~l~~l~~~~~~~i~~  212 (1046)
                      +.+|-.+++..++..... ..++ .+-+|+.++...|..-.||.++-.....     -..+..+.+..++...+   +.+
T Consensus       937 TaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAgEikegskVT~eHVrkAleeiE~sr---I~e 1013 (1164)
T PTZ00112        937 KGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAFENKRGQKIVPRDITEATNQLFDSP---LTN 1013 (1164)
T ss_pred             CHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHHhhcCCCccCHHHHHHHHHHHHhhh---HHH
Confidence            999999999998753211 1222 2223333333334455555554433321     13344444444442221   222


Q ss_pred             HHhhcccccchhhhhhhc
Q 001603          213 ILQISFDGLQDLEKKIFL  230 (1046)
Q Consensus       213 ~l~~sy~~L~~~~k~~fl  230 (1046)
                          ....||.+.|-.++
T Consensus      1014 ----~IktLPlHqKLVLl 1027 (1164)
T PTZ00112       1014 ----AINYLPWPFKMFLT 1027 (1164)
T ss_pred             ----HHHcCCHHHHHHHH
Confidence                23567777665444

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.78  E-value=0.00027  Score=83.89  Aligned_cols=96  Identities=11%  Similarity=0.122  Sum_probs=59.7

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  .....|...+....+.+.+|++|.. ..+..... .....+++++++.++....+.+.+.....
T Consensus       126 ~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kLl~TI~-SRc~~vef~~l~~~ei~~~L~~i~~~egi  204 (620)
T PRK14954        126 GRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIA-SRCQRFNFKRIPLDEIQSQLQMICRAEGI  204 (620)
T ss_pred             CCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHH-hhceEEecCCCCHHHHHHHHHHHHHHcCC
Confidence            44557899999865  3456666655544455665555543 33333322 22238999999999988888776543221


Q ss_pred             CCchHHHHHHHHHHHhCCCchH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLa  179 (1046)
                        .-..+.+..+++.++|..--
T Consensus       205 --~I~~eal~~La~~s~Gdlr~  224 (620)
T PRK14954        205 --QIDADALQLIARKAQGSMRD  224 (620)
T ss_pred             --CCCHHHHHHHHHHhCCCHHH
Confidence              12235678899999996653

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.78  E-value=0.00052  Score=77.84  Aligned_cols=101  Identities=11%  Similarity=0.069  Sum_probs=65.8

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  .....+...+....+.+.+|++|.+.. +..... .....+++.+++.++..+++...+-....
T Consensus       116 ~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lIl~~~~~~~l~~~l~-sr~~~~~~~~~~~~~l~~~l~~~~~~~g~  194 (355)
T TIGR02397       116 GKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFILATTEPHKIPATIL-SRCQRFDFKRIPLEDIVERLKKILDKEGI  194 (355)
T ss_pred             CCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEEEEeCCHHHHHHHHH-hheeEEEcCCCCHHHHHHHHHHHHHHcCC
Confidence            45558889999765  445666665554455677777775554 222222 11237899999999999888887644332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                      ..  ..+.+..+++.++|.|..+....
T Consensus       195 ~i--~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       195 KI--EDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             CC--CHHHHHHHHHHcCCChHHHHHHH
Confidence            21  23667888999999997665544

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.

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.77  E-value=0.00043  Score=81.81  Aligned_cols=99  Identities=14%  Similarity=0.141  Sum_probs=64.0

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      ++.-++|||+|+..  +....|...+.......++|++|.+ ..+.... ......++++.++.++..+.+.+.+.+...
T Consensus       123 g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~kil~TI-lSRc~~~~f~~Ls~eei~~~L~~i~~~egi  201 (618)
T PRK14951        123 GRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKVPVTV-LSRCLQFNLRPMAPETVLEHLTQVLAAENV  201 (618)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhhhHHH-HHhceeeecCCCCHHHHHHHHHHHHHHcCC
Confidence            45568899999865  4566666665544456666655544 3333332 222248999999999999888877644332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~  182 (1046)
                      .  ...+....|++.++|.+.-+..
T Consensus       202 ~--ie~~AL~~La~~s~GslR~al~  224 (618)
T PRK14951        202 P--AEPQALRLLARAARGSMRDALS  224 (618)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHH
Confidence            2  2235677889999997755543

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.77  E-value=0.00037  Score=81.42  Aligned_cols=98  Identities=13%  Similarity=0.051  Sum_probs=61.5

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      ++.-++|+|+|+..  +....+...+....+..++|++|.+.+ +.... ......+++++++.++..+.+.+.+-....
T Consensus       118 ~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~fIlattd~~kl~~tI-~SRc~~~~f~~l~~~~i~~~l~~il~~egi  196 (509)
T PRK14958        118 GRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKFILATTDHHKLPVTV-LSRCLQFHLAQLPPLQIAAHCQHLLKEENV  196 (509)
T ss_pred             CCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEEEEEECChHhchHHH-HHHhhhhhcCCCCHHHHHHHHHHHHHHcCC
Confidence            45668899999864  456666665555556777776665543 32221 112237899999999887776666543322


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                      .  -..+....|++.++|.+.-+.
T Consensus       197 ~--~~~~al~~ia~~s~GslR~al  218 (509)
T PRK14958        197 E--FENAALDLLARAANGSVRDAL  218 (509)
T ss_pred             C--CCHHHHHHHHHHcCCcHHHHH
Confidence            2  123456788999999886543

>TIGR00767 rho transcription termination factor Rho

Probab=97.76  E-value=3.8e-05  Score=84.31  Aligned_cols=90  Identities=16%  Similarity=0.146  Sum_probs=59.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-cceeEEEEechhhhcccCCHHHHHHHHHHHHhhc-cCcccccc----cchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKL-ADISIWNV----DDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~-~~~~~~~~----~~~~~~i   75 (1046)
                      ++|+|++|+|||||++.+++.+... |+..+|+..+++-   ...+.+++++++..+... .+......    ....+..
T Consensus       171 ~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER---~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~A  247 (415)
T TIGR00767       171 GLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDER---PEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEKA  247 (415)
T ss_pred             EEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCC---CccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHHH
Confidence            7899999999999999999987665 9989998866442   223888888886554311 11110000    1111112


Q ss_pred             HHh-hcCCeEEEEEecCCCh
Q 001603           76 GSR-LRQKKVLLVIDDVADV   94 (1046)
Q Consensus        76 ~~~-L~~kr~LlVlDdv~~~   94 (1046)
                      +.. -++++++|++|++...
T Consensus       248 e~~~~~GkdVVLlIDEitR~  267 (415)
T TIGR00767       248 KRLVEHKKDVVILLDSITRL  267 (415)
T ss_pred             HHHHHcCCCeEEEEEChhHH
Confidence            222 2589999999999754

Members of this family differ in the specificity of RNA binding.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.75  E-value=0.0006  Score=79.59  Aligned_cols=155  Identities=14%  Similarity=0.175  Sum_probs=89.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccc--eeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD--GSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~--~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +.|||..|+|||.|++++++.+...+.  .+.|+.           ..++..++...+...          ....+++.+
T Consensus       317 L~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yit-----------aeef~~el~~al~~~----------~~~~f~~~y  375 (617)
T PRK14086        317 LFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVS-----------SEEFTNEFINSIRDG----------KGDSFRRRY  375 (617)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEee-----------HHHHHHHHHHHHHhc----------cHHHHHHHh
Confidence            679999999999999999998765432  234444           334444444433210          122344444


Q ss_pred             cCCeEEEEEecCCCh---HHH-HHHhhccCC-CCCCCEEEEEeCChh-----hHHHh--cCCCcceEecCCCChHHHHHH
Q 001603           80 RQKKVLLVIDDVADV---EQL-QNLARKRDW-FGPGSKIVITTRDKQ-----LLVAH--EVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~---~~~-~~l~~~~~~-~~~gs~IiiTTR~~~-----~~~~~--~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                      ++ -=+|||||++..   +.+ +++...++. ...|..|||||+..-     +...+  .....-+++++..+.+.-.++
T Consensus       376 ~~-~DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aI  454 (617)
T PRK14086        376 RE-MDILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAI  454 (617)
T ss_pred             hc-CCEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHH
Confidence            43 347888999643   222 222222211 134567888887531     11111  122234899999999999999


Q ss_pred             HHHhhcCCCCCCchHHHHHHHHHHHhCCCchHH
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      +.+++....-.  -.+++..-|++++.+..-.|
T Consensus       455 L~kka~~r~l~--l~~eVi~yLa~r~~rnvR~L  485 (617)
T PRK14086        455 LRKKAVQEQLN--APPEVLEFIASRISRNIREL  485 (617)
T ss_pred             HHHHHHhcCCC--CCHHHHHHHHHhccCCHHHH
Confidence            99887544322  22356666666666554433

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.73  E-value=0.00063  Score=79.88  Aligned_cols=103  Identities=13%  Similarity=0.126  Sum_probs=66.1

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-+||||+++..  +....|...+........+|++|.+. .+..... .....+++++++.++..+.+...+.....
T Consensus       118 g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~TI~-SRcq~i~F~pLs~~eL~~~L~~il~~egi  196 (624)
T PRK14959        118 GRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPVTIV-SRCQHFTFTRLSEAGLEAHLTKVLGREGV  196 (624)
T ss_pred             CCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhHHHH-hhhhccccCCCCHHHHHHHHHHHHHHcCC
Confidence            56678999999865  44566666554334556666666554 3332221 11237899999999999888876654332


Q ss_pred             CCchHHHHHHHHHHHhCCCc-hHHHHHhhh
Q 001603          158 PMGEYVELSKRVLKYAGGLP-LALTVLGSF  186 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlP-Lal~~~~~~  186 (1046)
                        .-..+.+..|++.++|.+ .|+..+...
T Consensus       197 --~id~eal~lIA~~s~GdlR~Al~lLeql  224 (624)
T PRK14959        197 --DYDPAAVRLIARRAAGSVRDSMSLLGQV  224 (624)
T ss_pred             --CCCHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence              122356788999999965 577666543

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.73  E-value=0.00035  Score=79.40  Aligned_cols=145  Identities=18%  Similarity=0.244  Sum_probs=78.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHh-hc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSR-LR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~-L~   80 (1046)
                      |.++|++|+|||++|+++++.....     |+...         ..++.....           .........+.+. -.
T Consensus       168 vLL~GppGtGKT~lAkaia~~~~~~-----~i~v~---------~~~l~~~~~-----------g~~~~~i~~~f~~a~~  222 (389)
T PRK03992        168 VLLYGPPGTGKTLLAKAVAHETNAT-----FIRVV---------GSELVQKFI-----------GEGARLVRELFELARE  222 (389)
T ss_pred             eEEECCCCCChHHHHHHHHHHhCCC-----EEEee---------hHHHhHhhc-----------cchHHHHHHHHHHHHh
Confidence            6789999999999999999976543     22210         111111000           0000111111111 13


Q ss_pred             CCeEEEEEecCCCh-------------HH---HHHHhhccCCC--CCCCEEEEEeCChhhHHHh-----cCCCcceEecC
Q 001603           81 QKKVLLVIDDVADV-------------EQ---LQNLARKRDWF--GPGSKIVITTRDKQLLVAH-----EVDEEHIYNLE  137 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~-------------~~---~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~~-----~~~~~~~~~l~  137 (1046)
                      ..+.+|+|||+|..             +.   +..+......+  ..+.+||.||.........     ..+  ..++++
T Consensus       223 ~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~VI~aTn~~~~ld~allRpgRfd--~~I~v~  300 (389)
T PRK03992        223 KAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKIIAATNRIDILDPAILRPGRFD--RIIEVP  300 (389)
T ss_pred             cCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEEEEecCChhhCCHHHcCCccCc--eEEEEC
Confidence            46689999999863             11   22233222211  2345677777654322211     223  379999


Q ss_pred             CCChHHHHHHHHHhhcCCCCCC-chHHHHHHHHHHHhCCCc
Q 001603          138 VLSNDEALQLFSMKAFKTRQPM-GEYVELSKRVLKYAGGLP  177 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~i~~~~~GlP  177 (1046)
                      ..+.++..++|+.++.+..... .+    ...+++.+.|.-
T Consensus       301 ~P~~~~R~~Il~~~~~~~~~~~~~~----~~~la~~t~g~s  337 (389)
T PRK03992        301 LPDEEGRLEILKIHTRKMNLADDVD----LEELAELTEGAS  337 (389)
T ss_pred             CCCHHHHHHHHHHHhccCCCCCcCC----HHHHHHHcCCCC
Confidence            9999999999998875443221 22    344555665543

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=97.72  E-value=0.0011  Score=73.97  Aligned_cols=175  Identities=16%  Similarity=0.181  Sum_probs=106.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccccee-EEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGS-TFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~-~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      +.|+|..|+|||+.++.++++++...... +...|++...    +.-++..+++.++.+.+... +...+....+.+.+.
T Consensus        45 ~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~----t~~~i~~~i~~~~~~~p~~g-~~~~~~~~~l~~~~~  119 (366)
T COG1474          45 IIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELR----TPYQVLSKILNKLGKVPLTG-DSSLEILKRLYDNLS  119 (366)
T ss_pred             EEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCC----CHHHHHHHHHHHcCCCCCCC-CchHHHHHHHHHHHH
Confidence            57999999999999999999887764443 3333444332    36678888888886333321 344455666666664


Q ss_pred             --CCeEEEEEecCCCh-----HHHHHHhhccCCCCCCCEE--EEEeCChhhHHHhc-----CCCcceEecCCCChHHHHH
Q 001603           81 --QKKVLLVIDDVADV-----EQLQNLARKRDWFGPGSKI--VITTRDKQLLVAHE-----VDEEHIYNLEVLSNDEALQ  146 (1046)
Q Consensus        81 --~kr~LlVlDdv~~~-----~~~~~l~~~~~~~~~gs~I--iiTTR~~~~~~~~~-----~~~~~~~~l~~L~~~ea~~  146 (1046)
                        ++.+++|||+++..     +.+-.|.......  .++|  |..+-+........     .-....+..++-+.+|-.+
T Consensus       120 ~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~~--~~~v~vi~i~n~~~~~~~ld~rv~s~l~~~~I~F~pY~a~el~~  197 (366)
T COG1474         120 KKGKTVIVILDEVDALVDKDGEVLYSLLRAPGEN--KVKVSIIAVSNDDKFLDYLDPRVKSSLGPSEIVFPPYTAEELYD  197 (366)
T ss_pred             hcCCeEEEEEcchhhhccccchHHHHHHhhcccc--ceeEEEEEEeccHHHHHHhhhhhhhccCcceeeeCCCCHHHHHH
Confidence              68999999999864     2344555443323  4544  33444433322211     1111247788999999999


Q ss_pred             HHHHhhc---CCCCCCchHHHHHHHHHHHhCC-CchHHHHH
Q 001603          147 LFSMKAF---KTRQPMGEYVELSKRVLKYAGG-LPLALTVL  183 (1046)
Q Consensus       147 Lf~~~a~---~~~~~~~~~~~~~~~i~~~~~G-lPLal~~~  183 (1046)
                      .+..++-   ......++.-+++..++.+.+| .-.|+.++
T Consensus       198 Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidil  238 (366)
T COG1474         198 ILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDIL  238 (366)
T ss_pred             HHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHH
Confidence            8888763   3333344555555566666664 33444443

>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=97.71  E-value=0.00022  Score=67.79  Aligned_cols=23  Identities=39%  Similarity=0.504  Sum_probs=21.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.|+|+.|+||||+|+.+++.+.
T Consensus         1 ill~G~~G~GKT~l~~~la~~l~   23 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYLG   23 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHTT
T ss_pred             CEEECcCCCCeeHHHHHHHhhcc
Confidence            67999999999999999999874

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 ....

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.71  E-value=0.00027  Score=75.95  Aligned_cols=130  Identities=13%  Similarity=0.097  Sum_probs=68.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc--ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF--DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      |.++|++|+||||+|+.+++.+...-  ....++.. .        ..++.....           .   +....+++.+
T Consensus        45 vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~-~--------~~~l~~~~~-----------g---~~~~~~~~~~  101 (261)
T TIGR02881        45 MIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEV-E--------RADLVGEYI-----------G---HTAQKTREVI  101 (261)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEe-c--------HHHhhhhhc-----------c---chHHHHHHHH
Confidence            57899999999999999998653210  11122221 0        111111100           0   0011112222


Q ss_pred             c-CCeEEEEEecCCC----------hHHHHHHhhccCCCCCCCEEEEEeCChhhHH------HhcCCCcceEecCCCChH
Q 001603           80 R-QKKVLLVIDDVAD----------VEQLQNLARKRDWFGPGSKIVITTRDKQLLV------AHEVDEEHIYNLEVLSND  142 (1046)
Q Consensus        80 ~-~kr~LlVlDdv~~----------~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~------~~~~~~~~~~~l~~L~~~  142 (1046)
                      + ...-+|++|+++.          .++++.+............+|+++.......      .....-...+++++++.+
T Consensus       102 ~~a~~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~  181 (261)
T TIGR02881       102 KKALGGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVE  181 (261)
T ss_pred             HhccCCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHH
Confidence            1 1123889999975          2345566655443333335555554433211      111111236899999999


Q ss_pred             HHHHHHHHhhcC
Q 001603          143 EALQLFSMKAFK  154 (1046)
Q Consensus       143 ea~~Lf~~~a~~  154 (1046)
                      |-.+++.+.+..
T Consensus       182 el~~Il~~~~~~  193 (261)
T TIGR02881       182 ELMEIAERMVKE  193 (261)
T ss_pred             HHHHHHHHHHHH
Confidence            999999877744

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.

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.70  E-value=0.00017  Score=82.38  Aligned_cols=98  Identities=10%  Similarity=0.077  Sum_probs=62.7

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeC-ChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTR-DKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR-~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +.++.+...+....+.+.+|++|. ...+..... .....+++++++.++..+.+...+-... 
T Consensus       126 ~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~~tl~-sR~~~v~f~~l~~~ei~~~l~~~~~~~g-  203 (397)
T PRK14955        126 GRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIPATIA-SRCQRFNFKRIPLEEIQQQLQGICEAEG-  203 (397)
T ss_pred             CCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhHHHHH-HHHHHhhcCCCCHHHHHHHHHHHHHHcC-
Confidence            45668899999864  456666666554556677665554 333333221 1113799999999999888877663322 


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                       ..-..+.+..+++.++|.+--+.
T Consensus       204 -~~i~~~al~~l~~~s~g~lr~a~  226 (397)
T PRK14955        204 -ISVDADALQLIGRKAQGSMRDAQ  226 (397)
T ss_pred             -CCCCHHHHHHHHHHcCCCHHHHH
Confidence             11223667889999999886443

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.68  E-value=0.00038  Score=81.89  Aligned_cols=97  Identities=12%  Similarity=0.076  Sum_probs=61.5

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....+...+........+|.+|.+.+ +.... ......+++++++.++..+.+.+.+.....
T Consensus       118 ~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL~t~d~~kil~tI-~SRc~~~~f~~l~~~~i~~~L~~il~~egi  196 (527)
T PRK14969        118 GRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFILATTDPQKIPVTV-LSRCLQFNLKQMPPPLIVSHLQHILEQENI  196 (527)
T ss_pred             CCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEEEeCChhhCchhH-HHHHHHHhcCCCCHHHHHHHHHHHHHHcCC
Confidence            56678999999865  345566665554455666666665443 22221 111237999999999998888776543321


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                        ....+....|++.++|.+--+
T Consensus       197 --~~~~~al~~la~~s~Gslr~a  217 (527)
T PRK14969        197 --PFDATALQLLARAAAGSMRDA  217 (527)
T ss_pred             --CCCHHHHHHHHHHcCCCHHHH
Confidence              122355678899999987533

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.66  E-value=0.0014  Score=77.29  Aligned_cols=100  Identities=16%  Similarity=0.199  Sum_probs=63.4

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....|+..+........+|++|.+ ..+....... ...|+++.++.++..+.+.+.+.....
T Consensus       117 ~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~kll~TI~SR-c~~~~F~~l~~~~i~~~L~~i~~~egi  195 (584)
T PRK14952        117 SRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEKVLPTIRSR-THHYPFRLLPPRTMRALIARICEQEGV  195 (584)
T ss_pred             CCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHhhHHHHHHh-ceEEEeeCCCHHHHHHHHHHHHHHcCC
Confidence            45668899999854  4566666666555556666655544 4443332221 238999999999998888776644332


Q ss_pred             CCchHHHHHHHHHHHhCCCch-HHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPL-ALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPL-al~~~  183 (1046)
                      .  -..+....|+++++|.+- |+..+
T Consensus       196 ~--i~~~al~~Ia~~s~GdlR~aln~L  220 (584)
T PRK14952        196 V--VDDAVYPLVIRAGGGSPRDTLSVL  220 (584)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            1  123456778999999875 44443

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.65  E-value=0.0009  Score=76.03  Aligned_cols=154  Identities=16%  Similarity=0.175  Sum_probs=85.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc--------cceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE--------FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGIN   73 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~--------f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~   73 (1046)
                      +.++|+.|+||||+|+.+.+.+...        |...++-.+  . ....+ +.+ .+++..++...             
T Consensus        42 ~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~--~-~~~~~-~~~-i~~l~~~~~~~-------------  103 (367)
T PRK14970         42 LLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELD--A-ASNNS-VDD-IRNLIDQVRIP-------------  103 (367)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEec--c-ccCCC-HHH-HHHHHHHHhhc-------------
Confidence            5689999999999999998876431        222222110  0 00011 111 11222221100             


Q ss_pred             HHHHhhcCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHH
Q 001603           74 IIGSRLRQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSM  150 (1046)
Q Consensus        74 ~i~~~L~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~  150 (1046)
                          -..+++-++|+|+++..  ..+..+...+........+|++|..+ .+..... .....+++++++.++..+.+..
T Consensus       104 ----p~~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l~-sr~~~v~~~~~~~~~l~~~l~~  178 (367)
T PRK14970        104 ----PQTGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTIL-SRCQIFDFKRITIKDIKEHLAG  178 (367)
T ss_pred             ----cccCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHHH-hcceeEecCCccHHHHHHHHHH
Confidence                01234557999999754  34556655443333455666555433 3322222 1123799999999999988888


Q ss_pred             hhcCCCCCCchHHHHHHHHHHHhCCCchHH
Q 001603          151 KAFKTRQPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       151 ~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .+......  -..+.+..++++++|.+-.+
T Consensus       179 ~~~~~g~~--i~~~al~~l~~~~~gdlr~~  206 (367)
T PRK14970        179 IAVKEGIK--FEDDALHIIAQKADGALRDA  206 (367)
T ss_pred             HHHHcCCC--CCHHHHHHHHHhCCCCHHHH
Confidence            77543321  22366778888899876644

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.61  E-value=0.00086  Score=78.29  Aligned_cols=94  Identities=15%  Similarity=0.118  Sum_probs=58.0

Q ss_pred             eEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCCC
Q 001603           83 KVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPM  159 (1046)
Q Consensus        83 r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~  159 (1046)
                      +-++|+|+++..  .....|...+....+...+|++|... .+..... .....+++.+++.++....+...+...... 
T Consensus       120 ~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~TI~-SRcq~ieF~~Ls~~eL~~~L~~il~kegi~-  197 (605)
T PRK05896        120 YKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPLTII-SRCQRYNFKKLNNSELQELLKSIAKKEKIK-  197 (605)
T ss_pred             cEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhHHHH-hhhhhcccCCCCHHHHHHHHHHHHHHcCCC-
Confidence            346999999864  44555655544334556665555443 3332222 122379999999999998888766433211 


Q ss_pred             chHHHHHHHHHHHhCCCchH
Q 001603          160 GEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       160 ~~~~~~~~~i~~~~~GlPLa  179 (1046)
                       -..+.+..+++.++|.+..
T Consensus       198 -Is~eal~~La~lS~GdlR~  216 (605)
T PRK05896        198 -IEDNAIDKIADLADGSLRD  216 (605)
T ss_pred             -CCHHHHHHHHHHcCCcHHH
Confidence             1235577889999996653

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.61  E-value=0.00029  Score=80.00  Aligned_cols=130  Identities=17%  Similarity=0.193  Sum_probs=71.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.++|++|+|||++|+++++.....|-   .+..    +       ++.....   +       .........+......
T Consensus       220 VLL~GPPGTGKT~LAraIA~el~~~fi---~V~~----s-------eL~~k~~---G-------e~~~~vr~lF~~A~~~  275 (438)
T PTZ00361        220 VILYGPPGTGKTLLAKAVANETSATFL---RVVG----S-------ELIQKYL---G-------DGPKLVRELFRVAEEN  275 (438)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhCCCEE---EEec----c-------hhhhhhc---c-------hHHHHHHHHHHHHHhC
Confidence            678999999999999999998765541   1110    0       0110000   0       0000011111222235


Q ss_pred             CeEEEEEecCCChH----------------HHHHHhhccCCC--CCCCEEEEEeCChhhHHHhcC---CCcceEecCCCC
Q 001603           82 KKVLLVIDDVADVE----------------QLQNLARKRDWF--GPGSKIVITTRDKQLLVAHEV---DEEHIYNLEVLS  140 (1046)
Q Consensus        82 kr~LlVlDdv~~~~----------------~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~~~~---~~~~~~~l~~L~  140 (1046)
                      .+.+|+||++|...                .+..++..+..+  ..+.+||+||.....+...-.   .-...+++...+
T Consensus       276 ~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd  355 (438)
T PTZ00361        276 APSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDSRGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPD  355 (438)
T ss_pred             CCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcccCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCC
Confidence            67888999975321                122232222211  235678888876554433211   112479999999


Q ss_pred             hHHHHHHHHHhhcCC
Q 001603          141 NDEALQLFSMKAFKT  155 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~  155 (1046)
                      .++..++|..++.+.
T Consensus       356 ~~~R~~Il~~~~~k~  370 (438)
T PTZ00361        356 EKTKRRIFEIHTSKM  370 (438)
T ss_pred             HHHHHHHHHHHHhcC
Confidence            999999999886443

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.59  E-value=0.00084  Score=72.67  Aligned_cols=131  Identities=15%  Similarity=0.144  Sum_probs=70.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc--cceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE--FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      |.++|++|+||||+|+.+++.+...  .....|+...         ..++    ...+...      ........+.+ .
T Consensus        61 vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~---------~~~l----~~~~~g~------~~~~~~~~~~~-a  120 (284)
T TIGR02880        61 MSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVT---------RDDL----VGQYIGH------TAPKTKEILKR-A  120 (284)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEec---------HHHH----hHhhccc------chHHHHHHHHH-c
Confidence            5799999999999999988865432  1111233311         1111    1111110      00111112222 1


Q ss_pred             cCCeEEEEEecCCCh-----------HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCC------CcceEecCCCChH
Q 001603           80 RQKKVLLVIDDVADV-----------EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVD------EEHIYNLEVLSND  142 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~-----------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~------~~~~~~l~~L~~~  142 (1046)
                        ..-+|+||+++..           +..+.+.........+.+||+++...........+      -...+++++++.+
T Consensus       121 --~~gvL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~e  198 (284)
T TIGR02880       121 --MGGVLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEA  198 (284)
T ss_pred             --cCcEEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHH
Confidence              2358889999732           22444555444344556677766543322211111      1237999999999


Q ss_pred             HHHHHHHHhhcC
Q 001603          143 EALQLFSMKAFK  154 (1046)
Q Consensus       143 ea~~Lf~~~a~~  154 (1046)
                      |-.+++...+-.
T Consensus       199 dl~~I~~~~l~~  210 (284)
T TIGR02880       199 ELLVIAGLMLKE  210 (284)
T ss_pred             HHHHHHHHHHHH
Confidence            999998887643

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.

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=97.59  E-value=0.0011  Score=71.79  Aligned_cols=150  Identities=23%  Similarity=0.323  Sum_probs=79.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhh-hcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREK-SEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~-~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      .++|||+.|+|||.+|++++++....|    +.....+. +.-.+.-...+++++.....              ..+  -
T Consensus       150 gllL~GPPGcGKTllAraiA~elg~~~----i~vsa~eL~sk~vGEsEk~IR~~F~~A~~--------------~a~--~  209 (413)
T PLN00020        150 ILGIWGGKGQGKSFQCELVFKKMGIEP----IVMSAGELESENAGEPGKLIRQRYREAAD--------------IIK--K  209 (413)
T ss_pred             EEEeeCCCCCCHHHHHHHHHHHcCCCe----EEEEHHHhhcCcCCcHHHHHHHHHHHHHH--------------Hhh--c
Confidence            379999999999999999999876543    22222222 12222233333333332210              000  1


Q ss_pred             cCCeEEEEEecCCCh------------HHH--HHHhhcc----------CC----CCCCCEEEEEeCChhhHHHh-----
Q 001603           80 RQKKVLLVIDDVADV------------EQL--QNLARKR----------DW----FGPGSKIVITTRDKQLLVAH-----  126 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~------------~~~--~~l~~~~----------~~----~~~gs~IiiTTR~~~~~~~~-----  126 (1046)
                      ++++++|+||++|..            .++  ..|+...          .|    ..++..||+||.+...+...     
T Consensus       210 ~~aPcVLFIDEIDA~~g~r~~~~~tv~~qiV~~tLLnl~D~p~~v~l~G~w~~~~~~~~V~VIaTTNrpd~LDpALlRpG  289 (413)
T PLN00020        210 KGKMSCLFINDLDAGAGRFGTTQYTVNNQMVNGTLMNIADNPTNVSLGGDWREKEEIPRVPIIVTGNDFSTLYAPLIRDG  289 (413)
T ss_pred             cCCCeEEEEehhhhcCCCCCCCCcchHHHHHHHHHHHHhcCCccccccccccccccCCCceEEEeCCCcccCCHhHcCCC
Confidence            468999999999731            111  1232211          01    23456778888766543221     


Q ss_pred             cCCCcceEecCCCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCch
Q 001603          127 EVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPL  178 (1046)
Q Consensus       127 ~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPL  178 (1046)
                      .++.  .|  ..-+.++-.++++.+.-+..-+    ..-..++++...|=|+
T Consensus       290 RfDk--~i--~lPd~e~R~eIL~~~~r~~~l~----~~dv~~Lv~~f~gq~~  333 (413)
T PLN00020        290 RMEK--FY--WAPTREDRIGVVHGIFRDDGVS----REDVVKLVDTFPGQPL  333 (413)
T ss_pred             CCCc--ee--CCCCHHHHHHHHHHHhccCCCC----HHHHHHHHHcCCCCCc
Confidence            1222  33  3456677777777655333222    1334556666666654

>PRK12377 putative replication protein; Provisional

Probab=97.56  E-value=0.00033  Score=73.44  Aligned_cols=33  Identities=18%  Similarity=0.132  Sum_probs=27.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +.|+|..|+|||+||.++++.+..+...+.|+.
T Consensus       104 l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~  136 (248)
T PRK12377        104 FVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVT  136 (248)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEE
Confidence            679999999999999999998876655566665

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.56  E-value=0.00066  Score=78.29  Aligned_cols=131  Identities=16%  Similarity=0.240  Sum_probs=71.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc-----ceeEEEEechhhh--cc-cCCHHHHHHHHHHHHhhccCcccccccchHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF-----DGSTFLANVREKS--EK-EGSVVSLQKQLLSDLLKLADISIWNVDDGIN   73 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f-----~~~~~~~~~~~~~--~~-~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~   73 (1046)
                      |.++|++|+|||++|+++++.+...+     ....|+. +....  .+ .+......+.                  ...
T Consensus       219 ILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~-v~~~eLl~kyvGete~~ir~------------------iF~  279 (512)
T TIGR03689       219 VLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLN-IKGPELLNKYVGETERQIRL------------------IFQ  279 (512)
T ss_pred             eEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEe-ccchhhcccccchHHHHHHH------------------HHH
Confidence            67999999999999999999876542     2233443 21100  00 0000000111                  111


Q ss_pred             HHHHh-hcCCeEEEEEecCCChH---------H-----HHHHhhccCCCC--CCCEEEEEeCChhhHHH-h----cCCCc
Q 001603           74 IIGSR-LRQKKVLLVIDDVADVE---------Q-----LQNLARKRDWFG--PGSKIVITTRDKQLLVA-H----EVDEE  131 (1046)
Q Consensus        74 ~i~~~-L~~kr~LlVlDdv~~~~---------~-----~~~l~~~~~~~~--~gs~IiiTTR~~~~~~~-~----~~~~~  131 (1046)
                      ..++. -.+++++|+||++|..-         +     +..+...+....  .+..||.||........ .    .++  
T Consensus       280 ~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD--  357 (512)
T TIGR03689       280 RAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSELDGVESLDNVIVIGASNREDMIDPAILRPGRLD--  357 (512)
T ss_pred             HHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHHhcccccCCceEEEeccCChhhCCHhhcCccccc--
Confidence            11111 13578999999997431         1     223333332221  33445555544433221 1    223  


Q ss_pred             ceEecCCCChHHHHHHHHHhhc
Q 001603          132 HIYNLEVLSNDEALQLFSMKAF  153 (1046)
Q Consensus       132 ~~~~l~~L~~~ea~~Lf~~~a~  153 (1046)
                      ..++++..+.++..++|..+..
T Consensus       358 ~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       358 VKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             eEEEeCCCCHHHHHHHHHHHhh
Confidence            3799999999999999998863

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.

>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=97.56  E-value=6.5e-05  Score=55.18  Aligned_cols=39  Identities=36%  Similarity=0.590  Sum_probs=22.1

Q ss_pred             CCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCcccc
Q 001603          723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLP  763 (1046)
Q Consensus       723 ~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp  763 (1046)
                      +|++|++++|++.  .+|..+++|++|+.|++++|+++.++
T Consensus         2 ~L~~L~l~~N~i~--~l~~~l~~l~~L~~L~l~~N~i~~i~   40 (44)
T PF12799_consen    2 NLEELDLSNNQIT--DLPPELSNLPNLETLNLSNNPISDIS   40 (44)
T ss_dssp             T-SEEEETSSS-S--SHGGHGTTCTTSSEEEETSSCCSBEG
T ss_pred             cceEEEccCCCCc--ccCchHhCCCCCCEEEecCCCCCCCc
Confidence            4666666666662  35555666666666666666665544

...

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.55  E-value=0.0015  Score=72.61  Aligned_cols=132  Identities=18%  Similarity=0.215  Sum_probs=80.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +-|||..|.|||.|++++.+......+...++...         .......+...+..          ...+..++..  
T Consensus       116 lfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~---------se~f~~~~v~a~~~----------~~~~~Fk~~y--  174 (408)
T COG0593         116 LFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT---------SEDFTNDFVKALRD----------NEMEKFKEKY--  174 (408)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhhCCCceEEecc---------HHHHHHHHHHHHHh----------hhHHHHHHhh--
Confidence            67999999999999999999887766643333211         33333444444332          1234555555  


Q ss_pred             CeEEEEEecCCChH---H-HHHHhhccCC-CCCCCEEEEEeCCh---------hhHHHhcCCCcceEecCCCChHHHHHH
Q 001603           82 KKVLLVIDDVADVE---Q-LQNLARKRDW-FGPGSKIVITTRDK---------QLLVAHEVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        82 kr~LlVlDdv~~~~---~-~~~l~~~~~~-~~~gs~IiiTTR~~---------~~~~~~~~~~~~~~~l~~L~~~ea~~L  147 (1046)
                      .-=++++||++-..   . -+++...++. ...|-.||+|++..         .+.......  -++++.+++.+.....
T Consensus       175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~G--l~~~I~~Pd~e~r~ai  252 (408)
T COG0593         175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWG--LVVEIEPPDDETRLAI  252 (408)
T ss_pred             ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhce--eEEeeCCCCHHHHHHH
Confidence            33488899996421   1 2233333221 23445899998533         222222222  3899999999999999


Q ss_pred             HHHhhcCCC
Q 001603          148 FSMKAFKTR  156 (1046)
Q Consensus       148 f~~~a~~~~  156 (1046)
                      +.+++....
T Consensus       253 L~kka~~~~  261 (408)
T COG0593         253 LRKKAEDRG  261 (408)
T ss_pred             HHHHHHhcC
Confidence            998765443

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=97.53  E-value=1.1e-05  Score=81.40  Aligned_cols=245  Identities=22%  Similarity=0.230  Sum_probs=118.6

Q ss_pred             ccCCCCCeEeccccccc-----ccchhcccCCCCcEEecCCCCC----------CccchhhhhccCcCcEEeccCCCCCC
Q 001603          508 GSMNDLSELFLDRTTIE-----ELPLSIQHLTGLVLLNLKDCKN----------LKSLSHTLRRLQCLKNLTLSGCSKLK  572 (1046)
Q Consensus       508 ~~l~~L~~L~l~~~~i~-----~lp~~~~~l~~L~~L~L~~~~~----------~~~l~~~l~~l~~L~~L~L~~~~~~~  572 (1046)
                      ..+..+.+++|++|.+.     .+...+.+-.+|+..++++-..          +..+..++.++|.|+..+||.|.+..
T Consensus        27 ~~~d~~~evdLSGNtigtEA~e~l~~~ia~~~~L~vvnfsd~ftgr~kde~~~~L~~Ll~aLlkcp~l~~v~LSDNAfg~  106 (388)
T COG5238          27 EMMDELVEVDLSGNTIGTEAMEELCNVIANVRNLRVVNFSDAFTGRDKDELYSNLVMLLKALLKCPRLQKVDLSDNAFGS  106 (388)
T ss_pred             HhhcceeEEeccCCcccHHHHHHHHHHHhhhcceeEeehhhhhhcccHHHHHHHHHHHHHHHhcCCcceeeeccccccCc
Confidence            34556666666666654     3444455566666666664221          11123445566777777777766665


Q ss_pred             cCCccc----cCCcccceeeccCccccccCcc-cccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCc--
Q 001603          573 KFPESL----GSMKDLMELFLDGTSIAEVPSS-IELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNV--  645 (1046)
Q Consensus       573 ~~p~~~----~~l~~L~~L~L~~~~i~~lp~~-l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~--  645 (1046)
                      ..|+.+    ..-+.|..|.+++|.+..+... ++.  .|.+  |..|       .-..+-|.|++..+..|+.-.-.  
T Consensus       107 ~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigk--al~~--la~n-------KKaa~kp~Le~vicgrNRlengs~~  175 (388)
T COG5238         107 EFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGK--ALFH--LAYN-------KKAADKPKLEVVICGRNRLENGSKE  175 (388)
T ss_pred             ccchHHHHHHhcCCCceeEEeecCCCCccchhHHHH--HHHH--HHHH-------hhhccCCCceEEEeccchhccCcHH
Confidence            555433    2334455555555544422110 000  0000  0000       01223456666666665432211  


Q ss_pred             --CcccCCCCCCceeeccCccccCC------CcchhhccCCceeecCCCCCCCCCCCcccCcccccccCcCCcccccCCC
Q 001603          646 --PETLGQVESLEELDISGTAIRRP------PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPS  717 (1046)
Q Consensus       646 --~~~~~~l~~L~~L~Ls~n~l~~~------p~~~~~l~~L~~L~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  717 (1046)
                        ...+..-.+|+++.+..|.|..-      ...++.+.+|+.|+|..|..+...+.                  .+...
T Consensus       176 ~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~------------------~La~a  237 (388)
T COG5238         176 LSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSR------------------YLADA  237 (388)
T ss_pred             HHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHH------------------HHHHH
Confidence              11222235677777777766532      22344566777777776653321100                  00111


Q ss_pred             ccCCCCCCEEecCCCCCCCCCCccccc-----CcCCCCeeeCCCCCCc-------ccchhh-hhccccCeecccccc
Q 001603          718 LSGLHSLSKLDLSDCGLGEGAIPNDIG-----NLCSLKQLNLSQNNFV-------TLPASI-NSLFNLGQLDLEDCK  781 (1046)
Q Consensus       718 l~~l~~L~~L~Ls~n~l~~~~ip~~l~-----~l~~L~~L~Ls~n~l~-------~lp~~i-~~l~~L~~L~L~~c~  781 (1046)
                      +...+.|++|.+.+|-++.......+.     ..|+|..|-..+|.+.       .+|... ..+|-|..|.+.+|+
T Consensus       238 l~~W~~lrEL~lnDClls~~G~~~v~~~f~e~~~p~l~~L~~~Yne~~~~~i~~~~l~~~e~~~~p~L~~le~ngNr  314 (388)
T COG5238         238 LCEWNLLRELRLNDCLLSNEGVKSVLRRFNEKFVPNLMPLPGDYNERRGGIILDISLNEFEQDAVPLLVDLERNGNR  314 (388)
T ss_pred             hcccchhhhccccchhhccccHHHHHHHhhhhcCCCccccccchhhhcCceeeeechhhhhhcccHHHHHHHHccCc
Confidence            233445777777777664433322221     2466777777776543       233222 356666667766664

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.52  E-value=0.002  Score=77.30  Aligned_cols=100  Identities=11%  Similarity=0.055  Sum_probs=65.1

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|||+++..  +..+.|...+......+.+|++|.+. .+..... .....++++.++.++..+.+.+.+.....
T Consensus       119 ~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI~-SR~~~i~f~~l~~~el~~~L~~~a~~egl  197 (585)
T PRK14950        119 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATIL-SRCQRFDFHRHSVADMAAHLRKIAAAEGI  197 (585)
T ss_pred             CCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHHH-hccceeeCCCCCHHHHHHHHHHHHHHcCC
Confidence            45678999999754  45666666555444566776666543 3332221 12237899999999998888887654332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      .  -..+.+..|++.++|.+..+...
T Consensus       198 ~--i~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        198 N--LEPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            1  22356788999999988765443

>PRK08181 transposase; Validated

Probab=97.52  E-value=0.00032  Score=74.50  Aligned_cols=33  Identities=21%  Similarity=0.105  Sum_probs=26.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      |.|+|++|+|||.||.++.+.+..+.-.+.|+.
T Consensus       109 lll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~  141 (269)
T PRK08181        109 LLLFGPPGGGKSHLAAAIGLALIENGWRVLFTR  141 (269)
T ss_pred             EEEEecCCCcHHHHHHHHHHHHHHcCCceeeee
Confidence            689999999999999999987765544456665

>CHL00181 cbbX CbbX; Provisional

Probab=97.51  E-value=0.0022  Score=69.44  Aligned_cols=132  Identities=14%  Similarity=0.124  Sum_probs=70.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-c-ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-F-DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      |.++|++|+||||+|+.+++..... + ...-|+...         ..++..    .....      ........+.+ .
T Consensus        62 ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~---------~~~l~~----~~~g~------~~~~~~~~l~~-a  121 (287)
T CHL00181         62 MSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVT---------RDDLVG----QYIGH------TAPKTKEVLKK-A  121 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEec---------HHHHHH----HHhcc------chHHHHHHHHH-c
Confidence            6789999999999999998864321 1 111133211         111211    11100      00011112222 1


Q ss_pred             cCCeEEEEEecCCCh-----------HHHHHHhhccCCCCCCCEEEEEeCChhhHHHh------cCCCcceEecCCCChH
Q 001603           80 RQKKVLLVIDDVADV-----------EQLQNLARKRDWFGPGSKIVITTRDKQLLVAH------EVDEEHIYNLEVLSND  142 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~-----------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~------~~~~~~~~~l~~L~~~  142 (1046)
                      .+  -+|+||+++..           +..+.|.........+.+||.++.........      ...-...+++++++.+
T Consensus       122 ~g--gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~  199 (287)
T CHL00181        122 MG--GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPE  199 (287)
T ss_pred             cC--CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHH
Confidence            22  48899999752           33444544444334456677776543332111      1111237999999999


Q ss_pred             HHHHHHHHhhcCC
Q 001603          143 EALQLFSMKAFKT  155 (1046)
Q Consensus       143 ea~~Lf~~~a~~~  155 (1046)
                      |..+++...+-+.
T Consensus       200 el~~I~~~~l~~~  212 (287)
T CHL00181        200 ELLQIAKIMLEEQ  212 (287)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999988887543

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.50  E-value=0.0029  Score=75.18  Aligned_cols=99  Identities=16%  Similarity=0.092  Sum_probs=64.0

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEe-CChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITT-RDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTT-R~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  .....|...+....+.+++|++| ....+..... .....++++.++.++..+.+.+.+-+...
T Consensus       131 a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~kll~tI~-SRcq~~~f~~l~~~el~~~L~~i~~kegi  209 (598)
T PRK09111        131 ARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIRKVPVTVL-SRCQRFDLRRIEADVLAAHLSRIAAKEGV  209 (598)
T ss_pred             CCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChhhhhHHHH-hheeEEEecCCCHHHHHHHHHHHHHHcCC
Confidence            44557899999765  34556665555445667766555 4344433322 22247999999999999998887644332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~  182 (1046)
                      .  -..+....|++.++|.+.-+..
T Consensus       210 ~--i~~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        210 E--VEDEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHH
Confidence            1  2235678899999998876543

>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=97.50  E-value=6.1e-05  Score=55.33  Aligned_cols=41  Identities=29%  Similarity=0.520  Sum_probs=34.1

Q ss_pred             CCCCeeeCCCCCCcccchhhhhccccCeeccccccccccCCC
Q 001603          747 CSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQ  788 (1046)
Q Consensus       747 ~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip~  788 (1046)
                      ++|++|++++|+++.+|..+++|++|+.|++++|+ ++.++.
T Consensus         1 ~~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~-i~~i~~   41 (44)
T PF12799_consen    1 KNLEELDLSNNQITDLPPELSNLPNLETLNLSNNP-ISDISP   41 (44)
T ss_dssp             TT-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSC-CSBEGG
T ss_pred             CcceEEEccCCCCcccCchHhCCCCCCEEEecCCC-CCCCcC
Confidence            47999999999999999889999999999999995 445544

...

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.50  E-value=0.0026  Score=73.95  Aligned_cols=100  Identities=9%  Similarity=0.060  Sum_probs=62.3

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....+...+....+...+|++|.+ ..+..... .....+++.+++.++..+.+...+-....
T Consensus       118 ~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~~v~Il~tt~~~kl~~tI~-SRc~~i~f~~ls~~el~~~L~~i~k~egi  196 (486)
T PRK14953        118 GKYKVYIIDEAHMLTKEAFNALLKTLEEPPPRTIFILCTTEYDKIPPTIL-SRCQRFIFSKPTKEQIKEYLKRICNEEKI  196 (486)
T ss_pred             CCeeEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEECCHHHHHHHHH-HhceEEEcCCCCHHHHHHHHHHHHHHcCC
Confidence            56679999999865  3455666555544455666655543 33332221 11237999999999998888876643332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      .  ...+.+..+++.++|.+..+...
T Consensus       197 ~--id~~al~~La~~s~G~lr~al~~  220 (486)
T PRK14953        197 E--YEEKALDLLAQASEGGMRDAASL  220 (486)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            1  22355677889999987655443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.49  E-value=0.0013  Score=76.23  Aligned_cols=100  Identities=12%  Similarity=0.091  Sum_probs=66.2

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhh-HHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQL-LVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~-~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....|+..+....+.+++|++|.+..- ..... .....+++.+++.++..+.+.+.+.....
T Consensus       116 ~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FIL~ttd~~kL~~tI~-SRc~~~~F~~Ls~~ei~~~L~~Il~~EGi  194 (535)
T PRK08451        116 ARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFILATTDPLKLPATIL-SRTQHFRFKQIPQNSIISHLKTILEKEGV  194 (535)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEEEEECChhhCchHHH-hhceeEEcCCCCHHHHHHHHHHHHHHcCC
Confidence            45668899999865  4456666665555567777777766432 22221 12348999999999999888876644332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      .  -..+.+..|++.++|.+.-+..+
T Consensus       195 ~--i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        195 S--YEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             C--CCHHHHHHHHHHcCCcHHHHHHH
Confidence            2  22356788999999988655443

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.49  E-value=0.0033  Score=77.31  Aligned_cols=97  Identities=12%  Similarity=0.157  Sum_probs=61.3

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|||+++..  +....|+..+......+.+|++|.+. .+..... .....|+++.++.++..+++.+.+-....
T Consensus       119 ~~~KV~IIDEad~lt~~a~NaLLK~LEEpP~~~~fIl~tt~~~kLl~TIr-SRc~~v~F~~l~~~~l~~~L~~il~~EGv  197 (824)
T PRK07764        119 SRYKIFIIDEAHMVTPQGFNALLKIVEEPPEHLKFIFATTEPDKVIGTIR-SRTHHYPFRLVPPEVMRGYLERICAQEGV  197 (824)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhhhHHHH-hheeEEEeeCCCHHHHHHHHHHHHHHcCC
Confidence            55567889999865  44556666555445666666555443 3433322 22248999999999988888776533221


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .  ...+....|++.++|.+..+
T Consensus       198 ~--id~eal~lLa~~sgGdlR~A  218 (824)
T PRK07764        198 P--VEPGVLPLVIRAGGGSVRDS  218 (824)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHH
Confidence            1  12345678899999988443

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.48  E-value=0.00086  Score=75.74  Aligned_cols=150  Identities=15%  Similarity=0.168  Sum_probs=79.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.++|++|+|||++|+++++.....|-   .+.  .         ..+.....   +.       ......+.+......
T Consensus       182 vLL~GppGTGKT~LAkalA~~l~~~fi---~i~--~---------s~l~~k~~---ge-------~~~~lr~lf~~A~~~  237 (398)
T PTZ00454        182 VLLYGPPGTGKTMLAKAVAHHTTATFI---RVV--G---------SEFVQKYL---GE-------GPRMVRDVFRLAREN  237 (398)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCEE---EEe--h---------HHHHHHhc---ch-------hHHHHHHHHHHHHhc
Confidence            679999999999999999987654331   111  0         01111000   00       000011112222246


Q ss_pred             CeEEEEEecCCCh------------H----HHHHHhhccCCC--CCCCEEEEEeCChhhHHHhcC---CCcceEecCCCC
Q 001603           82 KKVLLVIDDVADV------------E----QLQNLARKRDWF--GPGSKIVITTRDKQLLVAHEV---DEEHIYNLEVLS  140 (1046)
Q Consensus        82 kr~LlVlDdv~~~------------~----~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~~~~---~~~~~~~l~~L~  140 (1046)
                      .+.+|+||+++..            .    .+..+......+  ..+..||+||.........-.   .-.+.+++...+
T Consensus       238 ~P~ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~  317 (398)
T PTZ00454        238 APSIIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPD  317 (398)
T ss_pred             CCeEEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcC
Confidence            7889999998742            0    122333332221  235567777775543322111   112378999999


Q ss_pred             hHHHHHHHHHhhcCCCCC-CchHHHHHHHHHHHhCCCchH
Q 001603          141 NDEALQLFSMKAFKTRQP-MGEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~~~-~~~~~~~~~~i~~~~~GlPLa  179 (1046)
                      .++..++|..+..+.... .-+    ..++++.+.|.--|
T Consensus       318 ~~~R~~Il~~~~~~~~l~~dvd----~~~la~~t~g~sga  353 (398)
T PTZ00454        318 RRQKRLIFQTITSKMNLSEEVD----LEDFVSRPEKISAA  353 (398)
T ss_pred             HHHHHHHHHHHHhcCCCCcccC----HHHHHHHcCCCCHH
Confidence            999999998776433211 112    34556666665433

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.48  E-value=0.00093  Score=74.32  Aligned_cols=123  Identities=15%  Similarity=0.241  Sum_probs=65.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.++|++|+||||+|+++++.....|   ..+. ...     +....+. ..+.+.....                .+.+
T Consensus        46 lll~G~~G~GKT~la~~l~~~~~~~~---~~i~-~~~-----~~~~~i~-~~l~~~~~~~----------------~~~~   99 (316)
T PHA02544         46 LLHSPSPGTGKTTVAKALCNEVGAEV---LFVN-GSD-----CRIDFVR-NRLTRFASTV----------------SLTG   99 (316)
T ss_pred             EEeeCcCCCCHHHHHHHHHHHhCccc---eEec-cCc-----ccHHHHH-HHHHHHHHhh----------------cccC
Confidence            45689999999999999998764321   2222 111     1112111 1111111000                0113


Q ss_pred             CeEEEEEecCCCh---HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHH
Q 001603           82 KKVLLVIDDVADV---EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSM  150 (1046)
Q Consensus        82 kr~LlVlDdv~~~---~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~  150 (1046)
                      .+-+||+||++..   +..+.+.........+.++|+||.........-......++++..+.++..+++..
T Consensus       100 ~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        100 GGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCRVIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             CCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhceEEEeCCCCHHHHHHHHHH
Confidence            4457889999865   22233333233345678888888765422111111112678888888888776654

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.45  E-value=0.0023  Score=76.43  Aligned_cols=97  Identities=14%  Similarity=0.122  Sum_probs=61.3

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEe-CChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITT-RDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTT-R~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  ..+..|+..+........+|++| +...+..... .....+++.+++.++..+.+...+-....
T Consensus       117 g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tifILaTte~~KLl~TI~-SRcq~ieF~~L~~eeI~~~L~~il~kegI  195 (725)
T PRK07133        117 SKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIFILATTEVHKIPLTIL-SRVQRFNFRRISEDEIVSRLEFILEKENI  195 (725)
T ss_pred             CCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEEEEEcCChhhhhHHHH-hhceeEEccCCCHHHHHHHHHHHHHHcCC
Confidence            56668899999854  45666666555444555555444 4444433322 22238999999999998888876533221


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                        ....+.+..+++.++|.+.-+
T Consensus       196 --~id~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        196 --SYEKNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             --CCCHHHHHHHHHHcCCCHHHH
Confidence              112345778999999976533

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.43  E-value=0.0052  Score=73.62  Aligned_cols=97  Identities=12%  Similarity=0.111  Sum_probs=62.0

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEe-CChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITT-RDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTT-R~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....|...+......+.+|++| +...+..... ....++++++++.++..+.+...+-...-
T Consensus       120 ~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tifIL~tt~~~kIl~tI~-SRc~iv~f~~ls~~ei~~~L~~ia~~egi  198 (614)
T PRK14971        120 GKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIFILATTEKHKILPTIL-SRCQIFDFNRIQVADIVNHLQYVASKEGI  198 (614)
T ss_pred             CCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEEEEEeCCchhchHHHH-hhhheeecCCCCHHHHHHHHHHHHHHcCC
Confidence            44557899999865  34666666555445566666555 4444443322 22238999999999999888876644332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .  ...+.+..|++.++|..--+
T Consensus       199 ~--i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        199 T--AEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHH
Confidence            1  12245778899999976544

>PRK06526 transposase; Provisional

Probab=97.43  E-value=0.00027  Score=74.75  Aligned_cols=25  Identities=28%  Similarity=0.115  Sum_probs=21.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |.|+|++|+|||+||.++......+
T Consensus       101 lll~Gp~GtGKThLa~al~~~a~~~  125 (254)
T PRK06526        101 VVFLGPPGTGKTHLAIGLGIRACQA  125 (254)
T ss_pred             EEEEeCCCCchHHHHHHHHHHHHHC
Confidence            6899999999999999998866543

>CHL00176 ftsH cell division protein; Validated

Probab=97.43  E-value=0.0027  Score=75.96  Aligned_cols=145  Identities=17%  Similarity=0.206  Sum_probs=81.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.++|++|+|||++|++++......     |+..    +     ..++.....       +   .........+......
T Consensus       219 VLL~GPpGTGKT~LAralA~e~~~p-----~i~i----s-----~s~f~~~~~-------g---~~~~~vr~lF~~A~~~  274 (638)
T CHL00176        219 VLLVGPPGTGKTLLAKAIAGEAEVP-----FFSI----S-----GSEFVEMFV-------G---VGAARVRDLFKKAKEN  274 (638)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCC-----eeec----c-----HHHHHHHhh-------h---hhHHHHHHHHHHHhcC
Confidence            6799999999999999999865332     2220    0     111111000       0   0011112233344456


Q ss_pred             CeEEEEEecCCChH----------------HHHHHhhccCCC--CCCCEEEEEeCChhhHHH-h----cCCCcceEecCC
Q 001603           82 KKVLLVIDDVADVE----------------QLQNLARKRDWF--GPGSKIVITTRDKQLLVA-H----EVDEEHIYNLEV  138 (1046)
Q Consensus        82 kr~LlVlDdv~~~~----------------~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~-~----~~~~~~~~~l~~  138 (1046)
                      .+.+|+|||+|...                .+..+......+  ..+-.||.||........ .    ..+  ..+.++.
T Consensus       275 ~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViVIaaTN~~~~LD~ALlRpGRFd--~~I~v~l  352 (638)
T CHL00176        275 SPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIVIAATNRVDILDAALLRPGRFD--RQITVSL  352 (638)
T ss_pred             CCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeEEEecCchHhhhhhhhccccCc--eEEEECC
Confidence            78999999997431                133344333222  234566666665443322 1    122  3789999


Q ss_pred             CChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCC
Q 001603          139 LSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGG  175 (1046)
Q Consensus       139 L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~G  175 (1046)
                      .+.++-.++++.++.....   ........+++.+.|
T Consensus       353 Pd~~~R~~IL~~~l~~~~~---~~d~~l~~lA~~t~G  386 (638)
T CHL00176        353 PDREGRLDILKVHARNKKL---SPDVSLELIARRTPG  386 (638)
T ss_pred             CCHHHHHHHHHHHHhhccc---chhHHHHHHHhcCCC
Confidence            9999999999988754221   112234567777777

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.37  E-value=0.0022  Score=76.79  Aligned_cols=100  Identities=17%  Similarity=0.103  Sum_probs=62.4

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....|+..+........+|++|.+. .+..... .....+++..++.++..+.+.+.+.+...
T Consensus       120 ~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpTIr-SRc~~~~f~~l~~~ei~~~L~~ia~kegi  198 (620)
T PRK14948        120 ARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPTII-SRCQRFDFRRIPLEAMVQHLSEIAEKESI  198 (620)
T ss_pred             CCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHHHH-hheeEEEecCCCHHHHHHHHHHHHHHhCC
Confidence            45568899999865  45666666555434455555555443 3333322 22237899999999988888877644322


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                      .  -..+.+..|+++++|.+..+..+
T Consensus       199 ~--is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        199 E--IEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHHH
Confidence            1  11245778999999988655443

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.37  E-value=0.0058  Score=62.28  Aligned_cols=175  Identities=20%  Similarity=0.230  Sum_probs=101.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh-
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL-   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L-   79 (1046)
                      ++.++|.-|.|||.+.|++....-+.=-..+.+.      ...-+...+...+..++.....   +........+.+.| 
T Consensus        53 ~~~vtGevGsGKTv~~Ral~~s~~~d~~~~v~i~------~~~~s~~~~~~ai~~~l~~~p~---~~~~~~~e~~~~~L~  123 (269)
T COG3267          53 ILAVTGEVGSGKTVLRRALLASLNEDQVAVVVID------KPTLSDATLLEAIVADLESQPK---VNVNAVLEQIDRELA  123 (269)
T ss_pred             eEEEEecCCCchhHHHHHHHHhcCCCceEEEEec------CcchhHHHHHHHHHHHhccCcc---chhHHHHHHHHHHHH
Confidence            4789999999999999966665443212222222      2222366677777777765222   34443444444433 


Q ss_pred             ----cCCe-EEEEEecCCCh--HHHHHHhhc--cC-CCCCCCEEEEEeCCh-------hhHHHhcCCCcce-EecCCCCh
Q 001603           80 ----RQKK-VLLVIDDVADV--EQLQNLARK--RD-WFGPGSKIVITTRDK-------QLLVAHEVDEEHI-YNLEVLSN  141 (1046)
Q Consensus        80 ----~~kr-~LlVlDdv~~~--~~~~~l~~~--~~-~~~~gs~IiiTTR~~-------~~~~~~~~~~~~~-~~l~~L~~  141 (1046)
                          +++| +.+++||..+.  ++++.+..-  +. .+..--+|+..-..+       .+....... ..+ |++.|++.
T Consensus       124 al~~~g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R-~~ir~~l~P~~~  202 (269)
T COG3267         124 ALVKKGKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQR-IDIRIELPPLTE  202 (269)
T ss_pred             HHHHhCCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhhe-EEEEEecCCcCh
Confidence                4677 99999998653  334433322  11 111112233222111       111111111 124 99999999


Q ss_pred             HHHHHHHHHhhcCCCCCCchH-HHHHHHHHHHhCCCchHHHHHhh
Q 001603          142 DEALQLFSMKAFKTRQPMGEY-VELSKRVLKYAGGLPLALTVLGS  185 (1046)
Q Consensus       142 ~ea~~Lf~~~a~~~~~~~~~~-~~~~~~i~~~~~GlPLal~~~~~  185 (1046)
                      ++...++.++..+...+.+-+ .+....|.....|.|.++..++.
T Consensus       203 ~~t~~yl~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         203 AETGLYLRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHHHHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            999999888876554443332 35567888999999999987764

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.36  E-value=0.0033  Score=72.66  Aligned_cols=97  Identities=12%  Similarity=0.100  Sum_probs=60.9

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +....|...+........+|++|... .+..... .....+++++++.++..+.+.+.+-+.+.
T Consensus       120 ~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~Il~t~~~~kl~~tI~-sRc~~v~f~~l~~~el~~~L~~~~~~eg~  198 (451)
T PRK06305        120 SRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFFLATTEIHKIPGTIL-SRCQKMHLKRIPEETIIDKLALIAKQEGI  198 (451)
T ss_pred             CCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEEEEeCChHhcchHHH-HhceEEeCCCCCHHHHHHHHHHHHHHcCC
Confidence            56678899999755  34555555554444566676666443 3322221 12237999999999998888876643221


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                        .-..+.+..|+++++|.+.-+
T Consensus       199 --~i~~~al~~L~~~s~gdlr~a  219 (451)
T PRK06305        199 --ETSREALLPIARAAQGSLRDA  219 (451)
T ss_pred             --CCCHHHHHHHHHHcCCCHHHH
Confidence              122356788999999976533

>PRK09183 transposase/IS protein; Provisional

Probab=97.35  E-value=0.0006  Score=72.68  Aligned_cols=33  Identities=24%  Similarity=0.137  Sum_probs=24.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      |.|+|+.|+|||+||.++......+-..+.|+.
T Consensus       105 v~l~Gp~GtGKThLa~al~~~a~~~G~~v~~~~  137 (259)
T PRK09183        105 IVLLGPSGVGKTHLAIALGYEAVRAGIKVRFTT  137 (259)
T ss_pred             EEEEeCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            789999999999999999876543322334543

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=97.35  E-value=0.0016  Score=78.14  Aligned_cols=112  Identities=16%  Similarity=0.078  Sum_probs=60.5

Q ss_pred             HHHHHHhhcCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEE--EeCChhhH-HHhcCCCcceEecCCCChHHHHH
Q 001603           72 INIIGSRLRQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVI--TTRDKQLL-VAHEVDEEHIYNLEVLSNDEALQ  146 (1046)
Q Consensus        72 ~~~i~~~L~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~Iii--TTR~~~~~-~~~~~~~~~~~~l~~L~~~ea~~  146 (1046)
                      ...+.+.+.++++.++-|+.|..  ..|+.+...+....+...|+|  ||++.... .... ..-..+.+.+++.+|.++
T Consensus       282 Q~~Ll~~Le~~~v~~~~~~~~~~~~~~~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLr-SR~~~i~~~pls~edi~~  360 (615)
T TIGR02903       282 QNKLLKVLEDKRVEFSSSYYDPDDPNVPKYIKKLFEEGAPADFVLIGATTRDPEEINPALR-SRCAEVFFEPLTPEDIAL  360 (615)
T ss_pred             HHHHHHHHhhCeEEeecceeccCCcccchhhhhhcccCccceEEEEEeccccccccCHHHH-hceeEEEeCCCCHHHHHH
Confidence            45556666666777666555433  224444333332334444555  56644321 1111 111267899999999999


Q ss_pred             HHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhh
Q 001603          147 LFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSF  186 (1046)
Q Consensus       147 Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~  186 (1046)
                      ++.+.+......  -..+..+.|.+++..-+-|+..++..
T Consensus       361 Il~~~a~~~~v~--ls~eal~~L~~ys~~gRraln~L~~~  398 (615)
T TIGR02903       361 IVLNAAEKINVH--LAAGVEELIARYTIEGRKAVNILADV  398 (615)
T ss_pred             HHHHHHHHcCCC--CCHHHHHHHHHCCCcHHHHHHHHHHH
Confidence            999876532211  11345556666665456666655543

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.

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=97.34  E-value=0.00026  Score=70.67  Aligned_cols=33  Identities=24%  Similarity=0.261  Sum_probs=25.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +.|+|..|+|||.||.++.+.+..+=..+.|+.
T Consensus        50 l~l~G~~G~GKThLa~ai~~~~~~~g~~v~f~~   82 (178)
T PF01695_consen   50 LILYGPPGTGKTHLAVAIANEAIRKGYSVLFIT   82 (178)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             EEEEhhHhHHHHHHHHHHHHHhccCCcceeEee
Confidence            679999999999999999986655434456665

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.

>PRK07952 DNA replication protein DnaC; Validated

Probab=97.33  E-value=0.00093  Score=69.93  Aligned_cols=72  Identities=18%  Similarity=0.191  Sum_probs=44.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.++|.+|+|||+||.++++.+..+-..+.++.           +.++...+-.....      .  ......+.+.+. 
T Consensus       102 ~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it-----------~~~l~~~l~~~~~~------~--~~~~~~~l~~l~-  161 (244)
T PRK07952        102 FIFSGKPGTGKNHLAAAICNELLLRGKSVLIIT-----------VADIMSAMKDTFSN------S--ETSEEQLLNDLS-  161 (244)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE-----------HHHHHHHHHHHHhh------c--cccHHHHHHHhc-
Confidence            579999999999999999998766544555654           34444433332210      0  111223444454 


Q ss_pred             CeEEEEEecCCC
Q 001603           82 KKVLLVIDDVAD   93 (1046)
Q Consensus        82 kr~LlVlDdv~~   93 (1046)
                      +.=+|||||+..
T Consensus       162 ~~dlLvIDDig~  173 (244)
T PRK07952        162 NVDLLVIDEIGV  173 (244)
T ss_pred             cCCEEEEeCCCC
Confidence            344888899954

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.32  E-value=1.1e-05  Score=72.83  Aligned_cols=98  Identities=16%  Similarity=0.266  Sum_probs=72.4

Q ss_pred             cEEEeCCccC---CCchhcccc--CccEEEecCCCCCCCCCCC--CCCCceEEEcCCCCchhhcccccCCCCCcEEEcCC
Q 001603          353 RLLKIDNLQL---PEGLEYLSN--KLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSH  425 (1046)
Q Consensus       353 r~L~l~~~~l---~~~~~~l~~--~Lr~L~l~~~~l~~lp~~~--~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~  425 (1046)
                      ..|+|+++.+   ++....+..  .|...++++|.++++|..|  .++.++.|+|++|.|.++|.++..++.|+.|+++.
T Consensus        30 h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~  109 (177)
T KOG4579|consen   30 HFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRF  109 (177)
T ss_pred             hhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhccccc
Confidence            3455555532   343333332  4777889999999999888  56688999999999999999999999999999999


Q ss_pred             CcCCCCCCCCCCCCCCCEEEeeCCC
Q 001603          426 SQNLIKTPDFTGVPNLEELILEGCT  450 (1046)
Q Consensus       426 ~~~~~~~~~l~~l~~L~~L~L~~~~  450 (1046)
                      |.+...+..+..+.+|-.|+..+|.
T Consensus       110 N~l~~~p~vi~~L~~l~~Lds~~na  134 (177)
T KOG4579|consen  110 NPLNAEPRVIAPLIKLDMLDSPENA  134 (177)
T ss_pred             CccccchHHHHHHHhHHHhcCCCCc
Confidence            8877666666667777777766643

>PRK10536 hypothetical protein; Provisional

Probab=97.31  E-value=0.00096  Score=69.14  Aligned_cols=116  Identities=14%  Similarity=0.189  Sum_probs=61.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH-H-ccccceeEEEEechhhhc----ccCCHHHHHHHH----HHHHhhccCcccccccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL-I-SHEFDGSTFLANVREKSE----KEGSVVSLQKQL----LSDLLKLADISIWNVDD   70 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~-~-~~~f~~~~~~~~~~~~~~----~~~~~~~l~~~l----l~~l~~~~~~~~~~~~~   70 (1046)
                      +|.+.|++|+|||+||.++... + ...|+..+.....-+..+    -++++.+-..-.    ...+..-.+.  .....
T Consensus        76 lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIiI~RP~v~~ge~LGfLPG~~~eK~~p~~~pi~D~L~~~~~~--~~~~~  153 (262)
T PRK10536         76 LIFATGEAGCGKTWISAAKAAEALIHKDVDRIIVTRPVLQADEDLGFLPGDIAEKFAPYFRPVYDVLVRRLGA--SFMQY  153 (262)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEEEeCCCCCchhhhCcCCCCHHHHHHHHHHHHHHHHHHHhCh--HHHHH
Confidence            4789999999999999998873 3 444554333322211111    133333322222    2222111010  00000


Q ss_pred             hH--------HHHHHhhcCCeE---EEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh
Q 001603           71 GI--------NIIGSRLRQKKV---LLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        71 ~~--------~~i~~~L~~kr~---LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      ..        -.-..+++++.+   +||+|++.+.  .+...+...   .+.+|+||+|--..+
T Consensus       154 ~~~~~~~~Iei~~l~ymRGrtl~~~~vIvDEaqn~~~~~~k~~ltR---~g~~sk~v~~GD~~Q  214 (262)
T PRK10536        154 CLRPEIGKVEIAPFAYMRGRTFENAVVILDEAQNVTAAQMKMFLTR---LGENVTVIVNGDITQ  214 (262)
T ss_pred             HHHhccCcEEEecHHHhcCCcccCCEEEEechhcCCHHHHHHHHhh---cCCCCEEEEeCChhh
Confidence            00        000124456544   9999999865  556666554   478999999876544

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.29  E-value=7.3e-05  Score=89.99  Aligned_cols=110  Identities=25%  Similarity=0.227  Sum_probs=78.7

Q ss_pred             ccccceeeccCCcCCccccccccccCCCCCeEecccccccccchhcccCCCCcEEecCCCCCCc-cchhhhhccCcCcEE
Q 001603          485 MKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLK-SLSHTLRRLQCLKNL  563 (1046)
Q Consensus       485 l~~L~~L~L~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~~~~l~~L~~L~L~~~~~~~-~l~~~l~~l~~L~~L  563 (1046)
                      +|+|+.|.+.+-............++++|..|++++++++.+ .++.++++|+.|.+.+-.... .--..+.+|++|+.|
T Consensus       147 LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L~mrnLe~e~~~~l~~LF~L~~L~vL  225 (699)
T KOG3665|consen  147 LPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVLSMRNLEFESYQDLIDLFNLKKLRVL  225 (699)
T ss_pred             CcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHHhccCCCCCchhhHHHHhcccCCCee
Confidence            778888888775444455556677899999999999999988 788999999999998755443 223456779999999


Q ss_pred             eccCCCCCCcC------CccccCCcccceeeccCcccc
Q 001603          564 TLSGCSKLKKF------PESLGSMKDLMELFLDGTSIA  595 (1046)
Q Consensus       564 ~L~~~~~~~~~------p~~~~~l~~L~~L~L~~~~i~  595 (1046)
                      |+|.-......      -+.-..+++|+.|+.+++.+.
T Consensus       226 DIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~  263 (699)
T KOG3665|consen  226 DISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDIN  263 (699)
T ss_pred             eccccccccchHHHHHHHHhcccCccccEEecCCcchh
Confidence            99875443321      111234677777777777665

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=97.26  E-value=0.0056  Score=66.81  Aligned_cols=95  Identities=13%  Similarity=0.135  Sum_probs=62.5

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|||+++..  ..-..|+..+....+++.+|++|... .++.... ..-..+.+.+++.+++.+.+....    .
T Consensus       112 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lLpTIr-SRCq~i~~~~~~~~~~~~~L~~~~----~  186 (319)
T PRK08769        112 GIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLPATIR-SRCQRLEFKLPPAHEALAWLLAQG----V  186 (319)
T ss_pred             CCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCchHHH-hhheEeeCCCcCHHHHHHHHHHcC----C
Confidence            45678999999875  33445555554445677777777654 3433322 222378999999999998887531    1


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                       .   .+.+..++..++|.|+....+.
T Consensus       187 -~---~~~a~~~~~l~~G~p~~A~~~~  209 (319)
T PRK08769        187 -S---ERAAQEALDAARGHPGLAAQWL  209 (319)
T ss_pred             -C---hHHHHHHHHHcCCCHHHHHHHh
Confidence             1   1236678999999998765554

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=97.25  E-value=0.00078  Score=70.99  Aligned_cols=90  Identities=21%  Similarity=0.266  Sum_probs=56.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCc-cc--cccc--------c
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI-SI--WNVD--------D   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~-~~--~~~~--------~   70 (1046)
                      ++|.|.+|+||||||+.+++.++.+|+..+++..+.+-...   +.++.+++...=...... ..  .+..        .
T Consensus        72 ~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~E---v~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~  148 (274)
T cd01133          72 IGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTRE---GNDLYHEMKESGVLSKTALVYGQMNEPPGARARVAL  148 (274)
T ss_pred             EEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHH---HHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            68999999999999999999998888878887766553322   555555554321100000 00  0110        1


Q ss_pred             hHHHHHHhh--c-CCeEEEEEecCCCh
Q 001603           71 GINIIGSRL--R-QKKVLLVIDDVADV   94 (1046)
Q Consensus        71 ~~~~i~~~L--~-~kr~LlVlDdv~~~   94 (1046)
                      ..-.+.+++  + ++.+|+|+||+-..
T Consensus       149 ~a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         149 TGLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHHhcCCeEEEEEeChhHH
Confidence            122345555  3 89999999998543

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.

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.25  E-value=0.006  Score=72.19  Aligned_cols=99  Identities=13%  Similarity=0.134  Sum_probs=64.0

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  +.+..|...+....+...+|.+|.+ ..+..... .....+++++++.++..+.+.+.+.....
T Consensus       118 ~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~~tI~-SRc~~~~f~~l~~~el~~~L~~i~~~egi  196 (563)
T PRK06647        118 SRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLPATIK-SRCQHFNFRLLSLEKIYNMLKKVCLEDQI  196 (563)
T ss_pred             CCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhHHHHH-HhceEEEecCCCHHHHHHHHHHHHHHcCC
Confidence            56668899999865  4466777666554556666665544 33332222 12236999999999998888877654332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~  182 (1046)
                      .  -..+.+..|++.++|.+..+..
T Consensus       197 ~--id~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        197 K--YEDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHH
Confidence            2  2235677889999998864433

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.23  E-value=0.001  Score=63.85  Aligned_cols=33  Identities=33%  Similarity=0.376  Sum_probs=25.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFL   33 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~   33 (1046)
                      .+.|+|++|+||||+|+.++..+.......+++
T Consensus         4 ~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~   36 (148)
T smart00382        4 VILIVGPPGSGKTTLARALARELGPPGGGVIYI   36 (148)
T ss_pred             EEEEECCCCCcHHHHHHHHHhccCCCCCCEEEE
Confidence            378999999999999999998776554233333

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.

>PRK06921 hypothetical protein; Provisional

Probab=97.22  E-value=0.00097  Score=71.24  Aligned_cols=33  Identities=21%  Similarity=0.269  Sum_probs=27.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-cceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~   34 (1046)
                      +.++|..|+|||+||.++++.+..+ -..++|+.
T Consensus       120 l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~  153 (266)
T PRK06921        120 IALLGQPGSGKTHLLTAAANELMRKKGVPVLYFP  153 (266)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEE
Confidence            6799999999999999999987665 34456665

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.20  E-value=0.0025  Score=75.24  Aligned_cols=147  Identities=17%  Similarity=0.224  Sum_probs=77.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.++|++|+|||++|++++......|     +. +   +     ..++....    .   +   .........+......
T Consensus        91 iLL~GppGtGKT~la~alA~~~~~~~-----~~-i---~-----~~~~~~~~----~---g---~~~~~l~~~f~~a~~~  146 (495)
T TIGR01241        91 VLLVGPPGTGKTLLAKAVAGEAGVPF-----FS-I---S-----GSDFVEMF----V---G---VGASRVRDLFEQAKKN  146 (495)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCe-----ee-c---c-----HHHHHHHH----h---c---ccHHHHHHHHHHHHhc
Confidence            57899999999999999998653322     21 0   0     11111100    0   0   0001112222333345


Q ss_pred             CeEEEEEecCCChH----------------HHHHHhhccCCC--CCCCEEEEEeCChhhHH-Hh----cCCCcceEecCC
Q 001603           82 KKVLLVIDDVADVE----------------QLQNLARKRDWF--GPGSKIVITTRDKQLLV-AH----EVDEEHIYNLEV  138 (1046)
Q Consensus        82 kr~LlVlDdv~~~~----------------~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~-~~----~~~~~~~~~l~~  138 (1046)
                      .+.+|+|||+|..-                .+..+......+  ..+-.||.||....... ..    ..+.  .++++.
T Consensus       147 ~p~Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~--~i~i~~  224 (495)
T TIGR01241       147 APCIIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDR--QVVVDL  224 (495)
T ss_pred             CCCEEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceE--EEEcCC
Confidence            67899999996531                122233332211  22344555665433211 11    2333  799999


Q ss_pred             CChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCc
Q 001603          139 LSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLP  177 (1046)
Q Consensus       139 L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlP  177 (1046)
                      .+.++..++|..+..+..... +  .....+++.+.|.-
T Consensus       225 Pd~~~R~~il~~~l~~~~~~~-~--~~l~~la~~t~G~s  260 (495)
T TIGR01241       225 PDIKGREEILKVHAKNKKLAP-D--VDLKAVARRTPGFS  260 (495)
T ss_pred             CCHHHHHHHHHHHHhcCCCCc-c--hhHHHHHHhCCCCC
Confidence            999999999988764432211 1  12346777777743

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.

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.19  E-value=0.00067  Score=66.08  Aligned_cols=98  Identities=21%  Similarity=0.291  Sum_probs=47.8

Q ss_pred             cEEEeCCccCCC--chhccccCccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcccc-cCCCCCcEEEcCCCcCC
Q 001603          353 RLLKIDNLQLPE--GLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEI-KYLNMLKVMKLSHSQNL  429 (1046)
Q Consensus       353 r~L~l~~~~l~~--~~~~l~~~Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~-~~l~~L~~L~Ls~~~~~  429 (1046)
                      +.+++.+.++|.  .+....+....+|+++|.+..++..-.++.|..|.+.+|+|+.+-..+ ..+++|+.|.|.+|.+.
T Consensus        22 ~e~~LR~lkip~ienlg~~~d~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~  101 (233)
T KOG1644|consen   22 RELDLRGLKIPVIENLGATLDQFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQ  101 (233)
T ss_pred             cccccccccccchhhccccccccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchh
Confidence            334444444433  222333345555666666555554445555666666666665554433 23445555555555422


Q ss_pred             --CCCCCCCCCCCCCEEEeeCCC
Q 001603          430 --IKTPDFTGVPNLEELILEGCT  450 (1046)
Q Consensus       430 --~~~~~l~~l~~L~~L~L~~~~  450 (1046)
                        .++..+..+|.|++|.+-+|.
T Consensus       102 ~l~dl~pLa~~p~L~~Ltll~Np  124 (233)
T KOG1644|consen  102 ELGDLDPLASCPKLEYLTLLGNP  124 (233)
T ss_pred             hhhhcchhccCCccceeeecCCc
Confidence              122234455555555555543

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=97.18  E-value=0.017  Score=63.03  Aligned_cols=93  Identities=17%  Similarity=0.202  Sum_probs=62.5

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCCh-hhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~-~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++=++|+|+++..  .....|+..+....+++.+|.+|.+. .++.... ..-..+.+.+++.+++.+.+.....    
T Consensus       107 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~-SRCq~~~~~~~~~~~~~~~L~~~~~----  181 (319)
T PRK06090        107 NGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIV-SRCQQWVVTPPSTAQAMQWLKGQGI----  181 (319)
T ss_pred             CCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHH-hcceeEeCCCCCHHHHHHHHHHcCC----
Confidence            45568889999865  34556666555556677777666654 4444432 2334799999999999998875421    


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                        +    ....+++.++|.|+....+.
T Consensus       182 --~----~~~~~l~l~~G~p~~A~~~~  202 (319)
T PRK06090        182 --T----VPAYALKLNMGSPLKTLAMM  202 (319)
T ss_pred             --c----hHHHHHHHcCCCHHHHHHHh
Confidence              1    13467899999999776553

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.17  E-value=0.00019  Score=86.46  Aligned_cols=133  Identities=25%  Similarity=0.292  Sum_probs=81.9

Q ss_pred             CCCcEEecCCCCCCcc-chhhh-hccCcCcEEeccCCCCC-CcCCccccCCcccceeeccCccccccCcccccCCCCCEE
Q 001603          534 TGLVLLNLKDCKNLKS-LSHTL-RRLQCLKNLTLSGCSKL-KKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLL  610 (1046)
Q Consensus       534 ~~L~~L~L~~~~~~~~-l~~~l-~~l~~L~~L~L~~~~~~-~~~p~~~~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L  610 (1046)
                      .+|+.|++++...... .|..+ ..+|+|+.|.+.+-... +.+.....++++|..|+++++.++.+ .+++.+++|+.|
T Consensus       122 ~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl-~GIS~LknLq~L  200 (699)
T KOG3665|consen  122 QNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNL-SGISRLKNLQVL  200 (699)
T ss_pred             HhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCc-HHHhccccHHHH
Confidence            4566666665433221 22222 34677777777764432 23344556778888888888888877 667888888888


Q ss_pred             ecCCCCCCC-ccCCccCCCCCCCEEeccCCCCCCCc------CcccCCCCCCceeeccCccccC
Q 001603          611 NLNNCSNLV-RLPSCINGLRSLKTLNLSGCSKLQNV------PETLGQVESLEELDISGTAIRR  667 (1046)
Q Consensus       611 ~L~~~~~~~-~l~~~~~~l~~L~~L~Ls~c~~l~~~------~~~~~~l~~L~~L~Ls~n~l~~  667 (1046)
                      .+.+-.+.. ..-..+.++++|+.||+|.-......      -+.-..+|+|+.||.|++.+..
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~  264 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINE  264 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhH
Confidence            887765543 11234556888888888875443321      1122347788888888776654

>CHL00195 ycf46 Ycf46; Provisional

Probab=97.16  E-value=0.0027  Score=73.50  Aligned_cols=127  Identities=20%  Similarity=0.163  Sum_probs=68.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcc-cCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEK-EGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      |.++|++|+|||.+|+++++.+...|    +..+....... .+.-..                     .....++..-.
T Consensus       262 ILL~GPpGTGKTllAkaiA~e~~~~~----~~l~~~~l~~~~vGese~---------------------~l~~~f~~A~~  316 (489)
T CHL00195        262 LLLVGIQGTGKSLTAKAIANDWQLPL----LRLDVGKLFGGIVGESES---------------------RMRQMIRIAEA  316 (489)
T ss_pred             EEEECCCCCcHHHHHHHHHHHhCCCE----EEEEhHHhcccccChHHH---------------------HHHHHHHHHHh
Confidence            67999999999999999999765432    21111110000 000000                     11111111123


Q ss_pred             CCeEEEEEecCCChH--------------HHHHHhhccCCCCCCCEEEEEeCChhhHH-Hh----cCCCcceEecCCCCh
Q 001603           81 QKKVLLVIDDVADVE--------------QLQNLARKRDWFGPGSKIVITTRDKQLLV-AH----EVDEEHIYNLEVLSN  141 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--------------~~~~l~~~~~~~~~gs~IiiTTR~~~~~~-~~----~~~~~~~~~l~~L~~  141 (1046)
                      ..+++|++|++|..-              .+..+.........+--||.||....... ..    ..+.  .+.++..+.
T Consensus       317 ~~P~IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~--~i~v~lP~~  394 (489)
T CHL00195        317 LSPCILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDE--IFFLDLPSL  394 (489)
T ss_pred             cCCcEEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCe--EEEeCCcCH
Confidence            578999999997421              01122221221223344556665543221 11    3444  889999999


Q ss_pred             HHHHHHHHHhhcCC
Q 001603          142 DEALQLFSMKAFKT  155 (1046)
Q Consensus       142 ~ea~~Lf~~~a~~~  155 (1046)
                      ++-.++|..+..+.
T Consensus       395 ~eR~~Il~~~l~~~  408 (489)
T CHL00195        395 EEREKIFKIHLQKF  408 (489)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999999887543

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.13  E-value=0.0021  Score=66.90  Aligned_cols=165  Identities=16%  Similarity=0.194  Sum_probs=91.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc--ccceeEEEEechhhhcccCCHHHHHH--HHHHHHhhccCcccccccchHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH--EFDGSTFLANVREKSEKEGSVVSLQK--QLLSDLLKLADISIWNVDDGINIIGS   77 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~--~f~~~~~~~~~~~~~~~~~~~~~l~~--~ll~~l~~~~~~~~~~~~~~~~~i~~   77 (1046)
                      ...+|+.|.|||+-|++++..+-.  -|++++.-.|+   +...| ..-...  .-..++.....           ....
T Consensus        60 ~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lna---SderG-isvvr~Kik~fakl~~~~~-----------~~~~  124 (346)
T KOG0989|consen   60 YLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNA---SDERG-ISVVREKIKNFAKLTVLLK-----------RSDG  124 (346)
T ss_pred             EEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcc---ccccc-ccchhhhhcCHHHHhhccc-----------cccC
Confidence            457999999999999999876533  35544432221   11122 110000  00111110000           0000


Q ss_pred             hhcCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCC
Q 001603           78 RLRQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKT  155 (1046)
Q Consensus        78 ~L~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~  155 (1046)
                      .-+..--.||||+++..  +.|.++......+...+|-|..|..-......-...-..|+.++|.+++..+-+...|-+.
T Consensus       125 ~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E  204 (346)
T KOG0989|consen  125 YPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRIIRPLVSRCQKFRFKKLKDEDIVDRLEKIASKE  204 (346)
T ss_pred             CCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCChHHHhhHHHhcCCCcchHHHHHHHHHHHHHh
Confidence            01112247889999976  5688888877766667775544443332211111222268999999999988888887555


Q ss_pred             CCCCchHHHHHHHHHHHhCCCc-hHHHHH
Q 001603          156 RQPMGEYVELSKRVLKYAGGLP-LALTVL  183 (1046)
Q Consensus       156 ~~~~~~~~~~~~~i~~~~~GlP-Lal~~~  183 (1046)
                      +-+.  ..+..+.|+++++|-- -|+.++
T Consensus       205 ~v~~--d~~al~~I~~~S~GdLR~Ait~L  231 (346)
T KOG0989|consen  205 GVDI--DDDALKLIAKISDGDLRRAITTL  231 (346)
T ss_pred             CCCC--CHHHHHHHHHHcCCcHHHHHHHH
Confidence            4332  2366788999998844 344333

>PRK06835 DNA replication protein DnaC; Validated

Probab=97.12  E-value=0.0018  Score=71.04  Aligned_cols=33  Identities=18%  Similarity=0.218  Sum_probs=27.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +.++|..|+|||+||.++++.+..+-..++|+.
T Consensus       186 Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t  218 (329)
T PRK06835        186 LLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRT  218 (329)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEE
Confidence            679999999999999999998766544566665

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.09  E-value=0.0044  Score=70.44  Aligned_cols=121  Identities=20%  Similarity=0.180  Sum_probs=77.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      ++.|.|+=++||||+++.+.....+.   .+++........... +    .+.+...                  .+.-.
T Consensus        39 i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~-l----~d~~~~~------------------~~~~~   92 (398)
T COG1373          39 IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIE-L----LDLLRAY------------------IELKE   92 (398)
T ss_pred             EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhh-H----HHHHHHH------------------HHhhc
Confidence            47899999999999997666655444   444442111111100 1    1111111                  11111


Q ss_pred             CCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhc----CCCcceEecCCCChHHHHHHH
Q 001603           81 QKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHE----VDEEHIYNLEVLSNDEALQLF  148 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~----~~~~~~~~l~~L~~~ea~~Lf  148 (1046)
                      .++..++||.|.....|+..+..+...++. +|+||+-+........    ......+++-||+-.|-..+-
T Consensus        93 ~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~Efl~~~  163 (398)
T COG1373          93 REKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFREFLKLK  163 (398)
T ss_pred             cCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHHHHHhhc
Confidence            178899999999999999888887766666 8999888765543211    222347999999999987653

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=97.09  E-value=0.00014  Score=73.44  Aligned_cols=15  Identities=13%  Similarity=0.297  Sum_probs=7.3

Q ss_pred             CCCCceeeccCcccc
Q 001603          652 VESLEELDISGTAIR  666 (1046)
Q Consensus       652 l~~L~~L~Ls~n~l~  666 (1046)
                      -+.|.+|.+++|.+.
T Consensus       119 ~t~l~HL~l~NnGlG  133 (388)
T COG5238         119 STDLVHLKLNNNGLG  133 (388)
T ss_pred             CCCceeEEeecCCCC
Confidence            344555555555443

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=97.08  E-value=0.016  Score=63.35  Aligned_cols=93  Identities=12%  Similarity=0.099  Sum_probs=61.8

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++=++|+|+++..  .....|+..+....+++.+|++|.+.+ ++.... ..-..+.+.+++.+++.+.+......   
T Consensus       106 g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~-SRC~~~~~~~~~~~~~~~~L~~~~~~---  181 (325)
T PRK06871        106 GGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIY-SRCQTWLIHPPEEQQALDWLQAQSSA---  181 (325)
T ss_pred             CCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHH-hhceEEeCCCCCHHHHHHHHHHHhcc---
Confidence            56667889999875  345566666555567777777777654 333322 22237999999999999988866411   


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~  181 (1046)
                        +.  ..+...++.++|.|+...
T Consensus       182 --~~--~~~~~~~~l~~g~p~~A~  201 (325)
T PRK06871        182 --EI--SEILTALRINYGRPLLAL  201 (325)
T ss_pred             --Ch--HHHHHHHHHcCCCHHHHH
Confidence              11  235667889999996443

>PHA00729 NTP-binding motif containing protein

Probab=97.07  E-value=0.0015  Score=66.64  Aligned_cols=23  Identities=35%  Similarity=0.284  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.|+|.+|+||||||.++.+++.
T Consensus        20 IlItG~pGvGKT~LA~aLa~~l~   42 (226)
T PHA00729         20 AVIFGKQGSGKTTYALKVARDVF   42 (226)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHH
Confidence            78999999999999999998753

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.05  E-value=0.0077  Score=71.93  Aligned_cols=100  Identities=12%  Similarity=0.142  Sum_probs=60.4

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+|+..  .....|...+....+...+|++|.+ ..+..... .....+++++++.++..+.+...+-....
T Consensus       118 ~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~~tI~-SRc~~~~f~~l~~~~i~~~L~~i~~~egi  196 (576)
T PRK14965        118 SRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVPITIL-SRCQRFDFRRIPLQKIVDRLRYIADQEGI  196 (576)
T ss_pred             CCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhhHHHH-HhhhhhhcCCCCHHHHHHHHHHHHHHhCC
Confidence            45557889999865  3455566555444456666655544 33433221 12237899999999988887766533322


Q ss_pred             CCchHHHHHHHHHHHhCCCch-HHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPL-ALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPL-al~~~  183 (1046)
                      .  -..+....|++.++|..- |+..+
T Consensus       197 ~--i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        197 S--ISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             C--CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            1  123556788899988664 44443

>PRK08939 primosomal protein DnaI; Reviewed

Probab=97.05  E-value=0.0016  Score=70.97  Aligned_cols=96  Identities=15%  Similarity=0.172  Sum_probs=54.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.|+|..|+|||.||.++++.+..+-..+.|+.           ...+..++-.....      ..   ..+.+ +.++ 
T Consensus       159 l~L~G~~G~GKThLa~Aia~~l~~~g~~v~~~~-----------~~~l~~~lk~~~~~------~~---~~~~l-~~l~-  216 (306)
T PRK08939        159 LYLYGDFGVGKSYLLAAIANELAKKGVSSTLLH-----------FPEFIRELKNSISD------GS---VKEKI-DAVK-  216 (306)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEE-----------HHHHHHHHHHHHhc------Cc---HHHHH-HHhc-
Confidence            579999999999999999998765534456665           33444444333211      11   11222 2333 


Q ss_pred             CeEEEEEecCCC--hHHHH--HHhhcc-C-CCCCCCEEEEEeCC
Q 001603           82 KKVLLVIDDVAD--VEQLQ--NLARKR-D-WFGPGSKIVITTRD  119 (1046)
Q Consensus        82 kr~LlVlDdv~~--~~~~~--~l~~~~-~-~~~~gs~IiiTTR~  119 (1046)
                      +-=||||||+..  ...|.  ++.... . ....+-.+|+||--
T Consensus       217 ~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSNl  260 (306)
T PRK08939        217 EAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSNF  260 (306)
T ss_pred             CCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECCC
Confidence            455899999953  23332  233322 1 11245567778764

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.04  E-value=7.6e-05  Score=67.68  Aligned_cols=60  Identities=25%  Similarity=0.453  Sum_probs=50.6

Q ss_pred             CCCCCEEecCCCCCCCCCCcccccCcCCCCeeeCCCCCCcccchhhhhccccCeeccccccc
Q 001603          721 LHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKR  782 (1046)
Q Consensus       721 l~~L~~L~Ls~n~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~  782 (1046)
                      ++.++.|++++|.+.  .+|..+..++.|+.|+++.|.+...|..+..|.+|..|+..+|..
T Consensus        76 f~t~t~lNl~~neis--dvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds~~na~  135 (177)
T KOG4579|consen   76 FPTATTLNLANNEIS--DVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDSPENAR  135 (177)
T ss_pred             cchhhhhhcchhhhh--hchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcCCCCcc
Confidence            457788888999884  588889999999999999999999998888888888888877743

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.03  E-value=0.00017  Score=85.85  Aligned_cols=186  Identities=26%  Similarity=0.326  Sum_probs=83.5

Q ss_pred             ccccceeeccCCcCCcccccccccc-CCCCCeEeccccc-cc--ccchhcccCCCCcEEecCCCCCCcc--chhhhhccC
Q 001603          485 MKSLKTLVLSGCLKLTKKCLEFAGS-MNDLSELFLDRTT-IE--ELPLSIQHLTGLVLLNLKDCKNLKS--LSHTLRRLQ  558 (1046)
Q Consensus       485 l~~L~~L~L~~~~~l~~~~~~~~~~-l~~L~~L~l~~~~-i~--~lp~~~~~l~~L~~L~L~~~~~~~~--l~~~l~~l~  558 (1046)
                      +++|+.|+++++..++......+.. +++|+.|.+.... ++  .+-.....++.|+.|+++.|.....  +.....+++
T Consensus       242 ~~~L~~l~l~~~~~isd~~l~~l~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~  321 (482)
T KOG1947|consen  242 CRKLKSLDLSGCGLVTDIGLSALASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTDSGLEALLKNCP  321 (482)
T ss_pred             cCCcCccchhhhhccCchhHHHHHhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchHHHHHHHHHhCc
Confidence            4455555555554444443333332 4455555543333 22  2222334556666666666665422  233344455


Q ss_pred             cCcEEeccCCCCCCcCCccccCCcccceeeccCccc----cccCcccccCCCCCEEecCCCCCCCccCCccCCCCCCCEE
Q 001603          559 CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSI----AEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTL  634 (1046)
Q Consensus       559 ~L~~L~L~~~~~~~~~p~~~~~l~~L~~L~L~~~~i----~~lp~~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L  634 (1046)
                      +|+.|.+..+..          +..++.+.+.+...    ......+..+++|+.+.+..|......          ..+
T Consensus       322 ~l~~l~~~~~~~----------c~~l~~~~l~~~~~~~~d~~~~~~~~~~~~l~~~~l~~~~~~~~~----------~~~  381 (482)
T KOG1947|consen  322 NLRELKLLSLNG----------CPSLTDLSLSGLLTLTSDDLAELILRSCPKLTDLSLSYCGISDLG----------LEL  381 (482)
T ss_pred             chhhhhhhhcCC----------CccHHHHHHHHhhccCchhHhHHHHhcCCCcchhhhhhhhccCcc----------hHH
Confidence            555554443221          23333333333211    011113456667777776666522111          023


Q ss_pred             eccCCCCC-CCcCcccCCCCCCceeeccCccccCCCc--chhh-ccCCceeecCCCCCCC
Q 001603          635 NLSGCSKL-QNVPETLGQVESLEELDISGTAIRRPPS--SIFV-MNNLKTLSFSGCNGPP  690 (1046)
Q Consensus       635 ~Ls~c~~l-~~~~~~~~~l~~L~~L~Ls~n~l~~~p~--~~~~-l~~L~~L~L~~~~~~~  690 (1046)
                      .+.+|+.+ ..+........+++.|+++.+.......  .... +.++..+++.+|....
T Consensus       382 ~l~gc~~l~~~l~~~~~~~~~l~~L~l~~~~~~t~~~l~~~~~~~~~~~~l~~~~~~~~~  441 (482)
T KOG1947|consen  382 SLRGCPNLTESLELRLCRSDSLRVLNLSDCRLVTDKGLRCLADSCSNLKDLDLSGCRVIT  441 (482)
T ss_pred             HhcCCcccchHHHHHhccCCccceEecccCccccccchHHHhhhhhccccCCccCccccc
Confidence            33444433 1111112222336777777765443311  1111 5667777777776544

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.03  E-value=0.00066  Score=68.87  Aligned_cols=26  Identities=31%  Similarity=0.417  Sum_probs=20.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      .+.|+|.+|+|||+|+++++..+...
T Consensus        26 ~~ll~G~~G~GKT~ll~~~~~~~~~~   51 (185)
T PF13191_consen   26 NLLLTGESGSGKTSLLRALLDRLAER   51 (185)
T ss_dssp             -EEE-B-TTSSHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            47899999999999999999987766

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.01  E-value=0.0083  Score=63.98  Aligned_cols=142  Identities=18%  Similarity=0.363  Sum_probs=85.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L--   79 (1046)
                      |.+||++|.|||-||++|+++...     .|+..+..         ++.+.              -..++.+++++.+  
T Consensus       188 VLLYGPPGTGKTLLAkAVA~~T~A-----tFIrvvgS---------ElVqK--------------YiGEGaRlVRelF~l  239 (406)
T COG1222         188 VLLYGPPGTGKTLLAKAVANQTDA-----TFIRVVGS---------ELVQK--------------YIGEGARLVRELFEL  239 (406)
T ss_pred             eEeeCCCCCcHHHHHHHHHhccCc-----eEEEeccH---------HHHHH--------------HhccchHHHHHHHHH
Confidence            678999999999999999996544     45553321         11111              1123344444444  


Q ss_pred             -c-CCeEEEEEecCCCh-------------H---HHHHHhhccCCCCC--CCEEEEEeCChhhHHHh-----cCCCcceE
Q 001603           80 -R-QKKVLLVIDDVADV-------------E---QLQNLARKRDWFGP--GSKIVITTRDKQLLVAH-----EVDEEHIY  134 (1046)
Q Consensus        80 -~-~kr~LlVlDdv~~~-------------~---~~~~l~~~~~~~~~--gs~IiiTTR~~~~~~~~-----~~~~~~~~  134 (1046)
                       + ..+.+|.+|.+|..             +   .+-+|+..++-|.+  .-|||..|.-.+.+...     ..+.  .+
T Consensus       240 ArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD~~~nvKVI~ATNR~D~LDPALLRPGR~DR--kI  317 (406)
T COG1222         240 AREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFDPRGNVKVIMATNRPDILDPALLRPGRFDR--KI  317 (406)
T ss_pred             HhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCCCCCCeEEEEecCCccccChhhcCCCcccc--ee
Confidence             2 57899999999742             1   13345555554443  45788777544443221     2444  89


Q ss_pred             ecCCCChHHHHHHHHHhhcCCCCC-CchHHHHHHHHHHHhCCCc
Q 001603          135 NLEVLSNDEALQLFSMKAFKTRQP-MGEYVELSKRVLKYAGGLP  177 (1046)
Q Consensus       135 ~l~~L~~~ea~~Lf~~~a~~~~~~-~~~~~~~~~~i~~~~~GlP  177 (1046)
                      ++..-+.+.-.+.|.-++-+-.-. .-++    +.+++.+.|.-
T Consensus       318 EfplPd~~gR~~Il~IHtrkM~l~~dvd~----e~la~~~~g~s  357 (406)
T COG1222         318 EFPLPDEEGRAEILKIHTRKMNLADDVDL----ELLARLTEGFS  357 (406)
T ss_pred             ecCCCCHHHHHHHHHHHhhhccCccCcCH----HHHHHhcCCCc
Confidence            999888888888998887554422 2233    34556666654

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=97.00  E-value=0.022  Score=58.56  Aligned_cols=25  Identities=24%  Similarity=0.598  Sum_probs=22.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |.+||..|.|||++++++.+.+..+
T Consensus        55 vLL~G~rGtGKSSlVkall~~y~~~   79 (249)
T PF05673_consen   55 VLLWGARGTGKSSLVKALLNEYADQ   79 (249)
T ss_pred             eEEecCCCCCHHHHHHHHHHHHhhc
Confidence            6789999999999999999987664

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.00  E-value=0.015  Score=69.18  Aligned_cols=97  Identities=11%  Similarity=0.073  Sum_probs=60.6

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeC-ChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTR-DKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR-~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  .....|...+........+|++|. ...+..... .....+++.+++.++..+.+.+.+-+...
T Consensus       118 ~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~tI~-SRc~~~~f~~~~~~ei~~~L~~i~~~egi  196 (559)
T PRK05563        118 AKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPATIL-SRCQRFDFKRISVEDIVERLKYILDKEGI  196 (559)
T ss_pred             CCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcHHHH-hHheEEecCCCCHHHHHHHHHHHHHHcCC
Confidence            56678899999865  456666665554344555555554 333332221 12237899999999998888877644332


Q ss_pred             CCchHHHHHHHHHHHhCCCchHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      ..  ..+.+..|++.++|.+..+
T Consensus       197 ~i--~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        197 EY--EDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             CC--CHHHHHHHHHHcCCCHHHH
Confidence            21  2355778888888877644

>PRK12608 transcription termination factor Rho; Provisional

Probab=96.99  E-value=0.0017  Score=71.13  Aligned_cols=90  Identities=14%  Similarity=0.155  Sum_probs=54.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc-ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcc-c---ccccchHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF-DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADIS-I---WNVDDGINIIG   76 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~---~~~~~~~~~i~   76 (1046)
                      ++|+|..|+|||||++.+++.+..+. +..+++.-+   .++...+.++.+.+...+....... .   .........+.
T Consensus       136 ~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lI---gER~~EV~df~~~i~~~Vvast~de~~~~~~~v~~~~~~~A  212 (380)
T PRK12608        136 GLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLI---DERPEEVTDMRRSVKGEVYASTFDRPPDEHIRVAELVLERA  212 (380)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEe---cCCCCCHHHHHHHHhhhEEeecCCCCHHHHHHHHHHHHHHH
Confidence            58999999999999999999876654 333333333   2333347788888877655321110 0   01111122223


Q ss_pred             Hhh--cCCeEEEEEecCCCh
Q 001603           77 SRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        77 ~~L--~~kr~LlVlDdv~~~   94 (1046)
                      +++  ++++++||+|++...
T Consensus       213 e~f~~~GkdVVLvlDsltr~  232 (380)
T PRK12608        213 KRLVEQGKDVVILLDSLTRL  232 (380)
T ss_pred             HHHHHcCCCEEEEEeCcHHH
Confidence            333  489999999998654

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=96.94  E-value=0.0028  Score=67.21  Aligned_cols=71  Identities=24%  Similarity=0.234  Sum_probs=44.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      +.++|.+|+|||.||.++.+++...--.+.|+.           ..++..++-.....         ......+.+.++ 
T Consensus       108 l~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~-----------~~el~~~Lk~~~~~---------~~~~~~l~~~l~-  166 (254)
T COG1484         108 LVLLGPPGVGKTHLAIAIGNELLKAGISVLFIT-----------APDLLSKLKAAFDE---------GRLEEKLLRELK-  166 (254)
T ss_pred             EEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEE-----------HHHHHHHHHHHHhc---------CchHHHHHHHhh-
Confidence            579999999999999999998874323345554           44555554444321         122233444333 


Q ss_pred             CeEEEEEecCCC
Q 001603           82 KKVLLVIDDVAD   93 (1046)
Q Consensus        82 kr~LlVlDdv~~   93 (1046)
                      +-=||||||+-.
T Consensus       167 ~~dlLIiDDlG~  178 (254)
T COG1484         167 KVDLLIIDDIGY  178 (254)
T ss_pred             cCCEEEEecccC
Confidence            233889999943

>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=96.90  E-value=0.0014  Score=67.60  Aligned_cols=33  Identities=36%  Similarity=0.511  Sum_probs=28.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++|+|..|.||||++..+.....++|+.+..+.
T Consensus        16 ~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t   48 (241)
T PF04665_consen   16 MVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLIT   48 (241)
T ss_pred             EEEECCCCCCHHHHHHHHHHhhcccCCEEEEEe
Confidence            689999999999999999998999996655543

This is thought to be an ATPase involved in viral DNA packaging [].

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.89  E-value=0.0074  Score=75.28  Aligned_cols=129  Identities=14%  Similarity=0.117  Sum_probs=66.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc------ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF------DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|.+|+||||+|+.+++++....      ...+|..+...........                   .+.......+
T Consensus       211 ~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~ag~~~~-------------------ge~e~~lk~i  271 (852)
T TIGR03345       211 PILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQAGASVK-------------------GEFENRLKSV  271 (852)
T ss_pred             eeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhhcccccc-------------------hHHHHHHHHH
Confidence            46999999999999999999875432      1223322221110000000                   1111111111


Q ss_pred             HHhh--cCCeEEEEEecCCChH-------H--HHH-HhhccCCCCCC-CEEEEEeCChhhHHHhcC-----CCcceEecC
Q 001603           76 GSRL--RQKKVLLVIDDVADVE-------Q--LQN-LARKRDWFGPG-SKIVITTRDKQLLVAHEV-----DEEHIYNLE  137 (1046)
Q Consensus        76 ~~~L--~~kr~LlVlDdv~~~~-------~--~~~-l~~~~~~~~~g-s~IiiTTR~~~~~~~~~~-----~~~~~~~l~  137 (1046)
                      .+.+  .+++++|++|+++...       +  ... |.+.+   ..| -++|-||...........     ..-..++|+
T Consensus       272 i~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l---~~G~l~~IgaTT~~e~~~~~~~d~AL~rRf~~i~v~  348 (852)
T TIGR03345       272 IDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPAL---ARGELRTIAATTWAEYKKYFEKDPALTRRFQVVKVE  348 (852)
T ss_pred             HHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHh---hCCCeEEEEecCHHHHhhhhhccHHHHHhCeEEEeC
Confidence            1111  2478999999986531       1  111 22222   234 455655554322111100     111379999


Q ss_pred             CCChHHHHHHHHHhh
Q 001603          138 VLSNDEALQLFSMKA  152 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a  152 (1046)
                      +++.++..+++....
T Consensus       349 eps~~~~~~iL~~~~  363 (852)
T TIGR03345       349 EPDEETAIRMLRGLA  363 (852)
T ss_pred             CCCHHHHHHHHHHHH
Confidence            999999999975443

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.

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=96.88  E-value=0.02  Score=63.31  Aligned_cols=95  Identities=17%  Similarity=0.138  Sum_probs=62.1

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++=++|+|+++..  ..-..|+..+....+++.+|.+|.+.+ ++..... .-..+.+.+++.+++.+.+.....    
T Consensus       107 g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrS-RCq~~~~~~~~~~~~~~~L~~~~~----  181 (334)
T PRK07993        107 GGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRS-RCRLHYLAPPPEQYALTWLSREVT----  181 (334)
T ss_pred             CCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHh-ccccccCCCCCHHHHHHHHHHccC----
Confidence            56678899999865  345556655555566777776666654 4444322 223789999999999988865421    


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                       .+  .+.+..+++.++|.|.....+
T Consensus       182 -~~--~~~a~~~~~la~G~~~~Al~l  204 (334)
T PRK07993        182 -MS--QDALLAALRLSAGAPGAALAL  204 (334)
T ss_pred             -CC--HHHHHHHHHHcCCCHHHHHHH
Confidence             11  133667899999999654433

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=96.86  E-value=0.064  Score=59.17  Aligned_cols=93  Identities=17%  Similarity=0.249  Sum_probs=60.6

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++=++|+|+++..  +....|+..+....+++.+|.+|.+ ..++..... .-..+.+.+++.++..+.+....   . 
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~S-Rcq~i~~~~~~~~~~~~~L~~~~---~-  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILS-RCRQFPMTVPAPEAAAAWLAAQG---V-  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHh-cCEEEEecCCCHHHHHHHHHHcC---C-
Confidence            45558889999865  4466666666655677766655555 445444322 22489999999999999887652   1 


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                        +.    ...++..++|.|+....+.
T Consensus       206 --~~----~~~~l~~~~Gsp~~Al~~~  226 (342)
T PRK06964        206 --AD----ADALLAEAGGAPLAALALA  226 (342)
T ss_pred             --Ch----HHHHHHHcCCCHHHHHHHH
Confidence              11    1235778899997655443

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=96.85  E-value=0.0021  Score=62.73  Aligned_cols=77  Identities=21%  Similarity=0.274  Sum_probs=51.4

Q ss_pred             ccEEEecCCCCCCCCCCC-CCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCCCCCCCC-CCCCCEEEeeCCC
Q 001603          373 LRLLDWHRYPLKSLPSNF-QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTG-VPNLEELILEGCT  450 (1046)
Q Consensus       373 Lr~L~l~~~~l~~lp~~~-~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~l~~-l~~L~~L~L~~~~  450 (1046)
                      =+.+++.++.+..+...- .+.....+||++|.+..++ .+..++.|.+|.|++|++....|.+.. +|+|..|.|.+|.
T Consensus        21 e~e~~LR~lkip~ienlg~~~d~~d~iDLtdNdl~~l~-~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNs   99 (233)
T KOG1644|consen   21 ERELDLRGLKIPVIENLGATLDQFDAIDLTDNDLRKLD-NLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNS   99 (233)
T ss_pred             ccccccccccccchhhccccccccceecccccchhhcc-cCCCccccceEEecCCcceeeccchhhhccccceEEecCcc
Confidence            355666666654443321 4556777888888877663 467777888888888877777776543 5677777777754

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.83  E-value=0.0065  Score=75.16  Aligned_cols=128  Identities=15%  Similarity=0.167  Sum_probs=67.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc------ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF------DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|++|+|||++|+.+++++...-      ...+|..+...          +...    .    .. ..+..+....+
T Consensus       206 ~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~~~~~~----------l~a~----~----~~-~g~~e~~l~~i  266 (731)
T TIGR02639       206 PLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYSLDMGS----------LLAG----T----KY-RGDFEERLKAV  266 (731)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEEecHHH----------Hhhh----c----cc-cchHHHHHHHH
Confidence            46899999999999999999874431      22334332111          1100    0    00 01111222222


Q ss_pred             HHhh-cCCeEEEEEecCCChH----------HHHH-HhhccCCCCCC-CEEEEEeCChhhH------HHhcCCCcceEec
Q 001603           76 GSRL-RQKKVLLVIDDVADVE----------QLQN-LARKRDWFGPG-SKIVITTRDKQLL------VAHEVDEEHIYNL  136 (1046)
Q Consensus        76 ~~~L-~~kr~LlVlDdv~~~~----------~~~~-l~~~~~~~~~g-s~IiiTTR~~~~~------~~~~~~~~~~~~l  136 (1046)
                      .+.+ +.++.+|++|+++..-          +... +.+.+   ..| -++|-+|...+..      ..... .-..+++
T Consensus       267 ~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l---~~g~i~~IgaTt~~e~~~~~~~d~al~r-Rf~~i~v  342 (731)
T TIGR02639       267 VSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPAL---SSGKLRCIGSTTYEEYKNHFEKDRALSR-RFQKIDV  342 (731)
T ss_pred             HHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHH---hCCCeEEEEecCHHHHHHHhhhhHHHHH-hCceEEe
Confidence            2222 2467899999997431          1222 32322   233 3445444432211      11111 1137999


Q ss_pred             CCCChHHHHHHHHHhh
Q 001603          137 EVLSNDEALQLFSMKA  152 (1046)
Q Consensus       137 ~~L~~~ea~~Lf~~~a  152 (1046)
                      +.++.++..+++....
T Consensus       343 ~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       343 GEPSIEETVKILKGLK  358 (731)
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            9999999999998654

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.83  E-value=0.0092  Score=74.14  Aligned_cols=147  Identities=12%  Similarity=0.170  Sum_probs=76.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH-HHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII-GSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i-~~~L~   80 (1046)
                      |.++|++|+|||++|+++++.....|   +.+. ..          ++.    ....       ......+..+ ...-+
T Consensus       490 iLL~GppGtGKT~lakalA~e~~~~f---i~v~-~~----------~l~----~~~v-------Gese~~i~~~f~~A~~  544 (733)
T TIGR01243       490 VLLFGPPGTGKTLLAKAVATESGANF---IAVR-GP----------EIL----SKWV-------GESEKAIREIFRKARQ  544 (733)
T ss_pred             EEEECCCCCCHHHHHHHHHHhcCCCE---EEEe-hH----------HHh----hccc-------CcHHHHHHHHHHHHHh
Confidence            57899999999999999999765432   1111 10          111    1000       0011111112 22223


Q ss_pred             CCeEEEEEecCCCh--------------HHHHHHhhccCCC--CCCCEEEEEeCChhhHHHhcC---CCcceEecCCCCh
Q 001603           81 QKKVLLVIDDVADV--------------EQLQNLARKRDWF--GPGSKIVITTRDKQLLVAHEV---DEEHIYNLEVLSN  141 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~~~~---~~~~~~~l~~L~~  141 (1046)
                      ..+.+|+||+++..              .....++..++..  ..+-.||.||.........-.   .-...+.+...+.
T Consensus       545 ~~p~iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~  624 (733)
T TIGR01243       545 AAPAIIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDE  624 (733)
T ss_pred             cCCEEEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCH
Confidence            56789999999643              1123344333321  233445556654443322111   1123899999999


Q ss_pred             HHHHHHHHHhhcCCCCC-CchHHHHHHHHHHHhCCCc
Q 001603          142 DEALQLFSMKAFKTRQP-MGEYVELSKRVLKYAGGLP  177 (1046)
Q Consensus       142 ~ea~~Lf~~~a~~~~~~-~~~~~~~~~~i~~~~~GlP  177 (1046)
                      ++..++|..+.-+.... ..+    ...+++.+.|.-
T Consensus       625 ~~R~~i~~~~~~~~~~~~~~~----l~~la~~t~g~s  657 (733)
T TIGR01243       625 EARKEIFKIHTRSMPLAEDVD----LEELAEMTEGYT  657 (733)
T ss_pred             HHHHHHHHHHhcCCCCCccCC----HHHHHHHcCCCC
Confidence            99999998765333211 112    345666666644

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.

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=96.82  E-value=0.036  Score=61.06  Aligned_cols=88  Identities=15%  Similarity=0.185  Sum_probs=48.2

Q ss_pred             CeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCCC
Q 001603           82 KKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPM  159 (1046)
Q Consensus        82 kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~  159 (1046)
                      ++-++|+|+++..  +.-..+...+.....+..+|++|.+..-........-..+++.+++.+++.+.+....    . .
T Consensus       113 ~~kV~iiEp~~~Ld~~a~naLLk~LEep~~~~~~Ilvth~~~~ll~ti~SRc~~~~~~~~~~~~~~~~L~~~~----~-~  187 (325)
T PRK08699        113 GLRVILIHPAESMNLQAANSLLKVLEEPPPQVVFLLVSHAADKVLPTIKSRCRKMVLPAPSHEEALAYLRERG----V-A  187 (325)
T ss_pred             CceEEEEechhhCCHHHHHHHHHHHHhCcCCCEEEEEeCChHhChHHHHHHhhhhcCCCCCHHHHHHHHHhcC----C-C
Confidence            3334456888754  2233333333222345667777776543222222222379999999999998886542    1 1


Q ss_pred             chHHHHHHHHHHHhCCCchH
Q 001603          160 GEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       160 ~~~~~~~~~i~~~~~GlPLa  179 (1046)
                      +.  .   ..+..++|-|+.
T Consensus       188 ~~--~---~~l~~~~g~p~~  202 (325)
T PRK08699        188 EP--E---ERLAFHSGAPLF  202 (325)
T ss_pred             cH--H---HHHHHhCCChhh
Confidence            11  1   123568898864

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=96.82  E-value=0.025  Score=60.91  Aligned_cols=143  Identities=20%  Similarity=0.226  Sum_probs=81.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCc-cc----ccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADI-SI----WNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~-~~----~~~~~~~~~i   75 (1046)
                      |-|+|-+|.|||.+.+++.+....+   .+|+. +.+..    +...+.++++.+.+ ...+. ..    .+..+.+..+
T Consensus        33 ~~iyG~sgTGKT~~~r~~l~~~n~~---~vw~n-~~ecf----t~~~lle~IL~~~~~~d~dg~~~~~~~en~~d~i~~l  104 (438)
T KOG2543|consen   33 VHIYGHSGTGKTYLVRQLLRKLNLE---NVWLN-CVECF----TYAILLEKILNKSQLADKDGDKVEGDAENFSDFIYLL  104 (438)
T ss_pred             EEEeccCCCchhHHHHHHHhhcCCc---ceeee-hHHhc----cHHHHHHHHHHHhccCCCchhhhhhHHHHHHHHHHHH
Confidence            5799999999999999999876333   45665 33322    27778888888884 11111 10    1111222223


Q ss_pred             HH--hhc--CCeEEEEEecCCChHHHHH-----HhhccCCCCCCCEEEEEeCChhhHHH---hcCCCcceEecCCCChHH
Q 001603           76 GS--RLR--QKKVLLVIDDVADVEQLQN-----LARKRDWFGPGSKIVITTRDKQLLVA---HEVDEEHIYNLEVLSNDE  143 (1046)
Q Consensus        76 ~~--~L~--~kr~LlVlDdv~~~~~~~~-----l~~~~~~~~~gs~IiiTTR~~~~~~~---~~~~~~~~~~l~~L~~~e  143 (1046)
                      ++  ...  ++.++||||+++...+.+.     +..-..-.....-+|+++-.......   ++.....++....-+.+|
T Consensus       105 ~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i~iils~~~~e~~y~~n~g~~~i~~l~fP~Ys~~e  184 (438)
T KOG2543|consen  105 VQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTIVIILSAPSCEKQYLINTGTLEIVVLHFPQYSVEE  184 (438)
T ss_pred             HhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCceEEEEeccccHHHhhcccCCCCceEEecCCCCHHH
Confidence            32  122  4689999999987654322     11110000112344555544332222   233333467788899999


Q ss_pred             HHHHHHHhh
Q 001603          144 ALQLFSMKA  152 (1046)
Q Consensus       144 a~~Lf~~~a  152 (1046)
                      -.+++.+.-
T Consensus       185 ~~~Il~~~~  193 (438)
T KOG2543|consen  185 TQVILSRDN  193 (438)
T ss_pred             HHHHHhcCC
Confidence            999987553

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.82  E-value=0.017  Score=64.08  Aligned_cols=70  Identities=13%  Similarity=0.237  Sum_probs=46.9

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHHHHHHHHh
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMK  151 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~  151 (1046)
                      +++=++|+|+++..  +....|...+....+++.+|.+|.+.. +.... ......+++.+++.++..+.+...
T Consensus       109 ~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TI-rSRc~~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        109 SNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTI-LSRCQVVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             cCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHH-HhhceeeeCCCCCHHHHHHHHHHc
Confidence            45557899999865  345566666655567787777776654 33322 222347999999999998888654

>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=96.82  E-value=0.0042  Score=62.71  Aligned_cols=113  Identities=25%  Similarity=0.362  Sum_probs=52.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH-H-ccccceeEEEEechhhhcc----cCCHHHHH----HHHHHHHhhccCcccccccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL-I-SHEFDGSTFLANVREKSEK----EGSVVSLQ----KQLLSDLLKLADISIWNVDD   70 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~-~-~~~f~~~~~~~~~~~~~~~----~~~~~~l~----~~ll~~l~~~~~~~~~~~~~   70 (1046)
                      +|.+.|++|.|||.||.+.+-+ + ..+|+..++....-+..+.    ++++.+-.    .-+...+..-.     ....
T Consensus        21 ~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~Rp~v~~~~~lGflpG~~~eK~~p~~~p~~d~l~~~~-----~~~~   95 (205)
T PF02562_consen   21 LVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITRPPVEAGEDLGFLPGDLEEKMEPYLRPIYDALEELF-----GKEK   95 (205)
T ss_dssp             EEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE-S--TT----SS---------TTTHHHHHHHTTTS------TTC
T ss_pred             eEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEecCCCCccccccCCCCHHHHHHHHHHHHHHHHHHHh-----ChHh
Confidence            4789999999999999877743 3 4667777776644332222    11111111    11111111100     0111


Q ss_pred             hHHHHH---------HhhcCC---eEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh
Q 001603           71 GINIIG---------SRLRQK---KVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        71 ~~~~i~---------~~L~~k---r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      ....+.         .+++++   .-+||+|++.+.  +++..+...   .+.|||||++--..+
T Consensus        96 ~~~~~~~~~Ie~~~~~~iRGrt~~~~~iIvDEaQN~t~~~~k~ilTR---~g~~skii~~GD~~Q  157 (205)
T PF02562_consen   96 LEELIQNGKIEIEPLAFIRGRTFDNAFIIVDEAQNLTPEELKMILTR---IGEGSKIIITGDPSQ  157 (205)
T ss_dssp             HHHHHHTTSEEEEEGGGGTT--B-SEEEEE-SGGG--HHHHHHHHTT---B-TT-EEEEEE----
T ss_pred             HHHHhhcCeEEEEehhhhcCccccceEEEEecccCCCHHHHHHHHcc---cCCCcEEEEecCcee
Confidence            111111         233443   468999999764  677777665   578999999877654

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PTZ00202 tuzin; Provisional

Probab=96.81  E-value=0.013  Score=64.75  Aligned_cols=137  Identities=17%  Similarity=0.187  Sum_probs=81.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh-
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL-   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L-   79 (1046)
                      +++|.|++|+|||||++.+.....    ...++.+.+      + ..++++.++.+|+.....   .-.+..+.|.+.+ 
T Consensus       288 ivvLtG~~G~GKTTLlR~~~~~l~----~~qL~vNpr------g-~eElLr~LL~ALGV~p~~---~k~dLLrqIqeaLl  353 (550)
T PTZ00202        288 IVVFTGFRGCGKSSLCRSAVRKEG----MPAVFVDVR------G-TEDTLRSVVKALGVPNVE---ACGDLLDFISEACR  353 (550)
T ss_pred             EEEEECCCCCCHHHHHHHHHhcCC----ceEEEECCC------C-HHHHHHHHHHHcCCCCcc---cHHHHHHHHHHHHH
Confidence            478999999999999999987553    235666544      2 678999999999853222   1123444444443 


Q ss_pred             ----c-CCeEEEEEe--cCCChHH-HHHHhhccCCCCCCCEEEEEeCChhhHHHh-cCCCcceEecCCCChHHHHHHHHH
Q 001603           80 ----R-QKKVLLVID--DVADVEQ-LQNLARKRDWFGPGSKIVITTRDKQLLVAH-EVDEEHIYNLEVLSNDEALQLFSM  150 (1046)
Q Consensus        80 ----~-~kr~LlVlD--dv~~~~~-~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~-~~~~~~~~~l~~L~~~ea~~Lf~~  150 (1046)
                          . +++.+||+-  +-++..- ..+.. .+.....-+.|++----+.+-... ....-..|-++.++.++|.++-.+
T Consensus       354 ~~~~e~GrtPVLII~lreg~~l~rvyne~v-~la~drr~ch~v~evpleslt~~~~~lprldf~~vp~fsr~qaf~y~~h  432 (550)
T PTZ00202        354 RAKKMNGETPLLVLKLREGSSLQRVYNEVV-ALACDRRLCHVVIEVPLESLTIANTLLPRLDFYLVPNFSRSQAFAYTQH  432 (550)
T ss_pred             HHHHhCCCCEEEEEEecCCCcHHHHHHHHH-HHHccchhheeeeeehHhhcchhcccCccceeEecCCCCHHHHHHHHhh
Confidence                2 677777763  2222221 11111 111123446777765554432221 112223799999999999988765


Q ss_pred             hh
Q 001603          151 KA  152 (1046)
Q Consensus       151 ~a  152 (1046)
                      ..
T Consensus       433 ~~  434 (550)
T PTZ00202        433 AI  434 (550)
T ss_pred             cc
Confidence            53

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=96.79  E-value=0.0092  Score=61.58  Aligned_cols=149  Identities=21%  Similarity=0.233  Sum_probs=83.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.++|++|.||||||..+++++...+...     ....-++++++..++    ..                      |+.
T Consensus        55 vLl~GPPGlGKTTLA~IIA~Emgvn~k~t-----sGp~leK~gDlaaiL----t~----------------------Le~  103 (332)
T COG2255          55 VLLFGPPGLGKTTLAHIIANELGVNLKIT-----SGPALEKPGDLAAIL----TN----------------------LEE  103 (332)
T ss_pred             EEeeCCCCCcHHHHHHHHHHHhcCCeEec-----ccccccChhhHHHHH----hc----------------------CCc
Confidence            57899999999999999999876643311     111122222222211    11                      222


Q ss_pred             CeEEEEEecCCChH-HHHHHh-hccCC--------CCCCCEE-----------EEEeCChhhHHHhcCCCcceEecCCCC
Q 001603           82 KKVLLVIDDVADVE-QLQNLA-RKRDW--------FGPGSKI-----------VITTRDKQLLVAHEVDEEHIYNLEVLS  140 (1046)
Q Consensus        82 kr~LlVlDdv~~~~-~~~~l~-~~~~~--------~~~gs~I-----------iiTTR~~~~~~~~~~~~~~~~~l~~L~  140 (1046)
                      .- .+.+|.+.... ..++++ +...+        .++++|.           =.|||.-.+.....-.-..+.+++-.+
T Consensus       104 ~D-VLFIDEIHrl~~~vEE~LYpaMEDf~lDI~IG~gp~Arsv~ldLppFTLIGATTr~G~lt~PLrdRFGi~~rlefY~  182 (332)
T COG2255         104 GD-VLFIDEIHRLSPAVEEVLYPAMEDFRLDIIIGKGPAARSIRLDLPPFTLIGATTRAGMLTNPLRDRFGIIQRLEFYT  182 (332)
T ss_pred             CC-eEEEehhhhcChhHHHHhhhhhhheeEEEEEccCCccceEeccCCCeeEeeeccccccccchhHHhcCCeeeeecCC
Confidence            22 44567765431 111111 11111        1344443           358887654333221112278999999


Q ss_pred             hHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHh
Q 001603          141 NDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                      .+|-.+...+.|..-+  .+-.++.+.+|+++..|-|--..-+-
T Consensus       183 ~~eL~~Iv~r~a~~l~--i~i~~~~a~eIA~rSRGTPRIAnRLL  224 (332)
T COG2255         183 VEELEEIVKRSAKILG--IEIDEEAALEIARRSRGTPRIANRLL  224 (332)
T ss_pred             HHHHHHHHHHHHHHhC--CCCChHHHHHHHHhccCCcHHHHHHH
Confidence            9999999988874322  22334668899999999996544443

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=96.78  E-value=0.03  Score=61.39  Aligned_cols=96  Identities=18%  Similarity=0.158  Sum_probs=60.5

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEE-EEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIV-ITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~Ii-iTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++-++|+|+++..  .....|+..+.... .+.+| +|+....+..... .....+++.+++.++..+.+........ 
T Consensus       123 ~~~kVvII~~ae~m~~~aaNaLLK~LEEPp-~~~fILi~~~~~~Ll~TI~-SRcq~i~f~~l~~~~~~~~L~~~~~~~~-  199 (314)
T PRK07399        123 APRKVVVIEDAETMNEAAANALLKTLEEPG-NGTLILIAPSPESLLPTIV-SRCQIIPFYRLSDEQLEQVLKRLGDEEI-  199 (314)
T ss_pred             CCceEEEEEchhhcCHHHHHHHHHHHhCCC-CCeEEEEECChHhCcHHHH-hhceEEecCCCCHHHHHHHHHHhhcccc-
Confidence            56678999999865  33445555444334 44555 4444444444433 2234899999999999999987652211 


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                          .......++..++|.|..+..+
T Consensus       200 ----~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        200 ----LNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             ----chhHHHHHHHHcCCCHHHHHHH
Confidence                1111357899999999766543

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.77  E-value=0.00089  Score=68.28  Aligned_cols=85  Identities=29%  Similarity=0.294  Sum_probs=56.8

Q ss_pred             CccCCCCCCEEecCCC--CCCCCCCcccccCcCCCCeeeCCCCCCcc---cchhhhhccccCeeccccccccccC-----
Q 001603          717 SLSGLHSLSKLDLSDC--GLGEGAIPNDIGNLCSLKQLNLSQNNFVT---LPASINSLFNLGQLDLEDCKRLQSM-----  786 (1046)
Q Consensus       717 ~l~~l~~L~~L~Ls~n--~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~---lp~~i~~l~~L~~L~L~~c~~l~~i-----  786 (1046)
                      .+..+++|+.|.+|+|  .+ .+.++.....+|+|++|+|++|++..   ++ .+..+.+|..|++.+|.-.+.-     
T Consensus        60 ~~P~Lp~LkkL~lsdn~~~~-~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~-pl~~l~nL~~Ldl~n~~~~~l~dyre~  137 (260)
T KOG2739|consen   60 NFPKLPKLKKLELSDNYRRV-SGGLEVLAEKAPNLKVLNLSGNKIKDLSTLR-PLKELENLKSLDLFNCSVTNLDDYREK  137 (260)
T ss_pred             cCCCcchhhhhcccCCcccc-cccceehhhhCCceeEEeecCCccccccccc-hhhhhcchhhhhcccCCccccccHHHH
Confidence            3556778888888888  54 34444445566899999999998763   33 4677788888999888655511     


Q ss_pred             -CCCCCCCceeecCCCcc
Q 001603          787 -PQLPSNLYEVQVNGCAS  803 (1046)
Q Consensus       787 -p~lp~~L~~L~~~~C~~  803 (1046)
                       -.+.++|+.|+-.++..
T Consensus       138 vf~ll~~L~~LD~~dv~~  155 (260)
T KOG2739|consen  138 VFLLLPSLKYLDGCDVDG  155 (260)
T ss_pred             HHHHhhhhccccccccCC
Confidence             12445666666555443

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.012  Score=65.57  Aligned_cols=124  Identities=18%  Similarity=0.205  Sum_probs=75.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHH----H
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIG----S   77 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~----~   77 (1046)
                      |.+.|++|.|||+||..++.  ...|+.+-.++    ..+.-+                     .+.......|+    +
T Consensus       541 vLl~Gp~~sGKTaLAA~iA~--~S~FPFvKiiS----pe~miG---------------------~sEsaKc~~i~k~F~D  593 (744)
T KOG0741|consen  541 VLLEGPPGSGKTALAAKIAL--SSDFPFVKIIS----PEDMIG---------------------LSESAKCAHIKKIFED  593 (744)
T ss_pred             EEEecCCCCChHHHHHHHHh--hcCCCeEEEeC----hHHccC---------------------ccHHHHHHHHHHHHHH
Confidence            57899999999999998876  46788655544    111111                     11122222333    3


Q ss_pred             hhcCCeEEEEEecCCChHHHHHHhhc------------cCCC-CCCCE--EEEEeCChhhHHHhcCCC--cceEecCCCC
Q 001603           78 RLRQKKVLLVIDDVADVEQLQNLARK------------RDWF-GPGSK--IVITTRDKQLLVAHEVDE--EHIYNLEVLS  140 (1046)
Q Consensus        78 ~L~~kr~LlVlDdv~~~~~~~~l~~~------------~~~~-~~gs~--IiiTTR~~~~~~~~~~~~--~~~~~l~~L~  140 (1046)
                      ..+..--.||+||++..-+|-.+.+.            +... .+|-|  |+-||..+.++..+++..  ...|.|+.++
T Consensus       594 AYkS~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~  673 (744)
T KOG0741|consen  594 AYKSPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLT  673 (744)
T ss_pred             hhcCcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccC
Confidence            34566778999999876554333322            2211 23444  455777778888776422  1379999998


Q ss_pred             h-HHHHHHHHHhh
Q 001603          141 N-DEALQLFSMKA  152 (1046)
Q Consensus       141 ~-~ea~~Lf~~~a  152 (1046)
                      . ++..+.++..-
T Consensus       674 ~~~~~~~vl~~~n  686 (744)
T KOG0741|consen  674 TGEQLLEVLEELN  686 (744)
T ss_pred             chHHHHHHHHHcc
Confidence            8 77777776543

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=96.74  E-value=0.026  Score=59.91  Aligned_cols=176  Identities=17%  Similarity=0.091  Sum_probs=95.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccce------eEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDG------STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~------~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.|+|.+|.|||++++++.......++.      ++.+.    ....++ ...+...++.+++...... .........+
T Consensus        64 lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq----~P~~p~-~~~~Y~~IL~~lgaP~~~~-~~~~~~~~~~  137 (302)
T PF05621_consen   64 LLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQ----MPPEPD-ERRFYSAILEALGAPYRPR-DRVAKLEQQV  137 (302)
T ss_pred             eEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEe----cCCCCC-hHHHHHHHHHHhCcccCCC-CCHHHHHHHH
Confidence            5799999999999999999865444332      22222    233444 8899999999998544321 3333444444


Q ss_pred             HHhhcC-CeEEEEEecCCCh------HH--HHHHhhccCCCCCCCEEEEEeCChhhHHHhc---CCCcceEecCCCChHH
Q 001603           76 GSRLRQ-KKVLLVIDDVADV------EQ--LQNLARKRDWFGPGSKIVITTRDKQLLVAHE---VDEEHIYNLEVLSNDE  143 (1046)
Q Consensus        76 ~~~L~~-kr~LlVlDdv~~~------~~--~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~---~~~~~~~~l~~L~~~e  143 (1046)
                      ...++. +-=+||+|++.+.      +|  .-.....+...-.-+-|.|-|++.--+....   ......+.++....++
T Consensus       138 ~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~~A~~al~~D~QLa~RF~~~~Lp~W~~d~  217 (302)
T PF05621_consen  138 LRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTREAYRALRTDPQLASRFEPFELPRWELDE  217 (302)
T ss_pred             HHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccHHHHHHhccCHHHHhccCCccCCCCCCCc
Confidence            455542 4448899999763      11  1112222211123455666666543221110   0011256666665544


Q ss_pred             -HHHHHHHhhcC---CCCCCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          144 -ALQLFSMKAFK---TRQPMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       144 -a~~Lf~~~a~~---~~~~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                       ...|+......   .....-...+++..|...++|+.=-+..+
T Consensus       218 ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG~l~~l  261 (302)
T PF05621_consen  218 EFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIGELSRL  261 (302)
T ss_pred             HHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchHHHHHH
Confidence             34444322211   11111233578899999999987555433

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>PRK04132 replication factor C small subunit; Provisional

Probab=96.74  E-value=0.018  Score=70.59  Aligned_cols=153  Identities=13%  Similarity=0.123  Sum_probs=89.8

Q ss_pred             CCCCcHHHHHHHHHHHHc-cccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcCCeEE
Q 001603            7 MGGLGKTTLARVAYDLIS-HEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQKKVL   85 (1046)
Q Consensus         7 ~gGiGKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~kr~L   85 (1046)
                      |.|+||||+|.++++++- +.+.....-.|.   ++..+ +.. .++++.+.......               -..+.-+
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElNA---Sd~rg-id~-IR~iIk~~a~~~~~---------------~~~~~KV  633 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELNA---SDERG-INV-IREKVKEFARTKPI---------------GGASFKI  633 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEeC---CCccc-HHH-HHHHHHHHHhcCCc---------------CCCCCEE
Confidence            789999999999999762 223222222221   22222 333 33333333211110               0124579


Q ss_pred             EEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhh-HHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCCCchH
Q 001603           86 LVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQL-LVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEY  162 (1046)
Q Consensus        86 lVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~-~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~  162 (1046)
                      +|||+++..  ++...|...........++|.+|.+..- ..... .....+++++++.++-.+.+.+.+....-.  -.
T Consensus       634 vIIDEaD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIr-SRC~~i~F~~ls~~~i~~~L~~I~~~Egi~--i~  710 (846)
T PRK04132        634 IFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQ-SRCAIFRFRPLRDEDIAKRLRYIAENEGLE--LT  710 (846)
T ss_pred             EEEECcccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHh-hhceEEeCCCCCHHHHHHHHHHHHHhcCCC--CC
Confidence            999999976  3555666655545567777776666543 22222 223489999999999888877765432211  12


Q ss_pred             HHHHHHHHHHhCCCchHHHH
Q 001603          163 VELSKRVLKYAGGLPLALTV  182 (1046)
Q Consensus       163 ~~~~~~i~~~~~GlPLal~~  182 (1046)
                      .+....|++.++|.+.....
T Consensus       711 ~e~L~~Ia~~s~GDlR~AIn  730 (846)
T PRK04132        711 EEGLQAILYIAEGDMRRAIN  730 (846)
T ss_pred             HHHHHHHHHHcCCCHHHHHH
Confidence            35678899999998855433

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.71  E-value=0.0053  Score=60.64  Aligned_cols=34  Identities=26%  Similarity=0.273  Sum_probs=27.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|+|.+|+||||+|..+......+-..++|+.
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~   34 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVD   34 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEE
Confidence            5789999999999999999887765444555655

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.

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.70  E-value=0.021  Score=66.06  Aligned_cols=159  Identities=18%  Similarity=0.189  Sum_probs=80.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccc-eeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD-GSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~-~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      |-|.|+.|+|||+||+++++.+...-. .+.++++ ..  -....+..+|+.+-                  ..+.+.+.
T Consensus       434 Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~C-s~--l~~~~~e~iQk~l~------------------~vfse~~~  492 (952)
T KOG0735|consen  434 ILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSC-ST--LDGSSLEKIQKFLN------------------NVFSEALW  492 (952)
T ss_pred             EEEeCCCCCCHhHHHHHHHHHhccccceEEEEEec-hh--ccchhHHHHHHHHH------------------HHHHHHHh
Confidence            679999999999999999998764322 2233332 11  11112444444332                  22344556


Q ss_pred             CCeEEEEEecCCChH--------HH-------HHHh-hccCCC-CCCCE--EEEEeCChhhHHHhcCCC---cceEecCC
Q 001603           81 QKKVLLVIDDVADVE--------QL-------QNLA-RKRDWF-GPGSK--IVITTRDKQLLVAHEVDE---EHIYNLEV  138 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--------~~-------~~l~-~~~~~~-~~gs~--IiiTTR~~~~~~~~~~~~---~~~~~l~~  138 (1046)
                      ..+-+|||||++-.-        ||       ..+. .....+ ..+.+  +|.|.....-....-+..   ..+..++.
T Consensus       493 ~~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~a  572 (952)
T KOG0735|consen  493 YAPSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKIYLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALPA  572 (952)
T ss_pred             hCCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHHHHccCcEEEEEEechhhhhcChhhcCccceEEEEecCC
Confidence            788899999996421        11       1111 111111 23344  334443332111111111   12688899


Q ss_pred             CChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCC-CchHHHHH
Q 001603          139 LSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGG-LPLALTVL  183 (1046)
Q Consensus       139 L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~G-lPLal~~~  183 (1046)
                      ++..+-.++++...-+.. . ....+...-+..+|+| .|.-++++
T Consensus       573 p~~~~R~~IL~~~~s~~~-~-~~~~~dLd~ls~~TEGy~~~DL~if  616 (952)
T KOG0735|consen  573 PAVTRRKEILTTIFSKNL-S-DITMDDLDFLSVKTEGYLATDLVIF  616 (952)
T ss_pred             cchhHHHHHHHHHHHhhh-h-hhhhHHHHHHHHhcCCccchhHHHH
Confidence            998888877765542222 1 1111222236666766 34444444

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=96.66  E-value=0.00036  Score=82.95  Aligned_cols=110  Identities=32%  Similarity=0.447  Sum_probs=54.4

Q ss_pred             CCCCcEEecCCCCCCcc--chhhhhccCcCcEEeccCC-CCCCcCC----ccccCCcccceeeccCcc-ccccC--cccc
Q 001603          533 LTGLVLLNLKDCKNLKS--LSHTLRRLQCLKNLTLSGC-SKLKKFP----ESLGSMKDLMELFLDGTS-IAEVP--SSIE  602 (1046)
Q Consensus       533 l~~L~~L~L~~~~~~~~--l~~~l~~l~~L~~L~L~~~-~~~~~~p----~~~~~l~~L~~L~L~~~~-i~~lp--~~l~  602 (1046)
                      ++.|+.|.+.+|.....  +-.....+++|+.|++++| ......+    .....+.+|+.|+++.+. +++.-  ....
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            56666666666655554  3455566667777776663 2211111    122334556666665554 33211  1112


Q ss_pred             cCCCCCEEecCCCCCC-C-ccCCccCCCCCCCEEeccCCCCC
Q 001603          603 LLTGLQLLNLNNCSNL-V-RLPSCINGLRSLKTLNLSGCSKL  642 (1046)
Q Consensus       603 ~l~~L~~L~L~~~~~~-~-~l~~~~~~l~~L~~L~Ls~c~~l  642 (1046)
                      .+++|+.|.+.+|... . .+-.....+++|++|++++|...
T Consensus       267 ~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~  308 (482)
T KOG1947|consen  267 RCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGL  308 (482)
T ss_pred             hCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccc
Confidence            3566666666655531 1 12222334556666666666554

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.66  E-value=0.019  Score=61.56  Aligned_cols=24  Identities=33%  Similarity=0.322  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      |.|+|++|+|||++|++++.....
T Consensus        24 vLL~G~~GtGKT~lA~~la~~lg~   47 (262)
T TIGR02640        24 VHLRGPAGTGKTTLAMHVARKRDR   47 (262)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCC
Confidence            678999999999999999986543

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).

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.60  E-value=0.0058  Score=61.31  Aligned_cols=34  Identities=29%  Similarity=0.592  Sum_probs=30.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.|.|+.|.||||+|+.+++.+..++...+++.
T Consensus         9 ~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          9 VIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            5899999999999999999999887777777764

>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=96.60  E-value=0.0015  Score=60.93  Aligned_cols=23  Identities=35%  Similarity=0.411  Sum_probs=21.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|.|++|+||||+|+++++++
T Consensus         1 vI~I~G~~gsGKST~a~~La~~~   23 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAERL   23 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Confidence            58999999999999999999876

...

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.59  E-value=0.017  Score=71.76  Aligned_cols=148  Identities=19%  Similarity=0.190  Sum_probs=74.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcc-cCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEK-EGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      |.++|++|+||||||+++++.....|   +.+. ..+.... .+....                     .....+.....
T Consensus       215 iLL~GppGtGKT~laraia~~~~~~~---i~i~-~~~i~~~~~g~~~~---------------------~l~~lf~~a~~  269 (733)
T TIGR01243       215 VLLYGPPGTGKTLLAKAVANEAGAYF---ISIN-GPEIMSKYYGESEE---------------------RLREIFKEAEE  269 (733)
T ss_pred             EEEECCCCCChHHHHHHHHHHhCCeE---EEEe-cHHHhcccccHHHH---------------------HHHHHHHHHHh
Confidence            67999999999999999998765432   2222 1111100 000000                     11112222234


Q ss_pred             CCeEEEEEecCCChH-------------HHHHHhhccCCC-CCCCEEEE-EeCChh-hHHHh----cCCCcceEecCCCC
Q 001603           81 QKKVLLVIDDVADVE-------------QLQNLARKRDWF-GPGSKIVI-TTRDKQ-LLVAH----EVDEEHIYNLEVLS  140 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~-------------~~~~l~~~~~~~-~~gs~Iii-TTR~~~-~~~~~----~~~~~~~~~l~~L~  140 (1046)
                      ..+.+|+||+++...             ....+....... ..+..++| ||.... +....    ..+  ..+.+...+
T Consensus       270 ~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI~atn~~~~ld~al~r~gRfd--~~i~i~~P~  347 (733)
T TIGR01243       270 NAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVIGATNRPDALDPALRRPGRFD--REIVIRVPD  347 (733)
T ss_pred             cCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEEeecCChhhcCHHHhCchhcc--EEEEeCCcC
Confidence            566789999986421             122233222211 23344455 443322 11111    122  368888889


Q ss_pred             hHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchH
Q 001603          141 NDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLa  179 (1046)
                      .++..+++..+.-..... ++  .....+++.+.|.--|
T Consensus       348 ~~~R~~Il~~~~~~~~l~-~d--~~l~~la~~t~G~~ga  383 (733)
T TIGR01243       348 KRARKEILKVHTRNMPLA-ED--VDLDKLAEVTHGFVGA  383 (733)
T ss_pred             HHHHHHHHHHHhcCCCCc-cc--cCHHHHHHhCCCCCHH
Confidence            999888888654222111 11  1245677777776543

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.

>PRK04296 thymidine kinase; Provisional

Probab=96.55  E-value=0.0056  Score=62.07  Aligned_cols=111  Identities=18%  Similarity=0.131  Sum_probs=59.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccC-cccccccchHHHHHHhh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLAD-ISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~-~~~~~~~~~~~~i~~~L   79 (1046)
                      ++.|+|..|.||||+|..++.+...+-..+.++...  .....+     ...++++++.... .......+....+++ .
T Consensus         4 i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k~~--~d~~~~-----~~~i~~~lg~~~~~~~~~~~~~~~~~~~~-~   75 (190)
T PRK04296          4 LEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFKPA--IDDRYG-----EGKVVSRIGLSREAIPVSSDTDIFELIEE-E   75 (190)
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEecc--cccccc-----CCcEecCCCCcccceEeCChHHHHHHHHh-h
Confidence            467999999999999999888775543333333210  011111     1122333321100 001122233333333 2


Q ss_pred             cCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh
Q 001603           80 RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      .++.-+||+|.+.-.  +++.++...+.  ..|..||+|.++..
T Consensus        76 ~~~~dvviIDEaq~l~~~~v~~l~~~l~--~~g~~vi~tgl~~~  117 (190)
T PRK04296         76 GEKIDCVLIDEAQFLDKEQVVQLAEVLD--DLGIPVICYGLDTD  117 (190)
T ss_pred             CCCCCEEEEEccccCCHHHHHHHHHHHH--HcCCeEEEEecCcc
Confidence            335568999999653  44555544422  46889999999843

>PRK08118 topology modulation protein; Reviewed

Probab=96.54  E-value=0.002  Score=63.76  Aligned_cols=31  Identities=32%  Similarity=0.458  Sum_probs=24.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc---ccceeEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH---EFDGSTF   32 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~---~f~~~~~   32 (1046)
                      |.|+|++|+||||||+++++.+.-   +|+...|
T Consensus         4 I~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          4 IILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            789999999999999999997643   3454443

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=96.54  E-value=0.0028  Score=59.65  Aligned_cols=37  Identities=32%  Similarity=0.457  Sum_probs=28.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-cceeEEE-Eechh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFL-ANVRE   38 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~-~~~~~   38 (1046)
                      |+|.||+|+||||+++++.+.+++. |...-|+ .-+|+
T Consensus         8 i~ITG~PGvGKtTl~~ki~e~L~~~g~kvgGf~t~EVR~   46 (179)
T COG1618           8 IFITGRPGVGKTTLVLKIAEKLREKGYKVGGFITPEVRE   46 (179)
T ss_pred             EEEeCCCCccHHHHHHHHHHHHHhcCceeeeEEeeeeec
Confidence            7899999999999999999988776 6554443 33443

>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=96.54  E-value=0.0024  Score=61.31  Aligned_cols=22  Identities=45%  Similarity=0.492  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|+|++|+|||+||+.+++.+
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999999987

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.

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.47  E-value=0.014  Score=67.29  Aligned_cols=128  Identities=20%  Similarity=0.227  Sum_probs=71.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechh--hhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVRE--KSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~--~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      |..+|++|+|||++|+++++.-.-.|     +..-..  .+.-.+.-+...++++++.                     =
T Consensus       471 VLlyGPPGC~KT~lAkalAne~~~nF-----lsvkgpEL~sk~vGeSEr~ir~iF~kA---------------------R  524 (693)
T KOG0730|consen  471 VLLYGPPGCGKTLLAKALANEAGMNF-----LSVKGPELFSKYVGESERAIREVFRKA---------------------R  524 (693)
T ss_pred             EEEECCCCcchHHHHHHHhhhhcCCe-----eeccCHHHHHHhcCchHHHHHHHHHHH---------------------h
Confidence            67899999999999999999655543     331000  0000111112222222211                     1


Q ss_pred             cCCeEEEEEecCCChH-------------HHHHHhhccCCCCCCCEE-EE--EeCChhhHHHh----cCCCcceEecCCC
Q 001603           80 RQKKVLLVIDDVADVE-------------QLQNLARKRDWFGPGSKI-VI--TTRDKQLLVAH----EVDEEHIYNLEVL  139 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~~-------------~~~~l~~~~~~~~~gs~I-ii--TTR~~~~~~~~----~~~~~~~~~l~~L  139 (1046)
                      +--+.+|.||.+|...             .+..|+...+-......| ||  |-|...+-.+.    ..+.  ++-|+.-
T Consensus       525 ~~aP~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~--iiyVplP  602 (693)
T KOG0730|consen  525 QVAPCIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDR--IIYVPLP  602 (693)
T ss_pred             hcCCeEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccce--eEeecCc
Confidence            2345788888886531             244555555533333333 33  33443332222    1343  8888888


Q ss_pred             ChHHHHHHHHHhhcCCCC
Q 001603          140 SNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus       140 ~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +.+...++|+.++-+..-
T Consensus       603 D~~aR~~Ilk~~~kkmp~  620 (693)
T KOG0730|consen  603 DLEARLEILKQCAKKMPF  620 (693)
T ss_pred             cHHHHHHHHHHHHhcCCC
Confidence            889999999999865543

>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=96.47  E-value=0.0018  Score=62.20  Aligned_cols=34  Identities=29%  Similarity=0.253  Sum_probs=28.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ||.|.|.+|.||||||+++.+++.+.-..+.+++
T Consensus         4 vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    4 VIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            5889999999999999999999887766666665

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 ....

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=96.47  E-value=0.022  Score=69.09  Aligned_cols=129  Identities=14%  Similarity=0.158  Sum_probs=69.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.|+|++|+||||+|+.++......|-   .+. .          .++..... .         .........+......
T Consensus       188 ill~G~~G~GKt~~~~~~a~~~~~~f~---~is-~----------~~~~~~~~-g---------~~~~~~~~~f~~a~~~  243 (644)
T PRK10733        188 VLMVGPPGTGKTLLAKAIAGEAKVPFF---TIS-G----------SDFVEMFV-G---------VGASRVRDMFEQAKKA  243 (644)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCCCEE---EEe-h----------HHhHHhhh-c---------ccHHHHHHHHHHHHhc
Confidence            679999999999999999887654431   111 1          11111000 0         0001111122222335


Q ss_pred             CeEEEEEecCCChH----------------HHHHHhhccCCCC--CCCEEEEEeCChhhHHHhcC---CCcceEecCCCC
Q 001603           82 KKVLLVIDDVADVE----------------QLQNLARKRDWFG--PGSKIVITTRDKQLLVAHEV---DEEHIYNLEVLS  140 (1046)
Q Consensus        82 kr~LlVlDdv~~~~----------------~~~~l~~~~~~~~--~gs~IiiTTR~~~~~~~~~~---~~~~~~~l~~L~  140 (1046)
                      .+.+|+||++|...                .+..+......+.  .+.-+|.||...+.+...-.   .-.+.+.+...+
T Consensus       244 ~P~IifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd  323 (644)
T PRK10733        244 APCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD  323 (644)
T ss_pred             CCcEEEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCC
Confidence            67899999997641                1233333333222  23445556665543322111   112378899999


Q ss_pred             hHHHHHHHHHhhcC
Q 001603          141 NDEALQLFSMKAFK  154 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~  154 (1046)
                      .++..+++..+..+
T Consensus       324 ~~~R~~Il~~~~~~  337 (644)
T PRK10733        324 VRGREQILKVHMRR  337 (644)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999998887744

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.44  E-value=0.01  Score=60.73  Aligned_cols=108  Identities=17%  Similarity=0.217  Sum_probs=62.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE-echhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA-NVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +|.|+|+.|.||||+++++...+.......++.. +-.+... .. .    ..+..    ..... .+.....+.++..+
T Consensus         3 lilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~e~~~E~~~-~~-~----~~~i~----q~~vg-~~~~~~~~~i~~aL   71 (198)
T cd01131           3 LVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTIEDPIEFVH-ES-K----RSLIN----QREVG-LDTLSFENALKAAL   71 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEEcCCccccc-cC-c----cceee----ecccC-CCccCHHHHHHHHh
Confidence            4889999999999999998887765444444432 2111100 00 0    00000    00110 12234456777888


Q ss_pred             cCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhh
Q 001603           80 RQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQL  122 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~  122 (1046)
                      +..+=.+++|++.+.+.+.......   ..|..++.|+-....
T Consensus        72 r~~pd~ii~gEird~e~~~~~l~~a---~~G~~v~~t~Ha~~~  111 (198)
T cd01131          72 RQDPDVILVGEMRDLETIRLALTAA---ETGHLVMSTLHTNSA  111 (198)
T ss_pred             cCCcCEEEEcCCCCHHHHHHHHHHH---HcCCEEEEEecCCcH
Confidence            7778899999998887766544432   245567777665543

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.

>TIGR00602 rad24 checkpoint protein rad24

Probab=96.41  E-value=0.013  Score=69.75  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=21.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +++|+|++|+||||+++.++..+.
T Consensus       112 illL~GP~GsGKTTl~~~la~~l~  135 (637)
T TIGR00602       112 ILLITGPSGCGKSTTIKILSKELG  135 (637)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhh
Confidence            478999999999999999997553

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.40  E-value=0.013  Score=60.79  Aligned_cols=145  Identities=19%  Similarity=0.185  Sum_probs=77.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEec--hhhhcccCCHHHHHHHHHHHHhhcc------CcccccccchH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANV--REKSEKEGSVVSLQKQLLSDLLKLA------DISIWNVDDGI   72 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~~~~~~~~~~l~~~ll~~l~~~~------~~~~~~~~~~~   72 (1046)
                      ++||+|.+|+||||+|+.+..-..-. .+.+++..-  .... ... ..+...+++..++...      ......-+...
T Consensus        41 ~~glVGESG~GKSTlgr~i~~L~~pt-~G~i~f~g~~i~~~~-~~~-~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQR  117 (268)
T COG4608          41 TLGLVGESGCGKSTLGRLILGLEEPT-SGEILFEGKDITKLS-KEE-RRERVLELLEKVGLPEEFLYRYPHELSGGQRQR  117 (268)
T ss_pred             EEEEEecCCCCHHHHHHHHHcCcCCC-CceEEEcCcchhhcc-hhH-HHHHHHHHHHHhCCCHHHhhcCCcccCchhhhh
Confidence            47999999999999999999865543 334444321  1111 111 3344556666655211      11111222223


Q ss_pred             HHHHHhhcCCeEEEEEecCCCh------HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHH
Q 001603           73 NIIGSRLRQKKVLLVIDDVADV------EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQ  146 (1046)
Q Consensus        73 ~~i~~~L~~kr~LlVlDdv~~~------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~  146 (1046)
                      -.|.+.|.-++-++|.|.--..      .|.-.+...+. ...|-..+..|-|-.+.....-.....|.=+-.+...+.+
T Consensus       118 i~IARALal~P~liV~DEpvSaLDvSiqaqIlnLL~dlq-~~~~lt~lFIsHDL~vv~~isdri~VMy~G~iVE~g~~~~  196 (268)
T COG4608         118 IGIARALALNPKLIVADEPVSALDVSVQAQILNLLKDLQ-EELGLTYLFISHDLSVVRYISDRIAVMYLGKIVEIGPTEE  196 (268)
T ss_pred             HHHHHHHhhCCcEEEecCchhhcchhHHHHHHHHHHHHH-HHhCCeEEEEEEEHHhhhhhcccEEEEecCceeEecCHHH
Confidence            4577888889999999986432      33444444333 1245566667777666544332211123333334444555


Q ss_pred             HHH
Q 001603          147 LFS  149 (1046)
Q Consensus       147 Lf~  149 (1046)
                      +|.
T Consensus       197 ~~~  199 (268)
T COG4608         197 VFS  199 (268)
T ss_pred             Hhh
Confidence            554

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=96.39  E-value=0.016  Score=57.23  Aligned_cols=80  Identities=14%  Similarity=0.125  Sum_probs=47.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      ++.|.|.+|.|||++|.++...   ......++....    ..+  .++++.+..........  +...+....+.+.+.
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~---~~~~~~y~at~~----~~d--~em~~rI~~H~~~R~~~--w~t~E~~~~l~~~l~   69 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE---LGGPVTYIATAE----AFD--DEMAERIARHRKRRPAH--WRTIETPRDLVSALK   69 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh---cCCCeEEEEccC----cCC--HHHHHHHHHHHHhCCCC--ceEeecHHHHHHHHH
Confidence            5789999999999999988765   223456665221    122  24455544433222222  455555556666663


Q ss_pred             C--CeEEEEEecC
Q 001603           81 Q--KKVLLVIDDV   91 (1046)
Q Consensus        81 ~--kr~LlVlDdv   91 (1046)
                      .  +.-.+++|.+
T Consensus        70 ~~~~~~~VLIDcl   82 (169)
T cd00544          70 ELDPGDVVLIDCL   82 (169)
T ss_pred             hcCCCCEEEEEcH
Confidence            2  2337899997

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.

>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=96.38  E-value=0.022  Score=55.97  Aligned_cols=59  Identities=12%  Similarity=0.186  Sum_probs=34.6

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVL  139 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L  139 (1046)
                      +++=++||||++..  +....|+..+.....++++|++|++..-....-......+.++++
T Consensus       101 ~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~~il~TI~SRc~~i~~~~l  161 (162)
T PF13177_consen  101 GKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPSKILPTIRSRCQVIRFRPL  161 (162)
T ss_dssp             SSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GGGS-HHHHTTSEEEEE---
T ss_pred             CCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChHHChHHHHhhceEEecCCC
Confidence            45668899999864  445666666555567899998888776322222222235666655

...

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.36  E-value=0.034  Score=70.08  Aligned_cols=130  Identities=11%  Similarity=0.098  Sum_probs=66.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc------ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF------DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|++|+|||++|+.++.++...+      ...+|..++..          +...    .  ...   .+.......+
T Consensus       197 ~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l~~~~----------l~a~----~--~~~---g~~e~~l~~~  257 (852)
T TIGR03346       197 PVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLALDMGA----------LIAG----A--KYR---GEFEERLKAV  257 (852)
T ss_pred             eEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEeeHHH----------Hhhc----c--hhh---hhHHHHHHHH
Confidence            46899999999999999999875432      22233322111          1100    0  000   1111112222


Q ss_pred             HHhh--cCCeEEEEEecCCChH---------HHHHHhhccCCCCCC-CEEEEEeCChhhHHHhcC-----CCcceEecCC
Q 001603           76 GSRL--RQKKVLLVIDDVADVE---------QLQNLARKRDWFGPG-SKIVITTRDKQLLVAHEV-----DEEHIYNLEV  138 (1046)
Q Consensus        76 ~~~L--~~kr~LlVlDdv~~~~---------~~~~l~~~~~~~~~g-s~IiiTTR~~~~~~~~~~-----~~~~~~~l~~  138 (1046)
                      .+.+  .+++++|++|+++...         +...++.+..  ..| -++|-+|.....-.....     ..-..+.|..
T Consensus       258 l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l--~~g~i~~IgaTt~~e~r~~~~~d~al~rRf~~i~v~~  335 (852)
T TIGR03346       258 LNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPAL--ARGELHCIGATTLDEYRKYIEKDAALERRFQPVFVDE  335 (852)
T ss_pred             HHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhh--hcCceEEEEeCcHHHHHHHhhcCHHHHhcCCEEEeCC
Confidence            2222  2468999999997442         1222222221  233 345545544432111100     1113688999


Q ss_pred             CChHHHHHHHHHhh
Q 001603          139 LSNDEALQLFSMKA  152 (1046)
Q Consensus       139 L~~~ea~~Lf~~~a  152 (1046)
                      .+.++..+++....
T Consensus       336 p~~~~~~~iL~~~~  349 (852)
T TIGR03346       336 PTVEDTISILRGLK  349 (852)
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999887654

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.

>CHL00095 clpC Clp protease ATP binding subunit

Probab=96.33  E-value=0.029  Score=70.39  Aligned_cols=129  Identities=16%  Similarity=0.132  Sum_probs=65.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-c-----ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-F-----DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-f-----~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|++|+|||++|+.++.++... -     ...+|..+...          ++.        .... ..+..+....+
T Consensus       203 ~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~l~~~~----------l~a--------g~~~-~ge~e~rl~~i  263 (821)
T CHL00095        203 PILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVITLDIGL----------LLA--------GTKY-RGEFEERLKRI  263 (821)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEEeeHHH----------Hhc--------cCCC-ccHHHHHHHHH
Confidence            4699999999999999999877532 1     12344332211          110        0000 01111122222


Q ss_pred             HHhh-cCCeEEEEEecCCChH---------HHHHHhhccCCCCCC-CEEEEEeCChhhHHHhc-----CCCcceEecCCC
Q 001603           76 GSRL-RQKKVLLVIDDVADVE---------QLQNLARKRDWFGPG-SKIVITTRDKQLLVAHE-----VDEEHIYNLEVL  139 (1046)
Q Consensus        76 ~~~L-~~kr~LlVlDdv~~~~---------~~~~l~~~~~~~~~g-s~IiiTTR~~~~~~~~~-----~~~~~~~~l~~L  139 (1046)
                      .+.+ ..++++|++|+++..-         ....++.+..  ..| -++|.+|..........     ...-..++++..
T Consensus       264 ~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l--~rg~l~~IgaTt~~ey~~~ie~D~aL~rRf~~I~v~ep  341 (821)
T CHL00095        264 FDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPAL--ARGELQCIGATTLDEYRKHIEKDPALERRFQPVYVGEP  341 (821)
T ss_pred             HHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHH--hCCCcEEEEeCCHHHHHHHHhcCHHHHhcceEEecCCC
Confidence            2222 3568999999995321         1222222211  223 45565555544311111     111136889999


Q ss_pred             ChHHHHHHHHHh
Q 001603          140 SNDEALQLFSMK  151 (1046)
Q Consensus       140 ~~~ea~~Lf~~~  151 (1046)
                      +.++...+++..
T Consensus       342 ~~~e~~aILr~l  353 (821)
T CHL00095        342 SVEETIEILFGL  353 (821)
T ss_pred             CHHHHHHHHHHH
Confidence            999988887643

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.32  E-value=0.03  Score=55.81  Aligned_cols=24  Identities=29%  Similarity=0.133  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +.|.||+|+||||-+..+++.+-.
T Consensus        51 liisGpPG~GKTTsi~~LAr~LLG   74 (333)
T KOG0991|consen   51 LIISGPPGTGKTTSILCLARELLG   74 (333)
T ss_pred             eEeeCCCCCchhhHHHHHHHHHhC
Confidence            568999999999999998886543

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.24  E-value=0.034  Score=69.76  Aligned_cols=24  Identities=25%  Similarity=0.256  Sum_probs=21.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +.++|.+|+||||+|+.++.++..
T Consensus       202 ~lL~G~pGvGKT~l~~~la~~i~~  225 (857)
T PRK10865        202 PVLIGEPGVGKTAIVEGLAQRIIN  225 (857)
T ss_pred             eEEECCCCCCHHHHHHHHHHHhhc
Confidence            568999999999999999998754

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=96.21  E-value=0.033  Score=56.30  Aligned_cols=23  Identities=22%  Similarity=0.190  Sum_probs=21.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      ||.|+|++|+||||+|+.+++++
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~~   23 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVENF   23 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            68999999999999999998865

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.

>PRK07261 topology modulation protein; Provisional

Probab=96.20  E-value=0.016  Score=57.66  Aligned_cols=22  Identities=41%  Similarity=0.530  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |+|+|++|+||||||+++....
T Consensus         3 i~i~G~~GsGKSTla~~l~~~~   24 (171)
T PRK07261          3 IAIIGYSGSGKSTLARKLSQHY   24 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998754

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=96.13  E-value=0.013  Score=65.99  Aligned_cols=33  Identities=24%  Similarity=0.260  Sum_probs=25.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc--ccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH--EFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~--~f~~~~~~~   34 (1046)
                      |.++|++|+|||++|+++++.+..  .|..+.|+.
T Consensus       197 iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~Vt  231 (459)
T PRK11331        197 IILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQ  231 (459)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEe
Confidence            678999999999999999987754  344444544

>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=96.11  E-value=0.21  Score=55.72  Aligned_cols=58  Identities=17%  Similarity=0.261  Sum_probs=37.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc--cceeEEEEechhhhcccCCHHHHHHHHHHHHh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE--FDGSTFLANVREKSEKEGSVVSLQKQLLSDLL   58 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~--f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~   58 (1046)
                      +|||.|.=|.||||+.+.+.+.+...  -...+...+.+...........+..++..++.
T Consensus        22 ~IgL~G~WGsGKSs~l~~l~~~L~~~~~~~~~~i~fn~w~~~~~~~~~~~~~~~l~~~l~   81 (325)
T PF07693_consen   22 VIGLYGEWGSGKSSFLNMLKEELKEDNKEKYIFIYFNAWEYDGEDDLWASFLEELFDQLE   81 (325)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhcccccceeeEEEccccCCCcchHHHHHHHHHHHHHH
Confidence            58999999999999999999988776  22333333444444433334455555555443

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 [].

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.11  E-value=0.064  Score=67.34  Aligned_cols=24  Identities=25%  Similarity=0.409  Sum_probs=21.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +.++|+.|+|||++|+++++.+..
T Consensus       601 ~Lf~Gp~G~GKT~lA~aLa~~l~~  624 (857)
T PRK10865        601 FLFLGPTGVGKTELCKALANFMFD  624 (857)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhc
Confidence            679999999999999999986643

>TIGR00763 lon ATP-dependent protease La

Probab=96.10  E-value=0.027  Score=70.19  Aligned_cols=27  Identities=26%  Similarity=0.535  Sum_probs=23.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      ++.++|++|+|||++|+.+++.+...|
T Consensus       349 ~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       349 ILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            367899999999999999999876554

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.

>PRK06762 hypothetical protein; Provisional

Probab=96.09  E-value=0.031  Score=55.40  Aligned_cols=23  Identities=35%  Similarity=0.495  Sum_probs=21.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|.|+.|+||||+|+++.+.+
T Consensus         4 li~i~G~~GsGKST~A~~L~~~l   26 (166)
T PRK06762          4 LIIIRGNSGSGKTTIAKQLQERL   26 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=0.029  Score=58.86  Aligned_cols=34  Identities=18%  Similarity=0.376  Sum_probs=25.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH----ccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI----SHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~----~~~f~~~~~~~   34 (1046)
                      +|.+.|++|.|||+|.+++++++    .+.|.....+.
T Consensus       179 liLlhGPPGTGKTSLCKaLaQkLSIR~~~~y~~~~liE  216 (423)
T KOG0744|consen  179 LILLHGPPGTGKTSLCKALAQKLSIRTNDRYYKGQLIE  216 (423)
T ss_pred             EEEEeCCCCCChhHHHHHHHHhheeeecCccccceEEE
Confidence            47899999999999999999965    34455444443

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=96.04  E-value=0.04  Score=53.40  Aligned_cols=24  Identities=29%  Similarity=0.476  Sum_probs=22.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      ||.|+|.+|.||||+|+.+...+.
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~l~   24 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEKLF   24 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHH
Confidence            689999999999999999998764

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>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=95.98  E-value=0.0086  Score=57.69  Aligned_cols=24  Identities=29%  Similarity=0.400  Sum_probs=20.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|.++|++|+||||+|+.+.....
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~~~   24 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKRLG   24 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHST
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCC
Confidence            588999999999999999987543

...

>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=95.97  E-value=0.021  Score=58.01  Aligned_cols=34  Identities=18%  Similarity=0.224  Sum_probs=25.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ||.++|+.|+||||.+.+++.+.+.+-..+.++.
T Consensus         3 vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis   36 (196)
T PF00448_consen    3 VIALVGPTGVGKTTTIAKLAARLKLKGKKVALIS   36 (196)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEE
T ss_pred             EEEEECCCCCchHhHHHHHHHHHhhccccceeec
Confidence            5899999999999999888886665533344444

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 ....

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.94  E-value=0.047  Score=62.16  Aligned_cols=25  Identities=28%  Similarity=0.302  Sum_probs=21.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |.++|++|+|||.||++++.+..--
T Consensus       226 vLlHGPPGCGKT~lA~AiAgel~vP  250 (802)
T KOG0733|consen  226 VLLHGPPGCGKTSLANAIAGELGVP  250 (802)
T ss_pred             eeeeCCCCccHHHHHHHHhhhcCCc
Confidence            5789999999999999999876543

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=95.90  E-value=0.035  Score=64.73  Aligned_cols=136  Identities=21%  Similarity=0.282  Sum_probs=73.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccc-cccchHHHHHHhh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIW-NVDDGINIIGSRL   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~-~~~~~~~~i~~~L   79 (1046)
                      +++++|++|||||+|++.+++.+...|-. +-+-.+|+.++-.|               .....+. -+...++.+++ .
T Consensus       352 ILcLVGPPGVGKTSLgkSIA~al~RkfvR-~sLGGvrDEAEIRG---------------HRRTYIGamPGrIiQ~mkk-a  414 (782)
T COG0466         352 ILCLVGPPGVGKTSLGKSIAKALGRKFVR-ISLGGVRDEAEIRG---------------HRRTYIGAMPGKIIQGMKK-A  414 (782)
T ss_pred             EEEEECCCCCCchhHHHHHHHHhCCCEEE-EecCccccHHHhcc---------------ccccccccCChHHHHHHHH-h
Confidence            57899999999999999999988877652 22333444332211               0000000 11122222222 2


Q ss_pred             cCCeEEEEEecCCChH---------H-HHHHhhccC-CCC--------CCCEE-EEEeCChhh-HHHhcCCCcceEecCC
Q 001603           80 RQKKVLLVIDDVADVE---------Q-LQNLARKRD-WFG--------PGSKI-VITTRDKQL-LVAHEVDEEHIYNLEV  138 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~~---------~-~~~l~~~~~-~~~--------~gs~I-iiTTR~~~~-~~~~~~~~~~~~~l~~  138 (1046)
                      +.+.=+++||.+|...         . ++-|-+..+ .|.        -=|.| .|||-+.-- ....-.+.-.++++.+
T Consensus       415 ~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANsl~tIP~PLlDRMEiI~lsg  494 (782)
T COG0466         415 GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANSLDTIPAPLLDRMEVIRLSG  494 (782)
T ss_pred             CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCccccCChHHhcceeeeeecC
Confidence            4567799999998631         1 222222111 010        12444 466655321 1111122223899999


Q ss_pred             CChHHHHHHHHHhhc
Q 001603          139 LSNDEALQLFSMKAF  153 (1046)
Q Consensus       139 L~~~ea~~Lf~~~a~  153 (1046)
                      .+++|-.+.-.++..
T Consensus       495 Yt~~EKl~IAk~~Li  509 (782)
T COG0466         495 YTEDEKLEIAKRHLI  509 (782)
T ss_pred             CChHHHHHHHHHhcc
Confidence            999998888777753

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.86  E-value=0.037  Score=53.83  Aligned_cols=55  Identities=15%  Similarity=0.221  Sum_probs=37.4

Q ss_pred             hHHHHHHhhcCCeEEEEEec----CCChHHHH--HHhhccCCCCCCCEEEEEeCChhhHHHhc
Q 001603           71 GINIIGSRLRQKKVLLVIDD----VADVEQLQ--NLARKRDWFGPGSKIVITTRDKQLLVAHE  127 (1046)
Q Consensus        71 ~~~~i~~~L~~kr~LlVlDd----v~~~~~~~--~l~~~~~~~~~gs~IiiTTR~~~~~~~~~  127 (1046)
                      ..-.|.+.+-+++-+++-|.    +|....|+  .+...++  ..|..|||+|-+.++...+.
T Consensus       144 QRvaIARAiV~~P~vLlADEPTGNLDp~~s~~im~lfeein--r~GtTVl~ATHd~~lv~~~~  204 (223)
T COG2884         144 QRVAIARAIVNQPAVLLADEPTGNLDPDLSWEIMRLFEEIN--RLGTTVLMATHDLELVNRMR  204 (223)
T ss_pred             HHHHHHHHHccCCCeEeecCCCCCCChHHHHHHHHHHHHHh--hcCcEEEEEeccHHHHHhcc
Confidence            34457777788999999886    44443343  2333333  57999999999998876653

>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=95.85  E-value=0.043  Score=54.81  Aligned_cols=26  Identities=27%  Similarity=0.355  Sum_probs=22.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      ++.+.|++|+||||+++.++..+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~~~~~   27 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALYLKKK   27 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            57899999999999999999877654

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.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=95.85  E-value=0.054  Score=62.41  Aligned_cols=95  Identities=13%  Similarity=0.107  Sum_probs=63.4

Q ss_pred             CCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCC
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQP  158 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~  158 (1046)
                      +|.=+.|+|+|.-.  ..+..|+..+....+.-.-|..|++.+-...........|.++.++.++-...+...+-+..-.
T Consensus       118 ~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~TIlSRcq~f~fkri~~~~I~~~L~~i~~~E~I~  197 (515)
T COG2812         118 GRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPNTILSRCQRFDFKRLDLEEIAKHLAAILDKEGIN  197 (515)
T ss_pred             ccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCchhhhhccccccccCCCHHHHHHHHHHHHHhcCCc
Confidence            56668889999754  5688888777655666666666666654333333444589999999998888888777544432


Q ss_pred             CchHHHHHHHHHHHhCCCc
Q 001603          159 MGEYVELSKRVLKYAGGLP  177 (1046)
Q Consensus       159 ~~~~~~~~~~i~~~~~GlP  177 (1046)
                        ...+....|++..+|..
T Consensus       198 --~e~~aL~~ia~~a~Gs~  214 (515)
T COG2812         198 --IEEDALSLIARAAEGSL  214 (515)
T ss_pred             --cCHHHHHHHHHHcCCCh
Confidence              22355666777777744

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=95.82  E-value=0.042  Score=55.76  Aligned_cols=91  Identities=22%  Similarity=0.406  Sum_probs=54.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L--   79 (1046)
                      |.++|++|.|||-+|++|+++-     ..+|+..+...         +.+              .-+.++.+++++.+  
T Consensus       214 vllygppgtgktl~aravanrt-----dacfirvigse---------lvq--------------kyvgegarmvrelf~m  265 (435)
T KOG0729|consen  214 VLLYGPPGTGKTLCARAVANRT-----DACFIRVIGSE---------LVQ--------------KYVGEGARMVRELFEM  265 (435)
T ss_pred             eEEeCCCCCchhHHHHHHhccc-----CceEEeehhHH---------HHH--------------HHhhhhHHHHHHHHHH
Confidence            5789999999999999999863     35777654321         111              11223444444443  


Q ss_pred             -c-CCeEEEEEecCCCh--------------H--HHHHHhhccCCCCCC--CEEEEEeCCh
Q 001603           80 -R-QKKVLLVIDDVADV--------------E--QLQNLARKRDWFGPG--SKIVITTRDK  120 (1046)
Q Consensus        80 -~-~kr~LlVlDdv~~~--------------~--~~~~l~~~~~~~~~g--s~IiiTTR~~  120 (1046)
                       + .|.++|.+|.++..              .  ..-++...+.-|.+.  -+|++.|.-.
T Consensus       266 artkkaciiffdeidaiggarfddg~ggdnevqrtmleli~qldgfdprgnikvlmatnrp  326 (435)
T KOG0729|consen  266 ARTKKACIIFFDEIDAIGGARFDDGAGGDNEVQRTMLELINQLDGFDPRGNIKVLMATNRP  326 (435)
T ss_pred             hcccceEEEEeeccccccCccccCCCCCcHHHHHHHHHHHHhccCCCCCCCeEEEeecCCC
Confidence             3 57789999998531              1  133445555544443  4677666443

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=95.82  E-value=0.011  Score=61.11  Aligned_cols=34  Identities=18%  Similarity=0.273  Sum_probs=28.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|+|++|+|||++|.+++.....+-..++|++
T Consensus        14 i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~   47 (209)
T TIGR02237        14 ITQIYGPPGSGKTNICMILAVNAARQGKKVVYID   47 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEE
Confidence            4789999999999999998876655556678877

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.81  E-value=0.037  Score=67.75  Aligned_cols=130  Identities=18%  Similarity=0.195  Sum_probs=66.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc------ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF------DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|++|+|||++|+.+++++...-      +..+|..+          ...+    +..    .. ...+.......+
T Consensus       210 ~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l~----------~~~l----laG----~~-~~Ge~e~rl~~l  270 (758)
T PRK11034        210 PLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLD----------IGSL----LAG----TK-YRGDFEKRFKAL  270 (758)
T ss_pred             eEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEecc----------HHHH----hcc----cc-hhhhHHHHHHHH
Confidence            56899999999999999998763321      12222111          1111    100    00 001222222223


Q ss_pred             HHhh-cCCeEEEEEecCCCh----------HHHHHHhhccCCCCCC-CEEEEEeCChhhHHHhcC-----CCcceEecCC
Q 001603           76 GSRL-RQKKVLLVIDDVADV----------EQLQNLARKRDWFGPG-SKIVITTRDKQLLVAHEV-----DEEHIYNLEV  138 (1046)
Q Consensus        76 ~~~L-~~kr~LlVlDdv~~~----------~~~~~l~~~~~~~~~g-s~IiiTTR~~~~~~~~~~-----~~~~~~~l~~  138 (1046)
                      .+.+ +.++.+|+||+++..          .+...+..+..  ..| -+||-+|...........     ..-..++|+.
T Consensus       271 ~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L--~~g~i~vIgATt~~E~~~~~~~D~AL~rRFq~I~v~e  348 (758)
T PRK11034        271 LKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLL--SSGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDITE  348 (758)
T ss_pred             HHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHH--hCCCeEEEecCChHHHHHHhhccHHHHhhCcEEEeCC
Confidence            2323 346789999999743          12222222221  233 344544443332111000     1113799999


Q ss_pred             CChHHHHHHHHHhh
Q 001603          139 LSNDEALQLFSMKA  152 (1046)
Q Consensus       139 L~~~ea~~Lf~~~a  152 (1046)
                      ++.+++.+++....
T Consensus       349 Ps~~~~~~IL~~~~  362 (758)
T PRK11034        349 PSIEETVQIINGLK  362 (758)
T ss_pred             CCHHHHHHHHHHHH
Confidence            99999999988654

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.77  E-value=0.0064  Score=62.21  Aligned_cols=85  Identities=24%  Similarity=0.262  Sum_probs=50.4

Q ss_pred             cCCCCCEEecCCC--CCCCccCCccCCCCCCCEEeccCCCCCC-CcCcccCCCCCCceeeccCccccCCC----cchhhc
Q 001603          603 LLTGLQLLNLNNC--SNLVRLPSCINGLRSLKTLNLSGCSKLQ-NVPETLGQVESLEELDISGTAIRRPP----SSIFVM  675 (1046)
Q Consensus       603 ~l~~L~~L~L~~~--~~~~~l~~~~~~l~~L~~L~Ls~c~~l~-~~~~~~~~l~~L~~L~Ls~n~l~~~p----~~~~~l  675 (1046)
                      .+++|+.|.++.|  .....++.....+|+|++|++++|.+-. .--..+..+++|..|++.+|..+.+.    ..+.-+
T Consensus        63 ~Lp~LkkL~lsdn~~~~~~~l~vl~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~Ldl~n~~~~~l~dyre~vf~ll  142 (260)
T KOG2739|consen   63 KLPKLKKLELSDNYRRVSGGLEVLAEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKSLDLFNCSVTNLDDYREKVFLLL  142 (260)
T ss_pred             CcchhhhhcccCCcccccccceehhhhCCceeEEeecCCccccccccchhhhhcchhhhhcccCCccccccHHHHHHHHh
Confidence            4566777777766  4444455555555777777777765442 11122345667777777777766652    234456


Q ss_pred             cCCceeecCCCC
Q 001603          676 NNLKTLSFSGCN  687 (1046)
Q Consensus       676 ~~L~~L~L~~~~  687 (1046)
                      ++|++|+-....
T Consensus       143 ~~L~~LD~~dv~  154 (260)
T KOG2739|consen  143 PSLKYLDGCDVD  154 (260)
T ss_pred             hhhccccccccC
Confidence            777777655544

>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=95.77  E-value=0.008  Score=56.61  Aligned_cols=22  Identities=41%  Similarity=0.644  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |+|.|+.|+||||+|+++.+++
T Consensus         1 I~i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHH
Confidence            7899999999999999999875

...

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=95.75  E-value=0.014  Score=61.25  Aligned_cols=34  Identities=18%  Similarity=0.212  Sum_probs=27.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|+|.+|+|||++|.+++......-..++|+.
T Consensus        25 i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~   58 (225)
T PRK09361         25 ITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYID   58 (225)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            4689999999999999998876655556677776

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.75  E-value=0.0074  Score=61.59  Aligned_cols=26  Identities=38%  Similarity=0.616  Sum_probs=23.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      ||||.|.+|.||||+|+++...+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~L~~~   26 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQILNKR   26 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHhCcc
Confidence            69999999999999999999988654

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 ....

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.63  E-value=0.085  Score=53.69  Aligned_cols=144  Identities=19%  Similarity=0.253  Sum_probs=80.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L--   79 (1046)
                      |..+|++|.|||-+|++++++..--     ++.. .        ..++.    .          ..+.++.++|++..  
T Consensus       154 VLFyGppGTGKTm~Akalane~kvp-----~l~v-k--------at~li----G----------ehVGdgar~Ihely~r  205 (368)
T COG1223         154 VLFYGPPGTGKTMMAKALANEAKVP-----LLLV-K--------ATELI----G----------EHVGDGARRIHELYER  205 (368)
T ss_pred             eEEECCCCccHHHHHHHHhcccCCc-----eEEe-c--------hHHHH----H----------HHhhhHHHHHHHHHHH
Confidence            5679999999999999999865432     2221 0        01111    1          11122333333322  


Q ss_pred             --cCCeEEEEEecCCCh--------------HHHHHHhhccCCC--CCCCEEEEEeCChhhHHH-hcCCCcceEecCCCC
Q 001603           80 --RQKKVLLVIDDVADV--------------EQLQNLARKRDWF--GPGSKIVITTRDKQLLVA-HEVDEEHIYNLEVLS  140 (1046)
Q Consensus        80 --~~kr~LlVlDdv~~~--------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~-~~~~~~~~~~l~~L~  140 (1046)
                        +.-++++.+|.+|..              +...+|+..++-.  +.|..-|-.|....++.. ....-..-++..--+
T Consensus       206 A~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p~~LD~aiRsRFEeEIEF~LP~  285 (368)
T COG1223         206 ARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRPELLDPAIRSRFEEEIEFKLPN  285 (368)
T ss_pred             HHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCChhhcCHHHHhhhhheeeeeCCC
Confidence              357899999998753              2244555554422  345444555555444332 111112368888889


Q ss_pred             hHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCC
Q 001603          141 NDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGL  176 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~Gl  176 (1046)
                      ++|-.+++..++-.-.-+.+..   .+.++.+.+|.
T Consensus       286 ~eEr~~ile~y~k~~Plpv~~~---~~~~~~~t~g~  318 (368)
T COG1223         286 DEERLEILEYYAKKFPLPVDAD---LRYLAAKTKGM  318 (368)
T ss_pred             hHHHHHHHHHHHHhCCCccccC---HHHHHHHhCCC
Confidence            9999999999985544332221   34455555553

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=95.61  E-value=0.038  Score=53.81  Aligned_cols=88  Identities=24%  Similarity=0.322  Sum_probs=44.4

Q ss_pred             EEcCCCCcHHHHHHHHHHHHccccceeEEEE---echhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            4 IWGMGGLGKTTLARVAYDLISHEFDGSTFLA---NVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         4 I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~---~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      |.|++|.||||+|+.+++++.  |   ..++   -+++......   .+.+++ .+.......  ...+.....++.++.
T Consensus         1 i~G~PgsGK~t~~~~la~~~~--~---~~is~~~llr~~~~~~s---~~g~~i-~~~l~~g~~--vp~~~v~~ll~~~l~   69 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKRYG--L---VHISVGDLLREEIKSDS---ELGKQI-QEYLDNGEL--VPDELVIELLKERLE   69 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHHHT--S---EEEEHHHHHHHHHHTTS---HHHHHH-HHHHHTTSS----HHHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHhcC--c---ceechHHHHHHHHhhhh---HHHHHH-HHHHHhhcc--chHHHHHHHHHHHHh
Confidence            789999999999999998752  2   3333   1122211111   111122 111111111  223344555666654


Q ss_pred             C--CeEEEEEecCC-ChHHHHHHhh
Q 001603           81 Q--KKVLLVIDDVA-DVEQLQNLAR  102 (1046)
Q Consensus        81 ~--kr~LlVlDdv~-~~~~~~~l~~  102 (1046)
                      .  ..--+|||++= +.+|.+.+..
T Consensus        70 ~~~~~~g~ildGfPrt~~Qa~~l~~   94 (151)
T PF00406_consen   70 QPPCNRGFILDGFPRTLEQAEALEE   94 (151)
T ss_dssp             SGGTTTEEEEESB-SSHHHHHHHHH
T ss_pred             hhcccceeeeeeccccHHHHHHHHH
Confidence            2  24557899994 4566665544

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>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=95.60  E-value=0.037  Score=53.24  Aligned_cols=98  Identities=17%  Similarity=0.259  Sum_probs=54.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      +++|.|..|.|||||++.+...... ..+.+++...+...-    +.+        +        .......-.+.+.+.
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~~~~~i~~----~~~--------l--------S~G~~~rv~laral~   86 (144)
T cd03221          28 RIGLVGRNGAGKSTLLKLIAGELEP-DEGIVTWGSTVKIGY----FEQ--------L--------SGGEKMRLALAKLLL   86 (144)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCCCC-CceEEEECCeEEEEE----Ecc--------C--------CHHHHHHHHHHHHHh
Confidence            4799999999999999999875432 344555542111100    000        0        111112223455555


Q ss_pred             CCeEEEEEecCCC---h---HHHHHHhhccCCCCCCCEEEEEeCChhhHH
Q 001603           81 QKKVLLVIDDVAD---V---EQLQNLARKRDWFGPGSKIVITTRDKQLLV  124 (1046)
Q Consensus        81 ~kr~LlVlDdv~~---~---~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~  124 (1046)
                      .++=++++|+-..   .   +.+.++....     +..||++|.+.....
T Consensus        87 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~-----~~til~~th~~~~~~  131 (144)
T cd03221          87 ENPNLLLLDEPTNHLDLESIEALEEALKEY-----PGTVILVSHDRYFLD  131 (144)
T ss_pred             cCCCEEEEeCCccCCCHHHHHHHHHHHHHc-----CCEEEEEECCHHHHH
Confidence            6677889998742   2   2333333332     246888888766543

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.

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=95.60  E-value=0.031  Score=63.49  Aligned_cols=90  Identities=22%  Similarity=0.279  Sum_probs=50.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---cccc--------c
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVD--------D   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~--------~   70 (1046)
                      ++|.|.+|+|||||+..+......+...++.+.-+.+   +...+.++.++++..-.......+   .+..        .
T Consensus       147 ~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liGE---R~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~  223 (463)
T PRK09280        147 IGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGE---RTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVAL  223 (463)
T ss_pred             EEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEecc---CcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            6899999999999999888766544333333333433   222255555555543110000000   0110        1


Q ss_pred             hHHHHHHhh---cCCeEEEEEecCCCh
Q 001603           71 GINIIGSRL---RQKKVLLVIDDVADV   94 (1046)
Q Consensus        71 ~~~~i~~~L---~~kr~LlVlDdv~~~   94 (1046)
                      ....+.+++   +++.|||++||+-..
T Consensus       224 ~a~tiAEyfrd~~G~~VLll~DslTR~  250 (463)
T PRK09280        224 TGLTMAEYFRDVEGQDVLLFIDNIFRF  250 (463)
T ss_pred             HHHHHHHHHHHhcCCceEEEecchHHH
Confidence            122355666   679999999998543

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.58  E-value=0.085  Score=58.70  Aligned_cols=27  Identities=26%  Similarity=0.333  Sum_probs=22.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      +|+++|+.|+||||++.+++.....++
T Consensus       139 ii~lvGptGvGKTTtiakLA~~~~~~~  165 (374)
T PRK14722        139 VFALMGPTGVGKTTTTAKLAARCVMRF  165 (374)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            578999999999999999998754433

>PRK05800 cobU adenosylcobinamide kinase/adenosylcobinamide-phosphate guanylyltransferase; Validated

Probab=95.57  E-value=0.017  Score=57.08  Aligned_cols=79  Identities=10%  Similarity=0.109  Sum_probs=43.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccccccc----chHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVD----DGINIIG   76 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~----~~~~~i~   76 (1046)
                      +|.|.|.+|.||||+|..+......   ...++...     ... -.+.++.+..........  +..-    .....+.
T Consensus         3 ~ili~G~~~sGKS~~a~~l~~~~~~---~~~~iat~-----~~~-~~e~~~ri~~h~~~R~~~--w~t~E~~~~l~~~i~   71 (170)
T PRK05800          3 LILVTGGARSGKSRFAERLAAQSGL---QVLYIATA-----QPF-DDEMAARIAHHRQRRPAH--WQTVEEPLDLAELLR   71 (170)
T ss_pred             EEEEECCCCccHHHHHHHHHHHcCC---CcEeCcCC-----CCC-hHHHHHHHHHHHhcCCCC--CeEecccccHHHHHH
Confidence            4789999999999999998876432   23444311     111 345555655544422221  2211    2233333


Q ss_pred             HhhcCCeEEEEEecC
Q 001603           77 SRLRQKKVLLVIDDV   91 (1046)
Q Consensus        77 ~~L~~kr~LlVlDdv   91 (1046)
                      ....+ .-++|+|.+
T Consensus        72 ~~~~~-~~~VlID~L   85 (170)
T PRK05800         72 ADAAP-GRCVLVDCL   85 (170)
T ss_pred             hhcCC-CCEEEehhH
Confidence            32332 336888987

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=95.55  E-value=0.073  Score=56.73  Aligned_cols=26  Identities=23%  Similarity=0.457  Sum_probs=22.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|.++|++|+||||+|+++.+.+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~l~~~   26 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKKLSEK   26 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            58999999999999999999877543

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.

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.55  E-value=0.079  Score=59.37  Aligned_cols=123  Identities=21%  Similarity=0.185  Sum_probs=70.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L--   79 (1046)
                      |.++|++|.|||-|||+++-+..-.    +|...-.+.       .+                 .-+..+.+.+++.+  
T Consensus       340 VLLvGPPGTGKTlLARAvAGEA~VP----FF~~sGSEF-------dE-----------------m~VGvGArRVRdLF~a  391 (752)
T KOG0734|consen  340 VLLVGPPGTGKTLLARAVAGEAGVP----FFYASGSEF-------DE-----------------MFVGVGARRVRDLFAA  391 (752)
T ss_pred             eEEeCCCCCchhHHHHHhhcccCCC----eEeccccch-------hh-----------------hhhcccHHHHHHHHHH
Confidence            6789999999999999998753222    232211111       00                 11223444455444  


Q ss_pred             --cCCeEEEEEecCCCh-------------HHHHHHhhccCCCCCCCEE--EEEeCChh-hHHHh----cCCCcceEecC
Q 001603           80 --RQKKVLLVIDDVADV-------------EQLQNLARKRDWFGPGSKI--VITTRDKQ-LLVAH----EVDEEHIYNLE  137 (1046)
Q Consensus        80 --~~kr~LlVlDdv~~~-------------~~~~~l~~~~~~~~~gs~I--iiTTR~~~-~~~~~----~~~~~~~~~l~  137 (1046)
                        +.-+++|.+|.+|..             ..+..++...+-|.+..-|  |-.|...+ +-.+.    ..+.  .+.|.
T Consensus       392 Ak~~APcIIFIDEiDavG~kR~~~~~~y~kqTlNQLLvEmDGF~qNeGiIvigATNfpe~LD~AL~RPGRFD~--~v~Vp  469 (752)
T KOG0734|consen  392 AKARAPCIIFIDEIDAVGGKRNPSDQHYAKQTLNQLLVEMDGFKQNEGIIVIGATNFPEALDKALTRPGRFDR--HVTVP  469 (752)
T ss_pred             HHhcCCeEEEEechhhhcccCCccHHHHHHHHHHHHHHHhcCcCcCCceEEEeccCChhhhhHHhcCCCccce--eEecC
Confidence              357899999999753             1255666666655544333  33343333 32222    1233  67777


Q ss_pred             CCChHHHHHHHHHhhcC
Q 001603          138 VLSNDEALQLFSMKAFK  154 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a~~  154 (1046)
                      .-+..--.++|.++.-+
T Consensus       470 ~PDv~GR~eIL~~yl~k  486 (752)
T KOG0734|consen  470 LPDVRGRTEILKLYLSK  486 (752)
T ss_pred             CCCcccHHHHHHHHHhc
Confidence            77777777777777644

>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=95.54  E-value=0.013  Score=48.07  Aligned_cols=23  Identities=30%  Similarity=0.486  Sum_probs=21.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|.|..|.||||+|+++.+.+
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999999876

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.

>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=95.53  E-value=0.046  Score=54.14  Aligned_cols=23  Identities=35%  Similarity=0.368  Sum_probs=20.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|+|..|.|||||++.+...+
T Consensus        29 ~~~i~G~nGsGKSTLl~~l~G~~   51 (166)
T cd03223          29 RLLITGPSGTGKSSLFRALAGLW   51 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47999999999999999998754

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

>KOG0651 consensus 26S proteasome regulatory complex, ATPase RPT4 [Posttranslational modification, protein turnover, chaperones]

Probab=95.53  E-value=0.063  Score=56.19  Aligned_cols=26  Identities=31%  Similarity=0.386  Sum_probs=22.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      .++|||+.|.|||-+|++|+..+--.
T Consensus       168 g~ll~GppGtGKTlla~~Vaa~mg~n  193 (388)
T KOG0651|consen  168 GLLLYGPPGTGKTLLARAVAATMGVN  193 (388)
T ss_pred             eeEEeCCCCCchhHHHHHHHHhcCCc
Confidence            37899999999999999999876554

>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=95.52  E-value=0.044  Score=54.54  Aligned_cols=20  Identities=30%  Similarity=0.511  Sum_probs=18.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAY   20 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~   20 (1046)
                      +|+|+|+.|+|||||.+.+.
T Consensus        23 ~~~l~G~nG~GKSTLl~~il   42 (176)
T cd03238          23 LVVVTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EEEEECCCCCCHHHHHHHHh
Confidence            48999999999999999885

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.

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=95.50  E-value=0.12  Score=64.14  Aligned_cols=23  Identities=30%  Similarity=0.397  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +.++|+.|+|||+||+.+++.+.
T Consensus       487 ~lf~Gp~GvGKT~lA~~la~~l~  509 (731)
T TIGR02639       487 FLFTGPTGVGKTELAKQLAEALG  509 (731)
T ss_pred             EEEECCCCccHHHHHHHHHHHhc
Confidence            56899999999999999998773

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=95.50  E-value=0.12  Score=61.77  Aligned_cols=147  Identities=20%  Similarity=0.271  Sum_probs=87.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L--   79 (1046)
                      |-++|++|+|||-||++++-+..     +=|+.....         +    +.+.+.          ..+...+++.+  
T Consensus       347 vLL~GPPGTGKTLLAKAiAGEAg-----VPF~svSGS---------E----FvE~~~----------g~~asrvr~lf~~  398 (774)
T KOG0731|consen  347 VLLVGPPGTGKTLLAKAIAGEAG-----VPFFSVSGS---------E----FVEMFV----------GVGASRVRDLFPL  398 (774)
T ss_pred             eEEECCCCCcHHHHHHHHhcccC-----CceeeechH---------H----HHHHhc----------ccchHHHHHHHHH
Confidence            56899999999999999987532     234442111         1    111110          01122233322  


Q ss_pred             --cCCeEEEEEecCCCh-----------------HHHHHHhhccCCCCCCC-EEEE-EeCChhhHHHh-----cCCCcce
Q 001603           80 --RQKKVLLVIDDVADV-----------------EQLQNLARKRDWFGPGS-KIVI-TTRDKQLLVAH-----EVDEEHI  133 (1046)
Q Consensus        80 --~~kr~LlVlDdv~~~-----------------~~~~~l~~~~~~~~~gs-~Iii-TTR~~~~~~~~-----~~~~~~~  133 (1046)
                        ...+.+|.+|++|..                 ..+.++....+-+.... .|++ +|+..+++...     .++.  .
T Consensus       399 ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi~~a~tnr~d~ld~allrpGRfdr--~  476 (774)
T KOG0731|consen  399 ARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVIVLAATNRPDILDPALLRPGRFDR--Q  476 (774)
T ss_pred             hhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEEEEeccCCccccCHHhcCCCcccc--c
Confidence              356788898988642                 12666666666555444 3333 44433333221     2344  7


Q ss_pred             EecCCCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHH
Q 001603          134 YNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       134 ~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      +.++.-+..+..++|.-++-+.... .+..++++ ++...-|.+=|-
T Consensus       477 i~i~~p~~~~r~~i~~~h~~~~~~~-~e~~dl~~-~a~~t~gf~gad  521 (774)
T KOG0731|consen  477 IQIDLPDVKGRASILKVHLRKKKLD-DEDVDLSK-LASLTPGFSGAD  521 (774)
T ss_pred             eeccCCchhhhHHHHHHHhhccCCC-cchhhHHH-HHhcCCCCcHHH
Confidence            8999999999999999998655543 34445666 888998888664

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=95.49  E-value=0.1  Score=52.68  Aligned_cols=91  Identities=19%  Similarity=0.343  Sum_probs=53.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.+||.-|.||++|++++.+.+.++.-.  .+..-++.      +..                   .....+.++.  ..
T Consensus        88 VLLwGaRGtGKSSLVKA~~~e~~~~glr--LVEV~k~d------l~~-------------------Lp~l~~~Lr~--~~  138 (287)
T COG2607          88 VLLWGARGTGKSSLVKALLNEYADEGLR--LVEVDKED------LAT-------------------LPDLVELLRA--RP  138 (287)
T ss_pred             eEEecCCCCChHHHHHHHHHHHHhcCCe--EEEEcHHH------Hhh-------------------HHHHHHHHhc--CC
Confidence            6799999999999999999988876543  33311110      111                   1111122222  46


Q ss_pred             CeEEEEEecCC--C-hHHHHHHhhcc---CCCCCCCEEEEEeCChh
Q 001603           82 KKVLLVIDDVA--D-VEQLQNLARKR---DWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        82 kr~LlVlDdv~--~-~~~~~~l~~~~---~~~~~gs~IiiTTR~~~  121 (1046)
                      +||+|..||..  + .+....+...+   ....|...++..|.++.
T Consensus       139 ~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNRR  184 (287)
T COG2607         139 EKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNRR  184 (287)
T ss_pred             ceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCCc
Confidence            89999999983  2 23344443333   23345566676666653

>PTZ00088 adenylate kinase 1; Provisional

Probab=95.45  E-value=0.036  Score=57.70  Aligned_cols=92  Identities=14%  Similarity=0.227  Sum_probs=47.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.|.|++|+||||+|+.+++++.  +....-=.-+++.......+....+.++.+    ...  ...+.....+.+.+..
T Consensus         9 Ivl~G~PGsGK~T~a~~La~~~g--~~~is~gdllr~~~~~~t~lg~~i~~~~~~----G~l--vpd~iv~~lv~~~l~~   80 (229)
T PTZ00088          9 IVLFGAPGVGKGTFAEILSKKEN--LKHINMGNILREEIKAKTTIGKEIQKVVTS----GNL--VPDNLVIAIVKDEIAK   80 (229)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC--CcEEECChHHHHHhhcCChHHHHHHHHHHc----CCc--CCHHHHHHHHHHHHHh
Confidence            78999999999999999988652  222211111222221111122222222221    111  2222344455555533


Q ss_pred             ----CeEEEEEecC-CChHHHHHHh
Q 001603           82 ----KKVLLVIDDV-ADVEQLQNLA  101 (1046)
Q Consensus        82 ----kr~LlVlDdv-~~~~~~~~l~  101 (1046)
                          ...-+|||+. .+..|.+.+.
T Consensus        81 ~~~~~~~g~iLDGfPRt~~Qa~~l~  105 (229)
T PTZ00088         81 VTDDCFKGFILDGFPRNLKQCKELG  105 (229)
T ss_pred             hccccCceEEEecCCCCHHHHHHHH
Confidence                3345799998 4556655553

>cd01394 radB RadB

Probab=95.45  E-value=0.027  Score=58.75  Aligned_cols=34  Identities=18%  Similarity=0.220  Sum_probs=26.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|+||||+|.+++.....+-..++|++
T Consensus        21 i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~   54 (218)
T cd01394          21 VTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYID   54 (218)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4789999999999999999877655444566765

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.44  E-value=0.084  Score=62.62  Aligned_cols=128  Identities=16%  Similarity=0.192  Sum_probs=71.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccccccc-chHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVD-DGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~-~~~~~i~~~L~   80 (1046)
                      |-++|++|.|||.||+++++.....|-....    .+.          .    .+..       .... ..........+
T Consensus       279 iLl~GpPGtGKT~lAkava~~~~~~fi~v~~----~~l----------~----sk~v-------Gesek~ir~~F~~A~~  333 (494)
T COG0464         279 VLLYGPPGTGKTLLAKAVALESRSRFISVKG----SEL----------L----SKWV-------GESEKNIRELFEKARK  333 (494)
T ss_pred             eEEECCCCCCHHHHHHHHHhhCCCeEEEeeC----HHH----------h----cccc-------chHHHHHHHHHHHHHc
Confidence            6789999999999999999965544332111    011          1    1000       0011 11122223335


Q ss_pred             CCeEEEEEecCCChH-------------HHHHHhhccCCCCCCC--EEEEEeCChhhHHHh-----cCCCcceEecCCCC
Q 001603           81 QKKVLLVIDDVADVE-------------QLQNLARKRDWFGPGS--KIVITTRDKQLLVAH-----EVDEEHIYNLEVLS  140 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~-------------~~~~l~~~~~~~~~gs--~IiiTTR~~~~~~~~-----~~~~~~~~~l~~L~  140 (1046)
                      ..+..|.+|++|...             ...+++.........+  .||-||-........     ..+  ..+.+..-+
T Consensus       334 ~~p~iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd--~~i~v~~pd  411 (494)
T COG0464         334 LAPSIIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFD--RLIYVPLPD  411 (494)
T ss_pred             CCCcEEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccc--eEeecCCCC
Confidence            788999999997531             2333443333223333  344444433322211     233  389999999


Q ss_pred             hHHHHHHHHHhhcCCC
Q 001603          141 NDEALQLFSMKAFKTR  156 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~  156 (1046)
                      .++..+.|..+.-...
T Consensus       412 ~~~r~~i~~~~~~~~~  427 (494)
T COG0464         412 LEERLEIFKIHLRDKK  427 (494)
T ss_pred             HHHHHHHHHHHhcccC
Confidence            9999999999985433

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.42  E-value=0.094  Score=57.98  Aligned_cols=26  Identities=23%  Similarity=0.204  Sum_probs=22.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|+|+|++|+||||++.+++..+..+
T Consensus       243 vI~LVGptGvGKTTTiaKLA~~L~~~  268 (436)
T PRK11889        243 TIALIGPTGVGKTTTLAKMAWQFHGK  268 (436)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            48999999999999999998766543

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=95.42  E-value=0.079  Score=59.39  Aligned_cols=23  Identities=26%  Similarity=0.105  Sum_probs=20.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|+|++|+||||+|.+++...
T Consensus       225 vi~lvGptGvGKTTtaaKLA~~~  247 (432)
T PRK12724        225 VVFFVGPTGSGKTTSIAKLAAKY  247 (432)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=95.41  E-value=0.061  Score=67.31  Aligned_cols=24  Identities=29%  Similarity=0.340  Sum_probs=21.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +.++|+.|+|||.+|+++++.+-.
T Consensus       599 ~lf~Gp~GvGKT~lA~~La~~l~~  622 (852)
T TIGR03345       599 FLLVGPSGVGKTETALALAELLYG  622 (852)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHhC
Confidence            678999999999999999987643

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.

>cd01124 KaiC KaiC is a circadian clock protein primarily found in cyanobacteria KaiC is a RecA-like ATPase, having both Walker A and Walker B motifs

Probab=95.39  E-value=0.055  Score=54.82  Aligned_cols=34  Identities=21%  Similarity=0.047  Sum_probs=25.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|+|||++|.++......+=..+.|+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s   34 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVT   34 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEE
Confidence            4789999999999999887765433334456665

A related protein is found in archaea.

>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=95.38  E-value=0.011  Score=54.22  Aligned_cols=28  Identities=32%  Similarity=0.440  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccce
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDG   29 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~   29 (1046)
                      |.|+|.+|+||||+|++++..+...|..
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~R   29 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFKR   29 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EEE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCceeE
Confidence            6799999999999999999988877754

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.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=95.37  E-value=0.11  Score=57.85  Aligned_cols=63  Identities=14%  Similarity=0.164  Sum_probs=37.8

Q ss_pred             CCeEEEEEecCCChH--HHHHHhhccCCCCCCCEEEEEeCChh-hHHHhcCCCcceEecCCCChHHH
Q 001603           81 QKKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEA  144 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~IiiTTR~~~-~~~~~~~~~~~~~~l~~L~~~ea  144 (1046)
                      ++.-++|+|++|...  .-..+..........+++|++|.... +..... .....+++.+.+..+.
T Consensus       108 ~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~~~~il~tI~-SRc~~i~f~~~~~~~~  173 (325)
T COG0470         108 GGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITNDPSKILPTIR-SRCQRIRFKPPSRLEA  173 (325)
T ss_pred             CCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCChhhccchhh-hcceeeecCCchHHHH
Confidence            567789999999763  34555555555567788888887443 332221 2223677777444443

>PRK00889 adenylylsulfate kinase; Provisional

Probab=95.36  E-value=0.048  Score=54.61  Aligned_cols=25  Identities=32%  Similarity=0.464  Sum_probs=22.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|+|.|++|.||||+|+.++..+..
T Consensus         6 ~i~~~G~~GsGKST~a~~la~~l~~   30 (175)
T PRK00889          6 TVWFTGLSGAGKTTIARALAEKLRE   30 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5899999999999999999987754

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=95.35  E-value=0.045  Score=57.75  Aligned_cols=34  Identities=18%  Similarity=0.082  Sum_probs=24.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|+|.+|+||||+|.++......+=..+.|+.
T Consensus        27 ~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~   60 (234)
T PRK06067         27 LILIEGDHGTGKSVLSQQFVYGALKQGKKVYVIT   60 (234)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEE
Confidence            4789999999999999998654323334556665

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=95.29  E-value=0.027  Score=54.43  Aligned_cols=115  Identities=16%  Similarity=0.121  Sum_probs=59.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-----hccCcccccc-------
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-----KLADISIWNV-------   68 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-----~~~~~~~~~~-------   68 (1046)
                      +|-|++..|.||||+|...+-+...+=-.+.|+.-++.. ...+ -..+++.+ ..+.     ........+.       
T Consensus         4 ~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~-~~~g-E~~~l~~l-~~v~~~~~g~~~~~~~~~~~~~~~~a   80 (159)
T cd00561           4 LIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGG-WKYG-ELKALERL-PNIEIHRMGRGFFWTTENDEEDIAAA   80 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCC-CccC-HHHHHHhC-CCcEEEECCCCCccCCCChHHHHHHH
Confidence            467888899999999988877655443334444433321 1122 22233222 1111     0000000011       


Q ss_pred             cchHHHHHHhhc-CCeEEEEEecCCCh--------HHHHHHhhccCCCCCCCEEEEEeCChh
Q 001603           69 DDGINIIGSRLR-QKKVLLVIDDVADV--------EQLQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        69 ~~~~~~i~~~L~-~kr~LlVlDdv~~~--------~~~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      .+..+..++.+. ++-=|||||++-..        +++.++...   ...+.-||+|.|+..
T Consensus        81 ~~~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~---rp~~~evIlTGr~~p  139 (159)
T cd00561          81 AEGWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKA---KPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHc---CCCCCEEEEECCCCC
Confidence            112223334443 45569999998432        334444443   346778999999875

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.

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=95.29  E-value=0.05  Score=57.41  Aligned_cols=89  Identities=16%  Similarity=0.068  Sum_probs=49.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc----cccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---ccccch---
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS----HEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVDDG---   71 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~----~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~~~---   71 (1046)
                      ++|.|-+|+|||||+..+.+...    .+-+.++|.. +.+   +...+.++.+++...=......-.   .+....   
T Consensus        72 ~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~-IGe---R~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~  147 (276)
T cd01135          72 IPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAA-MGI---TMEDARFFKDDFEETGALERVVLFLNLANDPTIERI  147 (276)
T ss_pred             EEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEE-ecc---ccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHH
Confidence            68999999999999998887543    1234455544 333   222255555555443110000000   111111   


Q ss_pred             -----HHHHHHhhc---CCeEEEEEecCCCh
Q 001603           72 -----INIIGSRLR---QKKVLLVIDDVADV   94 (1046)
Q Consensus        72 -----~~~i~~~L~---~kr~LlVlDdv~~~   94 (1046)
                           .-.+.++++   ++++|+++||+-..
T Consensus       148 ~a~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         148 ITPRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence                 123455553   68999999998654

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.

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.28  E-value=0.077  Score=60.62  Aligned_cols=26  Identities=27%  Similarity=0.313  Sum_probs=22.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|.++|.+|+||||.|..++..++.+
T Consensus        97 vI~lvG~~GsGKTTtaakLA~~L~~~  122 (437)
T PRK00771         97 TIMLVGLQGSGKTTTAAKLARYFKKK  122 (437)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHc
Confidence            47899999999999999999877654

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.28  E-value=0.22  Score=55.44  Aligned_cols=146  Identities=16%  Similarity=0.158  Sum_probs=76.7

Q ss_pred             EEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcCC
Q 001603            3 GIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQK   82 (1046)
Q Consensus         3 ~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~k   82 (1046)
                      .++|++|.||||+..++++.+..    .++.....++...    .+ ++.++..                       ...
T Consensus       239 LLYGPPGTGKSS~IaAmAn~L~y----dIydLeLt~v~~n----~d-Lr~LL~~-----------------------t~~  286 (457)
T KOG0743|consen  239 LLYGPPGTGKSSFIAAMANYLNY----DIYDLELTEVKLD----SD-LRHLLLA-----------------------TPN  286 (457)
T ss_pred             eeeCCCCCCHHHHHHHHHhhcCC----ceEEeeeccccCc----HH-HHHHHHh-----------------------CCC
Confidence            47999999999999999986543    2333322221111    11 2222211                       245


Q ss_pred             eEEEEEecCCChHH--------------------HHHHhhcc--CCCCC-CCEEE-EEeCChhhHHHh-----cCCCcce
Q 001603           83 KVLLVIDDVADVEQ--------------------LQNLARKR--DWFGP-GSKIV-ITTRDKQLLVAH-----EVDEEHI  133 (1046)
Q Consensus        83 r~LlVlDdv~~~~~--------------------~~~l~~~~--~~~~~-gs~Ii-iTTR~~~~~~~~-----~~~~~~~  133 (1046)
                      +-+||+.|+|-.-+                    +.-|+-..  .|... +-||| .||...+-+...     .++.  .
T Consensus       287 kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFTTNh~EkLDPALlRpGRmDm--h  364 (457)
T KOG0743|consen  287 KSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFTTNHKEKLDPALLRPGRMDM--H  364 (457)
T ss_pred             CcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEecCChhhcCHhhcCCCccee--E
Confidence            56777777764311                    11122111  12333 35665 566655443322     2333  6


Q ss_pred             EecCCCChHHHHHHHHHhhcCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhc
Q 001603          134 YNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFL  187 (1046)
Q Consensus       134 ~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L  187 (1046)
                      +.+.-=+.+.-..||..+..... +.    .+..+|.+...|.-+.=..++..|
T Consensus       365 I~mgyCtf~~fK~La~nYL~~~~-~h----~L~~eie~l~~~~~~tPA~V~e~l  413 (457)
T KOG0743|consen  365 IYMGYCTFEAFKTLASNYLGIEE-DH----RLFDEIERLIEETEVTPAQVAEEL  413 (457)
T ss_pred             EEcCCCCHHHHHHHHHHhcCCCC-Cc----chhHHHHHHhhcCccCHHHHHHHH
Confidence            78888888888889988875433 22    344455555555444434444333

>PRK08356 hypothetical protein; Provisional

Probab=95.27  E-value=0.093  Score=53.55  Aligned_cols=20  Identities=35%  Similarity=0.468  Sum_probs=18.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAY   20 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~   20 (1046)
                      +|+|.|++|+||||+|+.+.
T Consensus         7 ~i~~~G~~gsGK~t~a~~l~   26 (195)
T PRK08356          7 IVGVVGKIAAGKTTVAKFFE   26 (195)
T ss_pred             EEEEECCCCCCHHHHHHHHH
Confidence            47899999999999999993

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=95.26  E-value=0.052  Score=61.55  Aligned_cols=90  Identities=22%  Similarity=0.269  Sum_probs=50.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcc-c--cccc--------c
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADIS-I--WNVD--------D   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~--~~~~--------~   70 (1046)
                      ++|.|.+|+|||||+..+......+...++.+.-+.+-   ...+.++.+++...=....... .  .+..        .
T Consensus       146 ~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGER---~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~  222 (461)
T TIGR01039       146 IGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGER---TREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVAL  222 (461)
T ss_pred             EEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecCC---chHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHH
Confidence            68999999999999999887665443434444444332   2225556665543211000000 0  1111        1


Q ss_pred             hHHHHHHhh---cCCeEEEEEecCCCh
Q 001603           71 GINIIGSRL---RQKKVLLVIDDVADV   94 (1046)
Q Consensus        71 ~~~~i~~~L---~~kr~LlVlDdv~~~   94 (1046)
                      ....+.+++   +++.+|||+||+-..
T Consensus       223 ~a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       223 TGLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHHhcCCeeEEEecchhHH
Confidence            122355666   468999999999553

The sequences of ATP synthase F1 alpha and beta subunits are related and both contain a nucleotide-binding site for ATP and ADP. They have a common amino terminal domain but vary at the C-terminus. The beta chain has catalytic activity, while the alpha chain is a regulatory subunit. Proton translocating ATP synthase, F1 beta subunit is homologous to proton translocating ATP synthase archaeal/vacuolar(V1), A subunit.

>PTZ00301 uridine kinase; Provisional

Probab=95.26  E-value=0.013  Score=60.14  Aligned_cols=27  Identities=26%  Similarity=0.417  Sum_probs=23.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      +|||.|.+|.||||+|+.+.+++...+
T Consensus         5 iIgIaG~SgSGKTTla~~l~~~l~~~~   31 (210)
T PTZ00301          5 VIGISGASGSGKSSLSTNIVSELMAHC   31 (210)
T ss_pred             EEEEECCCcCCHHHHHHHHHHHHHhhc
Confidence            599999999999999999998775443

>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=95.26  E-value=0.064  Score=53.95  Aligned_cols=121  Identities=23%  Similarity=0.303  Sum_probs=61.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEec--hhhhc-ccCCHHHHHHHHHHHHhhc--cCccccccc---chH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANV--REKSE-KEGSVVSLQKQLLSDLLKL--ADISIWNVD---DGI   72 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~--~~~~~-~~~~~~~l~~~ll~~l~~~--~~~~~~~~~---~~~   72 (1046)
                      +++|.|..|.|||||++.++..... ..+.+++...  ..... ..........+++..++-.  .+.......   ...
T Consensus        27 ~~~l~G~nGsGKStLl~~i~G~~~~-~~G~v~~~g~~~~~~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~qr  105 (180)
T cd03214          27 IVGILGPNGAGKSTLLKTLAGLLKP-SSGEILLDGKDLASLSPKELARKIAYVPQALELLGLAHLADRPFNELSGGERQR  105 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-CCcEEEECCEECCcCCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHHHH
Confidence            4799999999999999999875433 4555555421  11000 0000011112234443311  111111111   112


Q ss_pred             HHHHHhhcCCeEEEEEecCCC---h---HHHHHHhhccCCCCCCCEEEEEeCChhhH
Q 001603           73 NIIGSRLRQKKVLLVIDDVAD---V---EQLQNLARKRDWFGPGSKIVITTRDKQLL  123 (1046)
Q Consensus        73 ~~i~~~L~~kr~LlVlDdv~~---~---~~~~~l~~~~~~~~~gs~IiiTTR~~~~~  123 (1046)
                      -.+.+.+...+=++++|+--.   .   +.+.++...... ..+..||++|.+....
T Consensus       106 l~laral~~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~-~~~~tiii~sh~~~~~  161 (180)
T cd03214         106 VLLARALAQEPPILLLDEPTSHLDIAHQIELLELLRRLAR-ERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHhcCCCEEEEeCCccCCCHHHHHHHHHHHHHHHH-hcCCEEEEEeCCHHHH
Confidence            234555667788899999742   1   223333333211 1267888888887654

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.

>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=95.23  E-value=0.04  Score=56.52  Aligned_cols=86  Identities=21%  Similarity=0.290  Sum_probs=47.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCccc--ccccc--------
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADISI--WNVDD--------   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~~--~~~~~--------   70 (1046)
                      ++|.|.+|+|||+|+..+.+.....  ..+++. +.+   +...+.++.+++...-. +..-...  .+...        
T Consensus        18 ~~I~g~~g~GKt~Ll~~i~~~~~~d--~~V~~~-iGe---r~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~   91 (215)
T PF00006_consen   18 IGIFGGAGVGKTVLLQEIANNQDAD--VVVYAL-IGE---RGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPY   91 (215)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHCTTT--EEEEEE-ESE---CHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHH
T ss_pred             EEEEcCcccccchhhHHHHhccccc--ceeeee-ccc---cchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhc
Confidence            6899999999999999998876432  234444 222   21125555555543311 1100000  01000        


Q ss_pred             hHHHHHHhh--cCCeEEEEEecCCC
Q 001603           71 GINIIGSRL--RQKKVLLVIDDVAD   93 (1046)
Q Consensus        71 ~~~~i~~~L--~~kr~LlVlDdv~~   93 (1046)
                      ..-.+.+++  +++.+|+|+||+-.
T Consensus        92 ~a~t~AEyfrd~G~dVlli~Dsltr  116 (215)
T PF00006_consen   92 TALTIAEYFRDQGKDVLLIIDSLTR  116 (215)
T ss_dssp             HHHHHHHHHHHTTSEEEEEEETHHH
T ss_pred             cchhhhHHHhhcCCceeehhhhhHH
Confidence            011233334  58999999999854

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 ....

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=95.23  E-value=0.065  Score=56.24  Aligned_cols=34  Identities=21%  Similarity=0.139  Sum_probs=26.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc------ceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF------DGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~~~   34 (1046)
                      ++.|+|.+|+|||++|..++......-      ..++|+.
T Consensus        21 v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~   60 (226)
T cd01393          21 ITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYID   60 (226)
T ss_pred             EEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEe
Confidence            478999999999999998877554443      4566766

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.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.22  E-value=0.068  Score=64.22  Aligned_cols=91  Identities=19%  Similarity=0.241  Sum_probs=52.1

Q ss_pred             EEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCcccccccchHHHHHHhhcC
Q 001603            3 GIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         3 ~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      ...|+.|||||-||++++..+-+.=+.-+-++ ..|..+         +.-.++|. ..++.  ...++ -..+-+..++
T Consensus       525 lF~GPTGVGKTELAkaLA~~Lfg~e~aliR~D-MSEy~E---------kHsVSrLIGaPPGY--VGyee-GG~LTEaVRr  591 (786)
T COG0542         525 LFLGPTGVGKTELAKALAEALFGDEQALIRID-MSEYME---------KHSVSRLIGAPPGY--VGYEE-GGQLTEAVRR  591 (786)
T ss_pred             EeeCCCcccHHHHHHHHHHHhcCCCccceeec-hHHHHH---------HHHHHHHhCCCCCC--ceecc-ccchhHhhhc
Confidence            45899999999999999997654323333332 222222         22344443 33332  11112 3345566667


Q ss_pred             CeE-EEEEecCCCh--HHHHHHhhccCC
Q 001603           82 KKV-LLVIDDVADV--EQLQNLARKRDW  106 (1046)
Q Consensus        82 kr~-LlVlDdv~~~--~~~~~l~~~~~~  106 (1046)
                      ++| +|.||+|+..  +.+.-|...++.
T Consensus       592 ~PySViLlDEIEKAHpdV~nilLQVlDd  619 (786)
T COG0542         592 KPYSVILLDEIEKAHPDVFNLLLQVLDD  619 (786)
T ss_pred             CCCeEEEechhhhcCHHHHHHHHHHhcC
Confidence            776 7888999854  456656655543

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=95.22  E-value=0.061  Score=67.78  Aligned_cols=25  Identities=28%  Similarity=0.465  Sum_probs=21.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +.++|+.|+|||++|+.+...+...
T Consensus       598 ~Lf~Gp~GvGKt~lA~~La~~l~~~  622 (852)
T TIGR03346       598 FLFLGPTGVGKTELAKALAEFLFDD  622 (852)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhcCC
Confidence            5689999999999999999876543

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.

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.21  E-value=0.23  Score=56.86  Aligned_cols=125  Identities=16%  Similarity=0.287  Sum_probs=73.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh-c
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL-R   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L-~   80 (1046)
                      |.+||++|+|||-||++|+++-...|     ++ +++    +    +    ++..-.       ...+..++.+..+- .
T Consensus       548 vLL~GPPGCGKTLlAKAVANEag~NF-----is-VKG----P----E----LlNkYV-------GESErAVR~vFqRAR~  602 (802)
T KOG0733|consen  548 VLLCGPPGCGKTLLAKAVANEAGANF-----IS-VKG----P----E----LLNKYV-------GESERAVRQVFQRARA  602 (802)
T ss_pred             eEEeCCCCccHHHHHHHHhhhccCce-----Ee-ecC----H----H----HHHHHh-------hhHHHHHHHHHHHhhc
Confidence            67899999999999999999866553     33 111    1    1    111110       11112222222222 3


Q ss_pred             CCeEEEEEecCCCh-------------HHHHHHhhccCCC--CCCCEEEEEeCChhhH-HHh----cCCCcceEecCCCC
Q 001603           81 QKKVLLVIDDVADV-------------EQLQNLARKRDWF--GPGSKIVITTRDKQLL-VAH----EVDEEHIYNLEVLS  140 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~-------------~~~~~l~~~~~~~--~~gs~IiiTTR~~~~~-~~~----~~~~~~~~~l~~L~  140 (1046)
                      .-++.|.||.+|..             .....|+..++-.  ..|--||-.|.-.++. .++    ..+.  .+-|..-+
T Consensus       603 saPCVIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk--~LyV~lPn  680 (802)
T KOG0733|consen  603 SAPCVIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDK--LLYVGLPN  680 (802)
T ss_pred             CCCeEEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCc--eeeecCCC
Confidence            57899999999753             1244555555422  2455556555433332 221    2333  78888889


Q ss_pred             hHHHHHHHHHhhc
Q 001603          141 NDEALQLFSMKAF  153 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~  153 (1046)
                      .+|-.++++..+-
T Consensus       681 ~~eR~~ILK~~tk  693 (802)
T KOG0733|consen  681 AEERVAILKTITK  693 (802)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988875

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=95.21  E-value=0.051  Score=62.08  Aligned_cols=88  Identities=25%  Similarity=0.254  Sum_probs=49.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc-cceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---cccc--------
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVD--------   69 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~--------   69 (1046)
                      ++|.|.+|+|||||+..+......+ -+.++|. -+.+   +...+.++.+.+...-.......+   .+..        
T Consensus       146 ~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~-liGE---R~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~  221 (461)
T PRK12597        146 TGLFGGAGVGKTVLMMELIFNISKQHSGSSVFA-GVGE---RSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVV  221 (461)
T ss_pred             EEeecCCCCChhHHHHHHHHHHHhhCCCEEEEE-cCCc---chHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHH
Confidence            7899999999999999888766533 3444444 3333   222255555555433110000000   1111        


Q ss_pred             chHHHHHHhh---cCCeEEEEEecCCC
Q 001603           70 DGINIIGSRL---RQKKVLLVIDDVAD   93 (1046)
Q Consensus        70 ~~~~~i~~~L---~~kr~LlVlDdv~~   93 (1046)
                      .....+.+++   +++.+|+++||+-.
T Consensus       222 ~~a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        222 LTGLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHHHhcCCceEEEeccchH
Confidence            1122355555   37999999999954

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=95.20  E-value=0.032  Score=58.00  Aligned_cols=52  Identities=21%  Similarity=0.365  Sum_probs=36.0

Q ss_pred             HHHHHHhhcCCeEEEEEecC----CCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHH
Q 001603           72 INIIGSRLRQKKVLLVIDDV----ADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVA  125 (1046)
Q Consensus        72 ~~~i~~~L~~kr~LlVlDdv----~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~  125 (1046)
                      ...|.+.|.+++=|+|||.=    |..  ..+.++...+.  ..|..|+++|-|-+....
T Consensus       147 RV~lARAL~~~p~lllLDEP~~gvD~~~~~~i~~lL~~l~--~eg~tIl~vtHDL~~v~~  204 (254)
T COG1121         147 RVLLARALAQNPDLLLLDEPFTGVDVAGQKEIYDLLKELR--QEGKTVLMVTHDLGLVMA  204 (254)
T ss_pred             HHHHHHHhccCCCEEEecCCcccCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCcHHhHh
Confidence            34578888899999999973    433  33555555544  238889999998765443

>PRK14974 cell division protein FtsY; Provisional

Probab=95.19  E-value=0.087  Score=58.00  Aligned_cols=26  Identities=23%  Similarity=0.280  Sum_probs=22.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|+++|+.|+||||++.+++..+..+
T Consensus       142 vi~~~G~~GvGKTTtiakLA~~l~~~  167 (336)
T PRK14974        142 VIVFVGVNGTGKTTTIAKLAYYLKKN  167 (336)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHc
Confidence            58999999999999998888766543

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=95.15  E-value=0.013  Score=53.09  Aligned_cols=25  Identities=32%  Similarity=0.460  Sum_probs=21.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |-|+|.+|+|||++|+.++..+.+.
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~l~~~   25 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKDLLKH   25 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHH
Confidence            5799999999999999988866544

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

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.13  E-value=0.00086  Score=68.28  Aligned_cols=80  Identities=14%  Similarity=0.127  Sum_probs=43.4

Q ss_pred             ccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcccccCCCCCcEEEcCCCcCCCC--CCCCCCCCCCCEEEeeCCC
Q 001603          373 LRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIK--TPDFTGVPNLEELILEGCT  450 (1046)
Q Consensus       373 Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~--~~~l~~l~~L~~L~L~~~~  450 (1046)
                      .+.|++-|+.+..+.-.-.++.|++|.||-|+|+.| ..+..+++|+.|.|..|.+...  +.-+.++|+|+.|.|..|.
T Consensus        21 vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL-~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~ENP   99 (388)
T KOG2123|consen   21 VKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSL-APLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDENP   99 (388)
T ss_pred             hhhhcccCCCccHHHHHHhcccceeEEeeccccccc-hhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhccCC
Confidence            444555555555554444566666666666666665 3455666666666666643211  1124556666666665554


Q ss_pred             CCc
Q 001603          451 RLH  453 (1046)
Q Consensus       451 ~~~  453 (1046)
                      -.+
T Consensus       100 Cc~  102 (388)
T KOG2123|consen  100 CCG  102 (388)
T ss_pred             ccc
Confidence            433

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.12  E-value=0.07  Score=56.95  Aligned_cols=112  Identities=17%  Similarity=0.147  Sum_probs=61.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh--hccCcc-cccc---cchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL--KLADIS-IWNV---DDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~--~~~~~~-~~~~---~~~~~~i   75 (1046)
                      ++|+|+.|.|||||++.+...++.. .+.+++...+ ..     ..+-..++.....  ...+.. ..++   ......+
T Consensus       114 ~~i~g~~g~GKttl~~~l~~~~~~~-~G~i~~~g~~-v~-----~~d~~~ei~~~~~~~~q~~~~~r~~v~~~~~k~~~~  186 (270)
T TIGR02858       114 TLIISPPQCGKTTLLRDLARILSTG-ISQLGLRGKK-VG-----IVDERSEIAGCVNGVPQHDVGIRTDVLDGCPKAEGM  186 (270)
T ss_pred             EEEEcCCCCCHHHHHHHHhCccCCC-CceEEECCEE-ee-----cchhHHHHHHHhcccccccccccccccccchHHHHH
Confidence            6899999999999999999876643 3333332110 00     0000111111111  111100 0011   0111122


Q ss_pred             HHhh-cCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChhhH
Q 001603           76 GSRL-RQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLL  123 (1046)
Q Consensus        76 ~~~L-~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~  123 (1046)
                      ...+ ...+=++|+|.+...+.+..+.....   .|..||+||-+..+.
T Consensus       187 ~~~i~~~~P~villDE~~~~e~~~~l~~~~~---~G~~vI~ttH~~~~~  232 (270)
T TIGR02858       187 MMLIRSMSPDVIVVDEIGREEDVEALLEALH---AGVSIIATAHGRDVE  232 (270)
T ss_pred             HHHHHhCCCCEEEEeCCCcHHHHHHHHHHHh---CCCEEEEEechhHHH
Confidence            2222 25778999999988887777766643   578899999876653

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.

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=95.08  E-value=0.055  Score=53.36  Aligned_cols=113  Identities=16%  Similarity=0.251  Sum_probs=58.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      +++|.|..|.|||||++.++.... ...+.+++.... ... .. ..+..+   ..+.--...  .......-.+.+.+.
T Consensus        28 ~~~l~G~nGsGKSTLl~~i~G~~~-~~~G~v~~~g~~-~~~-~~-~~~~~~---~~i~~~~qL--S~G~~qrl~laral~   98 (163)
T cd03216          28 VHALLGENGAGKSTLMKILSGLYK-PDSGEILVDGKE-VSF-AS-PRDARR---AGIAMVYQL--SVGERQMVEIARALA   98 (163)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC-CCCeEEEECCEE-CCc-CC-HHHHHh---cCeEEEEec--CHHHHHHHHHHHHHh
Confidence            479999999999999999987543 235555554211 100 00 111100   011100000  111122233455566


Q ss_pred             CCeEEEEEecCCCh------HHHHHHhhccCCCCCCCEEEEEeCChhhHH
Q 001603           81 QKKVLLVIDDVADV------EQLQNLARKRDWFGPGSKIVITTRDKQLLV  124 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~  124 (1046)
                      .++-++++|+--..      +.+.++...+.  ..|..||++|.+.....
T Consensus        99 ~~p~illlDEP~~~LD~~~~~~l~~~l~~~~--~~~~tiii~sh~~~~~~  146 (163)
T cd03216          99 RNARLLILDEPTAALTPAEVERLFKVIRRLR--AQGVAVIFISHRLDEVF  146 (163)
T ss_pred             cCCCEEEEECCCcCCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCHHHHH
Confidence            67788889997432      22333333222  24677888888876433

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=95.07  E-value=0.066  Score=53.31  Aligned_cols=21  Identities=38%  Similarity=0.407  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|.+|.||||+|+.+.++
T Consensus         3 iiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           3 ILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999999997

>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=95.07  E-value=0.075  Score=52.93  Aligned_cols=102  Identities=16%  Similarity=0.141  Sum_probs=54.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEech--hhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVR--EKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSR   78 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~--~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~   78 (1046)
                      +++|+|..|.|||||++.+...+.. ..+.+.+....  -..+...            +        ..-....-.+.+.
T Consensus        27 ~~~l~G~nGsGKSTLl~~l~Gl~~p-~~G~i~~~g~~i~~~~q~~~------------L--------SgGq~qrv~lara   85 (177)
T cd03222          27 VIGIVGPNGTGKTTAVKILAGQLIP-NGDNDEWDGITPVYKPQYID------------L--------SGGELQRVAIAAA   85 (177)
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCC-CCcEEEECCEEEEEEcccCC------------C--------CHHHHHHHHHHHH
Confidence            4799999999999999998875432 33444443210  0000000            0        1111222334555


Q ss_pred             hcCCeEEEEEecCCCh------HHHHHHhhccCCCCCCCEEEEEeCChhhHH
Q 001603           79 LRQKKVLLVIDDVADV------EQLQNLARKRDWFGPGSKIVITTRDKQLLV  124 (1046)
Q Consensus        79 L~~kr~LlVlDdv~~~------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~  124 (1046)
                      +..++=++++|+--..      +.+..+...... ..+..||++|-+.....
T Consensus        86 l~~~p~lllLDEPts~LD~~~~~~l~~~l~~~~~-~~~~tiiivsH~~~~~~  136 (177)
T cd03222          86 LLRNATFYLFDEPSAYLDIEQRLNAARAIRRLSE-EGKKTALVVEHDLAVLD  136 (177)
T ss_pred             HhcCCCEEEEECCcccCCHHHHHHHHHHHHHHHH-cCCCEEEEEECCHHHHH
Confidence            6667788999997421      222223322211 12356788888776544

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.

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.04  E-value=0.16  Score=53.97  Aligned_cols=149  Identities=21%  Similarity=0.217  Sum_probs=80.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcc-cCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEK-EGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~-~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      |.|+|+.|.|||+|......+ .+.+.....+....+.... .-.+..+.+|+..++... .....+..+....+-..|+
T Consensus        52 viiigprgsgkT~li~~~Ls~-~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~-~k~~gsfte~l~~lL~~L~  129 (408)
T KOG2228|consen   52 VIIIGPRGSGKTILIDTRLSD-IQENGENFLLVRLNGELQTDKIALKGITRQLALELNRI-VKSFGSFTENLSKLLEALK  129 (408)
T ss_pred             eEEEccCCCCceEeeHHHHhh-HHhcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhh-heeecccchhHHHHHHHHh
Confidence            679999999999998766654 2233333333333332221 111444445544444322 1222444455556666664


Q ss_pred             ------CCeEEEEEecCCCh----HH--HHHHhhcc-CCCCCCCEEEEEeCChhhHHH-----hcCCCcceEecCCCChH
Q 001603           81 ------QKKVLLVIDDVADV----EQ--LQNLARKR-DWFGPGSKIVITTRDKQLLVA-----HEVDEEHIYNLEVLSND  142 (1046)
Q Consensus        81 ------~kr~LlVlDdv~~~----~~--~~~l~~~~-~~~~~gs~IiiTTR~~~~~~~-----~~~~~~~~~~l~~L~~~  142 (1046)
                            +-+|++|+|.+|-.    .|  +..+.... ....|-+-|-+|||-.-+...     -...+..++-++.++-+
T Consensus       130 ~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l~  209 (408)
T KOG2228|consen  130 KGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPLG  209 (408)
T ss_pred             cCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeeccCCCChH
Confidence                  34799999998743    12  22333221 123566778899996533211     12233236667777777


Q ss_pred             HHHHHHHHhh
Q 001603          143 EALQLFSMKA  152 (1046)
Q Consensus       143 ea~~Lf~~~a  152 (1046)
                      +-.++++...
T Consensus       210 ~yv~l~r~ll  219 (408)
T KOG2228|consen  210 DYVDLYRKLL  219 (408)
T ss_pred             HHHHHHHHHh
Confidence            7777766554

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.02  E-value=0.12  Score=63.40  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +.++|+.|+|||++|+.++..+.
T Consensus       491 ~Lf~GP~GvGKT~lAk~LA~~l~  513 (758)
T PRK11034        491 FLFAGPTGVGKTEVTVQLSKALG  513 (758)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            56899999999999999998774

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=95.02  E-value=0.021  Score=57.61  Aligned_cols=26  Identities=38%  Similarity=0.547  Sum_probs=23.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|||.|.+|.||||+|+.+++.+...
T Consensus        10 iIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572          10 IIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             EEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            58999999999999999999988765

>TIGR01420 pilT_fam pilus retraction protein PilT

Probab=95.01  E-value=0.056  Score=60.40  Aligned_cols=107  Identities=17%  Similarity=0.237  Sum_probs=62.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE-echhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA-NVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~-~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +|.|.|+.|.||||+++++.+.+.......++.. +..+.... . .    ..    +....... .+.....+.++..|
T Consensus       124 ~ili~G~tGSGKTT~l~al~~~i~~~~~~~i~tiEdp~E~~~~-~-~----~~----~i~q~evg-~~~~~~~~~l~~~l  192 (343)
T TIGR01420       124 LILVTGPTGSGKSTTLASMIDYINKNAAGHIITIEDPIEYVHR-N-K----RS----LINQREVG-LDTLSFANALRAAL  192 (343)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCcCCCCEEEEEcCChhhhcc-C-c----cc----eEEccccC-CCCcCHHHHHHHhh
Confidence            4789999999999999999887765554444432 21111000 0 0    00    00000110 11223456788888


Q ss_pred             cCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCChh
Q 001603           80 RQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      +..+=.|++|.+.+.+.+.......   ..|-.|+.|.-...
T Consensus       193 r~~pd~i~vgEird~~~~~~~l~aa---~tGh~v~~T~Ha~~  231 (343)
T TIGR01420       193 REDPDVILIGEMRDLETVELALTAA---ETGHLVFGTLHTNS  231 (343)
T ss_pred             ccCCCEEEEeCCCCHHHHHHHHHHH---HcCCcEEEEEcCCC
Confidence            8899999999999887766543331   24555555554433

This model represents the PilT subfamily of proteins related to GspE, a protein involved in type II secretion (also called the General Secretion Pathway). PilT is an apparent cytosolic ATPase associated with type IV pilus systems. It is not required for pilin biogenesis, but is required for twitching motility and social gliding behaviors, shown in some species, powered by pilus retraction. Members of this family may be found in some species that type IV pili but have related structures for DNA uptake and natural transformation.

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=94.99  E-value=0.077  Score=56.75  Aligned_cols=89  Identities=16%  Similarity=0.115  Sum_probs=53.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      +|.|.|..|.||||+++++.+.+...-...+.+.+..|..- .+ .        .++..  ..  .......+.++..|+
T Consensus        82 lilisG~tGSGKTT~l~all~~i~~~~~~iitiEdp~E~~~-~~-~--------~q~~v--~~--~~~~~~~~~l~~~lR  147 (264)
T cd01129          82 IILVTGPTGSGKTTTLYSALSELNTPEKNIITVEDPVEYQI-PG-I--------NQVQV--NE--KAGLTFARGLRAILR  147 (264)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEECCCceecC-CC-c--------eEEEe--CC--cCCcCHHHHHHHHhc
Confidence            47899999999999999988776542223344443322111 00 0        00000  00  111134567788888


Q ss_pred             CCeEEEEEecCCChHHHHHHhhc
Q 001603           81 QKKVLLVIDDVADVEQLQNLARK  103 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~~~~~l~~~  103 (1046)
                      ..+=.|+++++.+.+....+...
T Consensus       148 ~~PD~i~vgEiR~~e~a~~~~~a  170 (264)
T cd01129         148 QDPDIIMVGEIRDAETAEIAVQA  170 (264)
T ss_pred             cCCCEEEeccCCCHHHHHHHHHH
Confidence            88899999999998876554443

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

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

Probab=94.98  E-value=0.061  Score=54.80  Aligned_cols=103  Identities=22%  Similarity=0.218  Sum_probs=51.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh-
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL-   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L-   79 (1046)
                      ++.|.|.+|.||||+++.+.+.+..+=..++++.-      +......+.+.    .+..       .......+...- 
T Consensus        20 ~~~l~G~aGtGKT~~l~~~~~~~~~~g~~v~~~ap------T~~Aa~~L~~~----~~~~-------a~Ti~~~l~~~~~   82 (196)
T PF13604_consen   20 VSVLQGPAGTGKTTLLKALAEALEAAGKRVIGLAP------TNKAAKELREK----TGIE-------AQTIHSFLYRIPN   82 (196)
T ss_dssp             EEEEEESTTSTHHHHHHHHHHHHHHTT--EEEEES------SHHHHHHHHHH----HTS--------EEEHHHHTTEECC
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHhCCCeEEEECC------cHHHHHHHHHh----hCcc-------hhhHHHHHhcCCc
Confidence            35789999999999999988866654222333331      11102222222    2100       000001110000 


Q ss_pred             --------cCCeEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhh
Q 001603           80 --------RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQL  122 (1046)
Q Consensus        80 --------~~kr~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~  122 (1046)
                              ..++-+||+|++...  .++..+.....  ..|.|+|+.--..++
T Consensus        83 ~~~~~~~~~~~~~vliVDEasmv~~~~~~~ll~~~~--~~~~klilvGD~~QL  133 (196)
T PF13604_consen   83 GDDEGRPELPKKDVLIVDEASMVDSRQLARLLRLAK--KSGAKLILVGDPNQL  133 (196)
T ss_dssp             EECCSSCC-TSTSEEEESSGGG-BHHHHHHHHHHS---T-T-EEEEEE-TTSH
T ss_pred             ccccccccCCcccEEEEecccccCHHHHHHHHHHHH--hcCCEEEEECCcchh
Confidence                    123459999999754  45666666543  257888877655543

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

Probab=94.98  E-value=0.097  Score=56.21  Aligned_cols=36  Identities=31%  Similarity=0.589  Sum_probs=27.2

Q ss_pred             eEEEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChh
Q 001603           83 KVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        83 r~LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      .-++|+|...+.  .++..+...   .|+||||+.|---.+
T Consensus       352 ~~FiIIDEaQNLTpheikTiltR---~G~GsKIVl~gd~aQ  389 (436)
T COG1875         352 DSFIIIDEAQNLTPHELKTILTR---AGEGSKIVLTGDPAQ  389 (436)
T ss_pred             cceEEEehhhccCHHHHHHHHHh---ccCCCEEEEcCCHHH
Confidence            568999999875  567666655   589999999876543

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.97  E-value=0.017  Score=59.80  Aligned_cols=23  Identities=43%  Similarity=0.703  Sum_probs=21.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|.|.+|+||||||+.++..+
T Consensus         8 iI~I~G~sGsGKTTl~~~l~~~l   30 (209)
T PRK05480          8 IIGIAGGSGSGKTTVASTIYEEL   30 (209)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999999876

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=94.96  E-value=0.094  Score=52.97  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|.|.+|.||||+|+.+...+.
T Consensus        20 ~i~i~G~~GsGKstla~~l~~~l~   43 (184)
T TIGR00455        20 VIWLTGLSGSGKSTIANALEKKLE   43 (184)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            589999999999999999998764

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=94.95  E-value=0.15  Score=54.01  Aligned_cols=24  Identities=25%  Similarity=0.317  Sum_probs=20.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +..|+|++|+||||||..++-.+.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~va   26 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALAMA   26 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHHHh
Confidence            357999999999999998887543

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.

>PRK03839 putative kinase; Provisional

Probab=94.95  E-value=0.02  Score=57.69  Aligned_cols=25  Identities=28%  Similarity=0.523  Sum_probs=22.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      .|.|.|++|+||||+|+++++++.-
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~~~~   26 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEKLGY   26 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            3789999999999999999997643

>PRK04040 adenylate kinase; Provisional

Probab=94.94  E-value=0.022  Score=57.46  Aligned_cols=24  Identities=29%  Similarity=0.479  Sum_probs=22.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|+|++|+||||+++.+.+++.
T Consensus         4 ~i~v~G~pG~GKtt~~~~l~~~l~   27 (188)
T PRK04040          4 VVVVTGVPGVGKTTVLNKALEKLK   27 (188)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHhc
Confidence            589999999999999999999875

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=94.93  E-value=0.061  Score=56.85  Aligned_cols=34  Identities=21%  Similarity=0.253  Sum_probs=25.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc------cceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE------FDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~~~   34 (1046)
                      ++.|+|.+|+||||+|.+++......      -..++|+.
T Consensus        21 i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~   60 (235)
T cd01123          21 ITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYID   60 (235)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEe
Confidence            47899999999999999887543222      25667776

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 .

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=94.93  E-value=0.04  Score=62.08  Aligned_cols=87  Identities=18%  Similarity=0.276  Sum_probs=47.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---ccccc--------
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVDD--------   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~~--------   70 (1046)
                      ++|+|..|+|||||++.++.....  +..++ .-+.+-   ...+.++.++++..-........   .+...        
T Consensus       165 igI~G~sG~GKSTLL~~I~~~~~~--dv~Vi-~lIGER---~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~  238 (444)
T PRK08972        165 MGLFAGSGVGKSVLLGMMTRGTTA--DVIVV-GLVGER---GREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCE  238 (444)
T ss_pred             EEEECCCCCChhHHHHHhccCCCC--CEEEE-EEEcCC---hHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHH
Confidence            799999999999999988864322  34444 333332   22244555554333110000000   11100        


Q ss_pred             hHHHHHHhh--cCCeEEEEEecCCCh
Q 001603           71 GINIIGSRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        71 ~~~~i~~~L--~~kr~LlVlDdv~~~   94 (1046)
                      ....+.+++  +++.+|+++||+-..
T Consensus       239 ~A~tiAEyfrd~G~~VLl~~DslTR~  264 (444)
T PRK08972        239 TATTIAEYFRDQGLNVLLLMDSLTRY  264 (444)
T ss_pred             HHHHHHHHHHHcCCCEEEEEcChHHH
Confidence            112245555  589999999998543

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.93  E-value=0.05  Score=60.99  Aligned_cols=34  Identities=21%  Similarity=0.235  Sum_probs=27.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|+|||||+.+++..+...-..+.|+.
T Consensus        84 lvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs  117 (372)
T cd01121          84 VILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVS  117 (372)
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4789999999999999999887765544556665

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.

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.92  E-value=0.018  Score=57.22  Aligned_cols=24  Identities=38%  Similarity=0.483  Sum_probs=22.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|-||=|+||||||+.+++++.
T Consensus         6 ~IvI~G~IG~GKSTLa~~La~~l~   29 (216)
T COG1428           6 VIVIEGMIGAGKSTLAQALAEHLG   29 (216)
T ss_pred             EEEEecccccCHHHHHHHHHHHhC
Confidence            589999999999999999999776

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.92  E-value=0.14  Score=57.61  Aligned_cols=24  Identities=25%  Similarity=0.274  Sum_probs=21.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|.++|+.|+||||.+..++..+.
T Consensus       176 vi~lvGptGvGKTTT~aKLA~~~~  199 (388)
T PRK12723        176 VFILVGPTGVGKTTTIAKLAAIYG  199 (388)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
Confidence            578999999999999999887654

>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=94.89  E-value=0.032  Score=55.88  Aligned_cols=25  Identities=36%  Similarity=0.502  Sum_probs=22.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|+|.|.+|.||||+|+.+...+..
T Consensus         1 ii~i~G~sgsGKttla~~l~~~l~~   25 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQLRV   25 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            6999999999999999999987654

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>PRK00625 shikimate kinase; Provisional

Probab=94.86  E-value=0.023  Score=56.35  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=21.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.|+||.|+||||+++.+.+++.
T Consensus         3 I~LiG~pGsGKTT~~k~La~~l~   25 (173)
T PRK00625          3 IFLCGLPTVGKTSFGKALAKFLS   25 (173)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999988764

>PRK08233 hypothetical protein; Provisional

Probab=94.85  E-value=0.018  Score=58.17  Aligned_cols=24  Identities=29%  Similarity=0.347  Sum_probs=21.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|.|.+|.||||+|+.++..+.
T Consensus         5 iI~I~G~~GsGKtTla~~L~~~l~   28 (182)
T PRK08233          5 IITIAAVSGGGKTTLTERLTHKLK   28 (182)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhCC
Confidence            589999999999999999998664

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.84  E-value=0.17  Score=55.90  Aligned_cols=34  Identities=21%  Similarity=0.224  Sum_probs=25.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|+|+|+.|+||||++..++..+..+-..+.++.
T Consensus       208 ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lIt  241 (407)
T PRK12726        208 IISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFIT  241 (407)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEe
Confidence            5799999999999999998876644323344444

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=94.84  E-value=0.12  Score=51.41  Aligned_cols=113  Identities=16%  Similarity=0.227  Sum_probs=58.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh---hccCcc--------ccccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL---KLADIS--------IWNVD   69 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~---~~~~~~--------~~~~~   69 (1046)
                      +++|.|..|.|||||++.++..... ..+.+++.... ... .. .....    ..+.   ......        .....
T Consensus        30 ~~~l~G~nGsGKstLl~~i~G~~~~-~~G~i~~~g~~-~~~-~~-~~~~~----~~i~~~~~~~~~~~~t~~e~lLS~G~  101 (171)
T cd03228          30 KVAIVGPSGSGKSTLLKLLLRLYDP-TSGEILIDGVD-LRD-LD-LESLR----KNIAYVPQDPFLFSGTIRENILSGGQ  101 (171)
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCC-CCCEEEECCEE-hhh-cC-HHHHH----hhEEEEcCCchhccchHHHHhhCHHH
Confidence            4799999999999999999885432 34555543211 000 00 00100    0110   000000        00011


Q ss_pred             chHHHHHHhhcCCeEEEEEecCCC------hHHHHHHhhccCCCCCCCEEEEEeCChhhHH
Q 001603           70 DGINIIGSRLRQKKVLLVIDDVAD------VEQLQNLARKRDWFGPGSKIVITTRDKQLLV  124 (1046)
Q Consensus        70 ~~~~~i~~~L~~kr~LlVlDdv~~------~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~  124 (1046)
                      ...-.+...+..++=++++|+-..      .+.+.++...+.   .+..||++|.+.....
T Consensus       102 ~~rl~la~al~~~p~llllDEP~~gLD~~~~~~l~~~l~~~~---~~~tii~~sh~~~~~~  159 (171)
T cd03228         102 RQRIAIARALLRDPPILILDEATSALDPETEALILEALRALA---KGKTVIVIAHRLSTIR  159 (171)
T ss_pred             HHHHHHHHHHhcCCCEEEEECCCcCCCHHHHHHHHHHHHHhc---CCCEEEEEecCHHHHH
Confidence            112234555667778999999743      233444444332   3567888888877553

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.

>TIGR00235 udk uridine kinase

Probab=94.83  E-value=0.02  Score=59.13  Aligned_cols=24  Identities=46%  Similarity=0.735  Sum_probs=21.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|+|++|.||||||+.+...+.
T Consensus         8 vi~I~G~sGsGKSTl~~~l~~~l~   31 (207)
T TIGR00235         8 IIGIGGGSGSGKTTVARKIYEQLG   31 (207)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhc
Confidence            589999999999999999998664

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>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=94.82  E-value=0.036  Score=54.93  Aligned_cols=32  Identities=25%  Similarity=0.252  Sum_probs=25.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc-cccceeEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS-HEFDGSTFL   33 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~-~~f~~~~~~   33 (1046)
                      +.+.|+.|+|||.||+++++.+. ......+-+
T Consensus         6 ~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~   38 (171)
T PF07724_consen    6 FLLAGPSGVGKTELAKALAELLFVGSERPLIRI   38 (171)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHhccCCccchHHH
Confidence            57899999999999999999877 454444443

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 ....

>PRK07667 uridine kinase; Provisional

Probab=94.82  E-value=0.031  Score=56.92  Aligned_cols=26  Identities=31%  Similarity=0.454  Sum_probs=23.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|||.|.+|.||||+|+.+.+.+...
T Consensus        19 iIgI~G~~gsGKStla~~L~~~l~~~   44 (193)
T PRK07667         19 ILGIDGLSRSGKTTFVANLKENMKQE   44 (193)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhC
Confidence            58999999999999999999877543

>cd04121 Rab40 Rab40 subfamily

Probab=94.80  E-value=0.16  Score=51.39  Aligned_cols=20  Identities=20%  Similarity=0.230  Sum_probs=18.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|+|.+|+|||||++.+..
T Consensus         9 ivviG~~~vGKTsll~~~~~   28 (189)
T cd04121           9 FLLVGDSDVGKGEILASLQD   28 (189)
T ss_pred             EEEECCCCCCHHHHHHHHHc
Confidence            68999999999999998876

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>PRK10867 signal recognition particle protein; Provisional

Probab=94.80  E-value=0.13  Score=58.72  Aligned_cols=26  Identities=27%  Similarity=0.377  Sum_probs=21.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|.++|.+|+||||.|..++..++.+
T Consensus       102 vI~~vG~~GsGKTTtaakLA~~l~~~  127 (433)
T PRK10867        102 VIMMVGLQGAGKTTTAGKLAKYLKKK  127 (433)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHHh
Confidence            57899999999999998888766554

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=94.79  E-value=0.023  Score=54.07  Aligned_cols=26  Identities=23%  Similarity=0.409  Sum_probs=22.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|+|+|+.|+|||||++.+.+.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~~~~~   26 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEEFDPN   26 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhcCCcc
Confidence            58999999999999999998865444

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=94.76  E-value=0.44  Score=53.15  Aligned_cols=147  Identities=16%  Similarity=0.227  Sum_probs=83.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccce--eEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDG--STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~--~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +-|.|-+|.|||.+...++.........  ++++.+.     .-+....+...+...+....... ....+..+.+.+..
T Consensus       178 lYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~-----sl~~~~aiF~kI~~~~~q~~~s~-~~~~~~~~~~~~h~  251 (529)
T KOG2227|consen  178 LYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCT-----SLTEASAIFKKIFSSLLQDLVSP-GTGMQHLEKFEKHT  251 (529)
T ss_pred             eEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeec-----cccchHHHHHHHHHHHHHHhcCC-chhHHHHHHHHHHH
Confidence            3588999999999999999876554333  2444421     11125567777777774222221 11134445555555


Q ss_pred             cC--CeEEEEEecCCChHH--HHHHhhccCCC-CCCCEEEEEeCC------hhhHHHhcC---CCcceEecCCCChHHHH
Q 001603           80 RQ--KKVLLVIDDVADVEQ--LQNLARKRDWF-GPGSKIVITTRD------KQLLVAHEV---DEEHIYNLEVLSNDEAL  145 (1046)
Q Consensus        80 ~~--kr~LlVlDdv~~~~~--~~~l~~~~~~~-~~gs~IiiTTR~------~~~~~~~~~---~~~~~~~l~~L~~~ea~  145 (1046)
                      ++  +.+|+|+|..|....  -..+..-+.|. -+++|+|+.---      ...+.....   -....+..++.+.++-.
T Consensus       252 ~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~LprL~~~~~~~P~~l~F~PYTk~qI~  331 (529)
T KOG2227|consen  252 KQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLPRLNLDLTIKPKLLVFPPYTKDQIV  331 (529)
T ss_pred             hcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhhhhhhccCCCCceeeecCCCHHHHH
Confidence            54  369999999987531  11111112221 256666543211      111222211   12247888999999999


Q ss_pred             HHHHHhhcC
Q 001603          146 QLFSMKAFK  154 (1046)
Q Consensus       146 ~Lf~~~a~~  154 (1046)
                      +++..+.-.
T Consensus       332 ~Il~~rl~~  340 (529)
T KOG2227|consen  332 EILQQRLSE  340 (529)
T ss_pred             HHHHHHHhc
Confidence            999988743

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=94.75  E-value=0.15  Score=51.25  Aligned_cols=33  Identities=24%  Similarity=0.347  Sum_probs=24.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +++|.|..|.|||||++.++..... ..+.+++.
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~   62 (178)
T cd03247          30 KIALLGRSGSGKSTLLQLLTGDLKP-QQGEITLD   62 (178)
T ss_pred             EEEEECCCCCCHHHHHHHHhccCCC-CCCEEEEC
Confidence            4799999999999999999875432 23444443

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.

>PRK06696 uridine kinase; Validated

Probab=94.73  E-value=0.029  Score=58.63  Aligned_cols=26  Identities=31%  Similarity=0.312  Sum_probs=23.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|+|.|.+|.||||+|+++.+.+...
T Consensus        24 iI~I~G~sgsGKSTlA~~L~~~l~~~   49 (223)
T PRK06696         24 RVAIDGITASGKTTFADELAEEIKKR   49 (223)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            58999999999999999999977543

>PRK00279 adk adenylate kinase; Reviewed

Probab=94.70  E-value=0.11  Score=54.05  Aligned_cols=22  Identities=27%  Similarity=0.306  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.+++++
T Consensus         3 I~v~G~pGsGKsT~a~~la~~~   24 (215)
T PRK00279          3 LILLGPPGAGKGTQAKFIAEKY   24 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998765

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=94.69  E-value=0.097  Score=56.68  Aligned_cols=25  Identities=24%  Similarity=0.248  Sum_probs=21.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|+|+|++|+||||++..++..+..
T Consensus       196 vi~~vGptGvGKTTt~~kLa~~~~~  220 (282)
T TIGR03499       196 VIALVGPTGVGKTTTLAKLAARFVL  220 (282)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5889999999999999998876643

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.68  E-value=0.002  Score=65.71  Aligned_cols=97  Identities=20%  Similarity=0.166  Sum_probs=75.8

Q ss_pred             CCCccEEEeCCccCCC-chhccccCccEEEecCCCCCCCCCCCCCCCceEEEcCCCCchhhcc--cccCCCCCcEEEcCC
Q 001603          349 MTNLRLLKIDNLQLPE-GLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN--EIKYLNMLKVMKLSH  425 (1046)
Q Consensus       349 l~~Lr~L~l~~~~l~~-~~~~l~~~Lr~L~l~~~~l~~lp~~~~l~~L~~L~L~~~~i~~l~~--~~~~l~~L~~L~Ls~  425 (1046)
                      +.+.+.|++-++.+.+ .+..-...|.+|.|+-|.+++|.+.-.+.+|.+|.|..|.|..+-+  -++++++|++|-|..
T Consensus        18 l~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~pl~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL~E   97 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLAPLQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWLDE   97 (388)
T ss_pred             HHHhhhhcccCCCccHHHHHHhcccceeEEeeccccccchhHHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhhcc
Confidence            4556677777777755 4444455689999999999999888899999999999999988754  478999999999999


Q ss_pred             CcCCCCCCC------CCCCCCCCEEE
Q 001603          426 SQNLIKTPD------FTGVPNLEELI  445 (1046)
Q Consensus       426 ~~~~~~~~~------l~~l~~L~~L~  445 (1046)
                      |.-....+.      +..+|||+.||
T Consensus        98 NPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   98 NPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             CCcccccchhHHHHHHHHcccchhcc
Confidence            885555442      55688888886

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=94.66  E-value=0.29  Score=49.05  Aligned_cols=56  Identities=13%  Similarity=0.145  Sum_probs=32.0

Q ss_pred             hHHHHHHhhcCCeEEEEEecCCCh---HHHHHHhhccC-CCCCCCEEEEEeCChhhHHHh
Q 001603           71 GINIIGSRLRQKKVLLVIDDVADV---EQLQNLARKRD-WFGPGSKIVITTRDKQLLVAH  126 (1046)
Q Consensus        71 ~~~~i~~~L~~kr~LlVlDdv~~~---~~~~~l~~~~~-~~~~gs~IiiTTR~~~~~~~~  126 (1046)
                      ..-.|.+.|.=++-++.+|..-+.   +-..+.+.... -...|-..||.|-+-..+...
T Consensus       143 QRVAIARALaM~P~vmLFDEPTSALDPElv~EVL~vm~~LA~eGmTMivVTHEM~FAr~V  202 (240)
T COG1126         143 QRVAIARALAMDPKVMLFDEPTSALDPELVGEVLDVMKDLAEEGMTMIIVTHEMGFAREV  202 (240)
T ss_pred             HHHHHHHHHcCCCCEEeecCCcccCCHHHHHHHHHHHHHHHHcCCeEEEEechhHHHHHh
Confidence            345678888888889999998542   22222111111 013466677777766665543

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=94.60  E-value=0.019  Score=58.04  Aligned_cols=21  Identities=29%  Similarity=0.063  Sum_probs=19.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+.|.|+.|.||||+++.+.-
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~   21 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGL   21 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHH
Confidence            688999999999999999884

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=94.59  E-value=0.092  Score=55.44  Aligned_cols=95  Identities=17%  Similarity=0.120  Sum_probs=49.0

Q ss_pred             EEEEcCCCCcHHHHH-HHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcc-c--ccccch------
Q 001603            2 MGIWGMGGLGKTTLA-RVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADIS-I--WNVDDG------   71 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~--~~~~~~------   71 (1046)
                      ++|.|..|+|||+|| ..+.+..  +-+..+.+..+.+-.   ..+.++.+++...-....... .  .+....      
T Consensus        72 ~~Ifg~~g~GKt~L~l~~i~~~~--~~~v~~V~~~iGer~---~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~  146 (274)
T cd01132          72 ELIIGDRQTGKTAIAIDTIINQK--GKKVYCIYVAIGQKA---STVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAP  146 (274)
T ss_pred             EEeeCCCCCCccHHHHHHHHHhc--CCCeEEEEEecccch---HHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHHH
Confidence            689999999999996 5555432  234454444444322   225555555543311000000 0  111001      


Q ss_pred             --HHHHHHhh--cCCeEEEEEecCCCh-HHHHHHh
Q 001603           72 --INIIGSRL--RQKKVLLVIDDVADV-EQLQNLA  101 (1046)
Q Consensus        72 --~~~i~~~L--~~kr~LlVlDdv~~~-~~~~~l~  101 (1046)
                        .-.+.+++  +++.+|||+||+-.. +.++++.
T Consensus       147 ~~a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEis  181 (274)
T cd01132         147 YTGCAMGEYFMDNGKHALIIYDDLSKQAVAYRQMS  181 (274)
T ss_pred             HHHHHHHHHHHHCCCCEEEEEcChHHHHHHHHHHH
Confidence              12234444  479999999998654 3344433

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 alpha subunit of the F1 ATP synthase can bind nucleotides, but is non-catalytic.

>PRK14529 adenylate kinase; Provisional

Probab=94.59  E-value=0.13  Score=53.19  Aligned_cols=91  Identities=22%  Similarity=0.171  Sum_probs=48.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.|.|++|+||||+|+.++..+.-.  ...--..+|+.......+....++++.+    ...  ...+.....+.+++.+
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~--~is~gdllr~~i~~~t~lg~~i~~~i~~----G~l--vpdei~~~lv~~~l~~   74 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLA--HIESGAIFREHIGGGTELGKKAKEYIDR----GDL--VPDDITIPMILETLKQ   74 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC--CcccchhhhhhccCCChHHHHHHHHHhc----cCc--chHHHHHHHHHHHHhc
Confidence            7899999999999999999876432  1111111222111111133333333322    111  2333445666777743


Q ss_pred             C-eEEEEEecCC-ChHHHHHH
Q 001603           82 K-KVLLVIDDVA-DVEQLQNL  100 (1046)
Q Consensus        82 k-r~LlVlDdv~-~~~~~~~l  100 (1046)
                      . .-=+|||++= +.+|.+.|
T Consensus        75 ~~~~g~iLDGfPRt~~Qa~~l   95 (223)
T PRK14529         75 DGKNGWLLDGFPRNKVQAEKL   95 (223)
T ss_pred             cCCCcEEEeCCCCCHHHHHHH
Confidence            1 3458999993 45555544

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=94.58  E-value=0.028  Score=57.61  Aligned_cols=23  Identities=39%  Similarity=0.579  Sum_probs=21.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      ||||.|.+|+||||+|+.+...+
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999998866

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.

>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=94.58  E-value=0.027  Score=58.43  Aligned_cols=24  Identities=46%  Similarity=0.625  Sum_probs=22.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|||.|..|.||||+|+.+...+.
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~   24 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLS   24 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHh
Confidence            699999999999999999998775

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR02012 tigrfam_recA protein RecA

Probab=94.58  E-value=0.06  Score=58.61  Aligned_cols=34  Identities=29%  Similarity=0.341  Sum_probs=26.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++-|+|++|+||||||.++......+-..++|++
T Consensus        57 iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId   90 (321)
T TIGR02012        57 IIEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   90 (321)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEc
Confidence            4679999999999999887776655545566765

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.

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=94.58  E-value=0.027  Score=56.40  Aligned_cols=23  Identities=39%  Similarity=0.651  Sum_probs=21.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      ||+|.|.+|.||||+|+.+.+.+
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~~   23 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRIL   23 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            69999999999999999999875

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.

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=94.57  E-value=0.059  Score=52.97  Aligned_cols=25  Identities=32%  Similarity=0.379  Sum_probs=22.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |-+.|.+|+||||+|+.+++.+++.
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~~   28 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQE   28 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHHh
Confidence            6689999999999999999977665

>PRK12678 transcription termination factor Rho; Provisional

Probab=94.56  E-value=0.053  Score=62.24  Aligned_cols=91  Identities=19%  Similarity=0.181  Sum_probs=49.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc-ccceeEEEEechhhhcccCCHHHHHHHHHHHHhh-ccCccc---ccccchHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH-EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLK-LADISI---WNVDDGINIIG   76 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~-~~~~~~---~~~~~~~~~i~   76 (1046)
                      ++|+|++|+|||||++.+++.+.. +-+..+++.-+.+-.   ..+.++.+.+-.++.. ..+...   .......-.+.
T Consensus       419 ~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~~ivvLIgERp---eEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~~A  495 (672)
T PRK12678        419 GLIVSPPKAGKTTILQNIANAITTNNPECHLMVVLVDERP---EEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIERA  495 (672)
T ss_pred             eEEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEEEeCch---hhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHHHH
Confidence            589999999999999999997744 234444444443322   2143443333111111 001000   01111122344


Q ss_pred             Hhh--cCCeEEEEEecCCChH
Q 001603           77 SRL--RQKKVLLVIDDVADVE   95 (1046)
Q Consensus        77 ~~L--~~kr~LlVlDdv~~~~   95 (1046)
                      +++  .++.|||++|++-...
T Consensus       496 e~fre~G~dVlillDSlTR~A  516 (672)
T PRK12678        496 KRLVELGKDVVVLLDSITRLG  516 (672)
T ss_pred             HHHHHcCCCEEEEEeCchHHH
Confidence            555  5899999999986543

>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=94.55  E-value=0.069  Score=57.05  Aligned_cols=25  Identities=24%  Similarity=0.304  Sum_probs=20.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      .|.|+|.+|.||||+|+.+.+.+..
T Consensus         3 Liil~G~P~SGKTt~a~~L~~~~~~   27 (270)
T PF08433_consen    3 LIILCGLPCSGKTTRAKELKKYLEE   27 (270)
T ss_dssp             EEEEE--TTSSHHHHHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHHHh
Confidence            3789999999999999999987665

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=94.54  E-value=0.13  Score=50.01  Aligned_cols=22  Identities=23%  Similarity=0.499  Sum_probs=20.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +|.|.|++|+||||+|+.+.+.
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            5889999999999999998886

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK14526 adenylate kinase; Provisional

Probab=94.52  E-value=0.12  Score=53.04  Aligned_cols=22  Identities=27%  Similarity=0.428  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |+|+|+.|+||||+|+.++..+
T Consensus         3 i~l~G~pGsGKsT~a~~La~~~   24 (211)
T PRK14526          3 LVFLGPPGSGKGTIAKILSNEL   24 (211)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999988754

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=94.52  E-value=0.03  Score=57.16  Aligned_cols=25  Identities=36%  Similarity=0.288  Sum_probs=20.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      ++.|+|++|+||||++..+...+..
T Consensus        34 l~~i~g~~g~GKT~~~~~l~~~~~~   58 (193)
T PF13481_consen   34 LTLIAGPPGSGKTTLALQLAAALAT   58 (193)
T ss_dssp             EEEEEECSTSSHHHHHHHHHHHHHT
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHHHh
Confidence            3679999999999999988876543

>TIGR01351 adk adenylate kinases

Probab=94.51  E-value=0.094  Score=54.25  Aligned_cols=22  Identities=27%  Similarity=0.279  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.+.+++
T Consensus         2 I~i~G~pGsGKsT~a~~La~~~   23 (210)
T TIGR01351         2 LVLLGPPGSGKGTQAKRIAEKY   23 (210)
T ss_pred             EEEECCCCCCHHHHHHHHHHHc
Confidence            7899999999999999998754

Adenylate kinase (EC 2.7.4.3) converts ATP + AMP to ADP + ADP, that is, uses ATP as a phosphate donor for AMP. Most members of this family are known or believed to be adenylate kinase. However, some members accept other nucleotide triphosphates as donors, may be unable to use ATP, and may fail to complement adenylate kinase mutants. An example of a nucleoside-triphosphate--adenylate kinase (EC 2.7.4.10) is a GTP:AMP phosphotransferase. This family is designated subfamily rather than equivalog for this reason.

>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=94.51  E-value=0.012  Score=35.83  Aligned_cols=20  Identities=40%  Similarity=0.708  Sum_probs=11.4

Q ss_pred             CCCeeeCCCCCCcccchhhh
Q 001603          748 SLKQLNLSQNNFVTLPASIN  767 (1046)
Q Consensus       748 ~L~~L~Ls~n~l~~lp~~i~  767 (1046)
                      +|++|+|++|+++.+|..++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~   20 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFS   20 (22)
T ss_dssp             TESEEEETSSEESEEGTTTT
T ss_pred             CccEEECCCCcCEeCChhhc
Confidence            35566666666666665443

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 ....

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.48  E-value=0.11  Score=55.76  Aligned_cols=33  Identities=18%  Similarity=0.220  Sum_probs=24.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFL   33 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~   33 (1046)
                      +|+++|++|+||||++..++..++.+-..+.++
T Consensus        74 vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li  106 (272)
T TIGR00064        74 VILFVGVNGVGKTTTIAKLANKLKKQGKSVLLA  106 (272)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEE
Confidence            478899999999999999988765542233343

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.

>PRK13947 shikimate kinase; Provisional

Probab=94.46  E-value=0.031  Score=55.70  Aligned_cols=25  Identities=28%  Similarity=0.384  Sum_probs=22.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |.|+|++|+||||+|+.+++++.-.
T Consensus         4 I~l~G~~GsGKst~a~~La~~lg~~   28 (171)
T PRK13947          4 IVLIGFMGTGKTTVGKRVATTLSFG   28 (171)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhCCC
Confidence            7899999999999999999987543

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=94.44  E-value=0.13  Score=63.49  Aligned_cols=27  Identities=22%  Similarity=0.449  Sum_probs=23.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      ++.++|++|+||||+|+.++..+...|
T Consensus       351 ~i~l~GppG~GKTtl~~~ia~~l~~~~  377 (784)
T PRK10787        351 ILCLVGPPGVGKTSLGQSIAKATGRKY  377 (784)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhCCCE
Confidence            478999999999999999998766544

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=94.43  E-value=0.068  Score=58.25  Aligned_cols=34  Identities=29%  Similarity=0.293  Sum_probs=26.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++-|+|++|+||||||.+++......-..++|++
T Consensus        57 iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId   90 (325)
T cd00983          57 IIEIYGPESSGKTTLALHAIAEAQKLGGTVAFID   90 (325)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEEC
Confidence            4679999999999999988766555545567776

RecA couples ATP hydrolysis to DNA strand exchange.

>TIGR00959 ffh signal recognition particle protein

Probab=94.42  E-value=0.19  Score=57.39  Aligned_cols=24  Identities=25%  Similarity=0.286  Sum_probs=21.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|.++|.+|+||||.|..++..+.
T Consensus       101 vi~~vG~~GsGKTTtaakLA~~l~  124 (428)
T TIGR00959       101 VILMVGLQGSGKTTTCGKLAYYLK  124 (428)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHH
Confidence            478999999999999998887754

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.

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=94.37  E-value=0.14  Score=54.13  Aligned_cols=34  Identities=15%  Similarity=0.061  Sum_probs=25.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|.|||++|.++......+-+.++|+.
T Consensus        23 ~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs   56 (237)
T TIGR03877        23 VVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVA   56 (237)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEE
Confidence            4789999999999999876554323345566766

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.

>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=94.36  E-value=0.14  Score=51.14  Aligned_cols=113  Identities=16%  Similarity=0.207  Sum_probs=58.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh---hccCcc----------ccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL---KLADIS----------IWN   67 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~---~~~~~~----------~~~   67 (1046)
                      +++|+|..|.|||||++.++..... ..+.+++.... ...  . .    ......+.   ......          ...
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~g~~-~~~--~-~----~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~   98 (173)
T cd03230          28 IYGLLGPNGAGKTTLIKIILGLLKP-DSGEIKVLGKD-IKK--E-P----EEVKRRIGYLPEEPSLYENLTVRENLKLSG   98 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-CCeEEEECCEE-ccc--c-h----HhhhccEEEEecCCccccCCcHHHHhhcCH
Confidence            4799999999999999999875432 34444443210 000  0 0    00001111   000000          011


Q ss_pred             ccchHHHHHHhhcCCeEEEEEecCCCh------HHHHHHhhccCCCCCCCEEEEEeCChhhHH
Q 001603           68 VDDGINIIGSRLRQKKVLLVIDDVADV------EQLQNLARKRDWFGPGSKIVITTRDKQLLV  124 (1046)
Q Consensus        68 ~~~~~~~i~~~L~~kr~LlVlDdv~~~------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~  124 (1046)
                      -....-.+...+..++=++++|+--..      +.+.++...+.  ..|..||++|.+.....
T Consensus        99 G~~qrv~laral~~~p~illlDEPt~~LD~~~~~~l~~~l~~~~--~~g~tiii~th~~~~~~  159 (173)
T cd03230          99 GMKQRLALAQALLHDPELLILDEPTSGLDPESRREFWELLRELK--KEGKTILLSSHILEEAE  159 (173)
T ss_pred             HHHHHHHHHHHHHcCCCEEEEeCCccCCCHHHHHHHHHHHHHHH--HCCCEEEEECCCHHHHH
Confidence            111222455666678889999997432      22333333322  23677899998877544

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.

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=94.34  E-value=0.11  Score=53.09  Aligned_cols=22  Identities=27%  Similarity=0.058  Sum_probs=19.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +++|.|+.|.||||+++.+...
T Consensus        27 ~~~ltGpNg~GKSTllr~i~~~   48 (199)
T cd03283          27 GILITGSNMSGKSTFLRTIGVN   48 (199)
T ss_pred             EEEEECCCCCChHHHHHHHHHH
Confidence            5799999999999999998753

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

>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=94.34  E-value=0.11  Score=51.98  Aligned_cols=33  Identities=36%  Similarity=0.505  Sum_probs=24.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +++|+|..|.|||||++.++..... ..+.+++.
T Consensus        30 ~~~i~G~nGsGKStLl~~l~G~~~~-~~G~i~~~   62 (173)
T cd03246          30 SLAIIGPSGSGKSTLARLILGLLRP-TSGRVRLD   62 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHhccCC-CCCeEEEC
Confidence            4799999999999999999875432 34445443

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

>CHL00206 ycf2 Ycf2; Provisional

Probab=94.32  E-value=0.34  Score=63.28  Aligned_cols=22  Identities=18%  Similarity=0.181  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.++|++|+|||.||++++...
T Consensus      1633 ILLiGPPGTGKTlLAKALA~es 1654 (2281)
T CHL00206       1633 ILVIGSIGTGRSYLVKYLATNS 1654 (2281)
T ss_pred             eEEECCCCCCHHHHHHHHHHhc
Confidence            5789999999999999999854

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=94.30  E-value=0.19  Score=52.55  Aligned_cols=33  Identities=15%  Similarity=0.153  Sum_probs=23.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH-ccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI-SHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~-~~~f~~~~~~~   34 (1046)
                      ++.|.|..|+||||+|.++.... +.. ..++++.
T Consensus        26 ~~~i~G~~G~GKTtl~~~~~~~~~~~g-~~~~yi~   59 (230)
T PRK08533         26 LILIEGDESTGKSILSQRLAYGFLQNG-YSVSYVS   59 (230)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEEe
Confidence            47899999999999986665544 333 3455554

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.29  E-value=0.11  Score=60.77  Aligned_cols=70  Identities=27%  Similarity=0.378  Sum_probs=41.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh-
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL-   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L-   79 (1046)
                      |..++|++|+||||||..+++.-.  |.. +=+ |   +++... ...+-+.+...+...                ..+ 
T Consensus       328 ilLL~GppGlGKTTLAHViAkqaG--YsV-vEI-N---ASDeRt-~~~v~~kI~~avq~~----------------s~l~  383 (877)
T KOG1969|consen  328 ILLLCGPPGLGKTTLAHVIAKQAG--YSV-VEI-N---ASDERT-APMVKEKIENAVQNH----------------SVLD  383 (877)
T ss_pred             eEEeecCCCCChhHHHHHHHHhcC--ceE-EEe-c---cccccc-HHHHHHHHHHHHhhc----------------cccc
Confidence            457899999999999999987432  221 111 1   122222 444444444444321                112 


Q ss_pred             -cCCeEEEEEecCCCh
Q 001603           80 -RQKKVLLVIDDVADV   94 (1046)
Q Consensus        80 -~~kr~LlVlDdv~~~   94 (1046)
                       -+++.=||+|.+|-.
T Consensus       384 adsrP~CLViDEIDGa  399 (877)
T KOG1969|consen  384 ADSRPVCLVIDEIDGA  399 (877)
T ss_pred             cCCCcceEEEecccCC
Confidence             267888999999864

>TIGR02902 spore_lonB ATP-dependent protease LonB

Probab=94.28  E-value=0.19  Score=59.71  Aligned_cols=22  Identities=36%  Similarity=0.546  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|+|..|+||||+|+.+++..
T Consensus        89 vLi~Ge~GtGKt~lAr~i~~~~  110 (531)
T TIGR02902        89 VIIYGPPGVGKTAAARLVLEEA  110 (531)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6799999999999999998743

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.

>PRK06547 hypothetical protein; Provisional

Probab=94.28  E-value=0.035  Score=55.06  Aligned_cols=23  Identities=39%  Similarity=0.277  Sum_probs=20.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|.|++|.||||+|+.+.+..
T Consensus        17 ~i~i~G~~GsGKTt~a~~l~~~~   39 (172)
T PRK06547         17 TVLIDGRSGSGKTTLAGALAART   39 (172)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            48999999999999999998864

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=94.26  E-value=1.1  Score=45.43  Aligned_cols=121  Identities=18%  Similarity=0.365  Sum_probs=70.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L--   79 (1046)
                      |.++|++|.|||-||++|++.     ..+.|+....         .++.+..              ..++.+++++.+  
T Consensus       184 vlLygppgtGktLlaraVahh-----t~c~firvsg---------selvqk~--------------igegsrmvrelfvm  235 (404)
T KOG0728|consen  184 VLLYGPPGTGKTLLARAVAHH-----TDCTFIRVSG---------SELVQKY--------------IGEGSRMVRELFVM  235 (404)
T ss_pred             eEEecCCCCchhHHHHHHHhh-----cceEEEEech---------HHHHHHH--------------hhhhHHHHHHHHHH
Confidence            568999999999999999873     3345554221         1122111              112233333333  


Q ss_pred             --cCCeEEEEEecCCCh-------------H---HHHHHhhccCCC--CCCCEEEEEeCChhhHHHh-----cCCCcceE
Q 001603           80 --RQKKVLLVIDDVADV-------------E---QLQNLARKRDWF--GPGSKIVITTRDKQLLVAH-----EVDEEHIY  134 (1046)
Q Consensus        80 --~~kr~LlVlDdv~~~-------------~---~~~~l~~~~~~~--~~gs~IiiTTR~~~~~~~~-----~~~~~~~~  134 (1046)
                        ..-+-+|..|.+|..             +   ..-+++..++-|  .+.-+||+.|.--+++...     ..+.  .+
T Consensus       236 arehapsiifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridr--ki  313 (404)
T KOG0728|consen  236 AREHAPSIIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDR--KI  313 (404)
T ss_pred             HHhcCCceEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccc--cc
Confidence              356778888998752             1   123444444433  2456777776544443322     2333  78


Q ss_pred             ecCCCChHHHHHHHHHhh
Q 001603          135 NLEVLSNDEALQLFSMKA  152 (1046)
Q Consensus       135 ~l~~L~~~ea~~Lf~~~a  152 (1046)
                      +..+-+++...++++-+.
T Consensus       314 efp~p~e~ar~~ilkihs  331 (404)
T KOG0728|consen  314 EFPPPNEEARLDILKIHS  331 (404)
T ss_pred             cCCCCCHHHHHHHHHHhh
Confidence            888888888888877654

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=94.25  E-value=0.095  Score=59.53  Aligned_cols=89  Identities=20%  Similarity=0.263  Sum_probs=49.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc-ccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---cccc--------
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH-EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVD--------   69 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~--------   69 (1046)
                      ++|.|.+|+|||+|+..+...... +-+.++|.. +.+   +...+.++.+++...-........   .+..        
T Consensus       141 ~~Ifg~~G~GKt~l~~~~~~~~~~~~~~v~V~~~-iGe---R~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~  216 (449)
T TIGR03305       141 AGLFGGAGVGKTVLLTEMIHNMVGQHQGVSIFCG-IGE---RCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVG  216 (449)
T ss_pred             EEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEE-ecc---CcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHH
Confidence            689999999999999988775542 234555543 333   222255555555433110000000   1110        


Q ss_pred             chHHHHHHhhc---CCeEEEEEecCCCh
Q 001603           70 DGINIIGSRLR---QKKVLLVIDDVADV   94 (1046)
Q Consensus        70 ~~~~~i~~~L~---~kr~LlVlDdv~~~   94 (1046)
                      ...-.+.++++   ++.+|+++||+-..
T Consensus       217 ~~a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       217 HTALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHHHhcCCceEEEecChHHH
Confidence            11223555654   69999999999543

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=94.24  E-value=0.036  Score=55.45  Aligned_cols=24  Identities=25%  Similarity=0.415  Sum_probs=21.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      .|.|+|++|+||||+|+.+++.+.
T Consensus         6 ~i~l~G~~GsGKstla~~La~~l~   29 (175)
T PRK00131          6 NIVLIGFMGAGKSTIGRLLAKRLG   29 (175)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhC
Confidence            478999999999999999999863

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=94.24  E-value=0.33  Score=52.49  Aligned_cols=34  Identities=18%  Similarity=0.035  Sum_probs=25.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc-cceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~   34 (1046)
                      ++.|.|.+|+||||+|.+++.....+ =..+.|+.
T Consensus        32 ~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS   66 (271)
T cd01122          32 LIILTAGTGVGKTTFLREYALDLITQHGVRVGTIS   66 (271)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEE
Confidence            46899999999999999988765443 23455655

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=94.24  E-value=0.067  Score=54.09  Aligned_cols=92  Identities=20%  Similarity=0.198  Sum_probs=51.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCcccccccchHHHHHHhh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +|+|.|..|.||||+++.+...+... ...+.+.+..+......       .. -++. ..............+.++..+
T Consensus        27 ~i~I~G~tGSGKTTll~aL~~~i~~~-~~~i~ied~~E~~~~~~-------~~-~~~~~~~~~~~~~~~~~~~~~l~~~l   97 (186)
T cd01130          27 NILISGGTGSGKTTLLNALLAFIPPD-ERIITIEDTAELQLPHP-------NW-VRLVTRPGNVEGSGEVTMADLLRSAL   97 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcCCC-CCEEEECCccccCCCCC-------CE-EEEEEecCCCCCCCccCHHHHHHHHh
Confidence            47999999999999999998876543 23333332222111000       00 0000 000000011223456667777


Q ss_pred             cCCeEEEEEecCCChHHHHHHh
Q 001603           80 RQKKVLLVIDDVADVEQLQNLA  101 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~~~~~~l~  101 (1046)
                      +..+=.++++.+.+.+.++.+.
T Consensus        98 R~~pd~i~igEir~~ea~~~~~  119 (186)
T cd01130          98 RMRPDRIIVGEVRGGEALDLLQ  119 (186)
T ss_pred             ccCCCEEEEEccCcHHHHHHHH
Confidence            7778888999999887665443

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>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=94.22  E-value=0.1  Score=58.30  Aligned_cols=99  Identities=23%  Similarity=0.389  Sum_probs=55.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |-|||..|.|||.|+-.+|+.+..+-..++-             ..+...++-+++....     .....+..+.+.+.+
T Consensus        65 lYl~G~vG~GKT~Lmd~f~~~lp~~~k~R~H-------------Fh~Fm~~vh~~l~~~~-----~~~~~l~~va~~l~~  126 (362)
T PF03969_consen   65 LYLWGPVGRGKTMLMDLFYDSLPIKRKRRVH-------------FHEFMLDVHSRLHQLR-----GQDDPLPQVADELAK  126 (362)
T ss_pred             EEEECCCCCchhHHHHHHHHhCCcccccccc-------------ccHHHHHHHHHHHHHh-----CCCccHHHHHHHHHh
Confidence            4689999999999999999965432111111             1223333333333211     122345666777778


Q ss_pred             CeEEEEEecCCC--hHH---HHHHhhccCCCCCCCEEEEEeCChh
Q 001603           82 KKVLLVIDDVAD--VEQ---LQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        82 kr~LlVlDdv~~--~~~---~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      +..||.||.+.-  ..+   +..|...+  +..|. |||+|-+..
T Consensus       127 ~~~lLcfDEF~V~DiaDAmil~rLf~~l--~~~gv-vlVaTSN~~  168 (362)
T PF03969_consen  127 ESRLLCFDEFQVTDIADAMILKRLFEAL--FKRGV-VLVATSNRP  168 (362)
T ss_pred             cCCEEEEeeeeccchhHHHHHHHHHHHH--HHCCC-EEEecCCCC
Confidence            888999999743  222   33344332  23455 555555544

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

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=94.22  E-value=0.053  Score=52.75  Aligned_cols=26  Identities=27%  Similarity=0.285  Sum_probs=23.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      ||+|+|+.|+||||++.++...++.+
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~   26 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKAR   26 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            68999999999999999999987655

This molybdenum cofactor biosynthesis enzyme is similar to the urease accessory protein UreG and to the hydrogenase accessory protein HypB, both GTP hydrolases involved in loading nickel into the metallocenters of their respective target enzymes.

>PRK09354 recA recombinase A; Provisional

Probab=94.20  E-value=0.086  Score=57.92  Aligned_cols=34  Identities=29%  Similarity=0.332  Sum_probs=26.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++-|+|++|+||||||.++.......-..++|++
T Consensus        62 IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId   95 (349)
T PRK09354         62 IVEIYGPESSGKTTLALHAIAEAQKAGGTAAFID   95 (349)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEC
Confidence            4679999999999999888776655555667776

>CHL00095 clpC Clp protease ATP binding subunit

Probab=94.20  E-value=0.15  Score=64.23  Aligned_cols=24  Identities=25%  Similarity=0.278  Sum_probs=20.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +.++|+.|+|||+||+.+++.+-.
T Consensus       542 ~lf~Gp~GvGKt~lA~~LA~~l~~  565 (821)
T CHL00095        542 FLFSGPTGVGKTELTKALASYFFG  565 (821)
T ss_pred             EEEECCCCCcHHHHHHHHHHHhcC
Confidence            458999999999999999987643

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=94.19  E-value=0.06  Score=56.29  Aligned_cols=54  Identities=22%  Similarity=0.302  Sum_probs=33.2

Q ss_pred             HHHHHHhhcCCeEEEEEecC----CChHHHH--HHhhccCCCCCCCEEEEEeCChhhHHHh
Q 001603           72 INIIGSRLRQKKVLLVIDDV----ADVEQLQ--NLARKRDWFGPGSKIVITTRDKQLLVAH  126 (1046)
Q Consensus        72 ~~~i~~~L~~kr~LlVlDdv----~~~~~~~--~l~~~~~~~~~gs~IiiTTR~~~~~~~~  126 (1046)
                      ...|...|.++.=+++||+=    |-..|++  ++...+. ...|-.||+++-|-..+..+
T Consensus       146 rv~iArALaQ~~~iLLLDEPTs~LDi~~Q~evl~ll~~l~-~~~~~tvv~vlHDlN~A~ry  205 (258)
T COG1120         146 RVLIARALAQETPILLLDEPTSHLDIAHQIEVLELLRDLN-REKGLTVVMVLHDLNLAARY  205 (258)
T ss_pred             HHHHHHHHhcCCCEEEeCCCccccCHHHHHHHHHHHHHHH-HhcCCEEEEEecCHHHHHHh
Confidence            45677788888888999984    2223322  2222221 13567799999988766554

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=94.19  E-value=0.094  Score=55.76  Aligned_cols=35  Identities=26%  Similarity=0.266  Sum_probs=28.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEe
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLAN   35 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~   35 (1046)
                      ++-|+|+.|.||||+|.+++-..+..-..++|++.
T Consensus        62 ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDt   96 (279)
T COG0468          62 ITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDT   96 (279)
T ss_pred             EEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeC
Confidence            46799999999999998888766666667888873

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.17  E-value=0.18  Score=47.34  Aligned_cols=83  Identities=16%  Similarity=0.218  Sum_probs=37.9

Q ss_pred             cChhhhcCCCCccEEEeCCc--cCCCchhccccCccEEEecCCCCCCCCCCC--CCCCceEEEcCCCCchhhcc-cccCC
Q 001603          341 AGAKAFSQMTNLRLLKIDNL--QLPEGLEYLSNKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIEELWN-EIKYL  415 (1046)
Q Consensus       341 ~~~~~f~~l~~Lr~L~l~~~--~l~~~~~~l~~~Lr~L~l~~~~l~~lp~~~--~l~~L~~L~L~~~~i~~l~~-~~~~l  415 (1046)
                      +...+|.++.+|+.+.+.+.  .++...+.....|+.+.+.++ +..++...  ...+|+.+.+.. .+..++. .+..+
T Consensus         3 i~~~~F~~~~~l~~i~~~~~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~   80 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPNTIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNC   80 (129)
T ss_dssp             E-TTTTTT-TT--EEEETST--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-
T ss_pred             ECHHHHhCCCCCCEEEECCCeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccc
Confidence            45678888888888887642  233433344434666666553 55555543  444556665544 3333332 24445


Q ss_pred             CCCcEEEcCC
Q 001603          416 NMLKVMKLSH  425 (1046)
Q Consensus       416 ~~L~~L~Ls~  425 (1046)
                      ++|+.+++..
T Consensus        81 ~~l~~i~~~~   90 (129)
T PF13306_consen   81 TNLKNIDIPS   90 (129)
T ss_dssp             TTECEEEETT
T ss_pred             ccccccccCc
Confidence            5555555544

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=94.17  E-value=0.29  Score=49.89  Aligned_cols=23  Identities=26%  Similarity=0.151  Sum_probs=20.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      .|.|.|++|.||||+|+.+++++
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~~   23 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKKY   23 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHc
Confidence            38899999999999999998864

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK14528 adenylate kinase; Provisional

Probab=94.17  E-value=0.15  Score=51.41  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=20.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.+.+.+
T Consensus         4 i~i~G~pGsGKtt~a~~la~~~   25 (186)
T PRK14528          4 IIFMGPPGAGKGTQAKILCERL   25 (186)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998765

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.15  E-value=0.11  Score=48.85  Aligned_cols=81  Identities=10%  Similarity=0.187  Sum_probs=27.6

Q ss_pred             ccCCcccceeeccCccccccCc-ccccCCCCCEEecCCCCCCCccCCccCCCCCCCEEeccCCCCCCCcCcccCCCCCCc
Q 001603          578 LGSMKDLMELFLDGTSIAEVPS-SIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLE  656 (1046)
Q Consensus       578 ~~~l~~L~~L~L~~~~i~~lp~-~l~~l~~L~~L~L~~~~~~~~l~~~~~~l~~L~~L~Ls~c~~l~~~~~~~~~l~~L~  656 (1046)
                      +..+++|+.+.+..+ +..++. .+..+++|+.+.+.+ .....-...+..+++|+.+.+..+ ....-...+..+ +|+
T Consensus        31 F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i~~~~~-~~~i~~~~f~~~-~l~  106 (129)
T PF13306_consen   31 FSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNIDIPSN-ITEIGSSSFSNC-NLK  106 (129)
T ss_dssp             TTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEEEETTT--BEEHTTTTTT--T--
T ss_pred             ccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccccccccccccCcc-ccEEchhhhcCC-Cce
Confidence            444444444444442 333332 234444455555543 221122233444555555555432 111112234444 555


Q ss_pred             eeeccC
Q 001603          657 ELDISG  662 (1046)
Q Consensus       657 ~L~Ls~  662 (1046)
                      .+.+..
T Consensus       107 ~i~~~~  112 (129)
T PF13306_consen  107 EINIPS  112 (129)
T ss_dssp             EEE-TT
T ss_pred             EEEECC
Confidence            555543

>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=94.15  E-value=0.087  Score=51.62  Aligned_cols=113  Identities=20%  Similarity=0.260  Sum_probs=59.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      +++|+|..|.|||||++.+...+.. ..+.+++.... ... .. ...    ....+.-....  .......-.+...+.
T Consensus        27 ~~~i~G~nGsGKStll~~l~g~~~~-~~G~i~~~~~~-~~~-~~-~~~----~~~~i~~~~ql--S~G~~~r~~l~~~l~   96 (157)
T cd00267          27 IVALVGPNGSGKSTLLRAIAGLLKP-TSGEILIDGKD-IAK-LP-LEE----LRRRIGYVPQL--SGGQRQRVALARALL   96 (157)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCC-CccEEEECCEE-ccc-CC-HHH----HHhceEEEeeC--CHHHHHHHHHHHHHh
Confidence            4789999999999999999875543 45556654221 100 00 111    11111100000  111122223455555


Q ss_pred             CCeEEEEEecCCCh------HHHHHHhhccCCCCCCCEEEEEeCChhhHHH
Q 001603           81 QKKVLLVIDDVADV------EQLQNLARKRDWFGPGSKIVITTRDKQLLVA  125 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~  125 (1046)
                      .++=++++|+....      ..+..+.....  ..+..||++|-+......
T Consensus        97 ~~~~i~ilDEp~~~lD~~~~~~l~~~l~~~~--~~~~tii~~sh~~~~~~~  145 (157)
T cd00267          97 LNPDLLLLDEPTSGLDPASRERLLELLRELA--EEGRTVIIVTHDPELAEL  145 (157)
T ss_pred             cCCCEEEEeCCCcCCCHHHHHHHHHHHHHHH--HCCCEEEEEeCCHHHHHH
Confidence            66788999998532      22333333222  225678888888776554

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.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=94.15  E-value=0.083  Score=64.18  Aligned_cols=48  Identities=23%  Similarity=0.304  Sum_probs=30.5

Q ss_pred             HHHHhhcCCeEEEEEecCCC----h--HH-HHHHhhccCCCCCCCEEEEEeCChhhHH
Q 001603           74 IIGSRLRQKKVLLVIDDVAD----V--EQ-LQNLARKRDWFGPGSKIVITTRDKQLLV  124 (1046)
Q Consensus        74 ~i~~~L~~kr~LlVlDdv~~----~--~~-~~~l~~~~~~~~~gs~IiiTTR~~~~~~  124 (1046)
                      .|.+.+-.++=+++||..-.    .  .+ .+.+...   ....+.|+||=|...+..
T Consensus       619 alARaLl~~P~ILlLDEaTSaLD~~sE~~I~~~L~~~---~~~~T~I~IaHRl~ti~~  673 (709)
T COG2274         619 ALARALLSKPKILLLDEATSALDPETEAIILQNLLQI---LQGRTVIIIAHRLSTIRS  673 (709)
T ss_pred             HHHHHhccCCCEEEEeCcccccCHhHHHHHHHHHHHH---hcCCeEEEEEccchHhhh
Confidence            46677778888999999732    1  11 2333322   235688899989876543

>TIGR02782 TrbB_P P-type conjugative transfer ATPase TrbB

Probab=94.14  E-value=0.081  Score=57.68  Aligned_cols=86  Identities=22%  Similarity=0.219  Sum_probs=53.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc--ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhh
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF--DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      |.|.|..|.||||+++++.+.+....  ...+.+.+..|..-.....          +.-...   .......+.++..|
T Consensus       135 ilI~G~tGSGKTTll~al~~~i~~~~~~~ri~tiEd~~El~~~~~~~----------v~~~~~---~~~~~~~~~l~~aL  201 (299)
T TIGR02782       135 ILVVGGTGSGKTTLANALLAEIAKNDPTDRVVIIEDTRELQCAAPNV----------VQLRTS---DDAISMTRLLKATL  201 (299)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhccCCCceEEEECCchhhcCCCCCE----------EEEEec---CCCCCHHHHHHHHh
Confidence            67999999999999999998876532  2233444333321111000          000000   01114557788888


Q ss_pred             cCCeEEEEEecCCChHHHHHH
Q 001603           80 RQKKVLLVIDDVADVEQLQNL  100 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~~~~~~~l  100 (1046)
                      +..+=.||+..+...+.++.+
T Consensus       202 R~~pD~iivGEiR~~ea~~~l  222 (299)
T TIGR02782       202 RLRPDRIIVGEVRGGEALDLL  222 (299)
T ss_pred             cCCCCEEEEeccCCHHHHHHH
Confidence            888888999999988876544

The TrbB protein is found in the trb locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for plasmid conjugative transfer. TrbB is a homolog of the vir system VirB11 ATPase, and the Flp pilus sytem ATPase TadA.

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=94.11  E-value=0.041  Score=55.95  Aligned_cols=21  Identities=48%  Similarity=0.684  Sum_probs=19.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~   21 (1046)
                      ++||+|.+|.||||||+.++-
T Consensus        35 ~lgivGeSGsGKSTL~r~l~G   55 (252)
T COG1124          35 TLGIVGESGSGKSTLARLLAG   55 (252)
T ss_pred             EEEEEcCCCCCHHHHHHHHhc
Confidence            479999999999999999986

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=94.05  E-value=1.4  Score=45.70  Aligned_cols=135  Identities=11%  Similarity=0.209  Sum_probs=76.0

Q ss_pred             EEEEecCCCh--HHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCCCCchH
Q 001603           85 LLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEY  162 (1046)
Q Consensus        85 LlVlDdv~~~--~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~~~~~~  162 (1046)
                      ++|+-.+|+.  +.-.+|.+...-....+|+|+....-.-....--...-.+++.+.+++|-...++..+-+..-..+  
T Consensus       130 vvvi~ead~LT~dAQ~aLRRTMEkYs~~~RlIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--  207 (351)
T KOG2035|consen  130 VVVINEADELTRDAQHALRRTMEKYSSNCRLILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--  207 (351)
T ss_pred             EEEEechHhhhHHHHHHHHHHHHHHhcCceEEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--
Confidence            5666777654  223344444333456678876544322111111111126899999999999999888755554333  


Q ss_pred             HHHHHHHHHHhCCCchHHHHHhhhcC--------C---CChHHHHHHHHHHh-----cCCCCchHHHHhhccccc
Q 001603          163 VELSKRVLKYAGGLPLALTVLGSFLN--------G---RSVDLWRSTLKRLK-----KEPPNRIINILQISFDGL  221 (1046)
Q Consensus       163 ~~~~~~i~~~~~GlPLal~~~~~~L~--------~---~~~~~w~~~l~~l~-----~~~~~~i~~~l~~sy~~L  221 (1046)
                      .+++.+|+++++|+-.-...+--..+        +   -..-+|+.++++..     +.....+.++-..=|+-|
T Consensus       208 ~~~l~rIa~kS~~nLRrAllmlE~~~~~n~~~~a~~~~i~~~dWe~~i~e~a~~i~~eQs~~~L~~vR~~LYeLL  282 (351)
T KOG2035|consen  208 KELLKRIAEKSNRNLRRALLMLEAVRVNNEPFTANSQVIPKPDWEIYIQEIARVILKEQSPAKLLEVRGRLYELL  282 (351)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhccccccccCCCCCCccHHHHHHHHHHHHHhccCHHHHHHHHHHHHHHH
Confidence            58899999999997543322222111        1   14568998887753     233344444444445444

>PRK14527 adenylate kinase; Provisional

Probab=94.04  E-value=0.12  Score=52.60  Aligned_cols=23  Identities=26%  Similarity=0.218  Sum_probs=20.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|.|.|++|.||||+|+.++++.
T Consensus         8 ~i~i~G~pGsGKsT~a~~La~~~   30 (191)
T PRK14527          8 VVIFLGPPGAGKGTQAERLAQEL   30 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998765

>PRK03846 adenylylsulfate kinase; Provisional

Probab=94.02  E-value=0.055  Score=55.36  Aligned_cols=34  Identities=21%  Similarity=0.244  Sum_probs=26.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|+|+|++|.||||||+.+...+...-...+++.
T Consensus        26 ~i~i~G~~GsGKSTla~~l~~~l~~~~~~~~~ld   59 (198)
T PRK03846         26 VLWFTGLSGSGKSTVAGALEEALHELGVSTYLLD   59 (198)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhCCCCEEEEc
Confidence            5899999999999999999987654323345553

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=94.01  E-value=0.23  Score=50.45  Aligned_cols=22  Identities=36%  Similarity=0.457  Sum_probs=19.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +++|+|..|.|||||++.++..
T Consensus        35 ~~~l~G~nGsGKSTLl~~l~G~   56 (192)
T cd03232          35 LTALMGESGAGKTTLLDVLAGR   56 (192)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4799999999999999999863

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.

>TIGR01069 mutS2 MutS2 family protein

Probab=93.99  E-value=0.08  Score=65.32  Aligned_cols=113  Identities=13%  Similarity=0.140  Sum_probs=59.1

Q ss_pred             CCeEEEEEecCCCh---HHHH----HHhhccCCCCCCCEEEEEeCChhhHHHhcCCCc-ceEecCCCChHHHHHHHHHhh
Q 001603           81 QKKVLLVIDDVADV---EQLQ----NLARKRDWFGPGSKIVITTRDKQLLVAHEVDEE-HIYNLEVLSNDEALQLFSMKA  152 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~---~~~~----~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~-~~~~l~~L~~~ea~~Lf~~~a  152 (1046)
                      .++-|+++|..-..   .+-.    .+...+.  ..|+.+|+||-+..+......... ..+.|. ++. +... | .+-
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~-~d~-~~l~-p-~Yk  474 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVL-FDE-ETLS-P-TYK  474 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEE-EcC-CCCc-e-EEE
Confidence            47899999998542   2222    2222222  357899999999876443221110 011111 111 1111 1 111


Q ss_pred             cCCCCCCchHHHHHHHHHHHhCCCchHHHHHhhhcCCCChHHHHHHHHHHh
Q 001603          153 FKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLK  203 (1046)
Q Consensus       153 ~~~~~~~~~~~~~~~~i~~~~~GlPLal~~~~~~L~~~~~~~w~~~l~~l~  203 (1046)
                      +....+..   .-+-.|++++ |+|-.+.--|..+.+....+++..+.++.
T Consensus       475 l~~G~~g~---S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L~  521 (771)
T TIGR01069       475 LLKGIPGE---SYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKLS  521 (771)
T ss_pred             ECCCCCCC---cHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            11122222   2356677776 89999988888877655556666665554

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.

>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=93.99  E-value=0.049  Score=52.63  Aligned_cols=23  Identities=30%  Similarity=0.491  Sum_probs=21.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      ||.|.|+.|+||||+|+.+....
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~~   23 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKKL   23 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999999865

>PRK07132 DNA polymerase III subunit delta'; Validated

Probab=93.97  E-value=1.4  Score=47.75  Aligned_cols=94  Identities=14%  Similarity=0.164  Sum_probs=57.5

Q ss_pred             CCeEEEEEecCCChH--HHHHHhhccCCCCCCCEEEEEeCC-hhhHHHhcCCCcceEecCCCChHHHHHHHHHhhcCCCC
Q 001603           81 QKKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRD-KQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~--~~~~l~~~~~~~~~gs~IiiTTR~-~~~~~~~~~~~~~~~~l~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      +++=++|+|+++...  ....+...+....+.+.+|++|.+ ..+..... .....+++.+++.++..+.+....    .
T Consensus        89 ~~~KvvII~~~e~m~~~a~NaLLK~LEEPp~~t~~il~~~~~~kll~TI~-SRc~~~~f~~l~~~~l~~~l~~~~----~  163 (299)
T PRK07132         89 SQKKILIIKNIEKTSNSLLNALLKTIEEPPKDTYFLLTTKNINKVLPTIV-SRCQVFNVKEPDQQKILAKLLSKN----K  163 (299)
T ss_pred             CCceEEEEecccccCHHHHHHHHHHhhCCCCCeEEEEEeCChHhChHHHH-hCeEEEECCCCCHHHHHHHHHHcC----C
Confidence            466788899997653  355566555555677777765544 44443322 223489999999999988776541    1


Q ss_pred             CCchHHHHHHHHHHHhCCCchHHHHH
Q 001603          158 PMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~GlPLal~~~  183 (1046)
                       .   .+.+..++..++|.=-|+..+
T Consensus       164 -~---~~~a~~~a~~~~~~~~a~~~~  185 (299)
T PRK07132        164 -E---KEYNWFYAYIFSNFEQAEKYI  185 (299)
T ss_pred             -C---hhHHHHHHHHcCCHHHHHHHH
Confidence             1   133556666677633455543

>COG0396 sufC Cysteine desulfurase activator ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.96  E-value=0.17  Score=51.14  Aligned_cols=60  Identities=22%  Similarity=0.170  Sum_probs=37.0

Q ss_pred             hHHHHHHhhcCCeEEEEEecCCChHHHHHH---hhccC-CCCCCCEEEEEeCChhhHHHhcCCC
Q 001603           71 GINIIGSRLRQKKVLLVIDDVADVEQLQNL---ARKRD-WFGPGSKIVITTRDKQLLVAHEVDE  130 (1046)
Q Consensus        71 ~~~~i~~~L~~kr~LlVlDdv~~~~~~~~l---~~~~~-~~~~gs~IiiTTR~~~~~~~~~~~~  130 (1046)
                      ....|.+.+--++-+.|||..|+.-+++++   ..... -..+|+-++|.|-.+.++.....+.
T Consensus       151 KR~EilQ~~~lePkl~ILDE~DSGLDIdalk~V~~~i~~lr~~~~~~liITHy~rll~~i~pD~  214 (251)
T COG0396         151 KRNEILQLLLLEPKLAILDEPDSGLDIDALKIVAEGINALREEGRGVLIITHYQRLLDYIKPDK  214 (251)
T ss_pred             HHHHHHHHHhcCCCEEEecCCCcCccHHHHHHHHHHHHHHhcCCCeEEEEecHHHHHhhcCCCE
Confidence            345566666677889999999875333322   22211 1245777888888888776654333

>COG0529 CysC Adenylylsulfate kinase and related kinases [Inorganic ion transport and metabolism]

Probab=93.96  E-value=0.062  Score=51.68  Aligned_cols=30  Identities=20%  Similarity=0.202  Sum_probs=24.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccccee
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGS   30 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~   30 (1046)
                      ||-..|.+|.||||||.++++++...-..+
T Consensus        25 viW~TGLSGsGKSTiA~ale~~L~~~G~~~   54 (197)
T COG0529          25 VIWFTGLSGSGKSTIANALEEKLFAKGYHV   54 (197)
T ss_pred             EEEeecCCCCCHHHHHHHHHHHHHHcCCeE
Confidence            467889999999999999999887664433

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=93.94  E-value=0.16  Score=52.12  Aligned_cols=22  Identities=32%  Similarity=0.483  Sum_probs=20.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +++|+|..|.|||||++.++..
T Consensus        28 ~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          28 VHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4899999999999999998875

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.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=93.93  E-value=0.13  Score=59.12  Aligned_cols=26  Identities=23%  Similarity=0.284  Sum_probs=22.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|+|+|++|+||||++.+++..+..+
T Consensus       352 vIaLVGPtGvGKTTtaakLAa~la~~  377 (559)
T PRK12727        352 VIALVGPTGAGKTTTIAKLAQRFAAQ  377 (559)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            58999999999999999988765443

>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=93.93  E-value=0.048  Score=58.53  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.++|+.|+|||++++.......
T Consensus        36 vLl~G~~GtGKT~li~~~l~~l~   58 (272)
T PF12775_consen   36 VLLVGPSGTGKTSLIQNFLSSLD   58 (272)
T ss_dssp             EEEESSTTSSHHHHHHHHHHCST
T ss_pred             EEEECCCCCchhHHHHhhhccCC
Confidence            67999999999999999876543

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=93.92  E-value=0.13  Score=56.25  Aligned_cols=84  Identities=20%  Similarity=0.221  Sum_probs=47.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCcccccccchHHHHHHhh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~~~~~~~~~~~i~~~L   79 (1046)
                      +|.|-|-+|||||||..+++.++..+- .+.++.  .|.+     ..++. --..+++ ...+..........+.++..-
T Consensus        95 ~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVs--GEES-----~~Qik-lRA~RL~~~~~~l~l~aEt~~e~I~~~l~  165 (456)
T COG1066          95 VILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVS--GEES-----LQQIK-LRADRLGLPTNNLYLLAETNLEDIIAELE  165 (456)
T ss_pred             EEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEe--CCcC-----HHHHH-HHHHHhCCCccceEEehhcCHHHHHHHHH
Confidence            478999999999999999999887765 556654  2211     22211 1123333 112221111222222333333


Q ss_pred             cCCeEEEEEecCCC
Q 001603           80 RQKKVLLVIDDVAD   93 (1046)
Q Consensus        80 ~~kr~LlVlDdv~~   93 (1046)
                      +.++-++|+|.+..
T Consensus       166 ~~~p~lvVIDSIQT  179 (456)
T COG1066         166 QEKPDLVVIDSIQT  179 (456)
T ss_pred             hcCCCEEEEeccce
Confidence            46888999999854

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=93.91  E-value=0.069  Score=52.69  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=20.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      |.|.|..|+|||||++.+.+.++.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~l~~   25 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEELKK   25 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHHhhc
Confidence            689999999999999999998754

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>COG5635 Predicted NTPase (NACHT family) [Signal transduction mechanisms]

Probab=93.91  E-value=0.46  Score=59.84  Aligned_cols=194  Identities=19%  Similarity=0.228  Sum_probs=95.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc-cc---ceeEEEEe--chhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH-EF---DGSTFLAN--VREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~-~f---~~~~~~~~--~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.|+|..|.||||....++-.... ++   +..+|+..  ......... -..+...+...+.....     ........
T Consensus       225 ~~Ilg~pGsGKTtfl~~lA~~~~~~~~~~~~vpi~~~l~~~~~~~~~~~-q~~~~~~l~~~~~~~~~-----~~~~~~~~  298 (824)
T COG5635         225 LLILGAPGSGKTTFLQRLALWLAQRTLEPEDVPIFLLLNAFALARKFEK-QLSLIDYLAEELFSQGI-----AKQLIEAH  298 (824)
T ss_pred             eeeecCCCCCceehHHHHHHHhccCcCCcccCceeeechhHHHhhhhHh-hccHHHHHHHHHhccCC-----cchhhHHH
Confidence            579999999999999888764322 22   22333321  111111111 00222222222222211     11222222


Q ss_pred             HHhhcCCeEEEEEecCCChHH------HHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCCCChHHHHHH--
Q 001603           76 GSRLRQKKVLLVIDDVADVEQ------LQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQL--  147 (1046)
Q Consensus        76 ~~~L~~kr~LlVlDdv~~~~~------~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~L~~~ea~~L--  147 (1046)
                      .+.++..++++++|++|....      ...+-...+ .-+.+++|+|+|....-.....-.  .+++..+.++.-.+.  
T Consensus       299 ~e~l~~g~~llLlDGlDe~~~~~~~~~~~~i~~f~~-~~~~~~~iltcR~~~~~~~~~~f~--~~ei~~~~~~~i~~~~~  375 (824)
T COG5635         299 QELLKTGKLLLLLDGLDELEPKNQRALIREINKFLQ-EYPDAQVLLTCRPDTYKEEFKGFA--VFEIYKFLDLQINQFIL  375 (824)
T ss_pred             HHHHhccchhhHhhccchhhhhhHHHHHHHHHHHhh-hccCCeEEEEeccchhhhhhhhhh--hccchhhhHHHHHHHHH
Confidence            578889999999999987532      222111112 235899999999765433222111  455555555543321  


Q ss_pred             ------HHHhhcCCCCCC-chHH-HH---HHHHHHHhCCCchHHHHHhhhcC------CCChHHHHHHHHHHhc
Q 001603          148 ------FSMKAFKTRQPM-GEYV-EL---SKRVLKYAGGLPLALTVLGSFLN------GRSVDLWRSTLKRLKK  204 (1046)
Q Consensus       148 ------f~~~a~~~~~~~-~~~~-~~---~~~i~~~~~GlPLal~~~~~~L~------~~~~~~w~~~l~~l~~  204 (1046)
                            +....++..... ..+. .+   ..+-++.....|++|.+.+..-.      ....+-++.+++.+-.
T Consensus       376 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ik~l~~~p~~L~l~c~~~~~~~~lP~~~~~ly~~~~~~~~~  449 (824)
T COG5635         376 YQWLDAFIEDWFGDSRLLAKKLLERLKLPENRRIKELALTPLLLALECLIWQAQGDLPESRAELYEQAVDALLG  449 (824)
T ss_pred             HHHHHHHHHhhhcccchhhHHHHHHhcchhhHHHHHhccCHHHHHHHHHhhhHHhhCCCCcHHHHHHHHHHHHh
Confidence                  111122221111 0111 11   12334445888999988884332      2345666666666544

>PRK05922 type III secretion system ATPase; Validated

Probab=93.91  E-value=0.13  Score=58.37  Aligned_cols=87  Identities=17%  Similarity=0.207  Sum_probs=46.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc-cccc----------c
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI-WNVD----------D   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~-~~~~----------~   70 (1046)
                      ++|.|..|+|||||++.+......  +...+.. +.+   ....+.+...+...........-+ ...+          .
T Consensus       160 igI~G~nG~GKSTLL~~Ia~~~~~--d~gvi~l-iGe---rg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~  233 (434)
T PRK05922        160 IGVFSEPGSGKSSLLSTIAKGSKS--TINVIAL-IGE---RGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGR  233 (434)
T ss_pred             EEEECCCCCChHHHHHHHhccCCC--CceEEEE-eCC---CCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHH
Confidence            789999999999999988875432  2233322 111   111134444444433221111100 0111          1


Q ss_pred             hHHHHHHhh--cCCeEEEEEecCCCh
Q 001603           71 GINIIGSRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        71 ~~~~i~~~L--~~kr~LlVlDdv~~~   94 (1046)
                      ..-.+.+++  +++++|+++||+-..
T Consensus       234 ~a~tiAEyfrd~G~~VLl~~DslTR~  259 (434)
T PRK05922        234 AAMTIAEYFRDQGHRVLFIMDSLSRW  259 (434)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhHH
Confidence            122345555  589999999999553

>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=93.90  E-value=1.5  Score=49.18  Aligned_cols=105  Identities=15%  Similarity=0.068  Sum_probs=65.7

Q ss_pred             eEEEEEecCCCh--------HHHHHHhhccCCCCCCCEEEEEeCChhhHH----HhcCCCcceEecCCCChHHHHHHHHH
Q 001603           83 KVLLVIDDVADV--------EQLQNLARKRDWFGPGSKIVITTRDKQLLV----AHEVDEEHIYNLEVLSNDEALQLFSM  150 (1046)
Q Consensus        83 r~LlVlDdv~~~--------~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~----~~~~~~~~~~~l~~L~~~ea~~Lf~~  150 (1046)
                      |=+||||++...        +.+.+++..+- ..+-..||++|-+.....    .+.-..-+.+.+...+.+-|.++...
T Consensus       149 ~PVVVIdnF~~k~~~~~~iy~~laeWAa~Lv-~~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~  227 (431)
T PF10443_consen  149 RPVVVIDNFLHKAEENDFIYDKLAEWAASLV-QNNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLS  227 (431)
T ss_pred             CCEEEEcchhccCcccchHHHHHHHHHHHHH-hcCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHH
Confidence            678999998532        11222222222 135578898888765433    23222335789999999999999988


Q ss_pred             hhcCCCCC-------------C-----chHHHHHHHHHHHhCCCchHHHHHhhhcC
Q 001603          151 KAFKTRQP-------------M-----GEYVELSKRVLKYAGGLPLALTVLGSFLN  188 (1046)
Q Consensus       151 ~a~~~~~~-------------~-----~~~~~~~~~i~~~~~GlPLal~~~~~~L~  188 (1046)
                      +.......             .     .....-....++.+||=-.-|..+++.++
T Consensus       228 ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRik  283 (431)
T PF10443_consen  228 QLDEDTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIK  283 (431)
T ss_pred             HhcccccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            87543110             0     12334455677888888888888887776

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 [].

>PRK06217 hypothetical protein; Validated

Probab=93.90  E-value=0.045  Score=55.25  Aligned_cols=23  Identities=30%  Similarity=0.414  Sum_probs=21.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |+|.|++|.||||+|+++.+.+.
T Consensus         4 I~i~G~~GsGKSTla~~L~~~l~   26 (183)
T PRK06217          4 IHITGASGSGTTTLGAALAERLD   26 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            89999999999999999998753

>PRK11823 DNA repair protein RadA; Provisional

Probab=93.88  E-value=0.13  Score=59.60  Aligned_cols=34  Identities=21%  Similarity=0.209  Sum_probs=26.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|+|||||+.+++.....+-..++|+.
T Consensus        82 ~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs  115 (446)
T PRK11823         82 VVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVS  115 (446)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEE
Confidence            4679999999999999999887654333456665

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=93.83  E-value=0.15  Score=59.66  Aligned_cols=56  Identities=20%  Similarity=0.315  Sum_probs=37.2

Q ss_pred             HHHhhcCCeEEEEEecC------CChHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCC
Q 001603           75 IGSRLRQKKVLLVIDDV------ADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEV  138 (1046)
Q Consensus        75 i~~~L~~kr~LlVlDdv------~~~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~  138 (1046)
                      +...+-.++=++|||.=      +..+++++.+..++     ..||+.|-|+....... ..  ++.+++
T Consensus       450 La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~-----Gtvl~VSHDr~Fl~~va-~~--i~~~~~  511 (530)
T COG0488         450 LAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFE-----GTVLLVSHDRYFLDRVA-TR--IWLVED  511 (530)
T ss_pred             HHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCC-----CeEEEEeCCHHHHHhhc-ce--EEEEcC
Confidence            44455678889999975      34455666555533     45888899999877654 23  677765

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=93.82  E-value=0.18  Score=55.28  Aligned_cols=26  Identities=23%  Similarity=0.289  Sum_probs=22.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|+++|++|+||||++..++..++.+
T Consensus       116 vi~lvGpnGsGKTTt~~kLA~~l~~~  141 (318)
T PRK10416        116 VILVVGVNGVGKTTTIGKLAHKYKAQ  141 (318)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhc
Confidence            58999999999999999999877654

>PRK08149 ATP synthase SpaL; Validated

Probab=93.82  E-value=0.15  Score=57.71  Aligned_cols=88  Identities=19%  Similarity=0.224  Sum_probs=47.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCccc--ccc--------c
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADISI--WNV--------D   69 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~~--~~~--------~   69 (1046)
                      .++|+|..|+|||||+..++.....  +..++. .+.   .+...+.++.++.+.... .......  .+.        .
T Consensus       153 ~i~I~G~sG~GKTTLl~~i~~~~~~--dv~v~g-~Ig---~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~  226 (428)
T PRK08149        153 RMGIFASAGCGKTSLMNMLIEHSEA--DVFVIG-LIG---ERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAA  226 (428)
T ss_pred             EEEEECCCCCChhHHHHHHhcCCCC--CeEEEE-EEe---eCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHH
Confidence            3799999999999999988764322  222322 222   222225555555554321 1000000  011        0


Q ss_pred             chHHHHHHhh--cCCeEEEEEecCCCh
Q 001603           70 DGINIIGSRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        70 ~~~~~i~~~L--~~kr~LlVlDdv~~~   94 (1046)
                      .....+.+++  ++|.+||++||+-..
T Consensus       227 ~~a~tiAE~fr~~G~~Vll~~DslTr~  253 (428)
T PRK08149        227 LVATTVAEYFRDQGKRVVLFIDSMTRY  253 (428)
T ss_pred             HHHHHHHHHHHHcCCCEEEEccchHHH
Confidence            1122344555  589999999998543

>PRK13949 shikimate kinase; Provisional

Probab=93.79  E-value=0.051  Score=53.84  Aligned_cols=23  Identities=30%  Similarity=0.358  Sum_probs=21.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.|+|+.|.||||+|+.+++.+.
T Consensus         4 I~liG~~GsGKstl~~~La~~l~   26 (169)
T PRK13949          4 IFLVGYMGAGKTTLGKALARELG   26 (169)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999998764

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=93.78  E-value=0.12  Score=58.52  Aligned_cols=86  Identities=21%  Similarity=0.188  Sum_probs=46.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---cccc--------c
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVD--------D   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~--------~   70 (1046)
                      ++|.|..|+|||||++.++.....  +..++. -+.+   +...+.++.+..+.+-+.......   .+..        .
T Consensus       161 i~I~G~sG~GKTtLL~~I~~~~~~--d~~v~~-~iGE---R~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~~  234 (442)
T PRK08927        161 MGIFAGSGVGKSVLLSMLARNADA--DVSVIG-LIGE---RGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAAY  234 (442)
T ss_pred             EEEECCCCCCHHHHHHHHHhccCC--CEEEEE-EEec---CcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHHH
Confidence            789999999999999988875433  333433 2322   221144444433332110000000   1110        1


Q ss_pred             hHHHHHHhh--cCCeEEEEEecCCC
Q 001603           71 GINIIGSRL--RQKKVLLVIDDVAD   93 (1046)
Q Consensus        71 ~~~~i~~~L--~~kr~LlVlDdv~~   93 (1046)
                      ..-.+.+++  +++.+|+++||+-.
T Consensus       235 ~a~tiAEyfrd~G~~Vll~~DslTr  259 (442)
T PRK08927        235 LTLAIAEYFRDQGKDVLCLMDSVTR  259 (442)
T ss_pred             HHHHHHHHHHHCCCcEEEEEeCcHH
Confidence            112245555  58999999999954

>TIGR03575 selen_PSTK_euk L-seryl-tRNA(Sec) kinase, eukaryotic

Probab=93.78  E-value=0.17  Score=55.74  Aligned_cols=24  Identities=29%  Similarity=0.408  Sum_probs=21.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      ++++.|+.|.||||+++.+.+.+.
T Consensus         1 ~~~l~Gl~GaGKST~~~~l~~~l~   24 (340)
T TIGR03575         1 LCVLCGLPAAGKSTLARSLSATLR   24 (340)
T ss_pred             CeEEECCCCCCHHHHHHHHHHHHH
Confidence            468999999999999999998775

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.

>PRK01184 hypothetical protein; Provisional

Probab=93.74  E-value=0.12  Score=52.11  Aligned_cols=20  Identities=30%  Similarity=0.617  Sum_probs=17.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +|+|+|+.|.||||+|+ +++
T Consensus         3 ~i~l~G~~GsGKsT~a~-~~~   22 (184)
T PRK01184          3 IIGVVGMPGSGKGEFSK-IAR   22 (184)
T ss_pred             EEEEECCCCCCHHHHHH-HHH
Confidence            58999999999999987 444

>CHL00060 atpB ATP synthase CF1 beta subunit

Probab=93.72  E-value=0.2  Score=57.39  Aligned_cols=89  Identities=24%  Similarity=0.269  Sum_probs=49.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc-ceeEEEEechhhhcccCCHHHHHHHHHHHHh-hcc------Cccc---cccc-
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF-DGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLA------DISI---WNVD-   69 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~------~~~~---~~~~-   69 (1046)
                      ++|.|.+|+|||||+..+...+.... +.++|. -+.+-.   ..+.++.+.++..-. ...      ....   .+.. 
T Consensus       164 ~gIfgg~GvGKs~L~~~~~~~~~~~~~dv~V~~-lIGERg---rEv~efi~~~~~~~~~~~~~~~~~rsvvv~atsd~p~  239 (494)
T CHL00060        164 IGLFGGAGVGKTVLIMELINNIAKAHGGVSVFG-GVGERT---REGNDLYMEMKESGVINEQNIAESKVALVYGQMNEPP  239 (494)
T ss_pred             EeeecCCCCChhHHHHHHHHHHHHhcCCeEEEE-EeccCc---hHHHHHHHHHHhcCccccCcccccceEEEEECCCCCH
Confidence            68999999999999998887643322 444444 343322   225556655554110 000      0000   1111 


Q ss_pred             -------chHHHHHHhhc--CC-eEEEEEecCCCh
Q 001603           70 -------DGINIIGSRLR--QK-KVLLVIDDVADV   94 (1046)
Q Consensus        70 -------~~~~~i~~~L~--~k-r~LlVlDdv~~~   94 (1046)
                             .....+.++++  ++ .+||++||+-..
T Consensus       240 ~~R~~a~~~A~tiAEyfrd~g~~~VLll~DslTR~  274 (494)
T CHL00060        240 GARMRVGLTALTMAEYFRDVNKQDVLLFIDNIFRF  274 (494)
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCCCEEEEcccchHH
Confidence                   11233667774  44 999999999543

>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=93.71  E-value=0.19  Score=49.66  Aligned_cols=21  Identities=38%  Similarity=0.355  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|+|..|+||+.+|+.+++.
T Consensus        25 VlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen   25 VLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEcCCCCcHHHHHHHHHHh
Confidence            789999999999999999983

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 ....

>CHL00059 atpA ATP synthase CF1 alpha subunit

Probab=93.69  E-value=0.16  Score=58.03  Aligned_cols=88  Identities=17%  Similarity=0.143  Sum_probs=46.5

Q ss_pred             EEEEcCCCCcHHHHHH-HHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---ccccch------
Q 001603            2 MGIWGMGGLGKTTLAR-VAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVDDG------   71 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~~~------   71 (1046)
                      ++|.|..|+||||||. .+.+. + .-+..|.+..+.+.   ...+.++.+.+...=......-.   .+....      
T Consensus       144 ~~I~g~~g~GKt~Lal~~I~~q-~-~~dv~cV~~~IGer---~rev~e~~~~l~~~~~l~~tvvV~atad~~~~~r~~ap  218 (485)
T CHL00059        144 ELIIGDRQTGKTAVATDTILNQ-K-GQNVICVYVAIGQK---ASSVAQVVTTLQERGAMEYTIVVAETADSPATLQYLAP  218 (485)
T ss_pred             EEeecCCCCCHHHHHHHHHHhc-c-cCCeEEEEEEecCC---chHHHHHHHHhhcccchhceEEEEeCCCCCHHHHHHHH
Confidence            6899999999999964 44443 2 33555444444432   22255555555443111000000   011001      


Q ss_pred             --HHHHHHhh--cCCeEEEEEecCCCh
Q 001603           72 --INIIGSRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        72 --~~~i~~~L--~~kr~LlVlDdv~~~   94 (1046)
                        ...+.+++  +++++|+|+||+-..
T Consensus       219 ~~a~aiAEyfr~~G~~VLlv~DdlTr~  245 (485)
T CHL00059        219 YTGAALAEYFMYRGRHTLIIYDDLSKQ  245 (485)
T ss_pred             HHHhhHHHHHHHcCCCEEEEEcChhHH
Confidence              12244444  479999999999653

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=93.68  E-value=0.055  Score=54.14  Aligned_cols=25  Identities=20%  Similarity=0.387  Sum_probs=21.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|.+.|++|.||||+|+++.+....
T Consensus         4 ~i~l~G~~gsGKst~a~~l~~~~~~   28 (175)
T cd00227           4 IIILNGGSSAGKSSIARALQSVLAE   28 (175)
T ss_pred             EEEEECCCCCCHHHHHHHHHHhhCC
Confidence            5889999999999999999887543

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.67  E-value=0.17  Score=57.91  Aligned_cols=34  Identities=18%  Similarity=0.178  Sum_probs=24.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc--cccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS--HEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~--~~f~~~~~~~   34 (1046)
                      +|+++|++|+||||++..++..+.  ..-..+.++.
T Consensus       223 ~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~  258 (424)
T PRK05703        223 VVALVGPTGVGKTTTLAKLAARYALLYGKKKVALIT  258 (424)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEE
Confidence            478999999999999998877654  3323344544

>COG0055 AtpD F0F1-type ATP synthase, beta subunit [Energy production and conversion]

Probab=93.66  E-value=0.15  Score=54.86  Aligned_cols=101  Identities=23%  Similarity=0.351  Sum_probs=60.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCc--ccccccch-------
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADI--SIWNVDDG-------   71 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~--~~~~~~~~-------   71 (1046)
                      ||+.|-+|+|||-+.+++-+.+..+..+...+..+.|-...   -.++..++-+.-. .....  ..++..-+       
T Consensus       150 iGLFGGAGVGKTVl~~ELI~Nia~~h~g~SVFaGvGERtRE---GndLy~Em~es~vl~ktalv~gQMNEpPGaR~RVal  226 (468)
T COG0055         150 IGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTRE---GNDLYHEMKESGVLDKTALVFGQMNEPPGARMRVAL  226 (468)
T ss_pred             eeeeccCCccceeeHHHHHHHHHHHcCCeEEEEeccccccc---hHHHHHHHHhcCCCCceeEEEeecCCCCcceeeehh
Confidence            79999999999999999999888777777776766664332   2344444433211 10000  00111111       


Q ss_pred             -HHHHHHhhc---CCeEEEEEecCCChH----HHHHHhhccC
Q 001603           72 -INIIGSRLR---QKKVLLVIDDVADVE----QLQNLARKRD  105 (1046)
Q Consensus        72 -~~~i~~~L~---~kr~LlVlDdv~~~~----~~~~l~~~~~  105 (1046)
                       ---+.++++   ++-+|+.+||+..-.    +...+++..+
T Consensus       227 tGlT~AEyfRD~~gqdVLlFIDNIfRftQAGsEVSalLGr~P  268 (468)
T COG0055         227 TGLTMAEYFRDEEGQDVLLFIDNIFRFTQAGSEVSALLGRMP  268 (468)
T ss_pred             hhhhHHHHhhcccCCeEEEEehhhhHHhhcchHHHHHhccCc
Confidence             011334443   689999999996543    3556666554

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=93.66  E-value=0.32  Score=57.02  Aligned_cols=31  Identities=26%  Similarity=0.431  Sum_probs=24.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFL   33 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~   33 (1046)
                      ++.+.|++|+||||.++.+++++.  |+..-|.
T Consensus        47 iLlLtGP~G~GKtttv~~La~elg--~~v~Ew~   77 (519)
T PF03215_consen   47 ILLLTGPSGCGKTTTVKVLAKELG--FEVQEWI   77 (519)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHhC--CeeEEec
Confidence            467899999999999999998753  4444454

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=93.65  E-value=0.058  Score=52.66  Aligned_cols=23  Identities=26%  Similarity=0.420  Sum_probs=21.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|++|+|||||+++++++.
T Consensus         6 l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           6 LIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhc
Confidence            47899999999999999999865

>cd00464 SK Shikimate kinase (SK) is the fifth enzyme in the shikimate pathway, a seven-step biosynthetic pathway which converts erythrose-4-phosphate to chorismic acid, found in bacteria, fungi and plants

Probab=93.62  E-value=0.06  Score=52.55  Aligned_cols=23  Identities=35%  Similarity=0.518  Sum_probs=20.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.|+|++|.||||+|+.+.+.+.
T Consensus         2 i~l~G~~GsGKstla~~la~~l~   24 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKALG   24 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHHhC
Confidence            78999999999999999988763

Chorismic acid is a important intermediate in the synthesis of aromatic compounds, such as aromatic amino acids, p-aminobenzoic acid, folate and ubiquinone. Shikimate kinase catalyses the phosphorylation of the 3-hydroxyl group of shikimic acid using ATP.

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=93.61  E-value=0.082  Score=50.39  Aligned_cols=34  Identities=21%  Similarity=0.257  Sum_probs=26.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc-ccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH-EFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~~~   34 (1046)
                      +|+|+|..|+|||||++.+.+.+.. .+...++.+
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~   36 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKH   36 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEE
Confidence            5899999999999999999998764 455444444

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=93.61  E-value=0.067  Score=62.16  Aligned_cols=28  Identities=25%  Similarity=0.440  Sum_probs=24.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFD   28 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~   28 (1046)
                      +++.+|++|||||++|+.++..+-.+|-
T Consensus       440 IlCf~GPPGVGKTSI~kSIA~ALnRkFf  467 (906)
T KOG2004|consen  440 ILCFVGPPGVGKTSIAKSIARALNRKFF  467 (906)
T ss_pred             EEEEeCCCCCCcccHHHHHHHHhCCceE
Confidence            5789999999999999999998777653

>PRK04328 hypothetical protein; Provisional

Probab=93.61  E-value=0.17  Score=53.77  Aligned_cols=34  Identities=15%  Similarity=0.067  Sum_probs=24.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|.|||+||.++......+-+.++|+.
T Consensus        25 ~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis   58 (249)
T PRK04328         25 VVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVA   58 (249)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            4679999999999999886654333345566665

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=93.60  E-value=0.21  Score=52.55  Aligned_cols=34  Identities=18%  Similarity=0.127  Sum_probs=25.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|.||||+|.++......+-..++|+.
T Consensus        22 ~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is   55 (229)
T TIGR03881        22 FVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVT   55 (229)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEE
Confidence            4789999999999999887654333345566766

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=93.59  E-value=0.049  Score=54.76  Aligned_cols=24  Identities=29%  Similarity=0.383  Sum_probs=21.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|.|+.|+||||+|+.+...+.
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~~~   26 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARARLA   26 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            479999999999999999988654

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.

>KOG1051 consensus Chaperone HSP104 and related ATP-dependent Clp proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.57  E-value=0.34  Score=59.34  Aligned_cols=78  Identities=14%  Similarity=0.245  Sum_probs=49.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-hccCcccccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~~~~~~~~~~~i~~~L~   80 (1046)
                      ..+.|+.|+|||-||++++..+.+..+..+-++           +.+.++  ..++. ...+.   -..+....+.+.++
T Consensus       594 flflGpdgvGKt~lAkaLA~~~Fgse~~~IriD-----------mse~~e--vskligsp~gy---vG~e~gg~Lteavr  657 (898)
T KOG1051|consen  594 FLFLGPDGVGKTELAKALAEYVFGSEENFIRLD-----------MSEFQE--VSKLIGSPPGY---VGKEEGGQLTEAVK  657 (898)
T ss_pred             EEEECCCchhHHHHHHHHHHHHcCCccceEEec-----------hhhhhh--hhhccCCCccc---ccchhHHHHHHHHh
Confidence            357899999999999999998866655555444           334444  33332 22221   12234457777887


Q ss_pred             CCeE-EEEEecCCChH
Q 001603           81 QKKV-LLVIDDVADVE   95 (1046)
Q Consensus        81 ~kr~-LlVlDdv~~~~   95 (1046)
                      .++| +|+||||+..+
T Consensus       658 rrP~sVVLfdeIEkAh  673 (898)
T KOG1051|consen  658 RRPYSVVLFEEIEKAH  673 (898)
T ss_pred             cCCceEEEEechhhcC
Confidence            7765 55679998754

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=93.56  E-value=0.053  Score=55.00  Aligned_cols=23  Identities=26%  Similarity=0.205  Sum_probs=20.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|.|++|+||||+|+.+.+.+
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~~~   27 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVEKY   27 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            58999999999999999998764

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.

>TIGR00416 sms DNA repair protein RadA

Probab=93.56  E-value=0.14  Score=59.22  Aligned_cols=34  Identities=21%  Similarity=0.224  Sum_probs=26.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|.|.+|+|||||+.+++..+..+-..+.|+.
T Consensus        96 vilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs  129 (454)
T TIGR00416        96 LILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVS  129 (454)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEE
Confidence            4789999999999999998776654433456665

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)).

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=93.55  E-value=0.17  Score=57.53  Aligned_cols=22  Identities=32%  Similarity=0.508  Sum_probs=19.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      .++|+|..|+|||||++.+...
T Consensus       167 ri~I~G~SGsGKTTLL~~Ia~l  188 (450)
T PRK06002        167 RIGIFAGSGVGKSTLLAMLARA  188 (450)
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            3799999999999999888764

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=93.54  E-value=0.86  Score=53.47  Aligned_cols=167  Identities=17%  Similarity=0.195  Sum_probs=95.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc-----c---ccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS-----H---EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGIN   73 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~-----~---~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~   73 (1046)
                      +-|.|.+|.|||..+..|.+.++     .   .|+. +.+...+     -....++...|+.++....    ..+....+
T Consensus       425 mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~y-veINgm~-----l~~~~~~Y~~I~~~lsg~~----~~~~~al~  494 (767)
T KOG1514|consen  425 MYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDY-VEINGLR-----LASPREIYEKIWEALSGER----VTWDAALE  494 (767)
T ss_pred             EEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccE-EEEccee-----ecCHHHHHHHHHHhcccCc----ccHHHHHH
Confidence            56999999999999999998553     1   2332 3333222     2226777888888776432    23344556


Q ss_pred             HHHHhhc-----CCeEEEEEecCCChH-----HHHHHhhccCCC-CCCCEEEEEeCChh-----------hHHHhcCCCc
Q 001603           74 IIGSRLR-----QKKVLLVIDDVADVE-----QLQNLARKRDWF-GPGSKIVITTRDKQ-----------LLVAHEVDEE  131 (1046)
Q Consensus        74 ~i~~~L~-----~kr~LlVlDdv~~~~-----~~~~l~~~~~~~-~~gs~IiiTTR~~~-----------~~~~~~~~~~  131 (1046)
                      .+..++.     .+..+|++|++|..-     .+..+   ++|. .++||++|-+=...           +....+.   
T Consensus       495 ~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~---fdWpt~~~sKLvvi~IaNTmdlPEr~l~nrvsSRlg~---  568 (767)
T KOG1514|consen  495 ALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNI---FDWPTLKNSKLVVIAIANTMDLPERLLMNRVSSRLGL---  568 (767)
T ss_pred             HHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHH---hcCCcCCCCceEEEEecccccCHHHHhccchhhhccc---
Confidence            6666664     567899999987542     23333   3343 47788766543211           1111121   


Q ss_pred             ceEecCCCChHHHHHHHHHhhcCCCCCC-chHHHHHHHHHHHhCCCchHHHHHh
Q 001603          132 HIYNLEVLSNDEALQLFSMKAFKTRQPM-GEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       132 ~~~~l~~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~i~~~~~GlPLal~~~~  184 (1046)
                      ..+..++.++++-.+....+..+...-. ...+-++++|+.--|..-.|+.+.-
T Consensus       569 tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~  622 (767)
T KOG1514|consen  569 TRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICR  622 (767)
T ss_pred             eeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHH
Confidence            2577888888888888777664432211 2222334455444444455554443

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=93.54  E-value=0.33  Score=55.07  Aligned_cols=26  Identities=23%  Similarity=0.247  Sum_probs=22.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|.++|..|+||||+|.+++..++.+
T Consensus       102 vi~lvG~~GvGKTTtaaKLA~~l~~~  127 (429)
T TIGR01425       102 VIMFVGLQGSGKTTTCTKLAYYYQRK  127 (429)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
Confidence            58999999999999999888766544

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.

>PRK14531 adenylate kinase; Provisional

Probab=93.50  E-value=0.25  Score=49.73  Aligned_cols=22  Identities=27%  Similarity=0.164  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.+++.+
T Consensus         5 i~i~G~pGsGKsT~~~~la~~~   26 (183)
T PRK14531          5 LLFLGPPGAGKGTQAARLCAAH   26 (183)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998875

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=93.50  E-value=0.74  Score=50.55  Aligned_cols=48  Identities=19%  Similarity=0.112  Sum_probs=34.1

Q ss_pred             eEecCCCChHHHHHHHHHhhcCCCCCC-chHHHHHHHHHHHhCCCchHH
Q 001603          133 IYNLEVLSNDEALQLFSMKAFKTRQPM-GEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       133 ~~~l~~L~~~ea~~Lf~~~a~~~~~~~-~~~~~~~~~i~~~~~GlPLal  180 (1046)
                      .++|++++.+|+..++.-++-..--.. ...+...+++....+|+|--+
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~el  306 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPREL  306 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHHh
Confidence            689999999999999988875443322 233345566666679999654

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).

>PF00437 T2SE: Type II/IV secretion system protein; InterPro: IPR001482 A number of bacterial proteins, some of which are involved in a general secretion pathway (GSP) for the export of proteins (also called the type II pathway) belong to this group [, ]

Probab=93.49  E-value=0.22  Score=53.83  Aligned_cols=100  Identities=21%  Similarity=0.178  Sum_probs=58.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc-ccccchHHHHHHhhc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI-WNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~-~~~~~~~~~i~~~L~   80 (1046)
                      |.|.|..|.||||+++++.+.+...-...+-+.+..|..-..             .. ...... .+.....+.++..|+
T Consensus       130 ili~G~tGSGKTT~l~all~~i~~~~~~iv~iEd~~E~~l~~-------------~~-~~~~~~~~~~~~~~~~l~~~LR  195 (270)
T PF00437_consen  130 ILISGPTGSGKTTLLNALLEEIPPEDERIVTIEDPPELRLPG-------------PN-QIQIQTRRDEISYEDLLKSALR  195 (270)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHCHTTTSEEEEEESSS-S--SC-------------SS-EEEEEEETTTBSHHHHHHHHTT
T ss_pred             EEEECCCccccchHHHHHhhhccccccceEEeccccceeecc-------------cc-eEEEEeecCcccHHHHHHHHhc
Confidence            789999999999999999987665512334444333321110             00 000000 133455677888899


Q ss_pred             CCeEEEEEecCCChHHHHHHhhccCCCCCCCEE-EEEeCC
Q 001603           81 QKKVLLVIDDVADVEQLQNLARKRDWFGPGSKI-VITTRD  119 (1046)
Q Consensus        81 ~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~I-iiTTR~  119 (1046)
                      ..+=.+|++.+.+.+.++.+...    ..|..+ +-|.-.
T Consensus       196 ~~pD~iiigEiR~~e~~~~~~a~----~tGh~~~~tT~Ha  231 (270)
T PF00437_consen  196 QDPDVIIIGEIRDPEAAEAIQAA----NTGHLGSLTTLHA  231 (270)
T ss_dssp             S--SEEEESCE-SCHHHHHHHHH----HTT-EEEEEEEE-
T ss_pred             CCCCcccccccCCHhHHHHHHhh----ccCCceeeeeeec
Confidence            88889999999998887764433    357777 444443

These proteins are probably located in the cytoplasm and, on the basis of the presence of a conserved P-loop region IPR001687 from INTERPRO, bind ATP.; GO: 0005524 ATP binding, 0006810 transport, 0005622 intracellular; PDB: 1NLZ_C 2PT7_B 1OPX_A 1NLY_A 1G6O_B 2OAQ_2 2OAP_1 2JNQ_A 2JMZ_A 2GZA_B ....

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=93.48  E-value=0.4  Score=48.21  Aligned_cols=107  Identities=18%  Similarity=0.153  Sum_probs=54.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc---cce-eEEEEec-hhhhcccCCHHHHHHHHHHHHhhccCcccccc-cchHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE---FDG-STFLANV-REKSEKEGSVVSLQKQLLSDLLKLADISIWNV-DDGINII   75 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~---f~~-~~~~~~~-~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~-~~~~~~i   75 (1046)
                      ..|.|++|+|||||.+.++.-++..   |.. .+-+.+- .+.........  +.+....+.    .  -+. .....++
T Consensus       140 tLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDersEIag~~~gvp--q~~~g~R~d----V--ld~cpk~~gmm  211 (308)
T COG3854         140 TLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERSEIAGCLNGVP--QHGRGRRMD----V--LDPCPKAEGMM  211 (308)
T ss_pred             eEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccchhhccccCCc--hhhhhhhhh----h--cccchHHHHHH
Confidence            3589999999999999999866543   432 2222221 11111000011  111111111    0  010 0111111


Q ss_pred             HHhhcCCeEEEEEecCCChHHHHHHhhccCCCCCCCEEEEEeCC
Q 001603           76 GSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRD  119 (1046)
Q Consensus        76 ~~~L~~kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~IiiTTR~  119 (1046)
                      ...-.-.+=.+|+|.+...++..++....   ..|-++|.|.--
T Consensus       212 maIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG  252 (308)
T COG3854         212 MAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHG  252 (308)
T ss_pred             HHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeecc
Confidence            11112356688999999888776666553   467777777653

>PRK06936 type III secretion system ATPase; Provisional

Probab=93.47  E-value=0.13  Score=58.33  Aligned_cols=87  Identities=22%  Similarity=0.239  Sum_probs=46.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcc-c--ccccch-------
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADIS-I--WNVDDG-------   71 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~--~~~~~~-------   71 (1046)
                      ++|.|..|+|||||++.++.....  +.+++. .+.+-   ...+.++.+..+..-....... .  .+....       
T Consensus       165 ~~I~G~sG~GKStLl~~Ia~~~~~--dv~V~~-liGER---grEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~  238 (439)
T PRK06936        165 MGIFAAAGGGKSTLLASLIRSAEV--DVTVLA-LIGER---GREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAGF  238 (439)
T ss_pred             EEEECCCCCChHHHHHHHhcCCCC--CEEEEE-EEccC---cHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHHH
Confidence            799999999999999999875433  333333 33332   1114444443332211000000 0  111111       


Q ss_pred             -HHHHHHhh--cCCeEEEEEecCCCh
Q 001603           72 -INIIGSRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        72 -~~~i~~~L--~~kr~LlVlDdv~~~   94 (1046)
                       ...+.+++  +++++|+++||+-..
T Consensus       239 ~a~tiAEyfrd~G~~Vll~~DslTR~  264 (439)
T PRK06936        239 VATSIAEYFRDQGKRVLLLMDSVTRF  264 (439)
T ss_pred             HHHHHHHHHHHcCCCEEEeccchhHH
Confidence             12245555  589999999999543

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.46  E-value=0.059  Score=52.98  Aligned_cols=25  Identities=28%  Similarity=0.383  Sum_probs=22.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +++|+|..|.|||||++.+...+..
T Consensus         8 ii~ivG~sgsGKTTLi~~li~~l~~   32 (173)
T PRK10751          8 LLAIAAWSGTGKTTLLKKLIPALCA   32 (173)
T ss_pred             EEEEECCCCChHHHHHHHHHHHHhh
Confidence            5899999999999999999987765

>COG4240 Predicted kinase [General function prediction only]

Probab=93.44  E-value=0.12  Score=51.50  Aligned_cols=81  Identities=21%  Similarity=0.336  Sum_probs=46.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc-ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCc-ccccccchHHHHHHh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF-DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI-SIWNVDDGINIIGSR   78 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~-~~~~~~~~~~~i~~~   78 (1046)
                      +|||.|+-|.||||++..++..+.+.. +..... .+.+.+.++.+-..+.++. ..+....+. ...++.-+.+.+...
T Consensus        52 i~gisGpQGSGKStls~~i~~~L~~kg~ert~~l-SLDDlYlthadrl~La~q~-npllq~RGlpGTHD~tlglnVLnai  129 (300)
T COG4240          52 IVGISGPQGSGKSTLSALIVRLLAAKGLERTATL-SLDDLYLTHADRLRLARQV-NPLLQTRGLPGTHDPTLGLNVLNAI  129 (300)
T ss_pred             EEEeecCCCCchhhHHHHHHHHHHHhcccceEEe-ehhhhhcchHHHHHHHHhc-CchhcccCCCCCCchHHHHHHHHHH
Confidence            589999999999999999999877765 333333 2333444443334444443 222222221 114455555555555


Q ss_pred             hcCCe
Q 001603           79 LRQKK   83 (1046)
Q Consensus        79 L~~kr   83 (1046)
                      .+++.
T Consensus       130 ~~g~~  134 (300)
T COG4240         130 ARGGP  134 (300)
T ss_pred             hcCCC
Confidence            55553

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=93.43  E-value=0.1  Score=52.75  Aligned_cols=26  Identities=35%  Similarity=0.543  Sum_probs=21.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      .|+|+|-||+||||+|..++.++..+
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~   27 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSK   27 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhc
Confidence            48999999999999999966655444

>PRK02496 adk adenylate kinase; Provisional

Probab=93.43  E-value=0.22  Score=50.34  Aligned_cols=22  Identities=32%  Similarity=0.308  Sum_probs=20.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.+...+
T Consensus         4 i~i~G~pGsGKst~a~~la~~~   25 (184)
T PRK02496          4 LIFLGPPGAGKGTQAVVLAEHL   25 (184)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999998865

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=93.42  E-value=0.3  Score=50.08  Aligned_cols=24  Identities=25%  Similarity=0.297  Sum_probs=21.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +++|+|..|.|||||++.+.....
T Consensus        35 ~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          35 MVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             EEEEECCCCCCHHHHHHHhcccCC
Confidence            479999999999999999887544

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.

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=93.39  E-value=0.068  Score=51.95  Aligned_cols=26  Identities=27%  Similarity=0.468  Sum_probs=22.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      |.++||-|+||||+.+++++.+.-.|
T Consensus         5 IvLiG~mGaGKSTIGr~LAk~L~~~F   30 (172)
T COG0703           5 IVLIGFMGAGKSTIGRALAKALNLPF   30 (172)
T ss_pred             EEEEcCCCCCHhHHHHHHHHHcCCCc
Confidence            78999999999999999998766554

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=93.36  E-value=0.056  Score=51.96  Aligned_cols=20  Identities=35%  Similarity=0.629  Sum_probs=18.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAY   20 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~   20 (1046)
                      .|+|.|.+|+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            48999999999999999887

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.36  E-value=0.5  Score=57.35  Aligned_cols=23  Identities=26%  Similarity=0.312  Sum_probs=20.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      ||+++|+.|+||||++.+++..+
T Consensus       187 Vi~lVGpnGvGKTTTiaKLA~~~  209 (767)
T PRK14723        187 VLALVGPTGVGKTTTTAKLAARC  209 (767)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhH
Confidence            58999999999999999988765

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=93.28  E-value=0.069  Score=55.29  Aligned_cols=116  Identities=12%  Similarity=0.015  Sum_probs=56.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH-HHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCc--ccccccchHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD-LISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI--SIWNVDDGINIIGS   77 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~-~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~--~~~~~~~~~~~i~~   77 (1046)
                      +++|.|+.|.||||+.+.+.- .+..+-...+|-..+     +    .....+++..+....+.  ...........++.
T Consensus        33 ~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~-----~----~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~  103 (222)
T cd03287          33 CQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSA-----T----LSIFDSVLTRMGASDSIQHGMSTFMVELSETSH  103 (222)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCce-----E----EeccceEEEEecCccccccccchHHHHHHHHHH
Confidence            368999999999999998876 333321111111100     0    00111111111111000  00111122233333


Q ss_pred             hh--cCCeEEEEEecCCCh----H--H-HHHHhhccCCCCCCCEEEEEeCChhhHHHh
Q 001603           78 RL--RQKKVLLVIDDVADV----E--Q-LQNLARKRDWFGPGSKIVITTRDKQLLVAH  126 (1046)
Q Consensus        78 ~L--~~kr~LlVlDdv~~~----~--~-~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~  126 (1046)
                      .+  .+++.|+++|+....    +  . ...+...+.. ..++.+|++|-+..+....
T Consensus       104 il~~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~-~~~~~~i~~TH~~~l~~~~  160 (222)
T cd03287         104 ILSNCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLE-EKKCLVLFVTHYPSLGEIL  160 (222)
T ss_pred             HHHhCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHh-ccCCeEEEEcccHHHHHHH
Confidence            33  257899999997321    1  1 1122222221 1578999999998876543

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

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=93.24  E-value=0.065  Score=50.72  Aligned_cols=25  Identities=36%  Similarity=0.488  Sum_probs=22.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|.|.|++|.||||+|+.+++.+.-
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl   26 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGL   26 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCC
Confidence            5899999999999999999987654

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=93.21  E-value=0.07  Score=53.10  Aligned_cols=23  Identities=26%  Similarity=0.342  Sum_probs=20.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |+|+|+.|.||||+|+.+.+...
T Consensus         7 I~liG~~GaGKStl~~~La~~l~   29 (172)
T PRK05057          7 IFLVGPMGAGKSTIGRQLAQQLN   29 (172)
T ss_pred             EEEECCCCcCHHHHHHHHHHHcC
Confidence            78999999999999999998653

>PRK13946 shikimate kinase; Provisional

Probab=93.20  E-value=0.072  Score=53.76  Aligned_cols=24  Identities=25%  Similarity=0.426  Sum_probs=21.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      .|+++|+.|+||||+|+.+++++.
T Consensus        12 ~I~l~G~~GsGKsti~~~LA~~Lg   35 (184)
T PRK13946         12 TVVLVGLMGAGKSTVGRRLATMLG   35 (184)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcC
Confidence            378999999999999999999773

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=93.19  E-value=0.28  Score=54.34  Aligned_cols=34  Identities=15%  Similarity=0.200  Sum_probs=24.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc------ceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF------DGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f------~~~~~~~   34 (1046)
                      ++-|+|++|+|||++|.+++.......      ..++|++
T Consensus       104 vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~  143 (317)
T PRK04301        104 ITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYID  143 (317)
T ss_pred             EEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEe
Confidence            467999999999999988876543211      2566766

>TIGR03324 alt_F1F0_F1_al alternate F1F0 ATPase, F1 subunit alpha

Probab=93.18  E-value=0.23  Score=57.05  Aligned_cols=88  Identities=19%  Similarity=0.185  Sum_probs=46.6

Q ss_pred             EEEEcCCCCcHHHHH-HHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---ccccc-------
Q 001603            2 MGIWGMGGLGKTTLA-RVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVDD-------   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa-~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~~-------   70 (1046)
                      ++|.|..|+|||||| ..+.+..  .-+..+.+..+.+.   ...+.++.+.+...=......-.   .+...       
T Consensus       165 ~~Ifg~~g~GKT~Lal~~I~~q~--~~dv~~V~~~IGeR---~rev~e~i~~l~~~~~l~~tvvV~atsd~p~~~r~~ap  239 (497)
T TIGR03324       165 ELILGDRQTGKTAIAIDTILNQK--GRNVLCIYCAIGQR---ASAVAKVVANLREHGAMDYTIVVVTEGNDPPGLQYIAP  239 (497)
T ss_pred             EEeecCCCCCHHHHHHHHHHHhc--CCCcEEEEEEeccC---cHHHHHHHHHhhhcCCcceeEEEEeCCCCCHHHHHHHH
Confidence            689999999999997 4666643  23442333334332   22255555555443111000000   01100       


Q ss_pred             -hHHHHHHhh--cCCeEEEEEecCCCh
Q 001603           71 -GINIIGSRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        71 -~~~~i~~~L--~~kr~LlVlDdv~~~   94 (1046)
                       ....+.+++  +++.+|||+||+-..
T Consensus       240 ~~a~aiAEyfrd~G~~VLlv~DdlTr~  266 (497)
T TIGR03324       240 YAATSIGEHFMEQGRDVLIVYDDLTQH  266 (497)
T ss_pred             HHHHHHHHHHHhCCCCEEEEEcChhHH
Confidence             122345555  589999999999543

A small number of taxonomically diverse prokaryotic species, including Methanosarcina barkeri, 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 alpha subunit of this apparent second ATP synthase.

>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=93.17  E-value=0.28  Score=53.32  Aligned_cols=84  Identities=24%  Similarity=0.203  Sum_probs=46.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCc----ccccccchHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI----SIWNVDDGINIIG   76 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~----~~~~~~~~~~~i~   76 (1046)
                      +|-|+|+.|+||||||..+....+..-..++|++.-.          .+-...+..++...+.    .+...++....+.
T Consensus        55 ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~----------~ld~~~a~~lGvdl~rllv~~P~~~E~al~~~e  124 (322)
T PF00154_consen   55 IVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEH----------ALDPEYAESLGVDLDRLLVVQPDTGEQALWIAE  124 (322)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS-------------HHHHHHTT--GGGEEEEE-SSHHHHHHHHH
T ss_pred             eEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCcc----------cchhhHHHhcCccccceEEecCCcHHHHHHHHH
Confidence            4679999999999999988887766656677876211          1122334444421111    1122233444444


Q ss_pred             Hhhc-CCeEEEEEecCCCh
Q 001603           77 SRLR-QKKVLLVIDDVADV   94 (1046)
Q Consensus        77 ~~L~-~kr~LlVlDdv~~~   94 (1046)
                      ..++ +.--++|+|.|...
T Consensus       125 ~lirsg~~~lVVvDSv~al  143 (322)
T PF00154_consen  125 QLIRSGAVDLVVVDSVAAL  143 (322)
T ss_dssp             HHHHTTSESEEEEE-CTT-
T ss_pred             HHhhcccccEEEEecCccc
Confidence            5454 45568999999654

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 ....

>TIGR01041 ATP_syn_B_arch ATP synthase archaeal, B subunit

Probab=93.17  E-value=0.25  Score=56.64  Aligned_cols=89  Identities=12%  Similarity=0.048  Sum_probs=48.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc--c-ceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---ccccch----
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE--F-DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVDDG----   71 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~--f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~~~----   71 (1046)
                      ++|.|..|+|||||+..+.+....+  + +.++.+..+.+   +...+.++.+.++..=.......+   .+....    
T Consensus       144 ~gIfgg~G~GKs~L~~~ia~~~~ad~~~~~~v~V~~~iGE---RgrEv~efi~~~~~~~~l~rtvvv~atsd~p~~~R~~  220 (458)
T TIGR01041       144 LPIFSGSGLPHNELAAQIARQATVRGEESEFAVVFAAMGI---TYEEANFFMKDFEETGALERAVVFLNLADDPAVERIV  220 (458)
T ss_pred             EEeeCCCCCCHHHHHHHHHHhhcccCCCCceEEEEEEccc---cchHHHHHHHHHHhcCCcceEEEEEECCCCCHHHHHH
Confidence            6899999999999999988754321  1 12333333333   222255555555433111000000   111111    


Q ss_pred             ----HHHHHHhhc---CCeEEEEEecCCC
Q 001603           72 ----INIIGSRLR---QKKVLLVIDDVAD   93 (1046)
Q Consensus        72 ----~~~i~~~L~---~kr~LlVlDdv~~   93 (1046)
                          ...+.++++   ++++||++||+-.
T Consensus       221 a~~~a~tiAEyfr~d~G~~VLli~DslTR  249 (458)
T TIGR01041       221 TPRMALTAAEYLAFEKDMHVLVILTDMTN  249 (458)
T ss_pred             HHHHHHHHHHHHHHccCCcEEEEEcChhH
Confidence                223556665   7899999999854

Archaeal ATP synthase shares extensive sequence similarity with eukaryotic and prokaryotic V-type (H+)-ATPases.

>PRK13948 shikimate kinase; Provisional

Probab=93.17  E-value=0.074  Score=53.19  Aligned_cols=24  Identities=17%  Similarity=0.239  Sum_probs=21.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      |.++|+.|+||||+++.+.+.+..
T Consensus        13 I~LiG~~GsGKSTvg~~La~~lg~   36 (182)
T PRK13948         13 VALAGFMGTGKSRIGWELSRALML   36 (182)
T ss_pred             EEEECCCCCCHHHHHHHHHHHcCC
Confidence            789999999999999999987643

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=93.16  E-value=0.069  Score=54.66  Aligned_cols=21  Identities=24%  Similarity=0.036  Sum_probs=18.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +++|.|+.|.||||+.+.+..
T Consensus        31 ~~~l~G~n~~GKstll~~i~~   51 (204)
T cd03282          31 FHIITGPNMSGKSTYLKQIAL   51 (204)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999998875

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

>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=93.15  E-value=0.056  Score=55.56  Aligned_cols=21  Identities=29%  Similarity=0.096  Sum_probs=19.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +++|+|+.|.||||+.+.+..
T Consensus        31 ~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          31 LLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             EEEEECCCCCccHHHHHHHHH
Confidence            479999999999999999984

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

>cd02029 PRK_like Phosphoribulokinase-like (PRK-like) is a family of proteins similar to phosphoribulokinase (PRK), the enzyme involved in the Benson-Calvin cycle in chloroplasts or photosynthetic prokaryotes

Probab=93.13  E-value=0.12  Score=54.27  Aligned_cols=26  Identities=27%  Similarity=0.483  Sum_probs=23.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|||.|.+|.||||+|+++.+.++..
T Consensus         1 IIgItG~SGSGKTTv~~~l~~~l~~~   26 (277)
T cd02029           1 VIAVTGSSGAGTTTVKRAFEHIFARE   26 (277)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            69999999999999999999877543

PRK catalyzes the phosphorylation of D-ribulose 5-phosphate to form D-ribulose 1, 5-biphosphate, using ATP and NADPH produced by the primary reactions of photosynthesis.

>PRK13975 thymidylate kinase; Provisional

Probab=93.12  E-value=0.072  Score=54.45  Aligned_cols=25  Identities=28%  Similarity=0.420  Sum_probs=22.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|+|.|+.|+||||+|+.+++++..
T Consensus         4 ~I~ieG~~GsGKtT~~~~L~~~l~~   28 (196)
T PRK13975          4 FIVFEGIDGSGKTTQAKLLAEKLNA   28 (196)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCC
Confidence            4899999999999999999998764

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=93.12  E-value=0.066  Score=56.19  Aligned_cols=26  Identities=38%  Similarity=0.597  Sum_probs=23.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|||.|+.|.|||||++.+...++..
T Consensus        35 iigi~G~~GsGKTTl~~~L~~~l~~~   60 (229)
T PRK09270         35 IVGIAGPPGAGKSTLAEFLEALLQQD   60 (229)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhhhc
Confidence            58999999999999999999877654

>cd00046 DEXDc DEAD-like helicases superfamily

Probab=93.12  E-value=0.45  Score=44.96  Aligned_cols=33  Identities=21%  Similarity=0.032  Sum_probs=23.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHcc--ccceeEEEE
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH--EFDGSTFLA   34 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~--~f~~~~~~~   34 (1046)
                      +.|+|..|.|||+.+..+......  .....+++.
T Consensus         3 ~~i~~~~G~GKT~~~~~~~~~~~~~~~~~~~lv~~   37 (144)
T cd00046           3 VLLAAPTGSGKTLAALLPILELLDSLKGGQVLVLA   37 (144)
T ss_pred             EEEECCCCCchhHHHHHHHHHHHhcccCCCEEEEc
Confidence            679999999999999887765433  233344443

A diverse family of proteins involved in ATP-dependent RNA or DNA unwinding. This domain contains the ATP-binding region.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=93.11  E-value=0.061  Score=55.19  Aligned_cols=21  Identities=38%  Similarity=0.586  Sum_probs=19.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +|+|+|++|+|||||.+.++-
T Consensus        31 fvsilGpSGcGKSTLLriiAG   51 (248)
T COG1116          31 FVAILGPSGCGKSTLLRLIAG   51 (248)
T ss_pred             EEEEECCCCCCHHHHHHHHhC
Confidence            489999999999999999985

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=93.09  E-value=1.6  Score=45.67  Aligned_cols=23  Identities=26%  Similarity=0.388  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.++|++|.||+-||++|+-+.-
T Consensus       169 iLLyGPPGTGKSYLAKAVATEAn  191 (439)
T KOG0739|consen  169 ILLYGPPGTGKSYLAKAVATEAN  191 (439)
T ss_pred             EEEeCCCCCcHHHHHHHHHhhcC
Confidence            67899999999999999998644

>TIGR02788 VirB11 P-type DNA transfer ATPase VirB11

Probab=93.08  E-value=0.22  Score=54.74  Aligned_cols=107  Identities=18%  Similarity=0.140  Sum_probs=58.3

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |+|.|..|.||||+++++...+.... ..+.+.+..+..........        +...........-...+.++..|+.
T Consensus       147 ili~G~tGsGKTTll~al~~~~~~~~-~iv~ied~~El~~~~~~~~~--------l~~~~~~~~~~~~~~~~~l~~~Lr~  217 (308)
T TIGR02788       147 IIISGGTGSGKTTFLKSLVDEIPKDE-RIITIEDTREIFLPHPNYVH--------LFYSKGGQGLAKVTPKDLLQSCLRM  217 (308)
T ss_pred             EEEECCCCCCHHHHHHHHHccCCccc-cEEEEcCccccCCCCCCEEE--------EEecCCCCCcCccCHHHHHHHHhcC
Confidence            78999999999999999988665432 23344433332111100000        0000000001112335567777888


Q ss_pred             CeEEEEEecCCChHHHHHHhhccCCCCCCCE-EEEEeCChh
Q 001603           82 KKVLLVIDDVADVEQLQNLARKRDWFGPGSK-IVITTRDKQ  121 (1046)
Q Consensus        82 kr~LlVlDdv~~~~~~~~l~~~~~~~~~gs~-IiiTTR~~~  121 (1046)
                      .+=.+|+|.+...+.++.+... .   .|.. ++.|+-...
T Consensus       218 ~pd~ii~gE~r~~e~~~~l~a~-~---~g~~~~i~T~Ha~~  254 (308)
T TIGR02788       218 RPDRIILGELRGDEAFDFIRAV-N---TGHPGSITTLHAGS  254 (308)
T ss_pred             CCCeEEEeccCCHHHHHHHHHH-h---cCCCeEEEEEeCCC
Confidence            8888999999987766543332 2   3333 355555443

The VirB11 protein is found in the vir locus of Agrobacterium Ti plasmids where it is involved in the type IV secretion system for DNA transfer. VirB11 is believed to be an ATPase. VirB11 is a homolog of the P-like conjugation system TrbB protein and the Flp pilus sytem protein TadA.

>PLN02459 probable adenylate kinase

Probab=93.07  E-value=0.31  Score=51.33  Aligned_cols=92  Identities=20%  Similarity=0.219  Sum_probs=47.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHhhcC
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~L~~   81 (1046)
                      |.|.|++|.||||+|+.+.+.+.  |....-=.-+|+.......+....+.+    ......  .+.+.....+++++..
T Consensus        32 ii~~G~PGsGK~T~a~~la~~~~--~~~is~gdllR~ei~~~t~lg~~i~~~----~~~G~l--VPdeiv~~ll~~~l~~  103 (261)
T PLN02459         32 WVFLGCPGVGKGTYASRLSKLLG--VPHIATGDLVREEIKSSGPLGAQLKEI----VNQGKL--VPDEIIFSLLSKRLEA  103 (261)
T ss_pred             EEEECCCCCCHHHHHHHHHHHhC--CcEEeCcHHHHHHHhccchhHHHHHHH----HHcCCc--cCHHHHHHHHHHHHhc
Confidence            67789999999999999988653  221111111222111111121112221    111111  2333445666666642


Q ss_pred             ----CeEEEEEecC-CChHHHHHHh
Q 001603           82 ----KKVLLVIDDV-ADVEQLQNLA  101 (1046)
Q Consensus        82 ----kr~LlVlDdv-~~~~~~~~l~  101 (1046)
                          .+-=+|||++ .+.+|.+.|.
T Consensus       104 ~~~~~~~g~iLDGFPRt~~Qa~~Le  128 (261)
T PLN02459        104 GEEEGESGFILDGFPRTVRQAEILE  128 (261)
T ss_pred             ccccCCceEEEeCCCCCHHHHHHHH
Confidence                3456899999 4556665554

>TIGR02524 dot_icm_DotB Dot/Icm secretion system ATPase DotB

Probab=93.06  E-value=0.13  Score=57.45  Aligned_cols=92  Identities=16%  Similarity=0.186  Sum_probs=53.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccce---eEEEEechhhhcccCCHHHHHH--HHHHHHhhccCcccccccchHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDG---STFLANVREKSEKEGSVVSLQK--QLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~---~~~~~~~~~~~~~~~~~~~l~~--~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +|.|+|+.|.||||+++++...+....+.   ++.+.+.-+..     ...+..  ....+    .... .+...-...+
T Consensus       136 lilI~GpTGSGKTTtL~aLl~~i~~~~~~~~~Ivt~EdpiE~~-----~~~~~~~~~~v~Q----~~v~-~~~~~~~~~l  205 (358)
T TIGR02524       136 IVFITGATGSGKSTLLAAIIRELAEAPDSHRKILTYEAPIEFV-----YDEIETISASVCQ----SEIP-RHLNNFAAGV  205 (358)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhhcCCCCcEEEEeCCCceEe-----ccccccccceeee----eecc-ccccCHHHHH
Confidence            48999999999999999999877543321   22222221111     111000  00000    0000 1122345667


Q ss_pred             HHhhcCCeEEEEEecCCChHHHHHHhh
Q 001603           76 GSRLRQKKVLLVIDDVADVEQLQNLAR  102 (1046)
Q Consensus        76 ~~~L~~kr~LlVlDdv~~~~~~~~l~~  102 (1046)
                      +..|+..+-.+++..+.+.+..+....
T Consensus       206 ~~aLR~~Pd~i~vGEiRd~et~~~al~  232 (358)
T TIGR02524       206 RNALRRKPHAILVGEARDAETISAALE  232 (358)
T ss_pred             HHHhccCCCEEeeeeeCCHHHHHHHHH
Confidence            888888999999999998887764443

Members of this protein family are the DotB component of Dot/Icm secretion systems, as found in obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii. While this system resembles type IV secretion systems and has been called a form of type IV, the liturature now seems to favor calling this the Dot/Icm system. This family is most closely related to TraJ proteins of plasmid transfer, rather than to proteins of other type IV secretion systems.

>PRK15453 phosphoribulokinase; Provisional

Probab=93.04  E-value=0.11  Score=54.94  Aligned_cols=25  Identities=24%  Similarity=0.450  Sum_probs=22.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|+|.|.+|.||||+|+++.+.+..
T Consensus         7 iI~ItG~SGsGKTTva~~l~~if~~   31 (290)
T PRK15453          7 IIAVTGSSGAGTTTVKRAFEKIFRR   31 (290)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHhh
Confidence            5899999999999999999986654

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=93.03  E-value=0.058  Score=54.58  Aligned_cols=23  Identities=22%  Similarity=0.274  Sum_probs=20.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|+|+.|+|||||++.++...
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            47899999999999999997754

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=93.02  E-value=0.13  Score=45.33  Aligned_cols=25  Identities=36%  Similarity=0.516  Sum_probs=22.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      ++.+.|.+|+||||++..+...+++
T Consensus         1 ~~~~~g~~G~Gktt~~~~l~~~l~~   25 (99)
T cd01983           1 VIVVTGKGGVGKTTLAANLAAALAK   25 (99)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHH
Confidence            5889999999999999999987765

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=92.96  E-value=0.067  Score=52.83  Aligned_cols=22  Identities=27%  Similarity=0.453  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |+|+|++|+||||+|+.+.+..
T Consensus         1 i~l~G~~GsGKSTla~~l~~~l   22 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHRL   22 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHhc
Confidence            5799999999999999998865

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.

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=92.93  E-value=0.091  Score=49.08  Aligned_cols=27  Identities=22%  Similarity=0.522  Sum_probs=24.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      +|.|.|.+|.||||+++++.++++-.|
T Consensus        14 ~i~vmGvsGsGKSTigk~L~~~l~~~F   40 (191)
T KOG3354|consen   14 VIVVMGVSGSGKSTIGKALSEELGLKF   40 (191)
T ss_pred             eEEEEecCCCChhhHHHHHHHHhCCcc
Confidence            578999999999999999999887554

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=92.93  E-value=0.073  Score=57.26  Aligned_cols=24  Identities=38%  Similarity=0.535  Sum_probs=21.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|||.|..|+||||+|+.+...+.
T Consensus        64 IIGIaG~~GSGKSTlar~L~~ll~   87 (290)
T TIGR00554        64 IISIAGSVAVGKSTTARILQALLS   87 (290)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHh
Confidence            689999999999999988877654

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.

>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]

Probab=92.93  E-value=0.33  Score=53.07  Aligned_cols=53  Identities=23%  Similarity=0.332  Sum_probs=34.1

Q ss_pred             HHHHHHhhcCCeEEEEEecCCChH----------HHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCC
Q 001603           72 INIIGSRLRQKKVLLVIDDVADVE----------QLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVD  129 (1046)
Q Consensus        72 ~~~i~~~L~~kr~LlVlDdv~~~~----------~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~  129 (1046)
                      ...|.+.+..+.=++++|.+...-          .+.+++..     .|+.+++.|+.+++..++.-+
T Consensus       515 R~KLAkllaerpn~~~iDEF~AhLD~~TA~rVArkiselaRe-----~giTlivvThrpEv~~AL~PD  577 (593)
T COG2401         515 RAKLAKLLAERPNVLLIDEFAAHLDELTAVRVARKISELARE-----AGITLIVVTHRPEVGNALRPD  577 (593)
T ss_pred             HHHHHHHHhcCCCcEEhhhhhhhcCHHHHHHHHHHHHHHHHH-----hCCeEEEEecCHHHHhccCCc
Confidence            345777778888889999985421          23333333     577777777777777666444

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=92.92  E-value=0.99  Score=53.45  Aligned_cols=26  Identities=27%  Similarity=0.305  Sum_probs=22.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|.+.|..|+||||++++++..+.-+
T Consensus       433 ~vLLhG~~g~GK~t~V~~vas~lg~h  458 (953)
T KOG0736|consen  433 SVLLHGPPGSGKTTVVRAVASELGLH  458 (953)
T ss_pred             EEEEeCCCCCChHHHHHHHHHHhCCc
Confidence            46789999999999999999977654

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=92.91  E-value=0.081  Score=50.52  Aligned_cols=22  Identities=36%  Similarity=0.330  Sum_probs=19.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|+|..|+||+++|+.++..-
T Consensus        24 vli~GE~GtGK~~~A~~lh~~~   45 (138)
T PF14532_consen   24 VLITGEPGTGKSLLARALHRYS   45 (138)
T ss_dssp             EEEECCTTSSHHHHHHCCHHTT
T ss_pred             EEEEcCCCCCHHHHHHHHHhhc
Confidence            7899999999999999988743

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=92.90  E-value=0.24  Score=54.14  Aligned_cols=24  Identities=29%  Similarity=0.439  Sum_probs=20.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      .++|+|..|.|||||++.+.....
T Consensus        71 ri~I~G~sG~GKTtLl~~Ia~~~~   94 (326)
T cd01136          71 RLGIFAGSGVGKSTLLGMIARGTT   94 (326)
T ss_pred             EEEEECCCCCChHHHHHHHhCCCC
Confidence            378999999999999998887543

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.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=92.89  E-value=0.43  Score=49.30  Aligned_cols=21  Identities=24%  Similarity=0.194  Sum_probs=18.8

Q ss_pred             CEEEEcCCCCcHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~   21 (1046)
                      ++.|+|+.|.||||+.+.+..
T Consensus        31 ~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          31 IMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             EEEEECCCCCChHHHHHHHHH
Confidence            378999999999999999874

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

>TIGR02525 plasmid_TraJ plasmid transfer ATPase TraJ

Probab=92.89  E-value=0.37  Score=53.95  Aligned_cols=93  Identities=23%  Similarity=0.203  Sum_probs=54.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccc-ee-EEEEechhhhcccCCHHHHHHHHHHHHhhccCcccccccchHHHHHHh
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFD-GS-TFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSR   78 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~-~~-~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~   78 (1046)
                      .|.|.|+.|.||||+++++.+.+....+ .. +-+.+.-|..-..  ...+    ........+   .+.....+.++..
T Consensus       151 lilI~G~TGSGKTT~l~al~~~i~~~~~~~~IvtiEdp~E~~~~~--~~~~----~~~~q~evg---~~~~~~~~~l~~a  221 (372)
T TIGR02525       151 LGLICGETGSGKSTLAASIYQHCGETYPDRKIVTYEDPIEYILGS--PDDL----LPPAQSQIG---RDVDSFANGIRLA  221 (372)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEecCchhccCC--Ccee----ecccccccC---CCccCHHHHHHHh
Confidence            3789999999999999999887754332 22 3333222211000  0000    000000001   1222445678888


Q ss_pred             hcCCeEEEEEecCCChHHHHHHhh
Q 001603           79 LRQKKVLLVIDDVADVEQLQNLAR  102 (1046)
Q Consensus        79 L~~kr~LlVlDdv~~~~~~~~l~~  102 (1046)
                      |+..+=.|+++.+.+.+.++....
T Consensus       222 LR~~PD~I~vGEiRd~et~~~al~  245 (372)
T TIGR02525       222 LRRAPKIIGVGEIRDLETFQAAVL  245 (372)
T ss_pred             hccCCCEEeeCCCCCHHHHHHHHH
Confidence            999999999999999988775443

Members of this protein family are predicted ATPases associated with plasmid transfer loci in bacteria. This family is most similar to the DotB ATPase of a type-IV secretion-like system of obligate intracellular pathogens Legionella pneumophila and Coxiella burnetii (TIGR02524).

>cd02034 CooC The accessory protein CooC, which contains a nucleotide-binding domain (P-loop) near the N-terminus, participates in the maturation of the nickel center of carbon monoxide dehydrogenase (CODH)

Probab=92.85  E-value=0.15  Score=46.78  Aligned_cols=25  Identities=36%  Similarity=0.623  Sum_probs=22.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |.+.|.||+||||++..++..+..+
T Consensus         2 i~~~GkgG~GKTt~a~~la~~l~~~   26 (116)
T cd02034           2 IAITGKGGVGKTTIAALLARYLAEK   26 (116)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHC
Confidence            7899999999999999999877654

CODH from Rhodospirillum rubrum catalyzes the reversible oxidation of CO to CO2. CODH contains a nickel-iron-sulfur cluster (C-center) and an iron-sulfur cluster (B-center). CO oxidation occurs at the C-center. Three accessory proteins encoded by cooCTJ genes are involved in nickel incorporation into a nickel site. CooC functions as a nickel insertase that mobilizes nickel to apoCODH using energy released from ATP hydrolysis. CooC is a homodimer and has NTPase activities. Mutation at the P-loop abolishs its function.

>TIGR03263 guanyl_kin guanylate kinase

Probab=92.85  E-value=0.068  Score=53.78  Aligned_cols=23  Identities=30%  Similarity=0.455  Sum_probs=20.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|+|+.|+||||||+.+++..
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccC
Confidence            58999999999999999998854

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.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=92.84  E-value=0.12  Score=52.43  Aligned_cols=33  Identities=33%  Similarity=0.517  Sum_probs=24.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|+|+|.+|.|||||.|.+...+.- -.+.+++.
T Consensus        32 ~VaiIG~SGaGKSTLLR~lngl~d~-t~G~i~~~   64 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNGLVDP-TSGEILFN   64 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhcccCC-CcceEEec
Confidence            5899999999999999999874322 23455554

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=92.82  E-value=0.092  Score=48.54  Aligned_cols=20  Identities=35%  Similarity=0.536  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|+|..|+|||||.+.+..
T Consensus         2 I~V~G~~g~GKTsLi~~l~~   21 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCG   21 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHhc
Confidence            78999999999999999986

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_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=92.82  E-value=0.59  Score=47.59  Aligned_cols=23  Identities=30%  Similarity=0.361  Sum_probs=20.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|..|.|||||++.++...
T Consensus        37 ~~~l~G~nGsGKStLl~~i~Gl~   59 (194)
T cd03213          37 LTAIMGPSGAGKSTLLNALAGRR   59 (194)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47999999999999999998754

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.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=92.82  E-value=0.073  Score=47.54  Aligned_cols=20  Identities=40%  Similarity=0.338  Sum_probs=18.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAY   20 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~   20 (1046)
                      +++|.|++|.|||||++.+.
T Consensus        17 ~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          17 GVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEcCCCCCHHHHHHHhh
Confidence            47999999999999999976

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>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=92.81  E-value=0.057  Score=30.48  Aligned_cols=16  Identities=44%  Similarity=0.831  Sum_probs=5.8

Q ss_pred             CCCeeeCCCCCCcccc
Q 001603          748 SLKQLNLSQNNFVTLP  763 (1046)
Q Consensus       748 ~L~~L~Ls~n~l~~lp  763 (1046)
                      +|+.|+|++|+++.+|
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            4444555555444443

...

>PRK09281 F0F1 ATP synthase subunit alpha; Validated

Probab=92.78  E-value=0.22  Score=57.70  Aligned_cols=88  Identities=19%  Similarity=0.141  Sum_probs=44.7

Q ss_pred             EEEEcCCCCcHHHHHH-HHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---ccccch------
Q 001603            2 MGIWGMGGLGKTTLAR-VAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNVDDG------   71 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~-~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~~~~------   71 (1046)
                      ++|.|..|+||||||. .+.+..  .-+..|.+..+.+..   ..+.++.+.+...=.......+   .+....      
T Consensus       165 ~~Ifg~~g~GKt~lal~~i~~~~--~~dv~~V~~~IGer~---~ev~e~~~~~~~~~~l~~tvvv~atsd~p~~~r~~a~  239 (502)
T PRK09281        165 ELIIGDRQTGKTAIAIDTIINQK--GKDVICIYVAIGQKA---STVAQVVRKLEEHGAMEYTIVVAATASDPAPLQYLAP  239 (502)
T ss_pred             EEeecCCCCCchHHHHHHHHHhc--CCCeEEEEEEecCCh---HHHHHHHHHHhhcCCccceEEEEeCCCCCHHHHHHHH
Confidence            6899999999999964 444432  334543333343321   1144555544433110000000   011011      


Q ss_pred             --HHHHHHhh--cCCeEEEEEecCCCh
Q 001603           72 --INIIGSRL--RQKKVLLVIDDVADV   94 (1046)
Q Consensus        72 --~~~i~~~L--~~kr~LlVlDdv~~~   94 (1046)
                        ...+.+++  +++.+|+|+||+-..
T Consensus       240 ~~a~tiAEyfrd~G~~VLli~DdlTr~  266 (502)
T PRK09281        240 YAGCAMGEYFMDNGKDALIVYDDLSKQ  266 (502)
T ss_pred             HHHHHHHHHHHHcCCCEEEEecCchHH
Confidence              12234444  479999999999654

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=92.78  E-value=2  Score=44.00  Aligned_cols=135  Identities=19%  Similarity=0.340  Sum_probs=72.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHH-HHHHHHHhhccCcccccccchHHHHHHhh-
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQ-KQLLSDLLKLADISIWNVDDGINIIGSRL-   79 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~-~~ll~~l~~~~~~~~~~~~~~~~~i~~~L-   79 (1046)
                      |..||++|.|||-+|++.+.+-...|-     .              +. -|+..          +-..++...+++.+ 
T Consensus       208 vLmYGPPGTGKTlmARAcAaqT~aTFL-----K--------------LAgPQLVQ----------MfIGdGAkLVRDAFa  258 (424)
T KOG0652|consen  208 VLMYGPPGTGKTLMARACAAQTNATFL-----K--------------LAGPQLVQ----------MFIGDGAKLVRDAFA  258 (424)
T ss_pred             eEeeCCCCCcHHHHHHHHHHhccchHH-----H--------------hcchHHHh----------hhhcchHHHHHHHHH
Confidence            568999999999999998765433321     1              10 01111          11122334444433 


Q ss_pred             ---cCCeEEEEEecCCCh-------------H---HHHHHhhccCCCCCC--CEEEEEeCChhhHH-----HhcCCCcce
Q 001603           80 ---RQKKVLLVIDDVADV-------------E---QLQNLARKRDWFGPG--SKIVITTRDKQLLV-----AHEVDEEHI  133 (1046)
Q Consensus        80 ---~~kr~LlVlDdv~~~-------------~---~~~~l~~~~~~~~~g--s~IiiTTR~~~~~~-----~~~~~~~~~  133 (1046)
                         ...+.+|.+|.++..             +   ..-+++..+.-|.+.  .+||..|.--.++.     .-..+.  .
T Consensus       259 LAKEkaP~IIFIDElDAIGtKRfDSek~GDREVQRTMLELLNQLDGFss~~~vKviAATNRvDiLDPALlRSGRLDR--K  336 (424)
T KOG0652|consen  259 LAKEKAPTIIFIDELDAIGTKRFDSEKAGDREVQRTMLELLNQLDGFSSDDRVKVIAATNRVDILDPALLRSGRLDR--K  336 (424)
T ss_pred             HhhccCCeEEEEechhhhccccccccccccHHHHHHHHHHHHhhcCCCCccceEEEeecccccccCHHHhhcccccc--c
Confidence               256789999998632             1   133455555545544  45666554333322     222333  6


Q ss_pred             EecCCCChHHHHHHHHHhhcCCC-CCCchHHHHHH
Q 001603          134 YNLEVLSNDEALQLFSMKAFKTR-QPMGEYVELSK  167 (1046)
Q Consensus       134 ~~l~~L~~~ea~~Lf~~~a~~~~-~~~~~~~~~~~  167 (1046)
                      ++..--+++...++++-++-+-. .+.-.++++++
T Consensus       337 IEfP~Pne~aRarIlQIHsRKMnv~~DvNfeELaR  371 (424)
T KOG0652|consen  337 IEFPHPNEEARARILQIHSRKMNVSDDVNFEELAR  371 (424)
T ss_pred             ccCCCCChHHHHHHHHHhhhhcCCCCCCCHHHHhh
Confidence            77776666666666665554433 23445666554

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=92.76  E-value=0.097  Score=52.81  Aligned_cols=30  Identities=27%  Similarity=0.349  Sum_probs=26.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcccccee
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGS   30 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~   30 (1046)
                      +|.|+|+.|+|||||++++.+.....|...
T Consensus         4 ~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~   33 (183)
T PF00625_consen    4 PIVLVGPSGSGKSTLAKRLIQEFPDKFGRV   33 (183)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHHSTTTEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHhcccccccc
Confidence            478999999999999999999888888533

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 ....

>PRK00300 gmk guanylate kinase; Provisional

Probab=92.71  E-value=0.078  Score=54.67  Aligned_cols=23  Identities=26%  Similarity=0.403  Sum_probs=20.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|+|++|+||||||+.++...
T Consensus         7 ~i~i~G~sGsGKstl~~~l~~~~   29 (205)
T PRK00300          7 LIVLSGPSGAGKSTLVKALLERD   29 (205)
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            58999999999999999998864

>PRK13768 GTPase; Provisional

Probab=92.70  E-value=0.12  Score=55.06  Aligned_cols=26  Identities=31%  Similarity=0.493  Sum_probs=21.9

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +++|+|+||+||||++..+...++.+
T Consensus         4 ~i~v~G~~G~GKTt~~~~~~~~l~~~   29 (253)
T PRK13768          4 IVFFLGTAGSGKTTLTKALSDWLEEQ   29 (253)
T ss_pred             EEEEECCCCccHHHHHHHHHHHHHhc
Confidence            47899999999999998888766543

>PRK07594 type III secretion system ATPase SsaN; Validated

Probab=92.67  E-value=0.15  Score=57.77  Aligned_cols=23  Identities=30%  Similarity=0.507  Sum_probs=20.1

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      .++|.|..|+|||||++.+....
T Consensus       157 rigI~G~sG~GKSTLL~~I~~~~  179 (433)
T PRK07594        157 RVGIFSAPGVGKSTLLAMLCNAP  179 (433)
T ss_pred             EEEEECCCCCCccHHHHHhcCCC
Confidence            37999999999999999888744

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=92.66  E-value=0.37  Score=53.37  Aligned_cols=34  Identities=18%  Similarity=0.204  Sum_probs=22.7

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc--cccceeEEEE
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS--HEFDGSTFLA   34 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~--~~f~~~~~~~   34 (1046)
                      +|.++|+.||||||-..+++.++.  ..=..+.++.
T Consensus       205 vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiIT  240 (407)
T COG1419         205 VIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIIT  240 (407)
T ss_pred             EEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEE
Confidence            589999999999986666655443  3333344443

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=92.66  E-value=0.092  Score=49.96  Aligned_cols=23  Identities=35%  Similarity=0.573  Sum_probs=20.5

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|+|.+|+||||+.+.+-...
T Consensus         6 vvvitGVpGvGKTTVl~~~~~~l   28 (189)
T COG2019           6 VVVITGVPGVGKTTVLKIALKEL   28 (189)
T ss_pred             EEEEEcCCCCChHHHHHHHHHHH
Confidence            58999999999999998887765

>COG1157 FliI Flagellar biosynthesis/type III secretory pathway ATPase [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=92.64  E-value=0.37  Score=53.14  Aligned_cols=86  Identities=22%  Similarity=0.276  Sum_probs=50.0

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHhhccCccc---ccc--------cc
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI---WNV--------DD   70 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~---~~~--------~~   70 (1046)
                      |||..-+|+|||||.-.+++.  .++|..+. .-+.|   ...-+.+..++.+.+-+.....-+   .+.        ..
T Consensus       166 iGIFAgsGVGKStLLgMiar~--t~aDv~Vi-aLIGE---RGREVrEFIE~~Lg~egl~rsViVvATSD~s~l~R~~aa~  239 (441)
T COG1157         166 IGIFAGSGVGKSTLLGMIARN--TEADVNVI-ALIGE---RGREVREFIEKDLGEEGLKRSVVVVATSDESALMRLKAAF  239 (441)
T ss_pred             eEEEecCCCcHHHHHHHHhcc--ccCCEEEE-EEeec---cchhHHHHHHHhcchhhccceEEEEECCCCCHHHHHHHHH
Confidence            799999999999999998874  33443322 22222   211266666666555431111100   111        11


Q ss_pred             hHHHHHHhh--cCCeEEEEEecCCC
Q 001603           71 GINIIGSRL--RQKKVLLVIDDVAD   93 (1046)
Q Consensus        71 ~~~~i~~~L--~~kr~LlVlDdv~~   93 (1046)
                      ....|.+++  ++|+||+++|.+-.
T Consensus       240 ~At~IAEyFRDqG~~VLL~mDSlTR  264 (441)
T COG1157         240 TATTIAEYFRDQGKRVLLIMDSLTR  264 (441)
T ss_pred             HHHHHHHHHHhCCCeEEEEeecHHH
Confidence            134566666  47999999999843

>PRK05439 pantothenate kinase; Provisional

Probab=92.58  E-value=0.085  Score=57.21  Aligned_cols=25  Identities=40%  Similarity=0.587  Sum_probs=22.2

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHcc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|||.|.+|+||||+|+.+...+..
T Consensus        88 iIgIaG~~gsGKSTla~~L~~~l~~  112 (311)
T PRK05439         88 IIGIAGSVAVGKSTTARLLQALLSR  112 (311)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5899999999999999999886654

>COG3910 Predicted ATPase [General function prediction only]

Probab=92.55  E-value=1  Score=43.98  Aligned_cols=63  Identities=27%  Similarity=0.449  Sum_probs=37.9

Q ss_pred             HHHHHHhhcCCeEEEEEecCCC----hHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhcCCCcceEecCC
Q 001603           72 INIIGSRLRQKKVLLVIDDVAD----VEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEV  138 (1046)
Q Consensus        72 ~~~i~~~L~~kr~LlVlDdv~~----~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~~~~~~~~~l~~  138 (1046)
                      ...+.+++.+ +=+-|||.=+.    ..|++-+..-..-...|+.|||.|-+.-+.   +..++.+|+...
T Consensus       137 ~~i~~~rf~~-~GiYiLDEPEa~LSp~RQlella~l~~la~sGaQ~IiATHSPiLl---AiP~A~I~~~~~  203 (233)
T COG3910         137 LAIFHNRFNG-QGIYILDEPEAALSPSRQLELLAILRDLADSGAQIIIATHSPILL---AIPGAEIYEISE  203 (233)
T ss_pred             HHHHHHHhcc-CceEEecCccccCCHHHHHHHHHHHHHHHhcCCeEEEEecChhhe---eCCCcEEEEEec
Confidence            4455566544 45678898764    256655544333345689999999987643   334444666543

>TIGR00708 cobA cob(I)alamin adenosyltransferase

Probab=92.54  E-value=0.25  Score=48.50  Aligned_cols=114  Identities=14%  Similarity=0.052  Sum_probs=57.3

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHccccceeEEEEechhhhcccCCHHHHHHHHHHHHh-h--ccCc--cccc-------c
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-K--LADI--SIWN-------V   68 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~--~~~~--~~~~-------~   68 (1046)
                      +|-|++..|.||||.|..++-+...+=-.+.++.-.+.. ...+ -....+.+  .+. .  ..+.  ...+       .
T Consensus         7 li~v~~g~GkGKtt~a~g~a~ra~~~g~~v~ivQFlKg~-~~~G-E~~~l~~~--~~~~~~~g~g~~~~~~~~~~~~~~~   82 (173)
T TIGR00708         7 IIIVHTGNGKGKTTAAFGMALRALGHGKKVGVIQFIKGA-WPNG-ERAAFEPH--GVEFQVMGTGFTWETQNREADTAIA   82 (173)
T ss_pred             EEEEECCCCCChHHHHHHHHHHHHHCCCeEEEEEEecCC-cccC-hHHHHHhc--CcEEEECCCCCeecCCCcHHHHHHH
Confidence            467888899999999988776554432223322222221 1112 22222222  111 0  0000  0001       1


Q ss_pred             cchHHHHHHhhc-CCeEEEEEecCCC--------hHHHHHHhhccCCCCCCCEEEEEeCChh
Q 001603           69 DDGINIIGSRLR-QKKVLLVIDDVAD--------VEQLQNLARKRDWFGPGSKIVITTRDKQ  121 (1046)
Q Consensus        69 ~~~~~~i~~~L~-~kr~LlVlDdv~~--------~~~~~~l~~~~~~~~~gs~IiiTTR~~~  121 (1046)
                      .+..+..++.+. ++-=|||||.+-.        .+++.++...   ..++.-||+|-|+..
T Consensus        83 ~~~~~~a~~~l~~~~~DlvVLDEi~~A~~~gli~~~~v~~lL~~---rp~~~evVlTGR~~p  141 (173)
T TIGR00708        83 KAAWQHAKEMLADPELDLVLLDELTYALKYGYLDVEEVVEALQE---RPGHQHVIITGRGCP  141 (173)
T ss_pred             HHHHHHHHHHHhcCCCCEEEehhhHHHHHCCCcCHHHHHHHHHh---CCCCCEEEEECCCCC
Confidence            112233344443 4556999999842        2333344433   346779999999875

Alternate name: corrinoid adenosyltransferase.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=92.54  E-value=0.4  Score=56.31  Aligned_cols=49  Identities=20%  Similarity=0.465  Sum_probs=32.6

Q ss_pred             HHHHhhcCCeEEEEEecCCC------hHHHHHHhhccCCCCCCCEEEEEeCChhhHHHhc
Q 001603           74 IIGSRLRQKKVLLVIDDVAD------VEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHE  127 (1046)
Q Consensus        74 ~i~~~L~~kr~LlVlDdv~~------~~~~~~l~~~~~~~~~gs~IiiTTR~~~~~~~~~  127 (1046)
                      .+.+.|-.++=+++||.=-+      ..-++.++..    -+| .+||.|-|+..+....
T Consensus       163 ~LA~aL~~~pDlLLLDEPTNHLD~~~i~WLe~~L~~----~~g-tviiVSHDR~FLd~V~  217 (530)
T COG0488         163 ALARALLEEPDLLLLDEPTNHLDLESIEWLEDYLKR----YPG-TVIVVSHDRYFLDNVA  217 (530)
T ss_pred             HHHHHHhcCCCEEEEcCCCcccCHHHHHHHHHHHHh----CCC-cEEEEeCCHHHHHHHh
Confidence            35555667788999997543      2334444443    245 7999999999887653

>PRK14530 adenylate kinase; Provisional

Probab=92.49  E-value=0.1  Score=54.26  Aligned_cols=22  Identities=23%  Similarity=0.240  Sum_probs=20.4

Q ss_pred             EEEEcCCCCcHHHHHHHHHHHH
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 v~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|+|++|.||||+|+.+++.+
T Consensus         6 I~i~G~pGsGKsT~~~~La~~~   27 (215)
T PRK14530          6 ILLLGAPGAGKGTQSSNLAEEF   27 (215)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999998865

>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=92.49  E-value=0.059  Score=32.80  Aligned_cols=19  Identities=0%  Similarity=0.025  Sum_probs=10.0

Q ss_pred             ceEEEcCCCCchhhccccc
Q 001603          395 TVEFNMCYSRIEELWNEIK  413 (1046)
Q Consensus       395 L~~L~L~~~~i~~l~~~~~  413 (1046)
                      |++|++++|+++.+|.+++
T Consensus         2 L~~Ldls~n~l~~ip~~~~   20 (22)
T PF00560_consen    2 LEYLDLSGNNLTSIPSSFS   20 (22)
T ss_dssp             ESEEEETSSEESEEGTTTT
T ss_pred             ccEEECCCCcCEeCChhhc
Confidence            4555555555555554443

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 ....

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=92.47  E-value=0.098  Score=48.94  Aligned_cols=23  Identities=30%  Similarity=0.261  Sum_probs=21.0

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHH
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|.+.|.-|.||||+++.+++.+
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            57899999999999999999865

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.

>PRK04182 cytidylate kinase; Provisional

Probab=92.44  E-value=0.095  Score=52.66  Aligned_cols=24  Identities=38%  Similarity=0.523  Sum_probs=21.6

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|.|+.|.||||+|+.+++++.
T Consensus         2 ~I~i~G~~GsGKstia~~la~~lg   25 (180)
T PRK04182          2 IITISGPPGSGKTTVARLLAEKLG   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHcC
Confidence            589999999999999999998753

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=92.44  E-value=0.39  Score=55.44  Aligned_cols=24  Identities=25%  Similarity=0.290  Sum_probs=21.4

Q ss_pred             CEEEEcCCCCcHHHHHHHHHHHHc
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vv~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      ||+++|+.|+||||++.+++..+.
T Consensus       258 Vi~LvGpnGvGKTTTiaKLA~~~~  281 (484)
T PRK06995        258 VFALMGPTGVGKTTTTAKLAARCV  281 (484)
T ss_pred             EEEEECCCCccHHHHHHHHHHHHH
Confidence            589999999999999999997653

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	1046
4fcg_A	328	Structure Of The Leucine-Rich Repeat Domain Of The		2e-11

>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type Iii Effector Xcv3220 (Xopl) Length = 328

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-11,   Method: Composition-based stats.
 Identities = 61/236 (25%), Positives = 96/236 (40%), Gaps = 39/236 (16%)
Query: 571 LKKFPESLGSMKDLMELFLDGTSIAEVPSSIEXXXXXXXXXXXXXXXXXXXPSCINGLRS 630
           L +FP+    +  L    +D   + E+P + +                   P+ I  L  
Sbjct: 93  LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRAL-PASIASLNR 151
Query: 631 LKTLNLSGCSKLQNVPETLGQVES---------LEELDISGTAIRRPPSSIFVMNNLKTL 681
           L+ L++  C +L  +PE L   ++         L+ L +  T IR  P+SI  + NLK+L
Sbjct: 152 LRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSL 211
Query: 682 SFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPN 741
                                    R+ P++ + P++  L  L +LDL  C       P 
Sbjct: 212 KI-----------------------RNSPLSALGPAIHHLPKLEELDLRGCTALRN-YPP 247
Query: 742 DIGNLCSLKQLNLSQ-NNFVTLPASINSLFNLGQLDLEDCKRLQSMP----QLPSN 792
             G    LK+L L   +N +TLP  I+ L  L +LDL  C  L  +P    QLP+N
Sbjct: 248 IFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPAN 303

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1046
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-56
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-53
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-47
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-45
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-45
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-30
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	5e-24
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-47
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	7e-13
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-12
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-09
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	9e-40
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-37
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	5e-37
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-32
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-25
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-16
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-36
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	7e-32
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-31
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	5e-26
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-20
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-18
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-12
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-32
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-29
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	4e-29
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-21
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	1e-13
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	6e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-31
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-25
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-23
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-22
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	2e-21
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-29
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-26
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	4e-21
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-20
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	6e-15
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	9e-29
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-27
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	3e-25
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-23
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-17
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	8e-15
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-14
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-28
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-26
1o6v_A	466	Internalin A; bacterial infection, extracellular r	4e-18
1o6v_A	466	Internalin A; bacterial infection, extracellular r	1e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-28
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-27
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-26
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	4e-19
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	1e-13
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-27
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	1e-27
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	4e-20
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	5e-16
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-10
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-04
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-27
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	4e-23
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-22
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	8e-21
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-08
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-27
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-23
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	5e-23
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	7e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	9e-14
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-27
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-22
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-19
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	1e-15
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-07
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-27
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	6e-27
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	4e-25
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-18
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	2e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-13
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-26
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-24
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-23
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-23
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	5e-17
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	8e-11
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	3e-26
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	4e-23
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	9e-15
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	6e-12
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-25
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-24
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	5e-19
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-12
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	2e-24
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-23
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	1e-21
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	9e-20
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	7e-14
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	2e-11
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	3e-06
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-23
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-22
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	2e-20
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-15
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-13
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	1e-11
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-22
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	2e-18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	3e-18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-17
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	5e-12
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	7e-22
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-21
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	8e-20
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-18
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	2e-21
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-17
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	7e-12
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	4e-21
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	9e-20
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	5e-13
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	5e-13
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	9e-09
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-20
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-20
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	3e-16
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	2e-15
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	2e-19
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-16
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-16
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	3e-15
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	5e-09
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-19
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-16
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	6e-16
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	4e-15
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	9e-10
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-19
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-17
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	1e-10
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	2e-18
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-16
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	8e-15
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-10
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	7e-18
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	9e-11
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	8e-18
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	6e-17
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	4e-16
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-12
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-11
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	4e-17
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	4e-12
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	9e-10
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-16
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	4e-14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-12
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-11
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	6e-16
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-11
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-10
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	4e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	2e-15
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	1e-13
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-10
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	6e-05
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	5e-15
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-10
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	6e-15
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	2e-14
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	1e-14
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	2e-14
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	4e-04
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	2e-14
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	9e-12
2ast_B	336	S-phase kinase-associated protein 2; SCF-substrate	2e-10
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-14
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	3e-14
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-14
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-14
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	3e-11
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-10
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	8e-06
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-05
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	5e-14
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	3e-13
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	6e-10
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	6e-14
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	7e-12
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-10
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	3e-06
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-12
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	4e-11
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	8e-06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	7e-12
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	1e-09
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	2e-07
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	1e-11
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	2e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-10
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	9e-09
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-07
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	7e-06
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-04
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	5e-09
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	5e-09
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	6e-07
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-06
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	5e-06
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	8e-09
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-08
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	3e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-08
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	7e-06
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	8e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	9e-08
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-06
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-05
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	2e-07
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	2e-07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	4e-07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-06
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-05
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	1e-06
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	7e-05
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	9e-05
3e4g_A	176	ATP synthase subunit S, mitochondrial; leucine-ric	2e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	2e-06
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	5e-05
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	6e-06
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	6e-04
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	3e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	3e-04
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	6e-04
3sb4_A	329	Hypothetical leucine rich repeat protein; LRR, rig	7e-04
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	8e-04

>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 =  198 bits (505), Expect = 1e-56
 Identities = 72/322 (22%), Positives = 115/322 (35%), Gaps = 45/322 (13%)

Query: 485 MKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDC 544
               + L   G   L          ++     +              +     +      
Sbjct: 11  SSGRENLYFQGSTALRPYH----DVLSQWQRHYNADRNRWHSAWRQANSNNPQIETR-TG 65

Query: 545 KNLKSLSHTLRRLQ--CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIE 602
           + LK+ +  L          L L     L +FP+    +  L  + +D   + E+P +++
Sbjct: 66  RALKATADLLEDATQPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAAGLMELPDTMQ 124

Query: 603 LLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVE--------- 653
              GL+ L L     L  LP+ I  L  L+ L++  C +L  +PE L   +         
Sbjct: 125 QFAGLETLTLARN-PLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLV 183

Query: 654 SLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL 713
           +L+ L +  T IR  P+SI  + NLK+L                     L          
Sbjct: 184 NLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSP---------------LSA-------- 220

Query: 714 MLP-SLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLS-QNNFVTLPASINSLFN 771
            L  ++  L  L +LDL  C       P   G    LK+L L   +N +TLP  I+ L  
Sbjct: 221 -LGPAIHHLPKLEELDLRGCTALRN-YPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQ 278

Query: 772 LGQLDLEDCKRLQSMPQLPSNL 793
           L +LDL  C  L  +P L + L
Sbjct: 279 LEKLDLRGCVNLSRLPSLIAQL 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 =  189 bits (481), Expect = 2e-53
 Identities = 72/352 (20%), Positives = 130/352 (36%), Gaps = 46/352 (13%)

Query: 456 HPSLLLHSKLVILNLKDCTSLTTLPGKIS-MKSLKTLVLSGCLKLTKKCLEFAGSMNDLS 514
           H      S    L  +  T+L      +S  +       +      ++      + N+  
Sbjct: 5   HHHHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQA-----NSNNPQ 59

Query: 515 ELFLDRTTIEELPLSIQHLT--GLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLK 572
                   ++     ++  T  G V L L+    L        RL  L+++T+     L 
Sbjct: 60  IETRTGRALKATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAA-GLM 117

Query: 573 KFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCI------- 625
           + P+++     L  L L    +  +P+SI  L  L+ L++  C  L  LP  +       
Sbjct: 118 ELPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASG 177

Query: 626 --NGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSF 683
              GL +L++L L   + ++++P ++  +++L+ L I  + +     +I  +  L+ L  
Sbjct: 178 EHQGLVNLQSLRLE-WTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDL 236

Query: 684 SGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC-GLGEGAIPND 742
            GC                L   R+YP     P   G   L +L L DC  L    +P D
Sbjct: 237 RGCT--------------AL---RNYP-----PIFGGRAPLKRLILKDCSNLLT--LPLD 272

Query: 743 IGNLCSLKQLNLSQN-NFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNL 793
           I  L  L++L+L    N   LP+ I  L     + +    + Q     P   
Sbjct: 273 IHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQAQLDQHRPVAR 324

>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 =  171 bits (435), Expect = 2e-47
 Identities = 59/297 (19%), Positives = 109/297 (36%), Gaps = 21/297 (7%)

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSL--L 460
           + +    + +           +   +  +  +     N  ++       L      L   
Sbjct: 23  TALRPYHDVLSQWQRHYNADRNRWHSAWRQANS----NNPQIETRTGRALKATADLLEDA 78

Query: 461 LHSKLVILNLKDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLD 519
                V L L+    L   P +   +  L+ + +     L +           L  L L 
Sbjct: 79  TQPGRVALELRSV-PLPQFPDQAFRLSHLQHMTIDAA-GLMELPDTM-QQFAGLETLTLA 135

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSL---------SHTLRRLQCLKNLTLSGCSK 570
           R  +  LP SI  L  L  L+++ C  L  L         S   + L  L++L L   + 
Sbjct: 136 RNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLE-WTG 194

Query: 571 LKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRS 630
           ++  P S+ ++++L  L +  + ++ +  +I  L  L+ L+L  C+ L   P    G   
Sbjct: 195 IRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP 254

Query: 631 LKTLNLSGCSKLQNVPETLGQVESLEELDISG-TAIRRPPSSIFVMNNLKTLSFSGC 686
           LK L L  CS L  +P  + ++  LE+LD+ G   + R PS I  +     +     
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPH 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 =  165 bits (421), Expect = 2e-45
 Identities = 63/289 (21%), Positives = 105/289 (36%), Gaps = 36/289 (12%)

Query: 529 SIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELF 588
              H +G   L  +    L+     L + Q   N   +      +   S     +     
Sbjct: 7   HHHHSSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHSAWRQANS----NNPQIET 62

Query: 589 LDGTSIAEVPSSIELLT--GLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVP 646
             G ++      +E  T  G   L L +   L + P     L  L+ + +     L  +P
Sbjct: 63  RTGRALKATADLLEDATQPGRVALELRSVP-LPQFPDQAFRLSHLQHMTIDAA-GLMELP 120

Query: 647 ETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNG----PPSSTSWHWHFPFN 702
           +T+ Q   LE L ++   +R  P+SI  +N L+ LS   C      P             
Sbjct: 121 DTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEP----------- 169

Query: 703 LMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTL 762
            +               GL +L  L L   G+    +P  I NL +LK L +  +    L
Sbjct: 170 -LASTDAS-----GEHQGLVNLQSLRLEWTGIRS--LPASIANLQNLKSLKIRNSPLSAL 221

Query: 763 PASINSLFNLGQLDLEDCKRLQSMP----QLPSNLYEVQVNGCASLVTL 807
             +I+ L  L +LDL  C  L++ P       + L  + +  C++L+TL
Sbjct: 222 GPAIHHLPKLEELDLRGCTALRNYPPIFGGR-APLKRLILKDCSNLLTL 269

>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 =  164 bits (418), Expect = 5e-45
 Identities = 66/331 (19%), Positives = 120/331 (36%), Gaps = 47/331 (14%)

Query: 346 FSQMTNLRLLKIDNLQLPEGLEYL--SNKLRLLDWHRYPLKSLPSNFQ---LEKTVEFNM 400
              ++  +     +            SN  ++       LK+     +       V   +
Sbjct: 29  HDVLSQWQRHYNADRNRWHSAWRQANSNNPQIETRTGRALKATADLLEDATQPGRVALEL 88

Query: 401 CYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPD-FTGVPNLEELILEGCTRLHEIHPSL 459
               + +  ++   L+ L+ M +  +  L++ PD       LE L L     L  +  S+
Sbjct: 89  RSVPLPQFPDQAFRLSHLQHMTIDAAG-LMELPDTMQQFAGLETLTLARN-PLRALPASI 146

Query: 460 LLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLD 519
              ++L  L+++ C  LT LP  ++                         + +L  L L+
Sbjct: 147 ASLNRLRELSIRACPELTELPEPLASTDA---------------SGEHQGLVNLQSLRLE 191

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
            T I  LP SI +L  L  L +++   L +L   +  L  L+ L L GC+ L+ +P   G
Sbjct: 192 WTGIRSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFG 250

Query: 580 SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGC 639
                                      L+ L L +CSNL+ LP  I+ L  L+ L+L GC
Sbjct: 251 G-----------------------RAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGC 287

Query: 640 SKLQNVPETLGQVESLEELDISGTAIRRPPS 670
             L  +P  + Q+ +   + +      +   
Sbjct: 288 VNLSRLPSLIAQLPANCIILVPPHLQAQLDQ 318

>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 =  121 bits (307), Expect = 2e-30
 Identities = 61/311 (19%), Positives = 105/311 (33%), Gaps = 87/311 (27%)

Query: 344 KAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYS 403
               ++++L+                                              +  +
Sbjct: 98  DQAFRLSHLQ-------------------------------------------HMTIDAA 114

Query: 404 RIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHS 463
            + EL + ++                           LE L L     L  +  S+   +
Sbjct: 115 GLMELPDTMQQF-----------------------AGLETLTLARN-PLRALPASIASLN 150

Query: 464 KLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTI 523
           +L  L+++ C  LT LP  ++                         + +L  L L+ T I
Sbjct: 151 RLRELSIRACPELTELPEPLASTDA---------------SGEHQGLVNLQSLRLEWTGI 195

Query: 524 EELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKD 583
             LP SI +L  L  L +++   L +L   +  L  L+ L L GC+ L+ +P   G    
Sbjct: 196 RSLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAP 254

Query: 584 LMELFL-DGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSK- 641
           L  L L D +++  +P  I  LT L+ L+L  C NL RLPS I  L +   + +    + 
Sbjct: 255 LKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILVPPHLQA 314

Query: 642 --LQNVPETLG 650
              Q+ P    
Sbjct: 315 QLDQHRPVARP 325

>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 =  103 bits (259), Expect = 5e-24
 Identities = 40/229 (17%), Positives = 73/229 (31%), Gaps = 37/229 (16%)

Query: 604 LTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGT 663
            +G + L     + L      ++  +     + +                + +    +G 
Sbjct: 11  SSGRENLYFQGSTALRPYHDVLSQWQRHYNADRNRWHS----AWRQANSNNPQIETRTGR 66

Query: 664 AIRRPPSSIFV--MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGL 721
           A++     +          L       P         FP                    L
Sbjct: 67  ALKATADLLEDATQPGRVALELRSVPLP--------QFP---------------DQAFRL 103

Query: 722 HSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
             L  + +   GL E  +P+ +     L+ L L++N    LPASI SL  L +L +  C 
Sbjct: 104 SHLQHMTIDAAGLME--LPDTMQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACP 161

Query: 782 RLQSMPQ-LPSNLYEVQVNGCASLVTLSGALKLCKSKCTSI-NCIGSLK 828
            L  +P+ L S     +  G  +L +L     L  +   S+   I +L+
Sbjct: 162 ELTELPEPLASTDASGEHQGLVNLQSLR----LEWTGIRSLPASIANLQ 206

>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 =  184 bits (468), Expect = 1e-47
 Identities = 87/469 (18%), Positives = 164/469 (34%), Gaps = 95/469 (20%)

Query: 3   GIWGMGGLGKTTLA-RVAYDL-ISHEFDGSTFLANVREKSEKEGSVVSLQK---QLLSDL 57
            I G+ G GKT +A  V     +  + D   F  N++  +  E  +  LQK   Q+  + 
Sbjct: 154 LIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW 213

Query: 58  LKLADISIWNVDDGINIIGSRLRQ-------KKVLLVIDDVADVEQLQNLARKRDWFGPG 110
              +D S  N+   I+ I + LR+       +  LLV+ +V + +         + F   
Sbjct: 214 TSRSDHSS-NIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAW-------NAFNLS 265

Query: 111 SKIVITTRDKQ----LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELS 166
            KI++TTR KQ    L  A        ++   L+ DE   L   K    R       +L 
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL-KYLDCRPQ-----DLP 319

Query: 167 KRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLE- 225
           + VL      P  L+++   +         +T    K    +++  I++ S + L+  E 
Sbjct: 320 REVLT---TNPRRLSIIAESIRD-----GLATWDNWKHVNCDKLTTIIESSLNVLEPAEY 371

Query: 226 KKIFLDVACFFKS-----------W---DRDHVEKILEGCGFSPVIGIEVLIEKSLLTVD 271
           +K+F  ++ F  S           W    +  V  ++               + SL+   
Sbjct: 372 RKMFDRLSVFPPSAHIPTILLSLIWFDVIKSDVMVVVNKL-----------HKYSLVEKQ 420

Query: 272 -DGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDA 330
              + + +  +  EL     + +   +      I     +      +           D 
Sbjct: 421 PKESTISIPSIYLEL-----KVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYL----DQ 471

Query: 331 YFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNF 390
           YF  + G+     +   +MT  R++ +D         +L  K+R          S+ +  
Sbjct: 472 YFYSHIGHHLKNIEHPERMTLFRMVFLD-------FRFLEQKIRHDSTAWNASGSILNTL 524

Query: 391 Q-LEKTVEFNMCYSR-IEELWNEIKYLNMLKVMK---LSHSQNLIKTPD 434
           Q L+        Y   I +  N+ KY  ++  +        +NLI +  
Sbjct: 525 QQLKF-------YKPYICD--NDPKYERLVNAILDFLPKIEENLICSKY 564

>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 = 72.2 bits (176), Expect = 7e-13
 Identities = 93/638 (14%), Positives = 182/638 (28%), Gaps = 167/638 (26%)

Query: 51  KQLLSDLLK--LADISIWNVDDGI----------NIIGSRLRQKKVLLVIDDVAD----- 93
           K +LS      + +    +V D            +II S+      L +   +       
Sbjct: 19  KDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEM 78

Query: 94  VEQL--QNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMK 151
           V++   + L     +    S I    R   +     +   +I   + L ND   Q+F+ K
Sbjct: 79  VQKFVEEVLRINYKFLM--SPIKTEQRQPSM-----MTRMYIEQRDRLYNDN--QVFA-K 128

Query: 152 AFKTRQPMGEYVELSKRV--LKYAGGLPLALTV---LGSFLNGRSVDLWRSTLK--RLKK 204
              +R     Y++L + +  L+ A  +     +   LGS   G++  +        +++ 
Sbjct: 129 YNVSRLQP--YLKLRQALLELRPAKNV----LIDGVLGS---GKTW-VALDVCLSYKVQC 178

Query: 205 EPPNRI--INILQISFDG-----LQDLEKKI--FLDVACFFKSWDRDHVEKILEGCGFSP 255
           +   +I  +N+   +        LQ L  +I           S  +  +  I        
Sbjct: 179 KMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAE--LRR 236

Query: 256 VIGIEVLIEKSLLTVDDGNRLWMHDLLQELGHQIVQRQSPEQPGKRSRIW---RDEEVRH 312
           ++  +   E  LL + +   +                          +I    R ++V  
Sbjct: 237 LLKSKPY-ENCLLVLLN---VQNAKAWNAFNLS-------------CKILLTTRFKQVTD 279

Query: 313 MLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPE-------- 364
            L+  T + +            +E   S   K          L      LP         
Sbjct: 280 FLSAATTTHISLDHHSMT-LTPDEV-KSLLLKY---------LDCRPQDLPREVLTTNPR 328

Query: 365 --GL--EYLSNKLRLLD-WHRYPLKSLPSNFQ--LE--KTVEFNMCY---------SRIE 406
              +  E + + L   D W       L +  +  L   +  E+   +         + I 
Sbjct: 329 RLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIP 388

Query: 407 E-----LWNEIKYLNMLKVMKLSHSQNLI-KTPDFTGVPNLEELILEGCTRLHEIHPSLL 460
                 +W ++   +++ V+   H  +L+ K P             E    +  I+  L 
Sbjct: 389 TILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPK------------ESTISIPSIYLELK 436

Query: 461 --------LHSKLV-ILNLKDCTSLTTL-PGKISMKSLKTLV--LSGCLKLTKKCLEFAG 508
                   LH  +V   N+        L P  +       +   L           E   
Sbjct: 437 VKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNI--------EHPE 488

Query: 509 SMNDLSELFLD----RTTIEELPLSIQHLTGL--VLLNLKDCKNLKSLSHTL--RRLQCL 560
            M     +FLD       I     +      +   L  LK  K     +     R +  +
Sbjct: 489 RMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKPYICDNDPKYERLVNAI 548

Query: 561 KNLTLSGCSKLKKFPESLGSMKDLMELFL--DGTSIAE 596
            +        L     +     DL+ + L  +  +I E
Sbjct: 549 LDFLPKIEENLICSKYT-----DLLRIALMAEDEAIFE 581

>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 = 71.4 bits (174), Expect = 1e-12
 Identities = 89/569 (15%), Positives = 170/569 (29%), Gaps = 144/569 (25%)

Query: 211 INILQISF-DGLQDLEKKIFLDVACFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLT 269
               Q  + D L   E         F  ++D   V+ + +      ++  E  I+  +++
Sbjct: 11  TGEHQYQYKDILSVFEDA-------FVDNFDCKDVQDMPK-----SILSKEE-IDHIIMS 57

Query: 270 VDDGNRLW-MHDLLQELGHQIVQR--QSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGI 326
            D  +    +   L     ++VQ+  +   +   +   +    ++   TE     ++  +
Sbjct: 58  KDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYK---FLMSPIK---TEQRQPSMMTRM 111

Query: 327 IVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPL--- 383
                ++E    L    + F++    RL     L+           L  L   +  L   
Sbjct: 112 -----YIEQRDRLYNDNQVFAKYNVSRLQPYLKLR---------QALLELRPAKNVLIDG 157

Query: 384 -----KS-LPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMK----LSHSQNLIKTP 433
                K+ +  +  L   V+  M          +I +LN+         L   Q L+   
Sbjct: 158 VLGSGKTWVALDVCLSYKVQCKMD--------FKIFWLNLKNCNSPETVLEMLQKLLYQI 209

Query: 434 DFTGVPNLEELILEGCT---RLHEIHPSL--LLHSK-----LVIL-NLKD---------- 472
           D    PN             R+H I   L  LL SK     L++L N+++          
Sbjct: 210 D----PNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLS 265

Query: 473 CTSL-TTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLS 529
           C  L TT   ++   + +  T  +S  L      L        L   +LD    ++LP  
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHIS--LDHHSMTLTPDEVK-SLLLKYLD-CRPQDLPRE 321

Query: 530 IQHLTGLVL----LNLKDCK---------NLKSLSHTLRRLQCLKNLTLSGCSKLKK--- 573
           +       L     +++D           N   L+  +     L  L  +   K+     
Sbjct: 322 VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIES--SLNVLEPAEYRKMFDRLS 379

Query: 574 -FPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLK 632
            FP S      L+ L       ++V   +  L    L+      + + +PS         
Sbjct: 380 VFPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPS--------- 430

Query: 633 TLNLSGCSKLQNVPE---TLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGP 689
            + L    KL+N      ++  V+                      N  KT        P
Sbjct: 431 -IYLELKVKLENEYALHRSI--VDHY--------------------NIPKTFDSDDLIPP 467

Query: 690 PSSTSWHWHFPFNLMGQRSYPVALMLPSL 718
                ++ H   +L          +   +
Sbjct: 468 YLDQYFYSHIGHHLKNIEHPERMTLFRMV 496

>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 = 58.7 bits (141), Expect = 9e-09
 Identities = 73/580 (12%), Positives = 159/580 (27%), Gaps = 197/580 (33%)

Query: 511  NDLSELF-------LDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCL-KN 562
             D+  +F        D   ++++P SI        L+ ++  ++      +     L   
Sbjct: 19   KDILSVFEDAFVDNFDCKDVQDMPKSI--------LSKEEIDHIIMSKDAVSGTLRLFWT 70

Query: 563  LTLSGCSKLKKFPESLGSMKDLMEL---FLDGTSIAEV---PSSIELLTGLQLLNLNNCS 616
            L       ++KF      +++++ +   FL  + I      PS +  +   Q   L N +
Sbjct: 71   LLSKQEEMVQKF------VEEVLRINYKFL-MSPIKTEQRQPSMMTRMYIEQRDRLYNDN 123

Query: 617  ------NLVRLPSCINGLRS-LKTLN---------LSGCSK--LQNVPETLGQVESLEEL 658
                  N+ R       LR  L  L          + G  K  +    +     +   ++
Sbjct: 124  QVFAKYNVSR-LQPYLKLRQALLELRPAKNVLIDGVLGSGKTWV--ALDVCLSYKVQCKM 180

Query: 659  D-----ISGTAIRRPPSSIFVMNNL--------KTLSFSGCNGPPSSTSWHWHFPFNLMG 705
            D     ++      P + + ++  L         + S    N               L+ 
Sbjct: 181  DFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSN-IKLRIHSIQAELRRLLK 239

Query: 706  QRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPAS 765
             + Y   L++           L                 N+ + K  N            
Sbjct: 240  SKPYENCLLV-----------LL----------------NVQNAKAWN------------ 260

Query: 766  INSLFNLGQLDLEDCK-----RLQSMPQL--PSNLYEVQVNGCASLVTLSGALKLCKSKC 818
                FNL       CK     R + +      +    + ++  +  +T      L   K 
Sbjct: 261  ---AFNLS------CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL-LKY 310

Query: 819  TSINCIGSLK--LAGNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNE---- 872
                    L   +   N   +S++ E ++   D +  ++          W     +    
Sbjct: 311  LDCR-PQDLPREVLTTNPRRLSIIAESIR---DGLATWD---------NWKHVNCDKLTT 357

Query: 873  --GSSITVTRPSYLYNMNKVVGYAICCVF----HVPKRSTRSHLIQMLPCFFNGSGVHYF 926
               SS+ V  P+    M     +    VF    H+P     + L+ +             
Sbjct: 358  IIESSLNVLEPAEYRKM-----FDRLSVFPPSAHIP-----TILLSL------------- 394

Query: 927  IRFKEKFGQGRSDHLWLLYLSREACRESNWHFESNHIELAFKPMSGPGLKVTRCGIHPVY 986
                          +W   + +                L  K       K +   I  +Y
Sbjct: 395  --------------IW-FDVIKSDVMVVVNKLHKY--SLVEK-----QPKESTISIPSIY 432

Query: 987  MDEVEQFD-------QITNQWTHFTSYNLNETSKRGLTEY 1019
            ++   + +        I + +    +++ ++     L +Y
Sbjct: 433  LELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQY 472

>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 =  154 bits (391), Expect = 9e-40
 Identities = 42/331 (12%), Positives = 94/331 (28%), Gaps = 43/331 (12%)

Query: 1   MMGIWGMGGLGKTTLARVAY----DLISHEFDGSTFLANVREKSEKEGSVV----SLQKQ 52
            + + G  G GK+ +A  A      LI   +D   +L +     +    +      + K 
Sbjct: 154 FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKS 213

Query: 53  LLSDLLKLADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSK 112
               L   +   + +V     I  + + +   L V DDV   E +      R       +
Sbjct: 214 EDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEETI------RWAQELRLR 267

Query: 113 IVITTRDKQLLVAHEVD-EEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLK 171
            ++TTRD +  +++          +  L  DE                 +  ++  + ++
Sbjct: 268 CLVTTRDVE--ISNAASQTCEFIEVTSLEIDECYDFLEAYGMPMPVG-EKEEDVLNKTIE 324

Query: 172 YAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIIN-----------ILQISFDG 220
            + G P  L +       ++ +       +L+      +              LQ   + 
Sbjct: 325 LSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVEV 384

Query: 221 LQDLEKKIFLDVACFFKS-----------WDRDHVEKILEGCGFSPVIGIEVLIEKSLLT 269
           L D ++                          D      E         ++ L ++  L 
Sbjct: 385 LSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDDEVADRLKRLSKRGALL 444

Query: 270 VDDGNRLW---MHDLLQELGHQIVQRQSPEQ 297
                 +    +  ++      +V  Q+   
Sbjct: 445 SGKRMPVLTFKIDHIIHMFLKHVVDAQTIAN 475

>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 =  148 bits (376), Expect = 2e-37
 Identities = 70/405 (17%), Positives = 151/405 (37%), Gaps = 69/405 (17%)

Query: 4   IWGMGGLGKTTLARVAY---DLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLK- 59
           I GM G GK+ LA  A     L+   F G     +V ++ +    ++   + L + L + 
Sbjct: 152 IHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSG--LLMKLQNLCTRLDQD 209

Query: 60  --LADISIWNVDDGINIIGSRL--RQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVI 115
              +     N+++  + +   +  +  + LL++DDV D   L         F    +I++
Sbjct: 210 ESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVL-------KAFDSQCQILL 262

Query: 116 TTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGG 175
           TTRDK +  +    +  +     L  ++ L++ S+     +    +  E +  ++K   G
Sbjct: 263 TTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMKKA---DLPEQAHSIIKECKG 319

Query: 176 LPLALTVLGSFLNGRSVDLWRSTLKRLKKE-----------PPNRIINILQISFDGLQDL 224
            PL ++++G+ L     + W   LK+L+ +               +   + IS + L++ 
Sbjct: 320 SPLVVSLIGALLRDFP-NRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED 378

Query: 225 EKKIFLDVACFFKSW--DRDHV-------EKILEGCGFSPVIGIEVLIEKSLLTVDDGNR 275
            K  + D++   K        +        + +E         ++  + KSLL  D   +
Sbjct: 379 IKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDI-------LQEFVNKSLLFCDRNGK 431

Query: 276 LW---MHDLLQELGHQIVQRQSPEQPGKRSRIWRDEEVRHMLTENTGSEVVEGIIVDAYF 332
            +   +HDL  +     +  ++  Q     +    +  R+        +  +      Y+
Sbjct: 432 SFRYYLHDLQVDF----LTEKNCSQLQDLHKKIITQFQRYHQPHTLSPDQED----CMYW 483

Query: 333 LENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLD 377
                Y  A AK   ++            L   L+++  K  L+ 
Sbjct: 484 YNFLAYHMASAKMHKELC----------ALMFSLDWIKAKTELVG 518

>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 =  147 bits (374), Expect = 5e-37
 Identities = 65/475 (13%), Positives = 149/475 (31%), Gaps = 69/475 (14%)

Query: 337 GYLSAGAKAFSQMTNLRLLKIDNLQLPE------GLEYLSNKLRLLDWHRYPLKSLP-SN 389
                G K  S   +    +   +   +        E  S+ ++         KS+  S+
Sbjct: 120 NERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSS 179

Query: 390 FQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELI---L 446
               K  +     + I  +   +  L  L+   + +S        F      E       
Sbjct: 180 RITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSP-------FVAENICEAWENENS 232

Query: 447 EGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKIS-MKSLKTLVLSGCLKLTKKCLE 505
           E   +             L  + + +C +LT LP  +  +  ++ + ++           
Sbjct: 233 EYAQQYKTEDLKWDNLKDLTDVEVYNCPNLTKLPTFLKALPEMQLINVAC---------- 282

Query: 506 FAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS--HTLRRLQCLKNL 563
                N        +   + L         + ++ +    NLK+     +L++++ L  L
Sbjct: 283 -----NRGISGEQLKDDWQALA-DAPVGEKIQIIYIGYN-NLKTFPVETSLQKMKKLGML 335

Query: 564 TLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLP 622
                 +L+    + GS   L  L L    I E+P++       ++ L+  +   L  +P
Sbjct: 336 ECLYN-QLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHN-KLKYIP 393

Query: 623 S--CINGLRSLKTLNLSG-------CSKLQNVPETLGQVESLEELDISGTAIRRPPSSIF 673
           +      +  +  ++ S              +  T  +  ++  +++S   I + P  +F
Sbjct: 394 NIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELF 453

Query: 674 -VMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC 732
              + L +++  G                 L       +     +    + L+ +DL   
Sbjct: 454 STGSPLSSINLMGNM---------------LTEIPKNSLKDENENFKNTYLLTSIDLRFN 498

Query: 733 GLGEGAIPNDI--GNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQS 785
            L +  + +D     L  L  ++LS N+F   P    +   L    + + +  Q 
Sbjct: 499 KLTK--LSDDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQG 551

>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 =  133 bits (337), Expect = 2e-32
 Identities = 38/358 (10%), Positives = 101/358 (28%), Gaps = 57/358 (15%)

Query: 458 SLLLHSKLVILNLKDCTSLTTLPGKIS-MKSLKTLVLSG-CLKLTKKCLEFAGSMNDLSE 515
           SL  + ++  L+L+   +   +P  I  +  L+ L L     K+ ++     G   ++S+
Sbjct: 76  SLNSNGRVTGLSLEGFGASGRVPDAIGQLTELEVLALGSHGEKVNERLFGPKGISANMSD 135

Query: 516 LFLDRTTIEELPLSIQHLTGLVLLNLKD-----CKNLKSLSHTLRRLQCLKNLTLSGCSK 570
               +  +      + +       +L           KS+  + R       +     + 
Sbjct: 136 EQKQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLS-NN 194

Query: 571 LKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRS 630
           +    +++  +  L + ++  +       +  +    +  N              + L+ 
Sbjct: 195 ITFVSKAVMRLTKLRQFYMGNSPF----VAENICEAWENENSEYAQQYKTEDLKWDNLKD 250

Query: 631 LKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPP 690
           L  + +  C  L  +P  L  +  ++ ++++              N   +      +   
Sbjct: 251 LTDVEVYNCPNLTKLPTFLKALPEMQLINVAC-------------NRGISGEQLKDDWQ- 296

Query: 691 SSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLK 750
                                   L        +  + +    L    +   +  +  L 
Sbjct: 297 -----------------------ALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLG 333

Query: 751 QLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLS 808
            L    N       +  S   L  L+L    ++     +P+N           +  LS
Sbjct: 334 MLECLYNQLEGKLPAFGSEIKLASLNLAYN-QITE---IPANF----CGFTEQVENLS 383

>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 =  112 bits (282), Expect = 1e-25
 Identities = 50/487 (10%), Positives = 125/487 (25%), Gaps = 96/487 (19%)

Query: 346 FSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNF-QLEKTVEFNMCYSR 404
           FS +    +      +  +    ++ K   +      +  +     +L K  +F M  S 
Sbjct: 158 FSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSP 217

Query: 405 IEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSK 464
                N  +             +       +  + +L ++ +  C  L ++   L    +
Sbjct: 218 FVAE-NICEAWENENSEYAQQYKTED--LKWDNLKDLTDVEVYNCPNLTKLPTFLKALPE 274

Query: 465 LVILNLKDC--TSLTTLPGKIS-------MKSLKTLVLSGCLKLTKKCLEFA-GSMNDLS 514
           + ++N+      S   L             + ++ + +     L    +E +   M  L 
Sbjct: 275 MQLINVACNRGISGEQLKDDWQALADAPVGEKIQIIYIGYN-NLKTFPVETSLQKMKKLG 333

Query: 515 ELFLDRTTIEELPLSIQHLTGLVLLNL-------------KDCKNLKSL----------- 550
            L      +E    +      L  LNL                + +++L           
Sbjct: 334 MLECLYNQLEGKLPAFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIP 393

Query: 551 -SHTLRRLQCLKNLTLSG-------CSKLKKFPESLGSMKDLMELFLDGTSIAEVP-SSI 601
                + +  +  +  S                 +     ++  + L    I++ P    
Sbjct: 394 NIFDAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNNQISKFPKELF 453

Query: 602 ELLTGLQLLNLNNCS-------NLVRLPSCINGLRSLKTLNLSGCSKLQNVPETL--GQV 652
              + L  +NL           +L            L +++L    KL  + +      +
Sbjct: 454 STGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFN-KLTKLSDDFRATTL 512

Query: 653 ESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVA 712
             L  +D+S  +  + P+     + LK                        +        
Sbjct: 513 PYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRN-QRDAQGN--------RTLR------- 556

Query: 713 LMLP-SLSGLHSLSKLDLSDCGLGE--------------------GAIPNDIGNLCSLKQ 751
              P  ++   SL++L +    + +                        + +        
Sbjct: 557 -EWPEGITLCPSLTQLQIGSNDIRKVNEKITPNISVLDIKDNPNISIDLSYVCPYIEAGM 615

Query: 752 LNLSQNN 758
             L  + 
Sbjct: 616 YMLFYDK 622

>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 = 83.9 bits (208), Expect = 1e-16
 Identities = 50/324 (15%), Positives = 105/324 (32%), Gaps = 66/324 (20%)

Query: 345 AFSQMTNLRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMC 401
           AF     L  L +   Q+   P      + ++  L +    LK +P+ F           
Sbjct: 348 AFGSEIKLASLNLAYNQITEIPANFCGFTEQVENLSFAHNKLKYIPNIF----------- 396

Query: 402 YSRIEELWNEIKYLNMLKVMKLSHSQ-NLIKTPDFTGVP-------NLEELILEGCTRLH 453
                    + K ++++  +  S+++   +   +F  +        N+  + L    ++ 
Sbjct: 397 ---------DAKSVSVMSAIDFSYNEIGSVDGKNFDPLDPTPFKGINVSSINLSNN-QIS 446

Query: 454 EIHPSLLLH-SKLVILNLKDCTSLTTLPGKI---------SMKSLKTLVLSGCLKLTKKC 503
           +    L    S L  +NL     LT +P            +   L ++ L    KLTK  
Sbjct: 447 KFPKELFSTGSPLSSINLMGN-MLTEIPKNSLKDENENFKNTYLLTSIDLRFN-KLTKLS 504

Query: 504 LEFA-GSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKN 562
            +F   ++  L  + L   +  + P    + + L    +                     
Sbjct: 505 DDFRATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGI------------------RNQ 546

Query: 563 LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP 622
               G   L+++PE +     L +L +    I +V   I     + +L++ +  N+    
Sbjct: 547 RDAQGNRTLREWPEGITLCPSLTQLQIGSNDIRKVNEKI--TPNISVLDIKDNPNISIDL 604

Query: 623 SCINGLRSLKTLNLSGCSKLQNVP 646
           S +          L    K Q++ 
Sbjct: 605 SYVCPYIEAGMYMLFY-DKTQDIR 627

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score =  146 bits (370), Expect = 5e-36
 Identities = 66/458 (14%), Positives = 155/458 (33%), Gaps = 63/458 (13%)

Query: 347 SQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLE-KTVEFNMCYSRI 405
            +   +R+         +    LS+ L+        +K +  + ++  K  +     +RI
Sbjct: 378 ERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRI 437

Query: 406 EELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVP---NLEELILEGCTRLHEIHPSLLLH 462
             +   I+ L  L+++  ++S        FT      + E+   +   +      S    
Sbjct: 438 TFISKAIQRLTKLQIIYFANSP-------FTYDNIAVDWEDANSDYAKQYENEELSWSNL 490

Query: 463 SKLVILNLKDCTSLTTLPGKIS-MKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRT 521
             L  + L +C ++T LP  +  +  L++L ++                N        + 
Sbjct: 491 KDLTDVELYNCPNMTQLPDFLYDLPELQSLNIAC---------------NRGISAAQLKA 535

Query: 522 TIEELPLSIQHLTGLVLLNLKDCKNLKSL--SHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
               L         + +  +    NL+    S +L+++  L  L      K++      G
Sbjct: 536 DWTRLADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMVKLGLLDCVHN-KVRHLEA-FG 592

Query: 580 SMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSC--INGLRSLKTLNL 636
           +   L +L LD   I E+P         ++ L  ++   L  +P+      +  + +++ 
Sbjct: 593 TNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHN-KLKYIPNIFNAKSVYVMGSVDF 651

Query: 637 SGCSKLQNVPETLG------QVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGP 689
           S   K+ +    +       +  +   + +S   I++ P+ +F   + + T+  S     
Sbjct: 652 SYN-KIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLMT 710

Query: 690 PSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI--GNLC 747
                     P N +  +         +    + L+ +DL    L    + +D     L 
Sbjct: 711 --------SIPENSLKPKD-------GNYKNTYLLTTIDLRFNKLTS--LSDDFRATTLP 753

Query: 748 SLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQS 785
            L  +++S N F + P    +   L    +   +  + 
Sbjct: 754 YLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEG 791

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score =  133 bits (336), Expect = 7e-32
 Identities = 74/486 (15%), Positives = 144/486 (29%), Gaps = 91/486 (18%)

Query: 346 FSQMTNLRLLKIDNL-----QLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNM 400
                +L+  +I NL      + + ++ L+  L+++ +   P          E       
Sbjct: 419 KDSRISLKDTQIGNLTNRITFISKAIQRLTK-LQIIYFANSPFTYDNIAVDWEDANSDYA 477

Query: 401 CYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPD-FTGVPNLEELIL---------EGCT 450
                EE       L  L  ++L +  N+ + PD    +P L+ L +         +   
Sbjct: 478 KQYENEE--LSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKA 535

Query: 451 RLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKIS---MKSLKTLVLSGCLKLTKKCLEFA 507
               +        K+ I  +    +L   P   S   M  L  L      K+    LE  
Sbjct: 536 DWTRLADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMVKLGLLDCVHN-KVRH--LEAF 591

Query: 508 GSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL--SHTLRRLQCLKNLT 564
           G+   L++L LD   IEE+P         +  L     K LK +      + +  + ++ 
Sbjct: 592 GTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNK-LKYIPNIFNAKSVYVMGSVD 650

Query: 565 LSGCSKLKKFPESLGS------MKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCS- 616
            S   K+     ++          +   + L    I + P+ +    + +  + L+N   
Sbjct: 651 FSYN-KIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNNLM 709

Query: 617 ------NLVRLPSCINGLRSLKTLNLSGCSKLQNVPETL--GQVESLEELDISGTAIRRP 668
                 +L            L T++L    KL ++ +      +  L  +D+S       
Sbjct: 710 TSIPENSLKPKDGNYKNTYLLTTIDLRFN-KLTSLSDDFRATTLPYLSNMDVSYNCFSSF 768

Query: 669 PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLD 728
           P+     + LK                                                D
Sbjct: 769 PTQPLNSSQLKAFGIRHQ----------------------------------------RD 788

Query: 729 LSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQ-SMP 787
                +     P  I    SL QL +  N+   +   +     L  LD+ D   +   + 
Sbjct: 789 AEGNRI-LRQWPTGITTCPSLIQLQIGSNDIRKVDEKL--TPQLYILDIADNPNISIDVT 845

Query: 788 QLPSNL 793
            +   +
Sbjct: 846 SVCPYI 851

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score =  130 bits (329), Expect = 5e-31
 Identities = 49/369 (13%), Positives = 103/369 (27%), Gaps = 56/369 (15%)

Query: 458 SLLLHSKLVILNLKDCTSLTTLPGKIS-MKSLKTLVLSGC-LKLTKKCLEFAGSMNDLSE 515
            L  + ++  L+L    +   +P  I  +  LK L        ++ +         D+SE
Sbjct: 318 DLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSE 377

Query: 516 LFLDRTTIEELPLSI---QHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCS-KL 571
               R  +    + +   Q L    LL     +N +           LK+  +   + ++
Sbjct: 378 ERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIGNLTNRI 437

Query: 572 KKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSL 631
               +++  +  L  ++   +       +++        N +            + L+ L
Sbjct: 438 TFISKAIQRLTKLQIIYFANSPFTYDNIAVDWE----DANSDYAKQYENEELSWSNLKDL 493

Query: 632 KTLNLSGCSKLQNVPETLGQVESLEELDISG----------TAIRRPPSSIFVMNNLKTL 681
             + L  C  +  +P+ L  +  L+ L+I+               R          ++  
Sbjct: 494 TDVELYNCPNMTQLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLADDEDTGPKIQIF 553

Query: 682 SFSGCN--GPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAI 739
                N    P+S                        SL  +  L  LD     +     
Sbjct: 554 YMGYNNLEEFPAS-----------------------ASLQKMVKLGLLDCVHNKV---RH 587

Query: 740 PNDIGNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQV 798
               G    L  L L  N    +P         +  L     K L+ +P           
Sbjct: 588 LEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNK-LKYIPN------IFNA 640

Query: 799 NGCASLVTL 807
                + ++
Sbjct: 641 KSVYVMGSV 649

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score =  114 bits (287), Expect = 5e-26
 Identities = 50/456 (10%), Positives = 122/456 (26%), Gaps = 97/456 (21%)

Query: 345 AFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNM 400
                  +  L +         P+ +  L+  L++L +  +        F  E+      
Sbjct: 318 DLDNNGRVTGLSLAGFGAKGRVPDAIGQLTE-LKVLSFGTHSETVSGRLFGDEEL----- 371

Query: 401 CYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLL 460
                               +++ + +  +       + +L +  +     +  I     
Sbjct: 372 ---------TPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSR 422

Query: 461 LHSKLVILNLKDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLD 519
           +  K   +       +T +   I  +  L+ +  +     T   +       +       
Sbjct: 423 ISLKDTQIGNLT-NRITFISKAIQRLTKLQIIYFANS-PFTYDNIAVDWEDANSDYAKQ- 479

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
               E   LS  +L  L  + L +C N+  L   L  L  L++L ++   +     +   
Sbjct: 480 ---YENEELSWSNLKDLTDVELYNCPNMTQLPDFLYDLPELQSLNIACN-RGISAAQLKA 535

Query: 580 SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPS--CINGLRSLKTLNLS 637
               L                 +    +Q+  +    NL   P+   +  +  L  L+  
Sbjct: 536 DWTRL-------------ADDEDTGPKIQIFYMGYN-NLEEFPASASLQKMVKLGLLDCV 581

Query: 638 GCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHW 697
              K++++    G    L +L +               N ++ +        P       
Sbjct: 582 HN-KVRHLEA-FGTNVKLTDLKLDY-------------NQIEEI--------PEDF---- 614

Query: 698 HFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQN 757
                                +    +  L  S   L       +  ++  +  ++ S N
Sbjct: 615 --------------------CAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSVDFSYN 654

Query: 758 NFVTLPASINS------LFNLGQLDLEDCKRLQSMP 787
              +   +I+         N   + L   + +Q  P
Sbjct: 655 KIGSEGRNISCSMDDYKGINASTVTLSYNE-IQKFP 689

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 97.3 bits (242), Expect = 1e-20
 Identities = 39/268 (14%), Positives = 84/268 (31%), Gaps = 26/268 (9%)

Query: 539 LNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVP 598
            N +           L     +  L+L+G     + P+++G + +L  L     S     
Sbjct: 304 FNKELDMWGDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSG 363

Query: 599 SSIEL--LTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQN---VPETLGQVE 653
                  LT        +   +      ++  + L   +L   +  +N    P       
Sbjct: 364 RLFGDEELTPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRI 423

Query: 654 SLEELDISGT--AIRRPPSSIFVMNNLKTLSFSGCN--GPPSSTSWHWHFPFNLMGQRSY 709
           SL++  I      I     +I  +  L+ + F+         +  W            + 
Sbjct: 424 SLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENE 483

Query: 710 PVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVT-------- 761
                  S S L  L+ ++L +C      +P+ + +L  L+ LN++ N  ++        
Sbjct: 484 E-----LSWSNLKDLTDVELYNCPN-MTQLPDFLYDLPELQSLNIACNRGISAAQLKADW 537

Query: 762 --LPASINSLFNLGQLDLEDCKRLQSMP 787
             L    ++   +    +     L+  P
Sbjct: 538 TRLADDEDTGPKIQIFYMGYNN-LEEFP 564

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 89.2 bits (221), Expect = 4e-18
 Identities = 51/320 (15%), Positives = 104/320 (32%), Gaps = 59/320 (18%)

Query: 345 AFSQMTNLRLLKIDN---LQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTV---EF 398
           AF     L  LK+D     ++PE     ++++  L +    LK +P+ F  +        
Sbjct: 590 AFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVMGSV 649

Query: 399 NMCYSRIEELWNEI----KYLNMLKVMKLSHSQNLIKTPD---FTGVPNLEELILEGCTR 451
           +  Y++I      I         +    ++ S N I+      F     +  +IL     
Sbjct: 650 DFSYNKIGSEGRNISCSMDDYKGINASTVTLSYNEIQKFPTELFATGSPISTIILSNN-L 708

Query: 452 LHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFA-GSM 510
           +  I  + L        N                  L T+ L    KLT    +F   ++
Sbjct: 709 MTSIPENSLKPKDGNYKNTY---------------LLTTIDLRFN-KLTSLSDDFRATTL 752

Query: 511 NDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSK 570
             LS + +        P    + + L    +                         G   
Sbjct: 753 PYLSNMDVSYNCFSSFPTQPLNSSQLKAFGI------------------RHQRDAEGNRI 794

Query: 571 LKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL-VRLPSCINGLR 629
           L+++P  + +   L++L +    I +V    +L   L +L++ +  N+ + + S    + 
Sbjct: 795 LRQWPTGITTCPSLIQLQIGSNDIRKVDE--KLTPQLYILDIADNPNISIDVTSVCPYIE 852

Query: 630 SLKTL-------NLSGCSKL 642
           +   +       ++ GC  L
Sbjct: 853 AGMYVLLYDKTQDIRGCDAL 872

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 71.1 bits (174), Expect = 1e-12
 Identities = 38/268 (14%), Positives = 78/268 (29%), Gaps = 50/268 (18%)

Query: 573 KFPESLGSMKDLMELF-----LDGTSIAEVPSSIELLTGLQLLNLNN--CSNLVRLPSCI 625
           +  E+   +KD   L      LDG +      +I         N N        +    +
Sbjct: 260 QLKETAEYIKDYKALKAIWEALDGKNWRYYSGTINNTIHSLNWNFNKELDMWGDQPGVDL 319

Query: 626 NGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIF----------VM 675
           +    +  L+L+G      VP+ +GQ+  L+ L     +                     
Sbjct: 320 DNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEELTPDMSEER 379

Query: 676 NNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLG 735
            +   + +                  + +           P +  +   S++ L D  +G
Sbjct: 380 KHRIRMHYKKMFLDYDQRLNLSDLLQDAI--------NRNPEMKPIKKDSRISLKDTQIG 431

Query: 736 E-----GAIPNDIGNLCSLKQLNLSQNNFVTL--------------------PASINSLF 770
                   I   I  L  L+ +  + + F                         S ++L 
Sbjct: 432 NLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLK 491

Query: 771 NLGQLDLEDCKRLQSMPQLPSNLYEVQV 798
           +L  ++L +C  +  +P    +L E+Q 
Sbjct: 492 DLTDVELYNCPNMTQLPDFLYDLPELQS 519

>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 =  131 bits (332), Expect = 6e-32
 Identities = 91/492 (18%), Positives = 149/492 (30%), Gaps = 68/492 (13%)

Query: 345 AFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSN-FQ-LEKTVEF 398
            FS++ NL  L +   Q+     +  +     L  L     PL  +        +     
Sbjct: 52  TFSRLINLTFLDLTRCQIYWIHEDTFQSQHR-LDTLVLTANPLIFMAETALSGPKALKHL 110

Query: 399 NMCYSRIEELWNE-IKYLNMLKVMKLSHSQNLIKT---PDFTGVPNLEELILEGCTRLHE 454
               + I  +    +     L+ + L    N I +   P       L+ L  +    +H 
Sbjct: 111 FFIQTGISSIDFIPLHNQKTLESLYLGS--NHISSIKLPKGFPTEKLKVLDFQNN-AIHY 167

Query: 455 IHPSL---LLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAG--- 508
           +       L  +  + LNL         PG       ++L   G   L            
Sbjct: 168 LSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTI 227

Query: 509 --------SMNDLSEL------FLDRTTIEELPLS-----------IQHLTGLVLLNLKD 543
                      D  ++       L   ++E + L                +GL  L+L  
Sbjct: 228 QSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTA 287

Query: 544 CKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPE-SLGSMKDLMELFLDGTSI--AEVPSS 600
             +L  L   L  L  LK L LS   K +   + S  +   L  L + G +         
Sbjct: 288 T-HLSELPSGLVGLSTLKKLVLSAN-KFENLCQISASNFPSLTHLSIKGNTKRLELGTGC 345

Query: 601 IELLTGLQLLNL--NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEEL 658
           +E L  L+ L+L  ++          +  L  L++LNLS    L    E   +   LE L
Sbjct: 346 LENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELL 405

Query: 659 DISGTAIRR-PPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMG---------QR 707
           D++ T ++     S F  ++ LK L+ S                  L             
Sbjct: 406 DLAFTRLKVKDAQSPFQNLHLLKVLNLSHSL----LDISSEQLFDGLPALQHLNLQGNHF 461

Query: 708 SYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASIN 767
                    SL  L  L  L LS C L      +   +L  +  ++LS N   +      
Sbjct: 462 PKGNIQKTNSLQTLGRLEILVLSFCDL-SSIDQHAFTSLKMMNHVDLSHNRLTSSSIEAL 520

Query: 768 SLFNLGQLDLED 779
           S      L+L  
Sbjct: 521 SHLKGIYLNLAS 532

>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 =  123 bits (311), Expect = 3e-29
 Identities = 72/374 (19%), Positives = 124/374 (33%), Gaps = 46/374 (12%)

Query: 418 LKVMKLSHSQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDC 473
            + ++ S   N++ T     F+ + NL  L L  C +++ IH        +L  L L   
Sbjct: 35  TECLEFSF--NVLPTIQNTTFSRLINLTFLDLTRC-QIYWIHEDTFQSQHRLDTLVLTAN 91

Query: 474 TSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPL-SI 530
             L  +        K+LK L       ++        +   L  L+L    I  + L   
Sbjct: 92  -PLIFMAETALSGPKALKHLFFIQT-GISSIDFIPLHNQKTLESLYLGSNHISSIKLPKG 149

Query: 531 QHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCS-KLKKFPESLGSMKDLMELF 588
                L +L+ ++   +  LS   +  LQ   NL+L+     +               L 
Sbjct: 150 FPTEKLKVLDFQNNA-IHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLN 208

Query: 589 LDGTSIAEVP---SSIELLTGLQLLNLNNCSNLVRLPSCINGLR--SLKTLNLSGCSKLQ 643
             GT    V         +  L L    +  +    P+   GL   S++++NL       
Sbjct: 209 FGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFFN 268

Query: 644 NVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN--GPPSSTSWHWHFPF 701
               T      L+ELD++ T +   PS +  ++ LK L  S          +        
Sbjct: 269 ISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQIS-------- 320

Query: 702 NLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVT 761
                            S   SL+ L +             + NL +L++L+LS ++  T
Sbjct: 321 ----------------ASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIET 364

Query: 762 LPASINSLFNLGQL 775
                  L NL  L
Sbjct: 365 SDCCNLQLRNLSHL 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 =  123 bits (310), Expect = 4e-29
 Identities = 79/463 (17%), Positives = 157/463 (33%), Gaps = 58/463 (12%)

Query: 345 AFSQMTNLRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLP----SNFQLEKTVE 397
                  L  L + +  +        + + KL++LD+    +  L     S+ Q    + 
Sbjct: 124 PLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSSLQQATNLS 183

Query: 398 FNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTP---DFTGVPNLEELILEGC--TRL 452
            N+  + I  +        + + +    +QNL+        + + +L     E      +
Sbjct: 184 LNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDI 243

Query: 453 HEIHPSLLLHSKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSM 510
                  L    +  +NL+       +          L+ L L+    L++      G +
Sbjct: 244 SPAVFEGLCEMSVESINLQKH-YFFNISSNTFHCFSGLQELDLTAT-HLSELPSGLVG-L 300

Query: 511 NDLSELFLDRTTIEELP-LSIQHLTGLVLLNLKD-CKNLKSLSHTLRRLQCLKNLTLSGC 568
           + L +L L     E L  +S  +   L  L++K   K L+  +  L  L+ L+ L LS  
Sbjct: 301 STLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHD 360

Query: 569 --SKLKKFPESLGSMKDLMELFLDGTSIAEVPS-SIELLTGLQLLNLNNCS-NLVRLPSC 624
                      L ++  L  L L       + + + +    L+LL+L      +    S 
Sbjct: 361 DIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSP 420

Query: 625 INGLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISG----TAIRRPPSSIFVMNNLK 679
              L  LK LNLS    L     +    + +L+ L++ G        +  +S+  +  L+
Sbjct: 421 FQNLHLLKVLNLSHS-LLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLE 479

Query: 680 TLSFSGCN--GPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEG 737
            L  S C+                                 + L  ++ +DLS   L   
Sbjct: 480 ILVLSFCDLSSIDQHA------------------------FTSLKMMNHVDLSHNRL-TS 514

Query: 738 AIPNDIGNLCSLKQLNLSQNNFVTL-PASINSLFNLGQLDLED 779
           +    + +L  +  LNL+ N+   + P+ +  L     ++L  
Sbjct: 515 SSIEALSHLKGI-YLNLASNHISIILPSLLPILSQQRTINLRQ 556

>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 = 99.3 bits (248), Expect = 1e-21
 Identities = 48/285 (16%), Positives = 91/285 (31%), Gaps = 19/285 (6%)

Query: 511 NDLSELFLDRTTIEEL-PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCS 569
           N    L      +  +   +   L  L  L+L  C+       T +    L  L L+   
Sbjct: 33  NSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTAN- 91

Query: 570 KLKKFP-ESLGSMKDLMELFLDGTSIAEV-PSSIELLTGLQLLNLNNCSNLVRLP-SCIN 626
            L      +L   K L  LF   T I+ +    +     L+ L L +  ++  +      
Sbjct: 92  PLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSN-HISSIKLPKGF 150

Query: 627 GLRSLKTLNLSGCSKLQNV-PETLGQVESLE--ELDISGTAIRRPPSSIFVMNNLKTLSF 683
               LK L+      +  +  E +  ++      L+++G  I       F     ++L+F
Sbjct: 151 PTEKLKVLDFQNN-AIHYLSKEDMSSLQQATNLSLNLNGNDIAGIEPGAFDSAVFQSLNF 209

Query: 684 SGCNGPPSSTSWHWHFPF-NLMG------QRSYPVALMLPSLSGLHSLSKLDLSDCGLGE 736
            G            +    +L                +   L  + S+  ++L       
Sbjct: 210 GGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEM-SVESINLQKHYF-F 267

Query: 737 GAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
               N       L++L+L+  +   LP+ +  L  L +L L   K
Sbjct: 268 NISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANK 312

>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 = 73.9 bits (182), Expect = 1e-13
 Identities = 62/320 (19%), Positives = 109/320 (34%), Gaps = 26/320 (8%)

Query: 339 LSAGAKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNFQ-LE 393
           +S          ++  + +                S  L+ LD     L  LPS    L 
Sbjct: 243 ISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSG-LQELDLTATHLSELPSGLVGLS 301

Query: 394 KTVEFNMCYSRIEEL-WNEIKYLNMLKVMKLSHSQNLIKTPD--FTGVPNLEELILEGC- 449
              +  +  ++ E L          L  + +  +   ++        + NL EL L    
Sbjct: 302 TLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDD 361

Query: 450 -TRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEF 506
                  +  L   S L  LNL       +L  +       L+ L L+   +L  K  + 
Sbjct: 362 IETSDCCNLQLRNLSHLQSLNLSYN-EPLSLKTEAFKECPQLELLDLAFT-RLKVKDAQS 419

Query: 507 A-GSMNDLSELFLDRTTIEELP-LSIQHLTGLVLLNLKDCK---NLKSLSHTLRRLQCLK 561
              +++ L  L L  + ++         L  L  LNL+           +++L+ L  L+
Sbjct: 420 PFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLE 479

Query: 562 NLTLSGCSKLKKFP-ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVR 620
            L LS C  L      +  S+K +  + L    +         L+ L+ + LN  SN + 
Sbjct: 480 ILVLSFC-DLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEA--LSHLKGIYLNLASNHIS 536

Query: 621 --LPSCINGLRSLKTLNLSG 638
             LPS +  L   +T+NL  
Sbjct: 537 IILPSLLPILSQQRTINLRQ 556

>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 = 58.9 bits (143), Expect = 6e-09
 Identities = 56/286 (19%), Positives = 91/286 (31%), Gaps = 70/286 (24%)

Query: 335 NEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEK 394
           N   L  G      + NLR L + +           + +   D     L++L     L+ 
Sbjct: 335 NTKRLELGTGCLENLENLRELDLSH-----------DDIETSDCCNLQLRNLSH---LQ- 379

Query: 395 TVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHE 454
               N+ Y+    L  E                       F   P LE L L    RL  
Sbjct: 380 --SLNLSYNEPLSLKTEA----------------------FKECPQLELLDLAFT-RLKV 414

Query: 455 IHPSLLLH--SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSM 510
                       L +LNL     L     ++   + +L+ L L G               
Sbjct: 415 KDAQSPFQNLHLLKVLNLSHS-LLDISSEQLFDGLPALQHLNLQG--------------- 458

Query: 511 NDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCS 569
           N   +         +   S+Q L  L +L L  C +L S+  H    L+ + ++ LS   
Sbjct: 459 NHFPKG------NIQKTNSLQTLGRLEILVLSFC-DLSSIDQHAFTSLKMMNHVDLSHN- 510

Query: 570 KLKKFPESLGSMKDLMELFLDGTSIAEV-PSSIELLTGLQLLNLNN 614
           +L        S    + L L    I+ + PS + +L+  + +NL  
Sbjct: 511 RLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQ 556

>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 =  124 bits (314), Expect = 5e-31
 Identities = 71/377 (18%), Positives = 144/377 (38%), Gaps = 47/377 (12%)

Query: 410 NEIKYL----NMLKVMKLSHSQNLIKT-PDFTGVPNLEELILEGCTRLHEIHPSLLLHSK 464
             I  +    ++ + ++    +  +        + ++ +L++ G  ++  I   +   + 
Sbjct: 10  APINQIFPDADLAEGIRAVLQKASVTDVVTQEELESITKLVVAGE-KVASI-QGIEYLTN 67

Query: 465 LVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIE 524
           L  LNL     +T +    ++  L  L +    K+T   +    ++ +L EL+L+   I 
Sbjct: 68  LEYLNLNGN-QITDISPLSNLVKLTNLYIGTN-KITD--ISALQNLTNLRELYLNEDNIS 123

Query: 525 ELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDL 584
           ++   + +LT +  LNL    NL  LS  L  +  L  LT++   K+K     + ++ DL
Sbjct: 124 DIS-PLANLTKMYSLNLGANHNLSDLSP-LSNMTGLNYLTVTES-KVKDVTP-IANLTDL 179

Query: 585 MELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQN 644
             L L+   I ++ S +  LT L          +  +   +  +  L +L +    K+ +
Sbjct: 180 YSLSLNYNQIEDI-SPLASLTSLHYFTAYVN-QITDITP-VANMTRLNSLKIGNN-KITD 235

Query: 645 VPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLM 704
           +   L  +  L  L+I    I     ++  +  LK L+                    + 
Sbjct: 236 LSP-LANLSQLTWLEIGTNQISDIN-AVKDLTKLKMLNVGSN---------------QIS 278

Query: 705 GQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPA 764
                     +  L+ L  L+ L L++  L        IG L +L  L LSQN+   +  
Sbjct: 279 D---------ISVLNNLSQLNSLFLNNNQL-GNEDMEVIGGLTNLTTLFLSQNHITDIRP 328

Query: 765 SINSLFNLGQLDLEDCK 781
            + SL  +   D  +  
Sbjct: 329 -LASLSKMDSADFANQV 344

>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 =  108 bits (271), Expect = 2e-25
 Identities = 55/316 (17%), Positives = 122/316 (38%), Gaps = 50/316 (15%)

Query: 474 TSLTTLPGKIS-------MKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEEL 526
            +L TLP  I+       +      VL     +T   +     +  +++L +    +  +
Sbjct: 3   ATLATLPAPINQIFPDADLAEGIRAVLQKA-SVTD--VVTQEELESITKLVVAGEKVASI 59

Query: 527 PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLME 586
              I++LT L  LNL   + +  +S  L  L  L NL +    K+     +L ++ +L E
Sbjct: 60  Q-GIEYLTNLEYLNLNGNQ-ITDISP-LSNLVKLTNLYIGTN-KITDIS-ALQNLTNLRE 114

Query: 587 LFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVP 646
           L+L+  +I+++   +  LT +  LNL    + +   S ++ +  L  L ++   K+++V 
Sbjct: 115 LYLNEDNISDISP-LANLTKMYSLNLGAN-HNLSDLSPLSNMTGLNYLTVTES-KVKDVT 171

Query: 647 ETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQ 706
             +  +  L  L ++   I    S +  + +L   +                        
Sbjct: 172 P-IANLTDLYSLSLNYNQIEDI-SPLASLTSLHYFTAYVNQ------------------- 210

Query: 707 RSYPVAL-MLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPAS 765
                 +  +  ++ +  L+ L + +  + +  +   + NL  L  L +  N    + A 
Sbjct: 211 ------ITDITPVANMTRLNSLKIGNNKITD--LSP-LANLSQLTWLEIGTNQISDINA- 260

Query: 766 INSLFNLGQLDLEDCK 781
           +  L  L  L++   +
Sbjct: 261 VKDLTKLKMLNVGSNQ 276

>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 =  101 bits (255), Expect = 2e-23
 Identities = 62/385 (16%), Positives = 142/385 (36%), Gaps = 48/385 (12%)

Query: 350 TNLRLL--KIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEE 407
             L  L   I+ +        L+         +  +  + +  +LE   +  +   ++  
Sbjct: 3   ATLATLPAPINQI---FPDADLAE-GIRAVLQKASVTDVVTQEELESITKLVVAGEKVAS 58

Query: 408 LWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVI 467
           +   I+YL  L+ + L+ +Q +      + +  L  L +    ++ +I     L + L  
Sbjct: 59  I-QGIEYLTNLEYLNLNGNQ-ITDISPLSNLVKLTNLYIGTN-KITDISALQNL-TNLRE 114

Query: 468 LNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELP 527
           L L +  +++ +    ++  + +L L     L+   L    +M  L+ L +  + ++++ 
Sbjct: 115 LYLNED-NISDISPLANLTKMYSLNLGANHNLSD--LSPLSNMTGLNYLTVTESKVKDVT 171

Query: 528 LSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMEL 587
             I +LT L  L+L   + ++ +S  L  L  L   T     ++      + +M  L  L
Sbjct: 172 -PIANLTDLYSLSLNYNQ-IEDISP-LASLTSLHYFTAYVN-QITDIT-PVANMTRLNSL 226

Query: 588 FLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE 647
            +    I ++   +  L+ L  L +    N +   + +  L  LK LN+    ++ ++  
Sbjct: 227 KIGNNKITDLSP-LANLSQLTWLEIGT--NQISDINAVKDLTKLKMLNVGSN-QISDISV 282

Query: 648 TLGQVESLEELDISGTAIRR-PPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQ 706
            L  +  L  L ++   +       I  + NL TL  S                 ++   
Sbjct: 283 -LNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN---------------HITD- 325

Query: 707 RSYPVALMLPSLSGLHSLSKLDLSD 731
                   +  L+ L  +   D ++
Sbjct: 326 --------IRPLASLSKMDSADFAN 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 = 98.0 bits (245), Expect = 4e-22
 Identities = 41/269 (15%), Positives = 92/269 (34%), Gaps = 38/269 (14%)

Query: 513 LSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLK 572
            + L      I ++      L   +   L+   ++  +  T   L+ +  L ++G  K+ 
Sbjct: 2   AATLATLPAPINQIF-PDADLAEGIRAVLQKA-SVTDVV-TQEELESITKLVVAGE-KVA 57

Query: 573 KFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLK 632
                +  + +L  L L+G  I ++   +  L  L  L +    N +   S +  L +L+
Sbjct: 58  SIQG-IEYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGT--NKITDISALQNLTNLR 113

Query: 633 TLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSS 692
            L L+    + ++   L  +  +  L++         S +  M  L  L+ +        
Sbjct: 114 ELYLNED-NISDISP-LANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTESK----- 166

Query: 693 TSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQL 752
                     +           +  ++ L  L  L L+   + +  I   + +L SL   
Sbjct: 167 ----------VKD---------VTPIANLTDLYSLSLNYNQIED--ISP-LASLTSLHYF 204

Query: 753 NLSQNNFVTLPASINSLFNLGQLDLEDCK 781
               N    +   + ++  L  L + + K
Sbjct: 205 TAYVNQITDIT-PVANMTRLNSLKIGNNK 232

>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 = 96.1 bits (240), Expect = 2e-21
 Identities = 57/326 (17%), Positives = 117/326 (35%), Gaps = 40/326 (12%)

Query: 344 KAFSQMTNLRLLKIDNLQLPEGLEYLSN--KLRLLDWHRYPLKSLPSNFQLEKTVEFNMC 401
           +    +TNL  L ++  Q+   +  LSN  KL  L      +  + +   L    E  + 
Sbjct: 60  QGIEYLTNLEYLNLNGNQI-TDISPLSNLVKLTNLYIGTNKITDISALQNLTNLRELYLN 118

Query: 402 YSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLL 461
              I ++ + +  L  +  + L  + NL      + +  L  L +               
Sbjct: 119 EDNISDI-SPLANLTKMYSLNLGANHNLSDLSPLSNMTGLNYLTVTES------------ 165

Query: 462 HSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRT 521
                         +  +    ++  L +L L+   ++    +    S+  L        
Sbjct: 166 -------------KVKDVTPIANLTDLYSLSLNYN-QIED--ISPLASLTSLHYFTAYVN 209

Query: 522 TIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSM 581
            I ++   + ++T L  L + + K +  LS  L  L  L  L +    ++     ++  +
Sbjct: 210 QITDIT-PVANMTRLNSLKIGNNK-ITDLS-PLANLSQLTWLEIGTN-QISD-INAVKDL 264

Query: 582 KDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSK 641
             L  L +    I+++ S +  L+ L  L LNN          I GL +L TL LS    
Sbjct: 265 TKLKMLNVGSNQISDI-SVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN-H 322

Query: 642 LQNVPETLGQVESLEELDISGTAIRR 667
           + ++   L  +  ++  D +   I++
Sbjct: 323 ITDIRP-LASLSKMDSADFANQVIKK 347

>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 =  124 bits (313), Expect = 2e-29
 Identities = 87/484 (17%), Positives = 154/484 (31%), Gaps = 54/484 (11%)

Query: 345 AFSQMTNLRLLKIDNLQL----PEGLEYLSN-KLRLLDWHRYPLKSLPSN--FQLEKTVE 397
              Q+ NL+ L + N ++     E L+  +N  L+ L+     +K         + +   
Sbjct: 140 TQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFG 199

Query: 398 FNMCYSRIEELWNEI--KYLNMLKVMKLSHSQNLIKTPD---FTG--VPNLEELILEGCT 450
             +   ++     E     L    +  LS S + + T     F G    NL  L L    
Sbjct: 200 LFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYN- 258

Query: 451 RLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCL--------KL 499
            L+ +         +L    L+   ++  L       + +++ L L             L
Sbjct: 259 NLNVVGNDSFAWLPQLEYFFLEYN-NIQHLFSHSLHGLFNVRYLNLKRSFTKQSISLASL 317

Query: 500 TKKCLEFAGSMNDLSELFLDRTTIEELPL-SIQHLTGLVLLNLKDCKNLKSL----SHTL 554
            K        +  L  L ++   I  +       L  L  L+L +  +  SL    + T 
Sbjct: 318 PKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLSLSN--SFTSLRTLTNETF 375

Query: 555 RRLQC--LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEV--PSSIELLTGLQLL 610
             L    L  L L+     K   ++   +  L  L L    I +         L  +  +
Sbjct: 376 VSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEI 435

Query: 611 NLNNCSNLVRLPSCINGLRSLKTLNLSGC--SKLQNVPETLGQVESLEELDISGTAIRRP 668
            L+    L    +    + SL+ L L       + + P     + +L  LD+S   I   
Sbjct: 436 YLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANI 495

Query: 669 PSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALML----------PS 717
              +   +  L+ L     N        +   P   +   S+   L L            
Sbjct: 496 NDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEV 555

Query: 718 LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI--NSLFNLGQL 775
              L  L  +DL    L      +   N  SLK LNL +N   ++   +   +  NL +L
Sbjct: 556 FKDLFELKIIDLGLNNL-NTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTEL 614

Query: 776 DLED 779
           D+  
Sbjct: 615 DMRF 618

>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 =  115 bits (290), Expect = 2e-26
 Identities = 74/383 (19%), Positives = 135/383 (35%), Gaps = 47/383 (12%)

Query: 418 LKVMKLSHSQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDC 473
           + V+ L+H  N ++     +FT    L  L +     + ++ P L      L +LNL+  
Sbjct: 27  ITVLNLTH--NQLRRLPAANFTRYSQLTSLDVGFN-TISKLEPELCQKLPMLKVLNLQHN 83

Query: 474 TSLTTLPGKI--SMKSLKTLVLSGCL--KLTKKCLEFAGSMNDLSELFLDRTTIEELPL- 528
             L+ L  K      +L  L L      K+            +L  L L    +    L 
Sbjct: 84  -ELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPF---VKQKNLITLDLSHNGLSSTKLG 139

Query: 529 SIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLT---LSGCSKLKKF-PESLGSMKDL 584
           +   L  L  L L +   +++L      +    +L    LS   ++K+F P    ++  L
Sbjct: 140 TQVQLENLQELLLSNN-KIQALKSEELDIFANSSLKKLELSSN-QIKEFSPGCFHAIGRL 197

Query: 585 MELFLDG----TSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCING---LRSLKTLNLS 637
             LFL+      S+ E        T ++ L+L+N   L    +         +L  L+LS
Sbjct: 198 FGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNS-QLSTTSNTTFLGLKWTNLTMLDLS 256

Query: 638 GCSKLQNV-PETLGQVESLEELDISGTAIRR-PPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
               L  V  ++   +  LE   +    I+     S+  + N++ L+          +  
Sbjct: 257 YN-NLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKR-------SFT 308

Query: 696 HWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLS 755
                   + +      +   S   L  L  L++ D  +  G   N    L +LK L+LS
Sbjct: 309 KQSISLASLPK------IDDFSFQWLKCLEHLNMEDNDI-PGIKSNMFTGLINLKYLSLS 361

Query: 756 QNNFVTLPASINSLFNLGQLDLE 778
            +       +  +  +L    L 
Sbjct: 362 NSFTSLRTLTNETFVSLAHSPLH 384

>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 = 98.5 bits (246), Expect = 4e-21
 Identities = 82/427 (19%), Positives = 145/427 (33%), Gaps = 58/427 (13%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEF 398
             +F+ +  L    ++   +       L  L N +R L+  R   K   S   L K  +F
Sbjct: 265 NDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFN-VRYLNLKRSFTKQSISLASLPKIDDF 323

Query: 399 NMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPD---FTGVPNLEELILEG----CTR 451
                         ++L  L+ + +    N I       FTG+ NL+ L L         
Sbjct: 324 ------------SFQWLKCLEHLNMED--NDIPGIKSNMFTGLINLKYLSLSNSFTSLRT 369

Query: 452 LHEIHPSLLLHSKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFA-G 508
           L       L HS L ILNL     ++ +       +  L+ L L    ++ ++       
Sbjct: 370 LTNETFVSLAHSPLHILNLTKN-KISKIESDAFSWLGHLEVLDLGLN-EIGQELTGQEWR 427

Query: 509 SMNDLSELFLDRTTIEEL-PLSIQHLTGLVLLNLKDCK--NLKSLSHTLRRLQCLKNLTL 565
            + ++ E++L      +L   S   +  L  L L+     N+ S     + L+ L  L L
Sbjct: 428 GLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDL 487

Query: 566 SGCSKLKKFPES-LGSMKDLMELFLDGTSIAEV---------PSSIELLTGLQLLNLNNC 615
           S    +    +  L  ++ L  L L   ++A +            ++ L+ L +LNL + 
Sbjct: 488 SNN-NIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESN 546

Query: 616 SNLVRL-PSCINGLRSLKTLNLSGCSKLQNV-PETLGQVESLEELDISGTAIRRPPSSIF 673
                +       L  LK ++L     L  +         SL+ L++    I      +F
Sbjct: 547 -GFDEIPVEVFKDLFELKIIDLGLN-NLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVF 604

Query: 674 --VMNNLKTLSFSGCN--GPPSSTSWHWHF----PFNLMGQRSYPVALMLPSLSGLHSLS 725
                NL  L            S +W  ++      N+    S+ +    P   G   + 
Sbjct: 605 GPAFRNLTELDMRFNPFDCTCESIAWFVNWINETHTNIPELSSHYLCNTPPHYHGF-PVR 663

Query: 726 KLDLSDC 732
             D S C
Sbjct: 664 LFDTSSC 670

>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 = 96.2 bits (240), Expect = 2e-20
 Identities = 68/314 (21%), Positives = 102/314 (32%), Gaps = 50/314 (15%)

Query: 512 DLSELFLDR------TTIEELPLSIQHLTGLVLLNLKDCKNLKSL-----------SHTL 554
           D S L L +      T I  L L+   L  L   N      L SL               
Sbjct: 10  DCSHLKLTQVPDDLPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELC 69

Query: 555 RRLQCLKNLTLSGCSKLKKFPE-SLGSMKDLMELFLDGTSIAEV-PSSIELLTGLQLLNL 612
           ++L  LK L L    +L +  + +     +L EL L   SI ++  +       L  L+L
Sbjct: 70  QKLPMLKVLNLQHN-ELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDL 128

Query: 613 NNCSNLVRL-PSCINGLRSLKTLNLSGCSKLQNVPE---TLGQVESLEELDISGTAIRR- 667
           ++   L          L +L+ L LS   K+Q +      +    SL++L++S   I+  
Sbjct: 129 SHN-GLSSTKLGTQVQLENLQELLLSNN-KIQALKSEELDIFANSSLKKLELSSNQIKEF 186

Query: 668 PPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKL 727
            P     +  L  L  +     PS T                     L       S+  L
Sbjct: 187 SPGCFHAIGRLFGLFLNNVQLGPSLTEK-------------------LCLELANTSIRNL 227

Query: 728 DLSDCGLGEGAIPNDIGNLC--SLKQLNLSQNNFVTL-PASINSLFNLGQLDLEDCKRLQ 784
            LS+  L           L   +L  L+LS NN   +   S   L  L    LE      
Sbjct: 228 SLSNSQL-STTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQH 286

Query: 785 SMPQLPSNLYEVQV 798
                   L+ V+ 
Sbjct: 287 LFSHSLHGLFNVRY 300

>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 = 78.5 bits (194), Expect = 6e-15
 Identities = 35/193 (18%), Positives = 63/193 (32%), Gaps = 32/193 (16%)

Query: 587 LFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRL-PSCINGLRSLKTLNLSGCSKLQNV 645
                  + +VP  +   T + +LNL +   L RL  +       L +L++   +  +  
Sbjct: 9   ADCSHLKLTQVPDDL--PTNITVLNLTHN-QLRRLPAANFTRYSQLTSLDVGFNTISKLE 65

Query: 646 PETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCN--GPPSSTSWHWHFPFN 702
           PE   ++  L+ L++    + +     F    NL  L     +     ++          
Sbjct: 66  PELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNN---------- 115

Query: 703 LMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTL 762
                               +L  LDLS  GL           L +L++L LS N    L
Sbjct: 116 --------------PFVKQKNLITLDLSHNGL-SSTKLGTQVQLENLQELLLSNNKIQAL 160

Query: 763 PASINSLFNLGQL 775
            +    +F    L
Sbjct: 161 KSEELDIFANSSL 173

>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 =  120 bits (302), Expect = 9e-29
 Identities = 89/458 (19%), Positives = 159/458 (34%), Gaps = 91/458 (19%)

Query: 354 LLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSN-FQLEKTVEFNMCYSRIEELWNEI 412
             +   + +    + L  +   L+ +   L SLP     LE         + + EL    
Sbjct: 54  NGEQREMAVSRLRDCLDRQAHELELNNLGLSSLPELPPHLE---SLVASCNSLTELPELP 110

Query: 413 KYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKD 472
           + L  L V   +    L   P     P LE L +    +L ++ P L   S L I+++ +
Sbjct: 111 QSLKSLLVDNNNLKA-LSDLP-----PLLEYLGVSNN-QLEKL-PELQNSSFLKIIDVDN 162

Query: 473 CTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQH 532
             SL  LP      SL+ +      +L +  L    ++  L+ ++ D  ++++LP     
Sbjct: 163 N-SLKKLPDLPP--SLEFIAAGNN-QLEE--LPELQNLPFLTAIYADNNSLKKLPDLPLS 216

Query: 533 LTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGT 592
           L  +V  N      L+ L   L+ L  L  +       LK  P+   S   L  L +   
Sbjct: 217 LESIVAGNNI----LEELP-ELQNLPFLTTIYADNN-LLKTLPDLPPS---LEALNVRDN 267

Query: 593 SIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQV 652
            + ++P   + LT L +   N  S L  LP       +L  LN S   +++++ +     
Sbjct: 268 YLTDLPELPQSLTFLDVSE-NIFSGLSELPP------NLYYLNASSN-EIRSLCDLPP-- 317

Query: 653 ESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVA 712
            SLEEL++S   +   P+       L+ L  S  +                         
Sbjct: 318 -SLEELNVSNNKLIELPALP---PRLERLIASFNH------------------------- 348

Query: 713 LMLPSL-SGLHSLSKLDLSDCGLGEGAIPNDIGNL----------------CSLKQLNLS 755
             L  +     +L +L +    L E   P+   ++                 +LKQL++ 
Sbjct: 349 --LAEVPELPQNLKQLHVEYNPLRE--FPDIPESVEDLRMNSHLAEVPELPQNLKQLHVE 404

Query: 756 QNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNL 793
            N     P    S+ +L         R+    +     
Sbjct: 405 TNPLREFPDIPESVEDLRMNSE----RVVDPYEFAHET 438

>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 =  117 bits (294), Expect = 1e-27
 Identities = 79/394 (20%), Positives = 129/394 (32%), Gaps = 58/394 (14%)

Query: 423 LSHSQNLIKTPD-FTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPG 481
           L HS NL + P     V +  E             P      ++ +  L+DC        
Sbjct: 17  LRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDC-------- 68

Query: 482 KISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNL 541
               +    L L+    L+            L  L     ++ ELP   Q L  L++ N 
Sbjct: 69  --LDRQAHELELNNL-GLS----SLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNN 121

Query: 542 KDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI 601
                L  L   L  L    N       +L+K PE L +   L  + +D  S+ ++P   
Sbjct: 122 NLKA-LSDLPPLLEYLGVSNN-------QLEKLPE-LQNSSFLKIIDVDNNSLKKLP--- 169

Query: 602 ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDIS 661
           +L   L+ +   N   L  LP   N L  L  +       L+ +P+      SLE +   
Sbjct: 170 DLPPSLEFIAAGNN-QLEELPELQN-LPFLTAIYADNN-SLKKLPDLPL---SLESIVAG 223

Query: 662 GTAIRRPPSSIFVMNNLKTLSFSGCNG---PPSSTSWHWHFPFNLMGQRSYPVALMLPSL 718
              +   P  +  +  L T+          P    S       +        +   L  L
Sbjct: 224 NNILEELPE-LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTDLPELPQSLTFL 282

Query: 719 SGLH-----------SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASIN 767
                          +L  L+ S   +    + +   +L   ++LN+S N  + LPA   
Sbjct: 283 DVSENIFSGLSELPPNLYYLNASSNEIRS--LCDLPPSL---EELNVSNNKLIELPALPP 337

Query: 768 SLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGC 801
               L +L       L  +P+LP NL ++ V   
Sbjct: 338 ---RLERLIASFN-HLAEVPELPQNLKQLHVEYN 367

>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 =  109 bits (274), Expect = 3e-25
 Identities = 65/348 (18%), Positives = 116/348 (33%), Gaps = 67/348 (19%)

Query: 469 NLKDCTSLTTLPGKIS-MKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELP 527
            L+  ++LT +P +   +KS      +                 +      ++  +    
Sbjct: 16  PLRHSSNLTEMPVEAENVKSKTEYYNAWSEWE-----------RNAPPGNGEQREMAVSR 64

Query: 528 LSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMEL 587
           L          L L +   L SL      L+   +L  S C+ L + PE   S+K L+  
Sbjct: 65  LRDCLDRQAHELELNNL-GLSSLPELPPHLE---SLVAS-CNSLTELPELPQSLKSLLVD 119

Query: 588 FLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE 647
             +  +++++P        L+ L ++N   L +LP  +     LK +++     L+ +P+
Sbjct: 120 NNNLKALSDLPPL------LEYLGVSNN-QLEKLPE-LQNSSFLKIIDVDNN-SLKKLPD 170

Query: 648 TLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQR 707
                 SLE +      +   P  +  +  L  +     +                    
Sbjct: 171 LPP---SLEFIAAGNNQLEELPE-LQNLPFLTAIYADNNS-------------------- 206

Query: 708 SYPVALMLPSL-SGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI 766
                  L  L     SL  +   +  L E     ++ NL  L  +    N   TLP   
Sbjct: 207 -------LKKLPDLPLSLESIVAGNNILEE---LPELQNLPFLTTIYADNNLLKTLPDLP 256

Query: 767 NSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQV--NGCASLVTLSGALK 812
            SL  L   D      L  +P+LP +L  + V  N  + L  L   L 
Sbjct: 257 PSLEALNVRDN----YLTDLPELPQSLTFLDVSENIFSGLSELPPNLY 300

>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 =  104 bits (262), Expect = 1e-23
 Identities = 61/332 (18%), Positives = 115/332 (34%), Gaps = 61/332 (18%)

Query: 509 SMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSL---SHTLRRLQC------ 559
           S   L E     + + E+P+  +++           +  ++    +   R +        
Sbjct: 9   SNTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDC 68

Query: 560 ----LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNC 615
                  L L+    L   PE       L  L     S+ E+P   + L  L + N NN 
Sbjct: 69  LDRQAHELELNNL-GLSSLPELPPH---LESLVASCNSLTELPELPQSLKSLLVDN-NNL 123

Query: 616 SNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVM 675
             L  LP        L+ L +S   +L+ +PE L     L+ +D+   ++++ P      
Sbjct: 124 KALSDLPP------LLEYLGVSNN-QLEKLPE-LQNSSFLKIIDVDNNSLKKLPDLP--- 172

Query: 676 NNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLG 735
            +L+ ++                   N + +        LP L  L  L+ +   +  L 
Sbjct: 173 PSLEFIAAGN----------------NQLEE--------LPELQNLPFLTAIYADNNSLK 208

Query: 736 EGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYE 795
           +  +P+      SL+ +    N    LP  + +L  L  +  ++   L+++P LP +L  
Sbjct: 209 K--LPD---LPLSLESIVAGNNILEELP-ELQNLPFLTTIYADNN-LLKTLPDLPPSLEA 261

Query: 796 VQVNGCASLVTLSGALKLCKSKCTSINCIGSL 827
           + V     L  L    +       S N    L
Sbjct: 262 LNVRDN-YLTDLPELPQSLTFLDVSENIFSGL 292

>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 = 85.0 bits (211), Expect = 2e-17
 Identities = 38/233 (16%), Positives = 72/233 (30%), Gaps = 33/233 (14%)

Query: 575 PESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCI--------- 625
                S   L E     +++ E+P   E +                 P            
Sbjct: 4   NPRNVSNTFLQEPLRHSSNLTEMPVEAENVKSKTEYYNAWSEWERNAPPGNGEQREMAVS 63

Query: 626 ----NGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTL 681
                  R    L L+    L ++PE       LE L  S  ++   P     + +L   
Sbjct: 64  RLRDCLDRQAHELELNNL-GLSSLPELPPH---LESLVASCNSLTELPELPQSLKSLLVD 119

Query: 682 SFSGCNGPPSSTS-WHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP 740
           + +            +     N + +        LP L     L  +D+ +  L +  +P
Sbjct: 120 NNNLKALSDLPPLLEYLGVSNNQLEK--------LPELQNSSFLKIIDVDNNSLKK--LP 169

Query: 741 NDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNL 793
           +   +   L+ +    N    LP  + +L  L  +  ++   L+ +P LP +L
Sbjct: 170 DLPPS---LEFIAAGNNQLEELP-ELQNLPFLTAIYADNNS-LKKLPDLPLSL 217

>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 = 77.0 bits (190), Expect = 8e-15
 Identities = 62/342 (18%), Positives = 110/342 (32%), Gaps = 85/342 (24%)

Query: 346 FSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRI 405
              +  L  +  DN           N           LK LP                  
Sbjct: 191 LQNLPFLTAIYADN-----------NS----------LKKLPDL---------------- 213

Query: 406 EELWNEIKYLNMLKVMKLSHSQNLIKT-PDFTGVPNLEELILEGCTRLHEIHPSLLLHSK 464
                       L+ +   +  N+++  P+   +P L  +  +    L  +         
Sbjct: 214 ---------PLSLESIVAGN--NILEELPELQNLPFLTTIYADNN-LLKTLPDLP---PS 258

Query: 465 LVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIE 524
           L  LN++D   LT LP      SL  L +S     +      +    +L  L      I 
Sbjct: 259 LEALNVRDN-YLTDLPELPQ--SLTFLDVSE-NIFSG----LSELPPNLYYLNASSNEIR 310

Query: 525 ELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDL 584
            L      L     LN+ + K L  L     RL+    L  S    L + PE   ++K  
Sbjct: 311 SLCDLPPSLEE---LNVSNNK-LIELPALPPRLE---RLIASFN-HLAEVPELPQNLK-- 360

Query: 585 MELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQN 644
            +L ++   + E P   E +  L++ +     +L  +P      ++LK L++     L+ 
Sbjct: 361 -QLHVEYNPLREFPDIPESVEDLRMNS-----HLAEVPELP---QNLKQLHVETN-PLRE 410

Query: 645 VPETLGQVESLEELDISGTAIRRPPSSIF-VMNNLKTLSFSG 685
            P+      S+E+L ++   +  P        + L+   F  
Sbjct: 411 FPDIPE---SVEDLRMNSERVVDPYEFAHETTDKLEDDVFEH 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 = 75.8 bits (187), Expect = 2e-14
 Identities = 52/328 (15%), Positives = 101/328 (30%), Gaps = 62/328 (18%)

Query: 346 FSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRI 405
               + L+++ +DN  L +  +   + L  +      L+ LP    L          + +
Sbjct: 149 LQNSSFLKIIDVDNNSLKKLPDLPPS-LEFIAAGNNQLEELPELQNLPFLTAIYADNNSL 207

Query: 406 EELWNEIKYLNMLKVMKLSHSQNLIKT-PDFTGVPNLEELILEGCTRLHEIHPSLLLHSK 464
           ++L +    L  +         N+++  P+   +P L  +  +    L  +         
Sbjct: 208 KKLPDLPLSLESIVA-----GNNILEELPELQNLPFLTTIYADNN-LLKTLPDLP---PS 258

Query: 465 LVILNLKDCTSLTTLPGKISM------------------KSLKTLVLSGCLKLTKKCLEF 506
           L  LN++D   LT LP                        +L  L  S   ++       
Sbjct: 259 LEALNVRDN-YLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSN-EIR----SL 312

Query: 507 AGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLS 566
                 L EL +    + ELP     L  L+         L  +       Q LK L + 
Sbjct: 313 CDLPPSLEELNVSNNKLIELPALPPRLERLIASFNH----LAEVPELP---QNLKQLHVE 365

Query: 567 GCSKLKKFPESLGSMKDLM----------------ELFLDGTSIAEVPSSIELLTGLQLL 610
               L++FP+   S++DL                 +L ++   + E P   E +  L++ 
Sbjct: 366 YN-PLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVETNPLREFPDIPESVEDLRMN 424

Query: 611 NLNNCSNLVRLPSCINGLRSLKTLNLSG 638
           +     +             L+      
Sbjct: 425 S-ERVVDPYEFAH--ETTDKLEDDVFEH 449

>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 =  120 bits (302), Expect = 1e-28
 Identities = 85/457 (18%), Positives = 167/457 (36%), Gaps = 68/457 (14%)

Query: 344 KAFSQMTNLRLLKIDNLQL--PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMC 401
            + + +  +  L+ D L +   +G+EYL+N L  +++    L  +     L K V+  M 
Sbjct: 40  VSQTDLDQVTTLQADRLGIKSIDGVEYLNN-LTQINFSNNQLTDITPLKNLTKLVDILMN 98

Query: 402 YSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLL 461
            ++I ++   +  L  L  + L ++Q +        + NL  L L     + +I  +L  
Sbjct: 99  NNQIADI-TPLANLTNLTGLTLFNNQ-ITDIDPLKNLTNLNRLELSSN-TISDI-SALSG 154

Query: 462 HSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRT 521
            + L  L+  +   +T L    ++ +L+ L +S   K++   +     + +L  L     
Sbjct: 155 LTSLQQLSFGNQ--VTDLKPLANLTTLERLDISSN-KVSD--ISVLAKLTNLESLIATNN 209

Query: 522 TIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSM 581
            I ++   +  LT L  L+L   + LK +  TL  L  L +L L+   ++      L  +
Sbjct: 210 QISDIT-PLGILTNLDELSLNGNQ-LKDIG-TLASLTNLTDLDLANN-QISNLAP-LSGL 264

Query: 582 KDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSK 641
             L EL L    I+ +   +  LT L  L LN   N +   S I+ L++L  L L     
Sbjct: 265 TKLTELKLGANQISNISP-LAGLTALTNLELNE--NQLEDISPISNLKNLTYLTLYFN-N 320

Query: 642 LQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPF 701
           + ++   +  +  L+ L      +    S +  + N+  LS                   
Sbjct: 321 ISDISP-VSSLTKLQRLFFYNNKVSDVSS-LANLTNINWLSAGHNQ-------------- 364

Query: 702 NLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGL---------------------GEGAIP 740
            +           L  L+ L  +++L L+D                        G    P
Sbjct: 365 -ISD---------LTPLANLTRITQLGLNDQAWTNAPVNYKANVSIPNTVKNVTGALIAP 414

Query: 741 NDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDL 777
             I +  S  + +++ N          +      +  
Sbjct: 415 ATISDGGSYTEPDITWNLPSYTNEVSYTFSQPVTIGK 451

>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 =  112 bits (283), Expect = 2e-26
 Identities = 70/408 (17%), Positives = 148/408 (36%), Gaps = 66/408 (16%)

Query: 416 NMLKVMKLSHSQNLIK-TPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCT 474
            + + MK    +  +  T   T +  +  L  +    +  I     L + L  +N  +  
Sbjct: 22  ALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRL-GIKSIDGVEYL-NNLTQINFSNN- 78

Query: 475 SLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLT 534
            LT +    ++  L  ++++   ++    +    ++ +L+ L L    I ++   +++LT
Sbjct: 79  QLTDITPLKNLTKLVDILMNNN-QIAD--ITPLANLTNLTGLTLFNNQITDID-PLKNLT 134

Query: 535 GLVLLNLKDCK--------NLKSLSH-----------TLRRLQCLKNLTLSGCSKLKKFP 575
            L  L L             L SL              L  L  L+ L +S   K+    
Sbjct: 135 NLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSN-KVSD-I 192

Query: 576 ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
             L  + +L  L      I+++   + +LT L  L+LN   N ++    +  L +L  L+
Sbjct: 193 SVLAKLTNLESLIATNNQISDIT-PLGILTNLDELSLNG--NQLKDIGTLASLTNLTDLD 249

Query: 636 LSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
           L+   ++ N+   L  +  L EL +    I    S +  +  L  L  +           
Sbjct: 250 LANN-QISNLAP-LSGLTKLTELKLGANQISN-ISPLAGLTALTNLELNEN--------- 297

Query: 696 HWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLS 755
                  L           +  +S L +L+ L L    + +    + + +L  L++L   
Sbjct: 298 ------QLED---------ISPISNLKNLTYLTLYFNNISD---ISPVSSLTKLQRLFFY 339

Query: 756 QNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLP--SNLYEVQVNGC 801
            N    +  S+ +L N+  L     + +  +  L   + + ++ +N  
Sbjct: 340 NNKVSDVS-SLANLTNINWLSAGHNQ-ISDLTPLANLTRITQLGLNDQ 385

>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 = 87.7 bits (218), Expect = 4e-18
 Identities = 58/314 (18%), Positives = 120/314 (38%), Gaps = 65/314 (20%)

Query: 468 LNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELP 527
             +   T +  +    ++      VL     +T         ++ ++ L  DR  I+ + 
Sbjct: 6   ATITQDTPINQIFTDTALAEKMKTVLGKT-NVTD--TVSQTDLDQVTTLQADRLGIKSID 62

Query: 528 LSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMEL 587
             +++L  L  +N  + + L  ++  L+ L  L ++ ++   ++      L ++ +L  L
Sbjct: 63  -GVEYLNNLTQINFSNNQ-LTDITP-LKNLTKLVDILMNNN-QIADITP-LANLTNLTGL 117

Query: 588 FLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE 647
            L    I ++   ++ LT L  L L++  N +   S ++GL SL+ L+           +
Sbjct: 118 TLFNNQITDIDP-LKNLTNLNRLELSS--NTISDISALSGLTSLQQLSFGNQ---VTDLK 171

Query: 648 TLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQR 707
            L  + +LE LDIS              N +  +                          
Sbjct: 172 PLANLTTLERLDISS-------------NKVSDI-------------------------- 192

Query: 708 SYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASIN 767
                     L+ L +L  L  ++  + +  I   +G L +L +L+L+ N    +  ++ 
Sbjct: 193 --------SVLAKLTNLESLIATNNQISD--ITP-LGILTNLDELSLNGNQLKDIG-TLA 240

Query: 768 SLFNLGQLDLEDCK 781
           SL NL  LDL + +
Sbjct: 241 SLTNLTDLDLANNQ 254

>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 = 51.5 bits (124), Expect = 1e-06
 Identities = 20/152 (13%), Positives = 52/152 (34%), Gaps = 30/152 (19%)

Query: 630 SLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGP 689
            L +  ++  + +  +  T   +    +  +  T +    S    ++ + TL        
Sbjct: 2   PLGSATITQDTPINQI-FTDTALAEKMKTVLGKTNVTDTVS-QTDLDQVTTLQADRLGIK 59

Query: 690 PSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSL 749
                                    +  +  L++L++++ S+  L +  I   + NL  L
Sbjct: 60  ------------------------SIDGVEYLNNLTQINFSNNQLTD--ITP-LKNLTKL 92

Query: 750 KQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
             + ++ N    +   + +L NL  L L + +
Sbjct: 93  VDILMNNNQIADITP-LANLTNLTGLTLFNNQ 123

>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 =  120 bits (303), Expect = 3e-28
 Identities = 90/467 (19%), Positives = 153/467 (32%), Gaps = 62/467 (13%)

Query: 345 AFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSN--FQLEKTVEF 398
           +F     L++L +   ++        + LS+ L  L     P++SL       L    + 
Sbjct: 47  SFFSFPELQVLDLSRCEIQTIEDGAYQSLSH-LSTLILTGNPIQSLALGAFSGLSSLQKL 105

Query: 399 NMCYSRIEEL-WNEIKYLNMLKVMKLSHSQNLIKT----PDFTGVPNLEELILEGCTRLH 453
               + +  L    I +L  LK + ++H  NLI++      F+ + NLE L L    ++ 
Sbjct: 106 VAVETNLASLENFPIGHLKTLKELNVAH--NLIQSFKLPEYFSNLTNLEHLDLSSN-KIQ 162

Query: 454 EIHPSLL-----LHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAG 508
            I+ + L     +    + L+L         PG      L  L L               
Sbjct: 163 SIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQ 222

Query: 509 SMNDLSELFLDRTTIEEL-------PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLK 561
            +  L    L                 +++ L  L +   +       L   +    CL 
Sbjct: 223 GLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLT 282

Query: 562 NLT---LSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL 618
           N++   L   + +++             L L      + P+    L  L+ L   +    
Sbjct: 283 NVSSFSLVSVT-IERVK-DFSYNFGWQHLELVNCKFGQFPTLK--LKSLKRLTFTSNKGG 338

Query: 619 VRLPSCINGLRSLKTLNLSG--CSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMN 676
                    L SL+ L+LS    S      ++     SL+ LD+S   +    S+   + 
Sbjct: 339 --NAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLE 396

Query: 677 NLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGE 736
            L+ L F   N                M + S            L +L  LD+S      
Sbjct: 397 QLEHLDFQHSN-------------LKQMSEFS--------VFLSLRNLIYLDISHTHT-R 434

Query: 737 GAIPNDIGNLCSLKQLNLSQNNFVT--LPASINSLFNLGQLDLEDCK 781
            A       L SL+ L ++ N+F    LP     L NL  LDL  C+
Sbjct: 435 VAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 481

>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 =  118 bits (297), Expect = 1e-27
 Identities = 90/455 (19%), Positives = 161/455 (35%), Gaps = 70/455 (15%)

Query: 345 AFSQMTNLRLL-----KIDNLQLPEGLEYLSNKLRLLDWHRYPLKSL-PSNFQ-----LE 393
               +  L+ L      I + +LPE    L+N L  LD     ++S+  ++ +       
Sbjct: 119 PIGHLKTLKELNVAHNLIQSFKLPEYFSNLTN-LEHLDLSSNKIQSIYCTDLRVLHQMPL 177

Query: 394 KTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTP----DFTGVPNLEELILEGC 449
             +  ++  + +  +         +++ KL+   N            G+  LE   L   
Sbjct: 178 LNLSLDLSLNPMNFIQPGA--FKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRL--- 232

Query: 450 TRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGS 509
                +         L   +      L  L       +++   L+         ++    
Sbjct: 233 -----VLGEFRNEGNLEKFDKSALEGLCNL-------TIEEFRLAYLDYYLDDIIDLFNC 280

Query: 510 MNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCS 569
           + ++S   L   TIE +     +  G   L L +CK  +  +  L+ L   K LT +   
Sbjct: 281 LTNVSSFSLVSVTIERVK-DFSYNFGWQHLELVNCKFGQFPTLKLKSL---KRLTFTSNK 336

Query: 570 KLKKFPESLGSMKDLMELFLDG---TSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCIN 626
               F  S   +  L  L L     +       S    T L+ L+L+    ++ + S   
Sbjct: 337 GGNAF--SEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNFL 393

Query: 627 GLRSLKTLNLSGCSKLQNV--PETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSF 683
           GL  L+ L+      L+ +        + +L  LDIS T  R   + IF  +++L+ L  
Sbjct: 394 GLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKM 452

Query: 684 SGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI 743
           +G +      ++                       + L +L+ LDLS C L E   P   
Sbjct: 453 AGNSF---QENFLPDI------------------FTELRNLTFLDLSQCQL-EQLSPTAF 490

Query: 744 GNLCSLKQLNLSQNNFVTL-PASINSLFNLGQLDL 777
            +L SL+ LN+S NNF +L       L +L  LD 
Sbjct: 491 NSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDY 525

>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 =  113 bits (285), Expect = 5e-26
 Identities = 82/380 (21%), Positives = 124/380 (32%), Gaps = 32/380 (8%)

Query: 426 SQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPG 481
           S N ++      F   P L+ L L  C  +  I        S L  L L     + +L  
Sbjct: 36  SFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGN-PIQSLAL 93

Query: 482 KI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPL--SIQHLTGLV 537
                + SL+ LV      L        G +  L EL +    I+   L     +LT L 
Sbjct: 94  GAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLE 152

Query: 538 LLNLKDCKNLKSLSHTLRRLQCLKN----LTLSGCSKLKKFPESLGSMKDLMELFLDG-- 591
            L+L   K        LR L  +      L LS    +            L +L L    
Sbjct: 153 HLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNP-MNFIQPGAFKEIRLHKLTLRNNF 211

Query: 592 TSIAEVPSSIELLTGLQLLNL-----NNCSNLVRL-PSCINGLRSLKTLNLSGCS---KL 642
            S+  + + I+ L GL++  L      N  NL +   S + GL +L             L
Sbjct: 212 DSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYL 271

Query: 643 QNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFN 702
            ++ +    + ++    +    I R     +     + L    C      T         
Sbjct: 272 DDIIDLFNCLTNVSSFSLVSVTIERVKDFSY-NFGWQHLELVNCKFGQFPT---LKLKSL 327

Query: 703 LMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLG-EGAIPNDIGNLCSLKQLNLSQNNFVT 761
                +        S   L SL  LDLS  GL  +G          SLK L+LS N  +T
Sbjct: 328 KRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVIT 387

Query: 762 LPASINSLFNLGQLDLEDCK 781
           + ++   L  L  LD +   
Sbjct: 388 MSSNFLGLEQLEHLDFQHSN 407

>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 = 91.6 bits (228), Expect = 4e-19
 Identities = 54/311 (17%), Positives = 98/311 (31%), Gaps = 33/311 (10%)

Query: 521 TTIEELPLSIQHLTGLVLLNLKDCKNLKSL-----------SHTLRRLQCLKNLTLSGCS 569
            + + L LS   L  L   +      L+ L               + L  L  L L+G  
Sbjct: 28  FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNP 87

Query: 570 KLKKFPESLGSMKDLMELFLDGTSIAEV-PSSIELLTGLQLLNL-NNCSNLVRLPSCING 627
                  +   +  L +L    T++A +    I  L  L+ LN+ +N     +LP   + 
Sbjct: 88  IQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSN 147

Query: 628 LRSLKTLNLSGCSKLQNV-PETLGQVESLE----ELDISGTAIRRPPSSIFVMNNLKTLS 682
           L +L+ L+LS   K+Q++    L  +  +      LD+S   +       F    L  L+
Sbjct: 148 LTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLT 206

Query: 683 FSGCN----------GPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSL--SKLDLS 730
                             +    H         + +        +L GL +L   +  L+
Sbjct: 207 LRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLE-KFDKSALEGLCNLTIEEFRLA 265

Query: 731 DCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLP 790
                   I +    L ++   +L       +       F    L+L +CK  Q      
Sbjct: 266 YLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSY-NFGWQHLELVNCKFGQFPTLKL 324

Query: 791 SNLYEVQVNGC 801
            +L  +     
Sbjct: 325 KSLKRLTFTSN 335

>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 = 79.7 bits (197), Expect = 2e-15
 Identities = 32/185 (17%), Positives = 65/185 (35%), Gaps = 26/185 (14%)

Query: 596 EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESL 655
           ++P +  L    + L+L+                 L+ L+LS C            +  L
Sbjct: 21  KIPDN--LPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHL 78

Query: 656 EELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALM 714
             L ++G  I+      F  +++L+ L     N               L    +      
Sbjct: 79  STLILTGNPIQSLALGAFSGLSSLQKLVAVETN---------------LASLEN------ 117

Query: 715 LPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTL-PASINSLFNLG 773
              +  L +L +L+++   +    +P    NL +L+ L+LS N   ++    +  L  + 
Sbjct: 118 -FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMP 176

Query: 774 QLDLE 778
            L+L 
Sbjct: 177 LLNLS 181

>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 = 73.9 bits (182), Expect = 1e-13
 Identities = 54/310 (17%), Positives = 107/310 (34%), Gaps = 22/310 (7%)

Query: 346 FSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLP-SNFQLEKTVEFNMCYSR 404
            S +  L  L I+  +L   L+Y  + +  L      + S    +  +E+  +F+  +  
Sbjct: 248 KSALEGLCNLTIEEFRL-AYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSYNFG- 305

Query: 405 IEELW------NEIKYLNMLKVMKLSHSQNLIKTP-DFTGVPNLEELILEG--CTRLHEI 455
            + L        +   L +  + +L+ + N          +P+LE L L     +     
Sbjct: 306 WQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCC 365

Query: 456 HPSLLLHSKLVILNLKDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLS 514
             S    + L  L+L     + T+      ++ L+ L                 S+ +L 
Sbjct: 366 SQSDFGTTSLKYLDLSFN-GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLI 424

Query: 515 ELFLDRTTIEEL-PLSIQHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCSKLK 572
            L +  T            L+ L +L +      ++        L+ L  L LS C   +
Sbjct: 425 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQ 484

Query: 573 KFPESLGSMKDLMELFLDGTSIAEV-PSSIELLTGLQLLNL-NNCSNLVRLPSCI--NGL 628
             P +  S+  L  L +   +   +     + L  LQ+L+   N  +++        +  
Sbjct: 485 LSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLN--HIMTSKKQELQHFP 542

Query: 629 RSLKTLNLSG 638
            SL  LNL+ 
Sbjct: 543 SSLAFLNLTQ 552

>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 =  118 bits (297), Expect = 1e-27
 Identities = 78/456 (17%), Positives = 159/456 (34%), Gaps = 48/456 (10%)

Query: 383 LKSLPSNFQLEKTVEFNMCYSRIEELWNE-IKYLNMLKVMKLSHSQ-NLIKTPDFTGVPN 440
             S+PS          ++ +++I  + +  ++    L+V+ L  S+ N I+   F  + +
Sbjct: 17  FTSIPSGL-TAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGS 75

Query: 441 LEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI---SMKSLKTLVLSGC 496
           LE L L     L  +  S     S L  LNL       TL       ++ +L+TL +   
Sbjct: 76  LEHLDLSDN-HLSSLSSSWFGPLSSLKYLNL-MGNPYQTLGVTSLFPNLTNLQTLRIGNV 133

Query: 497 LKLTKKCLEFAGSMNDLSELFLDRTTIEELPL-SIQHLTGLVLLNLKDCKNLKSLSHTLR 555
              ++        +  L+EL +   ++      S++ +  +  L L   ++   L     
Sbjct: 134 ETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFAD 193

Query: 556 RLQCLKNLTLSGCSKLKKFPESL----------------------GSMKDLMELFLDGTS 593
            L  ++ L L   + L +F  S                        S  +L++L      
Sbjct: 194 ILSSVRYLELRDTN-LARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILE 252

Query: 594 IAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVE 653
           ++EV      L GL   N +    +  L        +++ L++       ++      +E
Sbjct: 253 LSEVEFDDCTLNGLGDFNPSESDVVSELGK--VETVTIRRLHIPQFYLFYDLSTVYSLLE 310

Query: 654 SLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGC---NGPPSSTSWHWHFP----FNLMG 705
            ++ + +  + +   P S    + +L+ L  S          +++    +P      L  
Sbjct: 311 KVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQ 370

Query: 706 QRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPAS 765
                +      L  L +L+ LD+S        +P+       ++ LNLS      +   
Sbjct: 371 NHLRSMQKTGEILLTLKNLTSLDISRNTFHP--MPDSCQWPEKMRFLNLSSTGIRVVKTC 428

Query: 766 INSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGC 801
           I     L  LD+ +   L S       L E+ ++  
Sbjct: 429 I--PQTLEVLDVSNN-NLDSFSLFLPRLQELYISRN 461

>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 =  104 bits (260), Expect = 4e-23
 Identities = 80/486 (16%), Positives = 155/486 (31%), Gaps = 95/486 (19%)

Query: 345 AFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNF--QLEKTVEF 398
                 NL++L + + ++     +    L + L  LD     L SL S++   L      
Sbjct: 45  DLRACANLQVLILKSSRINTIEGDAFYSLGS-LEHLDLSDNHLSSLSSSWFGPLSSLKYL 103

Query: 399 NMCYSRIEELWN--EIKYLNMLKVMKLSHSQNL--IKTPDFTGVPNLEELILEGCTRLHE 454
           N+  +  + L        L  L+ +++ + +    I+  DF G+ +L EL ++    L  
Sbjct: 104 NLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKAL-SLRN 162

Query: 455 IHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGC-------LKLTKKCL 504
                L     +  L L        L       + S++ L L            L    +
Sbjct: 163 YQSQSLKSIRDIHHLTLHLS-ESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEV 221

Query: 505 EFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDC---------KNLKSLSHTLR 555
                        L   +  EL   ++++  L  +   DC          +   +   L 
Sbjct: 222 SSPMKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELG 281

Query: 556 RLQC--LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNL 612
           +++   ++ L +               ++ +  + ++ + +  VP S  + L  L+ L+L
Sbjct: 282 KVETVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDL 341

Query: 613 NNC---SNLVRLPSCINGLRSLKTLNLSGC--SKLQNVPETLGQVESLEELDISGTAIRR 667
           +        ++  +C     SL+TL LS      +Q   E L  +++L  LDIS      
Sbjct: 342 SENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISR----- 396

Query: 668 PPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKL 727
                   N    +                                   S      +  L
Sbjct: 397 --------NTFHPMP---------------------------------DSCQWPEKMRFL 415

Query: 728 DLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK--RLQS 785
           +LS  G+    +   I    +L+ L++S NN  +       L  L +L +   K   L  
Sbjct: 416 NLSSTGIRV--VKTCI--PQTLEVLDVSNNNLDSFSL---FLPRLQELYISRNKLKTLPD 468

Query: 786 MPQLPS 791
               P 
Sbjct: 469 ASLFPV 474

>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 =  102 bits (256), Expect = 1e-22
 Identities = 82/442 (18%), Positives = 157/442 (35%), Gaps = 50/442 (11%)

Query: 345 AFSQMTNLRLL-----KIDNLQLPEGLEYLSNKLRLLD-WHRYPLKSLPSNF--QLEKTV 396
            F  +++L+ L         L +      L+N L+ L   +      +       L    
Sbjct: 93  WFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTN-LQTLRIGNVETFSEIRRIDFAGLTSLN 151

Query: 397 EFNMCYSRIEEL-WNEIKYLNMLKVMKLSHSQN-LIKTPDFTGVPNLEELILEGCTRLHE 454
           E  +    +       +K +  +  + L  S++  +       + ++  L L   T L  
Sbjct: 152 ELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELR-DTNLAR 210

Query: 455 IHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLS 514
              S L     V   +K      ++    S   L  L L   L+L++   +   ++N L 
Sbjct: 211 FQFSPL-PVDEVSSPMKKLAFRGSVLTDESFNELLKL-LRYILELSEVEFDD-CTLNGLG 267

Query: 515 ELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKF 574
           +     + +      ++ +T +  L++        LS     L+ +K +T+   SK+   
Sbjct: 268 DFNPSESDVVSELGKVETVT-IRRLHIPQFYLFYDLSTVYSLLEKVKRITVEN-SKVFLV 325

Query: 575 PESLGS-MKDLMELFLDGTSIAEV----PSSIELLTGLQLLNL--NNCSNLVRLPSCING 627
           P S    +K L  L L    + E      +       LQ L L  N+  ++ +    +  
Sbjct: 326 PCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLT 385

Query: 628 LRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN 687
           L++L +L++S       +P++    E +  L++S T IR   + I     L+ L  S  N
Sbjct: 386 LKNLTSLDISRN-TFHPMPDSCQWPEKMRFLNLSSTGIRVVKTCIP--QTLEVLDVSNNN 442

Query: 688 GPPSSTSWHWHFP--------FNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAI 739
                 S+    P         N +          LP  S    L  + +S   L    +
Sbjct: 443 ----LDSFSLFLPRLQELYISRNKLKT--------LPDASLFPVLLVMKISRNQLKS--V 488

Query: 740 PNDI-GNLCSLKQLNLSQNNFV 760
           P+ I   L SL+++ L  N + 
Sbjct: 489 PDGIFDRLTSLQKIWLHTNPWD 510

>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 = 96.7 bits (241), Expect = 8e-21
 Identities = 62/374 (16%), Positives = 131/374 (35%), Gaps = 63/374 (16%)

Query: 343 AKAFSQMTNLRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSN---------- 389
           +++   + ++  L +   +     E    + + +R L+     L     +          
Sbjct: 165 SQSLKSIRDIHHLTLHLSESAFLLEIFADILSSVRYLELRDTNLARFQFSPLPVDEVSSP 224

Query: 390 ---FQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQ----NLIKTPDFTGVPNLE 442
                   +V  +  ++ + +L   I  L+ ++    + +     N  ++   + +  +E
Sbjct: 225 MKKLAFRGSVLTDESFNELLKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSELGKVE 284

Query: 443 ELILEG----CTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSG 495
            + +         L     ++     K+  + +++   +  +P      +KSL+ L LS 
Sbjct: 285 TVTIRRLHIPQFYLFYDLSTVYSLLEKVKRITVENS-KVFLVPCSFSQHLKSLEFLDLSE 343

Query: 496 CLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLR 555
                          N + E +L                 L  L L     L+S+  T  
Sbjct: 344 ---------------NLMVEEYLKN------SACKGAWPSLQTLVLSQNH-LRSMQKTGE 381

Query: 556 RLQCLKNLT---LSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNL 612
            L  LKNLT   +S        P+S    + +  L L  T I  V +   +   L++L++
Sbjct: 382 ILLTLKNLTSLDISRN-TFHPMPDSCQWPEKMRFLNLSSTGIRVVKT--CIPQTLEVLDV 438

Query: 613 NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSI 672
           +N  NL         L  L+ L +S   KL+ +P+       L  + IS   ++  P  I
Sbjct: 439 SNN-NLDSFSL---FLPRLQELYISRN-KLKTLPDA-SLFPVLLVMKISRNQLKSVPDGI 492

Query: 673 F-VMNNLKTLSFSG 685
           F  + +L+ +    
Sbjct: 493 FDRLTSLQKIWLHT 506

>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 = 55.5 bits (134), Expect = 6e-08
 Identities = 27/170 (15%), Positives = 57/170 (33%), Gaps = 31/170 (18%)

Query: 614 NCS--NLVRLPSCINGLRSLKTLNLSGCSKLQNVPET-LGQVESLEELDISGTAIRRPPS 670
           +    +   +PS +    ++K+L+LS   K+  +    L    +L+ L +  + I     
Sbjct: 11  DGRSRSFTSIPSGL--TAAMKSLDLSFN-KITYIGHGDLRACANLQVLILKSSRINTIEG 67

Query: 671 SIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDL 729
             F  + +L+ L  S  +              +                  L SL  L+L
Sbjct: 68  DAFYSLGSLEHLDLSDNH--------LSSLSSSW--------------FGPLSSLKYLNL 105

Query: 730 SDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTL--PASINSLFNLGQLDL 777
                    + +   NL +L+ L +      +         L +L +L++
Sbjct: 106 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEI 155

>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 =  117 bits (296), Expect = 1e-27
 Identities = 95/496 (19%), Positives = 171/496 (34%), Gaps = 81/496 (16%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNF--QLEKTV 396
           + +F     L++L +   ++        + LS+ L  L     P++SL       L    
Sbjct: 45  SYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSH-LSTLILTGNPIQSLALGAFSGLSSLQ 103

Query: 397 EFNMCYSRIEELWNE-IKYLNMLKVMKLSHSQNLIKT----PDFTGVPNLEELILEGCTR 451
           +     + +  L N  I +L  LK + ++H  NLI++      F+ + NLE L L    +
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAH--NLIQSFKLPEYFSNLTNLEHLDLSSN-K 160

Query: 452 LHEIHPSLL-----LHSKLVILNLKDCTSLTTLP-GKISMKSLKTLVLSGCLKLTKKCLE 505
           +  I+ + L     +    + L+L     +  +  G      L  L L            
Sbjct: 161 IQSIYCTDLRVLHQMPLLNLSLDLSLN-PMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKT 219

Query: 506 FAGSMNDLSEL------FLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSLSHTLRRLQ 558
               +  L         F +   +E+   S  + L  L +   +       L   +    
Sbjct: 220 CIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFN 279

Query: 559 CLKNLTLSGCS--KLKKFPESLG--------------------SMKDLMELFLDGTSIAE 596
           CL N++        +++  +                        +K L  L         
Sbjct: 280 CLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGN 339

Query: 597 VPSSIELLTGLQLLNL--NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVES 654
             S ++ L  L+ L+L  N  S          G  SLK L+LS    +  +      +E 
Sbjct: 340 AFSEVD-LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNFLGLEQ 397

Query: 655 LEELDISGTAIRR-PPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVA 712
           LE LD   + +++    S+F+ + NL  L  S  +                         
Sbjct: 398 LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHT----RVAFNG-------------- 439

Query: 713 LMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI-NSLFN 771
                 +GL SL  L ++     E  +P+    L +L  L+LSQ     L  +  NSL +
Sbjct: 440 ----IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 495

Query: 772 LGQLDLEDCKRLQSMP 787
           L  L++    +L+S+P
Sbjct: 496 LQVLNMASN-QLKSVP 510

>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 =  105 bits (263), Expect = 2e-23
 Identities = 87/399 (21%), Positives = 136/399 (34%), Gaps = 45/399 (11%)

Query: 418 LKVMKLSHSQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDC 473
            K + LS   N ++      F   P L+ L L  C  +  I        S L  L L   
Sbjct: 30  TKNLDLSF--NPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTGN 86

Query: 474 TSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPL--S 529
             + +L       + SL+ LV      L        G +  L EL +    I+   L   
Sbjct: 87  -PIQSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEY 144

Query: 530 IQHLTGLVLLNLKDCKNLKSLSH-TLRRLQCLKNLTLS---GCSKLKKFPESLGSMKDLM 585
             +LT L  L+L   K ++S+    LR L  +  L LS     + +            L 
Sbjct: 145 FSNLTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLH 203

Query: 586 ELFLDG--TSIAEVPSSIELLTGLQLLNL-----NNCSNLVRLP-SCINGLRSLKTLNLS 637
           +L L     S+  + + I+ L GL++  L      N  NL +   S + GL +L      
Sbjct: 204 KLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFR 263

Query: 638 GCS---KLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTS 694
                  L ++ +    + ++    +    I R     +     + L    C        
Sbjct: 264 LAYLDYYLDDIIDLFNCLTNVSSFSLVSVTIERVKDFSY-NFGWQHLELVNCKFG----- 317

Query: 695 WHWHFPFNLMGQ-----RSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPND-IGNLCS 748
               FP   +        +        S   L SL  LDLS  GL      +       S
Sbjct: 318 ---QFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTS 374

Query: 749 LKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMP 787
           LK L+LS N  +T+ ++   L  L  LD +    L+ M 
Sbjct: 375 LKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMS 412

>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 =  103 bits (259), Expect = 5e-23
 Identities = 78/453 (17%), Positives = 143/453 (31%), Gaps = 85/453 (18%)

Query: 344 KAFSQMTNLRLLKIDNLQLPE-------GLEYLSNKLRLLDWHRYPLKSLPSN-FQLEKT 395
           + FS +TNL  L + + ++          L  +      LD    P+  +    F+  + 
Sbjct: 143 EYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRL 202

Query: 396 VEFNMCYSRI--EELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLH 453
            +  +  +      +   I+ L  L+V +L   +       F    NLE+        L 
Sbjct: 203 HKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGE-------FRNEGNLEKFDKSALEGLC 255

Query: 454 EIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDL 513
            +       + L             L       ++ +  L        K   +      L
Sbjct: 256 NLTIEEFRLAYLDYYLDDIIDLFNCLT------NVSSFSLVSVTIERVKDFSYNFGWQHL 309

Query: 514 SELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGC--SKL 571
             +         L L  + L  L   +     N    + +   L  L+ L LS    S  
Sbjct: 310 ELVNCKFGQFPTLKL--KSLKRLTFTS-----NKGGNAFSEVDLPSLEFLDLSRNGLSFK 362

Query: 572 KKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP--SCINGLR 629
               +S      L  L L    +  + S+   L  L+ L+  +  NL ++   S    LR
Sbjct: 363 GCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLR 421

Query: 630 SLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNG 688
           +L  L++S     +         + SLE L ++G             N+ +         
Sbjct: 422 NLIYLDISHT-HTRVAFNGIFNGLSSLEVLKMAG-------------NSFQENFLPD--- 464

Query: 689 PPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLC 747
                                         + L +L+ LDLS C L +  +      +L 
Sbjct: 465 ----------------------------IFTELRNLTFLDLSQCQLEQ--LSPTAFNSLS 494

Query: 748 SLKQLNLSQNNFVTLPASI-NSLFNLGQLDLED 779
           SL+ LN++ N   ++P  I + L +L ++ L  
Sbjct: 495 SLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHT 527

>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 = 74.8 bits (184), Expect = 7e-14
 Identities = 63/348 (18%), Positives = 109/348 (31%), Gaps = 55/348 (15%)

Query: 472 DCTS--LTTLPGKISMKSLKTLVLSGCL--KLTKKCLEFAGSMNDLSELFLDRTTIEELP 527
            C       +P  +   S K L LS      L         S  +L  L L R  I+ + 
Sbjct: 13  QCMELNFYKIPDNLP-FSTKNLDLSFNPLRHLGSYSF---FSFPELQVLDLSRCEIQTIE 68

Query: 528 -LSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLME 586
             + Q L+ L  L L     ++SL+                         +   +  L +
Sbjct: 69  DGAYQSLSHLSTLILTGNP-IQSLA-----------------------LGAFSGLSSLQK 104

Query: 587 LFLDGTSIAEVPS-SIELLTGLQLLNL-NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQN 644
           L    T++A + +  I  L  L+ LN+ +N     +LP   + L +L+ L+LS   K+Q+
Sbjct: 105 LVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN-KIQS 163

Query: 645 VP-ETLGQVESLE----ELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPS-------- 691
           +    L  +  +      LD+S   +       F    L  L+        +        
Sbjct: 164 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQG 223

Query: 692 ----STSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLC 747
                        F   G         L  L  L ++ +  L+        I +    L 
Sbjct: 224 LAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNL-TIEEFRLAYLDYYLDDIIDLFNCLT 282

Query: 748 SLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYE 795
           ++   +L       +       F    L+L +CK  Q       +L  
Sbjct: 283 NVSSFSLVSVTIERVKDFSY-NFGWQHLELVNCKFGQFPTLKLKSLKR 329

>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 = 74.4 bits (183), Expect = 9e-14
 Identities = 48/239 (20%), Positives = 85/239 (35%), Gaps = 37/239 (15%)

Query: 560 LKNLTLSGCS--KLKKFPESLGSMKDLMELFLDGTSIAEVPS-SIELLTGLQLLNLNNCS 616
           + N+T   C      K P++L        L L    +  + S S      LQ+L+L+ C 
Sbjct: 7   VPNITYQ-CMELNFYKIPDNLPF--STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC- 62

Query: 617 NLVRLPS-CINGLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFV 674
            +  +       L  L TL L+G + +Q++       + SL++L    T +    +    
Sbjct: 63  EIQTIEDGAYQSLSHLSTLILTG-NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIG 121

Query: 675 -MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCG 733
            +  LK L+ +                 NL+     P        S L +L  LDLS   
Sbjct: 122 HLKTLKELNVA----------------HNLIQSFKLP-----EYFSNLTNLEHLDLSSNK 160

Query: 734 LGEGAIPNDIGNLCSLK----QLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQ 788
           + +     D+  L  +      L+LS N    +         L +L L +     ++ +
Sbjct: 161 I-QSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMK 218

>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 = 67.0 bits (164), Expect = 2e-11
 Identities = 51/258 (19%), Positives = 88/258 (34%), Gaps = 31/258 (12%)

Query: 560 LKNLTLSGCSKLKKFPE-SLGSMKDLMELFLDGTSIAEVPS-SIELLTGLQLLNLNNCSN 617
            KNL LS    L+     S  S  +L  L L    I  +   + + L+ L  L L     
Sbjct: 30  TKNLDLSFN-PLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 618 LVRLPSCINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRR--PPSSIFV 674
                   +GL SL+ L       L ++    +G +++L+EL+++   I+    P     
Sbjct: 89  QSLALGAFSGLSSLQKLVAVET-NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSN 147

Query: 675 MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLH------------ 722
           + NL+ L  S              +  +L      P+  +   LS               
Sbjct: 148 LTNLEHLDLSSNK-------IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEI 200

Query: 723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPA----SINSLFNLGQLDLE 778
            L KL L +       +   I  L  L+   L    F           ++L  L  L +E
Sbjct: 201 RLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIE 260

Query: 779 DCKRLQSMPQLPSNLYEV 796
           +  RL  +     ++ ++
Sbjct: 261 E-FRLAYLDYYLDDIIDL 277

>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 =  117 bits (295), Expect = 2e-27
 Identities = 69/328 (21%), Positives = 116/328 (35%), Gaps = 64/328 (19%)

Query: 461 LHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDR 520
           L++   +LN+ +   LTTLP  +    + TLV+     LT           +L  L +  
Sbjct: 38  LNNGNAVLNVGES-GLTTLPDCLP-AHITTLVIPDN-NLT----SLPALPPELRTLEVSG 90

Query: 521 TTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGS 580
             +  LP+    L  L + +     +L +L   L +L    N       +L   P     
Sbjct: 91  NQLTSLPVLPPGLLELSIFSNPLT-HLPALPSGLCKLWIFGN-------QLTSLPVLPPG 142

Query: 581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS 640
              L EL +    +A +P+    L  L   N      L  LP   +    L+ L++S   
Sbjct: 143 ---LQELSVSDNQLASLPALPSELCKLWAYNNQ----LTSLPMLPS---GLQELSVSDN- 191

Query: 641 KLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFP 700
           +L ++P    ++  L   +   T++   P+     + LK L  SG               
Sbjct: 192 QLASLPTLPSELYKLWAYNNRLTSL---PALP---SGLKELIVSG--------------- 230

Query: 701 FNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV 760
            N +          LP L     L +L +S   L    +P     L     L++ +N   
Sbjct: 231 -NRLTS--------LPVL--PSELKELMVSGNRLTS--LPMLPSGL---LSLSVYRNQLT 274

Query: 761 TLPASINSLFNLGQLDLEDCKRLQSMPQ 788
            LP S+  L +   ++LE    L     
Sbjct: 275 RLPESLIHLSSETTVNLEGN-PLSERTL 301

>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 =  102 bits (255), Expect = 2e-22
 Identities = 69/411 (16%), Positives = 116/411 (28%), Gaps = 90/411 (21%)

Query: 350 TNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELW 409
               +L +    L    + L   +  L      L SLP+                     
Sbjct: 40  NGNAVLNVGESGLTTLPDCLPAHITTLVIPDNNLTSLPALP------------------- 80

Query: 410 NEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILN 469
                                        P L  L + G  +L  +        +L I +
Sbjct: 81  -----------------------------PELRTLEVSGN-QLTSLPVLPPGLLELSIFS 110

Query: 470 LKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLS 529
               T L  LP       L  L + G  +LT            L EL +    +  LP  
Sbjct: 111 NPL-THLPALPS-----GLCKLWIFGN-QLT----SLPVLPPGLQELSVSDNQLASLPAL 159

Query: 530 IQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFL 589
              L  L   N +    L SL      LQ    L++S   +L   P     +    +L+ 
Sbjct: 160 PSELCKLWAYNNQ----LTSLPMLPSGLQ---ELSVSDN-QLASLPTLPSELY---KLWA 208

Query: 590 DGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETL 649
               +  +P    L +GL+ L ++    L  LP   +    LK L +SG  +L ++P   
Sbjct: 209 YNNRLTSLP---ALPSGLKELIVSGN-RLTSLPVLPS---ELKELMVSGN-RLTSLPMLP 260

Query: 650 GQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN--GPPSSTSWHWHFPFNLMGQR 707
                L  L +    + R P S+  +++  T++  G                     G  
Sbjct: 261 SG---LLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPI 317

Query: 708 SYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNN 758
                    +     +L     +   L    +P   G      + ++    
Sbjct: 318 IRFDMAGASAPRETRALH--LAAADWL----VPAREGEPAPADRWHMFGQE 362

>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 = 93.0 bits (231), Expect = 1e-19
 Identities = 52/242 (21%), Positives = 83/242 (34%), Gaps = 54/242 (22%)

Query: 560 LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLV 619
              L +     L   P+ L     +  L +   ++  +P+       L+ L ++    L 
Sbjct: 42  NAVLNVGES-GLTTLPDCLP--AHITTLVIPDNNLTSLPALP---PELRTLEVSGN-QLT 94

Query: 620 RLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLK 679
            LP    GL  L   +    + L  +P        L +L I G  +   P        L+
Sbjct: 95  SLPVLPPGLLELSIFSNPL-THLPALPS------GLCKLWIFGNQLTSLPVLP---PGLQ 144

Query: 680 TLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSL-SGLHSLSKLDLSDCGLGEGA 738
            LS S                              L SL +    L KL   +  L    
Sbjct: 145 ELSVSDNQ---------------------------LASLPALPSELCKLWAYNNQLTS-- 175

Query: 739 IPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQV 798
           +P     L   ++L++S N   +LP   + L+ L   +     RL S+P LPS L E+ V
Sbjct: 176 LPMLPSGL---QELSVSDNQLASLPTLPSELYKLWAYNN----RLTSLPALPSGLKELIV 228

Query: 799 NG 800
           +G
Sbjct: 229 SG 230

>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 = 80.7 bits (199), Expect = 1e-15
 Identities = 60/318 (18%), Positives = 104/318 (32%), Gaps = 40/318 (12%)

Query: 347 SQMTNLRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYS 403
           +    LR L++   QL   P     L   L +       L +LPS        +  +  +
Sbjct: 78  ALPPELRTLEVSGNQLTSLPVLPPGLLE-LSIFSNPLTHLPALPSGLC-----KLWIFGN 131

Query: 404 RIEELWNEIKYLNMLKVMKLSHSQNLIKT-PDFTGVPNLEELILEGCTRLHEIHPSLLLH 462
           ++  L      L      +LS S N + + P       L +L      +L  + P L   
Sbjct: 132 QLTSLPVLPPGLQ-----ELSVSDNQLASLPA--LPSELCKLWAYNN-QLTSL-PMLP-- 180

Query: 463 SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTT 522
           S L  L++ D   L +LP   S   L  L      +LT          + L EL +    
Sbjct: 181 SGLQELSVSDN-QLASLPTLPS--ELYKLWAYNN-RLT----SLPALPSGLKELIVSGNR 232

Query: 523 IEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMK 582
           +  LP+    L  L++   +    L SL      L    +L++    +L + PESL  + 
Sbjct: 233 LTSLPVLPSELKELMVSGNR----LTSLPMLPSGLL---SLSVYRN-QLTRLPESLIHLS 284

Query: 583 DLMELFLDGTSIAEVPSSIE-LLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSK 641
               + L+G  ++E        +T     +       +   S     R+L     +    
Sbjct: 285 SETTVNLEGNPLSERTLQALREITSAPGYSGPIIRFDMAGASAPRETRAL--HLAAADWL 342

Query: 642 LQNVPETLGQVESLEELD 659
           +          +      
Sbjct: 343 VPAREGEPAPADRWHMFG 360

>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 = 52.2 bits (125), Expect = 8e-07
 Identities = 25/112 (22%), Positives = 41/112 (36%), Gaps = 15/112 (13%)

Query: 723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKR 782
            ++ L + D  L    +P     L   + L +S N   +LP     L  L          
Sbjct: 62  HITTLVIPDNNLTS--LPALPPEL---RTLEVSGNQLTSLPVLPPGLLELSIFSN----P 112

Query: 783 LQSMPQLPSNLYEVQV--NGCASLVTLSGALK---LCKSKCTSI-NCIGSLK 828
           L  +P LPS L ++ +  N   SL  L   L+   +  ++  S+      L 
Sbjct: 113 LTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQLASLPALPSELC 164

>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 =  117 bits (294), Expect = 3e-27
 Identities = 81/474 (17%), Positives = 152/474 (32%), Gaps = 64/474 (13%)

Query: 345 AFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSN-FQ-LEKTVEF 398
           +FS  + L+ L +   ++     +    L + L  L     P++S     F  L      
Sbjct: 51  SFSNFSELQWLDLSRCEIETIEDKAWHGLHH-LSNLILTGNPIQSFSPGSFSGLTSLENL 109

Query: 399 NMCYSRIEELWNE-IKYLNMLKVMKLSHSQNLIKT----PDFTGVPNLEELILEGCTRLH 453
               +++  L +  I  L  LK + ++H  N I +      F+ + NL  + L     + 
Sbjct: 110 VAVETKLASLESFPIGQLITLKKLNVAH--NFIHSCKLPAYFSNLTNLVHVDLSYN-YIQ 166

Query: 454 EIHPSLL-----LHSKLVILNLKDCTSLTTLPGKI-SMKSLKTLVLSGCLKLTKKCLEFA 507
            I  + L          + L++     +  +  +      L  L L G    +       
Sbjct: 167 TITVNDLQFLRENPQVNLSLDMSLN-PIDFIQDQAFQGIKLHELTLRGNFNSSNIMKTCL 225

Query: 508 GSMNDLSELFLDRTTIEEL-------PLSIQHLTGLVLLNLKDCKN--LKSLSHTLRRLQ 558
            ++  L    L     ++        P  ++ L  + +   +                L 
Sbjct: 226 QNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDDIVKFHCLA 285

Query: 559 CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL 618
            +  ++L+G   +K     +        L +    + + P+    L  L+ L L    N 
Sbjct: 286 NVSAMSLAGV-SIKYLE-DVPKHFKWQSLSIIRCQLKQFPTL--DLPFLKSLTLTM--NK 339

Query: 619 VRLPSCINGLRSLKTLNLSGC--SKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMN 676
             +      L SL  L+LS    S       +     SL  LD+S        ++   + 
Sbjct: 340 GSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLE 399

Query: 677 NLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGE 736
            L+ L F                  + + + +   A        L  L  LD+S     +
Sbjct: 400 ELQHLDFQH----------------STLKRVTEFSA-----FLSLEKLLYLDISYTNT-K 437

Query: 737 GAIPNDIGNLCSLKQLNLSQNNF--VTLPASINSLFNLGQLDLEDCKRLQSMPQ 788
                    L SL  L ++ N+F   TL     +  NL  LDL  C+ L+ +  
Sbjct: 438 IDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQ-LEQISW 490

>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 =  116 bits (292), Expect = 6e-27
 Identities = 73/461 (15%), Positives = 136/461 (29%), Gaps = 78/461 (16%)

Query: 344 KAFSQMTNLRLLKIDNLQLPE-------GLEYLSNKLRLLDWHRYPLKSLPSN-FQLEKT 395
             FS +TNL  + +    +          L         LD    P+  +    FQ  K 
Sbjct: 147 AYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKL 206

Query: 396 VEFNMCYSRI--EELWNEIKYLNMLKVMKLSH----SQNLIKTPD---FTGVPNLEELIL 446
            E  +  +      +   ++ L  L V +L       +  ++  +     G+ ++     
Sbjct: 207 HELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEF 266

Query: 447 EG-CTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCL 504
               T             + +  ++L    S+  L         ++L +  C +L +   
Sbjct: 267 RLTYTNDFSDDIVKFHCLANVSAMSLAGV-SIKYLEDVPKHFKWQSLSIIRC-QLKQ--F 322

Query: 505 EFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQC--LKN 562
                +  L  L L       +      L  L  L+L       S   +   L    L++
Sbjct: 323 PTL-DLPFLKSLTLTMNKG-SISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRH 380

Query: 563 LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIEL--LTGLQLLNLNNCSNLVR 620
           L LS          +   +++L  L    +++  V        L  L  L+++  +  + 
Sbjct: 381 LDLSFN-GAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKID 439

Query: 621 LPSCINGLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFVMNNLK 679
                 GL SL TL ++G S   N          +L  LD+S   + +    +F      
Sbjct: 440 FDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVF------ 493

Query: 680 TLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAI 739
                                                    LH L  L++S   L     
Sbjct: 494 ---------------------------------------DTLHRLQLLNMSHNNL-LFLD 513

Query: 740 PNDIGNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLED 779
            +    L SL  L+ S N   T    + +   +L   +L +
Sbjct: 514 SSHYNQLYSLSTLDCSFNRIETSKGILQHFPKSLAFFNLTN 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 =  110 bits (277), Expect = 4e-25
 Identities = 77/408 (18%), Positives = 131/408 (32%), Gaps = 60/408 (14%)

Query: 418 LKVMKLSHSQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDC 473
            K + LS   N +K      F+    L+ L L  C  +  I          L  L L   
Sbjct: 34  TKNIDLSF--NPLKILKSYSFSNFSELQWLDLSRC-EIETIEDKAWHGLHHLSNLILTGN 90

Query: 474 TSLTTLPGKI--SMKSLKTLVLSGCL--KLTKKCLEFAGSMNDLSELFLDRTTIEELPL- 528
             + +        + SL+ LV        L    +   G +  L +L +    I    L 
Sbjct: 91  -PIQSFSPGSFSGLTSLENLVAVETKLASLESFPI---GQLITLKKLNVAHNFIHSCKLP 146

Query: 529 -SIQHLTGLVLLNL----------KDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPES 577
               +LT LV ++L           D + L+        L    N        +    + 
Sbjct: 147 AYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLN-------PIDFIQDQ 199

Query: 578 LGSMKDLMELFLDGTSIAE--VPSSIELLTGLQLLNL--NNCSNLVRL----PSCINGLR 629
                 L EL L G   +   + + ++ L GL +  L      +   L    PS + GL 
Sbjct: 200 AFQGIKLHELTLRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLC 259

Query: 630 SL--KTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN 687
            +      L+  +   +       + ++  + ++G +I+            ++LS   C 
Sbjct: 260 DVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVPK-HFKWQSLSIIRCQ 318

Query: 688 GPPSSTSWHWHFPFNLMGQR-----SYPVALMLPSLSGLHSLSKLDLSDCGLGE-GAIPN 741
                      FP   +        +     +      L SLS LDLS   L   G    
Sbjct: 319 LK--------QFPTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSY 370

Query: 742 DIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQL 789
                 SL+ L+LS N  + + A+   L  L  LD +    L+ + + 
Sbjct: 371 SDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHS-TLKRVTEF 417

>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 = 89.7 bits (223), Expect = 1e-18
 Identities = 48/289 (16%), Positives = 91/289 (31%), Gaps = 30/289 (10%)

Query: 521 TTIEELPLSIQHLTGLVLLNLKDCKNLKSLS-----------HTLRRLQCLKNLTLSGCS 569
           ++ + + LS   L  L   +  +   L+ L                 L  L NL L+G  
Sbjct: 32  SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNP 91

Query: 570 KLKKFPESLGSMKDLMELFLDGTSIAEVPS-SIELLTGLQLLNLNNCS-NLVRLPSCING 627
                P S   +  L  L    T +A + S  I  L  L+ LN+ +   +  +LP+  + 
Sbjct: 92  IQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSN 151

Query: 628 LRSLKTLNLSGCSKLQNVPETLGQV-----ESLEELDISGTAIRRPPSSIFVMNNLKTLS 682
           L +L  ++LS    +Q +     Q      +    LD+S   I       F    L  L+
Sbjct: 152 LTNLVHVDLSYN-YIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELT 210

Query: 683 FSGCN---GPPSSTSWHW------HFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCG 733
             G         +   +                           + GL  ++  +     
Sbjct: 211 LRGNFNSSNIMKTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFRLTY 270

Query: 734 LGEGAI-PNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
             + +        L ++  ++L+  +   L   +   F    L +  C+
Sbjct: 271 TNDFSDDIVKFHCLANVSAMSLAGVSIKYLE-DVPKHFKWQSLSIIRCQ 318

>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 = 83.2 bits (206), Expect = 2e-16
 Identities = 55/311 (17%), Positives = 102/311 (32%), Gaps = 41/311 (13%)

Query: 339 LSAGAKAFSQMTNLRLLKIDNLQLPEGLEYLSN--KLRLLDWHRYPLKSLPSNFQLEKTV 396
            S     F  + N+  + +  + + + LE +    K + L   R  LK  P+        
Sbjct: 274 FSDDIVKFHCLANVSAMSLAGVSI-KYLEDVPKHFKWQSLSIIRCQLKQFPTLD------ 326

Query: 397 EFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGC--TRLHE 454
                             L  LK + L+ ++  I +     +P+L  L L     +    
Sbjct: 327 ------------------LPFLKSLTLTMNKGSI-SFKKVALPSLSYLDLSRNALSFSGC 367

Query: 455 IHPSLLLHSKLVILNLKDCTSLTTLPGKI-SMKSLKTLVLSG-CLKLTKKCLEFAGSMND 512
              S L  + L  L+L        +      ++ L+ L      LK   +   F   +  
Sbjct: 368 CSYSDLGTNSLRHLDLSFN-GAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLS-LEK 425

Query: 513 LSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCSK 570
           L  L +  T  +     I   LT L  L +       +  S+       L  L LS C +
Sbjct: 426 LLYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKC-Q 484

Query: 571 LKKFPE-SLGSMKDLMELFLDGTSIAEVP-SSIELLTGLQLLNLNNCSNLVRLPSCI-NG 627
           L++       ++  L  L +   ++  +  S    L  L  L+ +    +      + + 
Sbjct: 485 LEQISWGVFDTLHRLQLLNMSHNNLLFLDSSHYNQLYSLSTLDCSFN-RIETSKGILQHF 543

Query: 628 LRSLKTLNLSG 638
            +SL   NL+ 
Sbjct: 544 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 = 72.8 bits (179), Expect = 3e-13
 Identities = 43/232 (18%), Positives = 75/232 (32%), Gaps = 60/232 (25%)

Query: 560 LKNLTLSGCS--KLKKFPESLGSMKDLMELFLDGTSIAEVP-SSIELLTGLQLLNLNNCS 616
           + N+T   C   KL K P+ + S      + L    +  +   S    + LQ L+L+ C 
Sbjct: 11  VPNITYQ-CMDQKLSKVPDDIPS--STKNIDLSFNPLKILKSYSFSNFSELQWLDLSRC- 66

Query: 617 NLVRL-PSCINGLRSLKTLNLSGCSKLQNV-PETLGQVESLEELDISGTAIRRPPSSIFV 674
            +  +     +GL  L  L L+G   +Q+  P +   + SLE L    T +    S    
Sbjct: 67  EIETIEDKAWHGLHHLSNLILTGN-PIQSFSPGSFSGLTSLENLVAVETKLASLESFPI- 124

Query: 675 MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGL 734
                                                         L +L KL+++   +
Sbjct: 125 --------------------------------------------GQLITLKKLNVAHNFI 140

Query: 735 GEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI-----NSLFNLGQLDLEDCK 781
               +P    NL +L  ++LS N   T+  +       +      LD+    
Sbjct: 141 HSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNP 192

>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 =  116 bits (293), Expect = 1e-26
 Identities = 90/440 (20%), Positives = 151/440 (34%), Gaps = 87/440 (19%)

Query: 415 LNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH--SKLVILNLKD 472
           L  L+ + LS+S        F    +L  L L   +    +     L   S L  LN+  
Sbjct: 76  LTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSS 135

Query: 473 C--TSLTTLPGKISMKSLKTLVLSGCLKLTKK---CLEFAGSMNDLSELFLDRTTIE-EL 526
                   + G + + SL+ L LS    ++         +    +L  L +    I  ++
Sbjct: 136 NTLDFPGKVSGGLKLNSLEVLDLSAN-SISGANVVGWVLSDGCGELKHLAISGNKISGDV 194

Query: 527 PLSIQHLTGLVLLNLKDCKNLKSLSHT---LRRLQCLKNLTLSGCSKLK-KFPESLGSMK 582
            +S      L  L++       + S     L     L++L +SG  KL   F  ++ +  
Sbjct: 195 DVS--RCVNLEFLDVSSN----NFSTGIPFLGDCSALQHLDISGN-KLSGDFSRAISTCT 247

Query: 583 DLMELFLDGTSIA-EVPSSIELLTGLQLLNL--------------NNCSNLVRL------ 621
           +L  L +        +P     L  LQ L+L                C  L  L      
Sbjct: 248 ELKLLNISSNQFVGPIPPLP--LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH 305

Query: 622 -----PSCINGLRSLKTLNLSGCSKLQNV--PETLGQVESLEELDISGTAIRRP-PSSIF 673
                P        L++L LS  +        +TL ++  L+ LD+S        P S+ 
Sbjct: 306 FYGAVPPFFGSCSLLESLALSSNN-FSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLT 364

Query: 674 VM-NNLKTLSFSGCN--GP-PSSTSWHWHFPFNL-----------------MGQRSYPVA 712
            +  +L TL  S  N  GP   +     +    L                 +   S  V+
Sbjct: 365 NLSASLLTLDLSSNNFSGPILPN--LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVS 422

Query: 713 LML----------PSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-T 761
           L L           SL  L  L  L L    L EG IP ++  + +L+ L L  N+    
Sbjct: 423 LHLSFNYLSGTIPSSLGSLSKLRDLKLWLNML-EGEIPQELMYVKTLETLILDFNDLTGE 481

Query: 762 LPASINSLFNLGQLDLEDCK 781
           +P+ +++  NL  + L + +
Sbjct: 482 IPSGLSNCTNLNWISLSNNR 501

>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 =  109 bits (275), Expect = 1e-24
 Identities = 74/318 (23%), Positives = 110/318 (34%), Gaps = 53/318 (16%)

Query: 531 QHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD 590
             +T + L +        ++S +L  L  L++L LS                 L  L L 
Sbjct: 50  DKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSG-FKCSASLTSLDLS 108

Query: 591 GTSIA-EVPSSIEL--LTGLQLLNLNNCSNLVRLP-SCINGLRSLKTLNLSGCSKLQNVP 646
             S++  V +   L   +GL+ LN+++ +       S    L SL+ L+LS  S      
Sbjct: 109 RNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANV 168

Query: 647 ETL---GQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNL 703
                      L+ L ISG  I      +    NL+ L  S  N                
Sbjct: 169 VGWVLSDGCGELKHLAISGNKIS-GDVDVSRCVNLEFLDVSSNN---------------F 212

Query: 704 MGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TL 762
                      +P L    +L  LD+S   L  G     I     LK LN+S N FV  +
Sbjct: 213 STG--------IPFLGDCSALQHLDISGNKL-SGDFSRAISTCTELKLLNISSNQFVGPI 263

Query: 763 PASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTL-------SGALKLCK 815
           P     L +L  L L + K      ++P  L       C +L  L        GA+    
Sbjct: 264 PPLP--LKSLQYLSLAENK-FTG--EIPDFLS----GACDTLTGLDLSGNHFYGAVPPFF 314

Query: 816 SKCTSINCIGSLKLAGNN 833
             C+ +    SL L+ NN
Sbjct: 315 GSCSLLE---SLALSSNN 329

>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 =  106 bits (267), Expect = 1e-23
 Identities = 72/334 (21%), Positives = 118/334 (35%), Gaps = 57/334 (17%)

Query: 452 LHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMN 511
              +  SLL  + L  L L +     ++ G     SL +L LS            +G + 
Sbjct: 66  FSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRN--------SLSGPVT 117

Query: 512 DLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCK-NLKSLSHTLRRLQCLKNLTLSGCSK 570
            L+ L                 +GL  LN+     +         +L  L+ L LS  S 
Sbjct: 118 TLTSLG--------------SCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSI 163

Query: 571 LKKFPESL---GSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCING 627
                          +L  L + G  I      +     L+ L++++ +    +P  +  
Sbjct: 164 SGANVVGWVLSDGCGELKHLAISGNKI-SGDVDVSRCVNLEFLDVSSNNFSTGIPF-LGD 221

Query: 628 LRSLKTLNLSGCSKLQ-NVPETLGQVESLEELDISGTAIRRP-PSSIFVMNNLKTLSFSG 685
             +L+ L++SG  KL  +    +     L+ L+IS      P P     + +L+ LS + 
Sbjct: 222 CSALQHLDISGN-KLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLSLAE 278

Query: 686 CNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGN 745
                    +    P  L G                 +L+ LDLS      GA+P   G+
Sbjct: 279 NK-------FTGEIPDFLSGA--------------CDTLTGLDLSGNHF-YGAVPPFFGS 316

Query: 746 LCSLKQLNLSQNNFV-TLPA-SINSLFNLGQLDL 777
              L+ L LS NNF   LP  ++  +  L  LDL
Sbjct: 317 CSLLESLALSSNNFSGELPMDTLLKMRGLKVLDL 350

>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 =  104 bits (261), Expect = 6e-23
 Identities = 76/410 (18%), Positives = 140/410 (34%), Gaps = 76/410 (18%)

Query: 410 NEIKYLNMLKVMKLSHSQNL---IKTPDFTGVPNLEELILEGCTRLH-EIHPSLL-LHSK 464
                 ++L+ + LS + N    +       +  L+ L L        E+  SL  L + 
Sbjct: 312 PFFGSCSLLESLALSSN-NFSGELPMDTLLKMRGLKVLDLSFN-EFSGELPESLTNLSAS 369

Query: 465 LVILNLKDCTSLT-TLP---GKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDR 520
           L+ L+L    + +  +     +    +L+ L L      T K      + ++L  L L  
Sbjct: 370 LLTLDLSSN-NFSGPILPNLCQNPKNTLQELYLQNN-GFTGKIPPTLSNCSELVSLHLSF 427

Query: 521 TTIE-ELPLSIQHLTGLVLLNLKDCKNLK-SLSHTLRRLQCLKNLTLSGCSKLK-KFPES 577
             +   +P S+  L+ L  L L     L+  +   L  ++ L+ L L     L  + P  
Sbjct: 428 NYLSGTIPSSLGSLSKLRDLKLWLN-MLEGEIPQELMYVKTLETLILDFN-DLTGEIPSG 485

Query: 578 LGSMKDLMELFLDGTSIA-EVPSSIELLTGLQLLNLN-------------NCSNLVRL-- 621
           L +  +L  + L    +  E+P  I  L  L +L L+             +C +L+ L  
Sbjct: 486 LSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDL 545

Query: 622 ---------PSCINGLRSLKTLN-LSGCSKLQNVPETLGQVESLEELDISGTAIR---RP 668
                    P+ +         N ++G          +      +E   +G  +      
Sbjct: 546 NTNLFNGTIPAAMFKQSGKIAANFIAG-----KRYVYIKNDGMKKECHGAGNLLEFQGIR 600

Query: 669 PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLD 728
              +  ++     + +                    G          P+     S+  LD
Sbjct: 601 SEQLNRLSTRNPCNITSRV---------------YGGH-------TSPTFDNNGSMMFLD 638

Query: 729 LSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDL 777
           +S   L  G IP +IG++  L  LNL  N+   ++P  +  L  L  LDL
Sbjct: 639 MSYNML-SGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDL 687

>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 = 85.3 bits (212), Expect = 5e-17
 Identities = 77/350 (22%), Positives = 130/350 (37%), Gaps = 56/350 (16%)

Query: 439 PNLEELILEGCTRLH-EIHPSLLLHSKLVILNLKDCTSLT-TLPGKIS-MKSLKTLVLSG 495
             L+EL L+       +I P+L   S+LV L+L     L+ T+P  +  +  L+ L L  
Sbjct: 394 NTLQELYLQNN-GFTGKIPPTLSNCSELVSLHLSFN-YLSGTIPSSLGSLSKLRDLKLWL 451

Query: 496 CLKLTKKCLEFAGSMNDLSELFLDRTTIE-ELPLSIQHLTGLVLLNLKDCKNLKSLSHTL 554
              L  +  +    +  L  L LD   +  E+P  + + T L  ++L + +    +   +
Sbjct: 452 N-MLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWI 510

Query: 555 RRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA-EVPSSIELLTGLQLLN-- 611
            RL+ L  L LS  S     P  LG  + L+ L L+       +P+++   +G    N  
Sbjct: 511 GRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFI 570

Query: 612 -------LNNCSNLVRL-------------PSCINGLRSLKTLNLSGCSKLQNVPETLGQ 651
                  + N                       +N L +    N++      +   T   
Sbjct: 571 AGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDN 630

Query: 652 VESLEELDISGTAIRRP-PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYP 710
             S+  LD+S   +    P  I  M  L  L+    N              ++ G     
Sbjct: 631 NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLG-HN--------------DISGS---- 671

Query: 711 VALMLP-SLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNF 759
               +P  +  L  L+ LDLS   L +G IP  +  L  L +++LS NN 
Sbjct: 672 ----IPDEVGDLRGLNILDLSSNKL-DGRIPQAMSALTMLTEIDLSNNNL 716

>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 = 65.3 bits (160), Expect = 8e-11
 Identities = 33/167 (19%), Positives = 55/167 (32%), Gaps = 31/167 (18%)

Query: 623 SCINGLRSLKTLNLSGCS---KLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLK 679
           +C +    + +++LS          V  +L  +  LE L +S + I    S      +L 
Sbjct: 46  TCRDD--KVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLT 103

Query: 680 TLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGL-GEGA 738
           +L  S  +               L G  +        SL     L  L++S   L   G 
Sbjct: 104 SLDLSRNS---------------LSGPVTTL-----TSLGSCSGLKFLNVSSNTLDFPGK 143

Query: 739 IPNDIGNLCSLKQLNLSQNNFV-TLPASI---NSLFNLGQLDLEDCK 781
           +      L SL+ L+LS N+            +    L  L +   K
Sbjct: 144 VS-GGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNK 189

>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 =  115 bits (289), Expect = 3e-26
 Identities = 85/479 (17%), Positives = 159/479 (33%), Gaps = 55/479 (11%)

Query: 343 AKAFSQMTNLRLLKIDNLQLPEGLEYLS----NKLRLLDWHRYPLKSLPSN-FQ-LEKTV 396
           A +F  +  L+LL++ +   P  ++  +      LR+LD     +  L  + FQ L    
Sbjct: 41  ASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLF 100

Query: 397 EFNMCYSRIEELW---NEIKYLNMLKVMKLSHSQNLIKT----PDFTGVPNLEELILEGC 449
           E  + +  + +        + L  L  + LS   N I++    P F  + +L+ +     
Sbjct: 101 ELRLYFCGLSDAVLKDGYFRNLKALTRLDLSK--NQIRSLYLHPSFGKLNSLKSIDFSSN 158

Query: 450 TRLHEIHPSL---LLHSKLVILNLKDCT-------SLTTLPGKISMKSLKTLVLSGCLKL 499
            ++  +       L    L   +L   +                    L+ L +SG    
Sbjct: 159 -QIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWT 217

Query: 500 TKKCLEFAGSMNDLSELFLDR-TTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQ 558
                 F+ +++      L     I        ++         D      L+ +     
Sbjct: 218 VDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDP------DQNTFAGLARSS---- 267

Query: 559 CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSN 617
            +++L LS             ++KDL  L L    I ++       L  LQ+LNL+    
Sbjct: 268 -VRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYN-L 325

Query: 618 LVRLPSCI-NGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMN 676
           L  L S    GL  +  ++L          +T   +E L+ LD+   A+    ++I  + 
Sbjct: 326 LGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNAL----TTIHFIP 381

Query: 677 NLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL-MLPSLSGLHSLSKLDLSDCGLG 735
           ++  +  SG      +          +    +    L +L  L  +  L  L L+     
Sbjct: 382 SIPDIFLSGNK--LVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFS 439

Query: 736 EGAIPNDIGNLCSLKQLNLSQNNFVTLPAS------INSLFNLGQLDLEDCKRLQSMPQ 788
             +         SL+QL L +N       +         L +L  L L     L S+P 
Sbjct: 440 SCSGDQTPSENPSLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHN-YLNSLPP 497

>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 =  105 bits (263), Expect = 4e-23
 Identities = 82/418 (19%), Positives = 149/418 (35%), Gaps = 54/418 (12%)

Query: 415 LNMLKVMKLSHSQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNL 470
           LN  + + LS   N I+T     F  +  L+ L L        I      +   L IL+L
Sbjct: 23  LNTTERLLLSF--NYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLPNLRILDL 80

Query: 471 KDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFA--GSMNDLSELFLDRTTIEEL 526
                +  L       +  L  L L  C  L+   L+     ++  L+ L L +  I  L
Sbjct: 81  GSS-KIYFLHPDAFQGLFHLFELRLYFC-GLSDAVLKDGYFRNLKALTRLDLSKNQIRSL 138

Query: 527 PL--SIQHLTGLVLLNLKDCKNLKSLSHTLRRLQC--LKNLTLSGCSKLKKFPESLGSM- 581
            L  S   L  L  ++    +      H L  LQ   L   +L+  S   +     G   
Sbjct: 139 YLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCM 198

Query: 582 -----KDLMELFLDGTSIAEVPSSI--ELLTGLQLLNLNNCSNLVRLPSCINGLR----- 629
                  L  L + G       +      ++  Q  +L    +++      + ++     
Sbjct: 199 NPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGFHNIKDPDQN 258

Query: 630 --------SLKTLNLSGCSKLQNV-PETLGQVESLEELDISGTAIRRPPSSIFV-MNNLK 679
                   S++ L+LS    + ++       ++ L+ L+++   I +     F  ++NL+
Sbjct: 259 TFAGLARSSVRHLDLSHG-FVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQ 317

Query: 680 TLSFSGCNGPPSSTSWHWHFP----FNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLG 735
            L+ S        +S  +  P     +L  Q+++   +   +   L  L  LDL D  L 
Sbjct: 318 VLNLSYNLLGELYSSNFYGLPKVAYIDL--QKNHIAIIQDQTFKFLEKLQTLDLRDNAL- 374

Query: 736 EGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSL--FNLGQLDLEDCKRLQSMPQLPS 791
                  I  + S+  + LS N  VTLP    +    +L +  LE+   L  + ++P 
Sbjct: 375 -----TTIHFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPH 427

>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 = 77.9 bits (192), Expect = 9e-15
 Identities = 53/297 (17%), Positives = 100/297 (33%), Gaps = 35/297 (11%)

Query: 511 NDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSL------------SHTLRRLQ 558
            +L+++     T E L LS  ++  +   +    + L+ L                R L 
Sbjct: 14  CNLTQVPQVLNTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNLP 73

Query: 559 CLKNLTLSGCSKLKKFPES-LGSMKDLMELFLDGTSIAEV---PSSIELLTGLQLLNL-N 613
            L+ L L    K+          +  L EL L    +++          L  L  L+L  
Sbjct: 74  NLRILDLGSS-KIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSK 132

Query: 614 NCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQV---ESLEELDISGTAIRRPPS 670
           N    + L      L SLK+++ S   ++  V E   +    ++L    ++  ++    S
Sbjct: 133 NQIRSLYLHPSFGKLNSLKSIDFSSN-QIFLVCEHELEPLQGKTLSFFSLAANSLYSRVS 191

Query: 671 SIF--VMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLD 728
             +   MN  + +     +   S   W      N     S        SL   H +    
Sbjct: 192 VDWGKCMNPFRNMVLEILD--VSGNGWTVDITGNFSNAISK---SQAFSLILAHHIMGAG 246

Query: 729 LSDCGLGEGAIPNDI-GNLC--SLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCK 781
                + +     +    L   S++ L+LS     +L + +  +L +L  L+L   K
Sbjct: 247 FGFHNIKD--PDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNK 301

>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 = 69.1 bits (169), Expect = 6e-12
 Identities = 43/249 (17%), Positives = 72/249 (28%), Gaps = 30/249 (12%)

Query: 587 LFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP-SCINGLRSLKTLNLSG-CSKLQN 644
            F    ++ +VP     L   + L L+    +  +  S    L  L+ L L    + L  
Sbjct: 9   AFYRFCNLTQVPQV---LNTTERLLLSFN-YIRTVTASSFPFLEQLQLLELGSQYTPLTI 64

Query: 645 VPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNL 703
             E    + +L  LD+  + I       F  + +L  L                     L
Sbjct: 65  DKEAFRNLPNLRILDLGSSKIYFLHPDAFQGLFHLFEL--------------------RL 104

Query: 704 MGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLP 763
                    L       L +L++LDLS   +    +    G L SLK ++ S N    + 
Sbjct: 105 YFCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVC 164

Query: 764 A-SINSLF--NLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKSKCTS 820
              +  L    L    L        +            N    ++ +SG           
Sbjct: 165 EHELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNF 224

Query: 821 INCIGSLKL 829
            N I   + 
Sbjct: 225 SNAISKSQA 233

>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 =  109 bits (273), Expect = 5e-25
 Identities = 78/471 (16%), Positives = 137/471 (29%), Gaps = 45/471 (9%)

Query: 416 NMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTS 475
           N    +  +       T     +  L  L       + ++   +   + L  L      +
Sbjct: 19  NFASEVAAAFEMQATDTISEEQLATLTSLDCHNS-SITDM-TGIEKLTGLTKLICTSN-N 75

Query: 476 LTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTG 535
           +TTL       +L  L      KLT   L+       L+ L  D   + +L +S      
Sbjct: 76  ITTLDLS-QNTNLTYLACDSN-KLTN--LDVTPLTK-LTYLNCDTNKLTKLDVS--QNPL 128

Query: 536 LVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIA 595
           L  LN      L  +   +     L  L      K+      +     L  L      I 
Sbjct: 129 LTYLNCARNT-LTEID--VSHNTQLTELDCHLNKKIT--KLDVTPQTQLTTLDCSFNKIT 183

Query: 596 EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESL 655
           E+   +     L  LN +   N+ +L   +N    L  L+ S   KL  +   +  +  L
Sbjct: 184 ELD--VSQNKLLNRLNCDTN-NITKLD--LNQNIQLTFLDCSSN-KLTEID--VTPLTQL 235

Query: 656 EELDISGTAIRRPPSSIFVMNNLKTLSFSGCNG---PPSSTSWHWHFPFNLMGQRSYPVA 712
              D S   +     S    + L TL     +      +  +   +F      +      
Sbjct: 236 TYFDCSVNPLTELDVSTL--SKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRK------ 287

Query: 713 LMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNL 772
           +    ++    L  LD    G+ E     D+     L  L L+      L   ++    L
Sbjct: 288 IKELDVTHNTQLYLLDCQAAGITE----LDLSQNPKLVYLYLNNTELTELD--VSHNTKL 341

Query: 773 GQLDLEDCKRLQSMPQLPSNLYEVQVNGCAS--LVTLSGALKLCKSKCTSINCIGSLKLA 830
             L   +   +Q    +   +  +  N  A    +T+     L  +  T       L   
Sbjct: 342 KSLSCVNAH-IQDFSSV-GKIPALNNNFEAEGQTITMP-KETLTNNSLTIAVSPDLLDQF 398

Query: 831 GNNGLAISMLREYLKAVSDPMKEFNIVVPGSEIPKWFMYQNEGSSITVTRP 881
           GN               ++ +   N+      +   F  +N     TVT P
Sbjct: 399 GNPMNIEPGDGGVYDQATNTITWENLSTDNPAVTYTFTSENGAIVGTVTTP 449

>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 =  107 bits (269), Expect = 1e-24
 Identities = 70/426 (16%), Positives = 126/426 (29%), Gaps = 65/426 (15%)

Query: 351 NLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN 410
           +      +        E     L  LD H   +  +    +L    +     + I  L  
Sbjct: 22  SEVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTL-- 79

Query: 411 EIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNL 470
           ++     L  +      N +   D T +  L  L  +   +L ++  S      L  LN 
Sbjct: 80  DLSQNTNLTYLACDS--NKLTNLDVTPLTKLTYLNCDTN-KLTKLDVSQN--PLLTYLNC 134

Query: 471 KDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI 530
               +LT +        L  L      K+TK  +        L+ L      I EL +S 
Sbjct: 135 ARN-TLTEIDVS-HNTQLTELDCHLNKKITKLDV---TPQTQLTTLDCSFNKITELDVS- 188

Query: 531 QHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD 590
                L  LN     N+  L   L +   L  L  S   KL +    +  +  L      
Sbjct: 189 -QNKLLNRLNCDTN-NITKLD--LNQNIQLTFLDCSSN-KLTEID--VTPLTQLTYFDCS 241

Query: 591 GTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLG 650
              + E+  S   L+ L  L+     +L+ +   +     L      GC K++ +   + 
Sbjct: 242 VNPLTELDVST--LSKLTTLHCIQT-DLLEID--LTHNTQLIYFQAEGCRKIKELD--VT 294

Query: 651 QVESLEELDISGTAIRRPPSSIFV--MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRS 708
               L  LD     I    + + +     L  L  +                        
Sbjct: 295 HNTQLYLLDCQAAGI----TELDLSQNPKLVYLYLNNTE--------------------- 329

Query: 709 YPVALMLPSL--SGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI 766
                 L  L  S    L  L   +  + +    + +G + +L     ++   +T+P   
Sbjct: 330 ------LTELDVSHNTKLKSLSCVNAHIQD--FSS-VGKIPALNNNFEAEGQTITMPKET 380

Query: 767 NSLFNL 772
            +  +L
Sbjct: 381 LTNNSL 386

>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 = 90.1 bits (224), Expect = 5e-19
 Identities = 62/352 (17%), Positives = 118/352 (33%), Gaps = 40/352 (11%)

Query: 344 KAFSQMTNLRLLKIDNLQLPEGLEYLSN-KLRLLDWHRYPLKSLPSNFQLEKTVEFNMCY 402
               ++T L  L   +  +   L+   N  L  L      L +L     L K    N   
Sbjct: 58  TGIEKLTGLTKLICTSNNI-TTLDLSQNTNLTYLACDSNKLTNLDVT-PLTKLTYLNCDT 115

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIH----PS 458
           +++ +L  ++    +L  +  +   N +   D +    L EL      ++ ++       
Sbjct: 116 NKLTKL--DVSQNPLLTYLNCAR--NTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQ 171

Query: 459 L----LLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTK--------KCLEF 506
           L       +K+  L++     L  L       ++  L L+  ++LT           ++ 
Sbjct: 172 LTTLDCSFNKITELDVSQNKLLNRL--NCDTNNITKLDLNQNIQLTFLDCSSNKLTEIDV 229

Query: 507 AGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLS 566
              +  L+        + EL +S   L+ L  L+     +L  +   L     L      
Sbjct: 230 -TPLTQLTYFDCSVNPLTELDVS--TLSKLTTLHCIQT-DLLEID--LTHNTQLIYFQAE 283

Query: 567 GCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCIN 626
           GC K+K     +     L  L      I E+   +     L  L LNN   L  L   ++
Sbjct: 284 GCRKIK--ELDVTHNTQLYLLDCQAAGITELD--LSQNPKLVYLYLNNT-ELTELD--VS 336

Query: 627 GLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNL 678
               LK+L+      +Q+    +G++ +L     +       P      N+L
Sbjct: 337 HNTKLKSLSCVNA-HIQDFSS-VGKIPALNNNFEAEGQTITMPKETLTNNSL 386

>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 = 68.6 bits (168), Expect = 4e-12
 Identities = 58/317 (18%), Positives = 97/317 (30%), Gaps = 61/317 (19%)

Query: 545 KNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELL 604
            N  S       +Q    ++    + L               L    +SI ++   IE L
Sbjct: 18  DNFASEVAAAFEMQATDTISEEQLATLT-------------SLDCHNSSITDMT-GIEKL 63

Query: 605 TGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTA 664
           TGL  L   +  N+  L   ++   +L  L      KL N+   +  +  L  L+     
Sbjct: 64  TGLTKLICTSN-NITTLD--LSQNTNLTYLACDSN-KLTNLD--VTPLTKLTYLNCDTNK 117

Query: 665 IRRPPSSIFVMNNLKTLSFSGCNG---PPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGL 721
           + +   S      L  L+ +         S  +       +L  +      +    ++  
Sbjct: 118 LTKLDVSQ--NPLLTYLNCARNTLTEIDVSHNTQLTELDCHLNKK------ITKLDVTPQ 169

Query: 722 HSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
             L+ LD S   + E     D+     L +LN   NN   L   +N    L  LD    K
Sbjct: 170 TQLTTLDCSFNKITE----LDVSQNKLLNRLNCDTNNITKLD--LNQNIQLTFLDCSSNK 223

Query: 782 RLQSMP--QLPS---------NLYEVQVNGCASLVTL------------SGALKLCKSKC 818
            L  +    L            L E+ V+  + L TL            +   +L   + 
Sbjct: 224 -LTEIDVTPLTQLTYFDCSVNPLTELDVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQA 282

Query: 819 TSINCIGSLKLAGNNGL 835
                I  L +  N  L
Sbjct: 283 EGCRKIKELDVTHNTQL 299

>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 =  109 bits (275), Expect = 2e-24
 Identities = 78/440 (17%), Positives = 158/440 (35%), Gaps = 86/440 (19%)

Query: 3   GIWGMGGLGKTTLAR-VAYD--LISHEFDGSTFLANVREKSEKEGSVVSLQK--QLLSDL 57
            I+GM G GK+ LA     D  L+   F G     ++ +  +K G ++ LQ     L   
Sbjct: 151 TIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGK-QDKSGLLMKLQNLCMRLDQE 209

Query: 58  LKLADISIWNVDDGINIIGSRL--RQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVI 115
              +     N+++  + +   +  +  + LL++DDV D   L+        F    +I++
Sbjct: 210 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKA-------FDNQCQILL 262

Query: 116 TTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGG 175
           TTRDK +  +    +  +     L  ++ L++ S+     ++ +         ++K   G
Sbjct: 263 TTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAEA---HSIIKECKG 319

Query: 176 LPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRII-----------NILQISFDGLQDL 224
            PL ++++G+ L     + W   L++L+ +   RI              + IS + L++ 
Sbjct: 320 SPLVVSLIGALLR-DFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEMLRED 378

Query: 225 EKKIFLDVA-------------CFFKSWDRDHVEKILEGCGFSPVIGIEVLIEKSLLTVD 271
            K  + D++             C     + + VE IL           +  + KSLL  +
Sbjct: 379 IKDYYTDLSILQKDVKVPTKVLCVLWDLETEEVEDIL-----------QEFVNKSLLFCN 427

Query: 272 ---DGNRLWMHDLLQE---------------------LGHQIVQRQSPEQPGKRSRIWRD 307
                   ++HDL  +                       +      SP+Q       W +
Sbjct: 428 RNGKSFCYYLHDLQVDFLTEKNRSQLQDLHRKMVTQFQRYYQPHTLSPDQE--DCMYWYN 485

Query: 308 EEVRHMLTENTGSEVVEGIIVDAYFLENEGYLSAGAKAFSQMTNLRLLKIDNLQLPEGLE 367
               HM + N   E+   ++    +++ +  L   A    +    R     ++   +   
Sbjct: 486 FLAYHMASANMHKELCA-LMFSLDWIKAKTELVGPAHLIHEFVAYR-----HILDEKDCA 539

Query: 368 YLSNKLRLLDWHRYPLKSLP 387
              N    L  + + L   P
Sbjct: 540 VCENFQEFLSLNGHLLGRQP 559

>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 =  106 bits (265), Expect = 1e-23
 Identities = 66/380 (17%), Positives = 138/380 (36%), Gaps = 56/380 (14%)

Query: 410 NEIKYLNMLKVMKLSH-SQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVI 467
           + ++Y  +   + +   +Q++    +   + N + +  +    + ++  +LL    ++ +
Sbjct: 21  SNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLDSFRQVEL 79

Query: 468 LNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLE---FAGSMNDLSELFLDRTT 522
           LNL D   +  +         +++ L +     +    L    F   +  L+ L L+R  
Sbjct: 80  LNLNDL-QIEEIDTYAFAYAHTIQKLYMGFN-AIRY--LPPHVFQN-VPLLTVLVLERND 134

Query: 523 IEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCSKLKKFPESLGS 580
           +  LP  I  +   L  L++ +  NL+ +   T +    L+NL LS   +L      L  
Sbjct: 135 LSSLPRGIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSN-RLTHVD--LSL 190

Query: 581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS 640
           +  L    +    +    S++ +   ++ L+ ++  ++  +         L  L L    
Sbjct: 191 IPSLFHANVSYNLL----STLAIPIAVEELDASHN-SINVVRG--PVNVELTILKLQHN- 242

Query: 641 KLQNVPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHF 699
            L +    L     L E+D+S   + +     FV M  L+ L  S               
Sbjct: 243 NLTDTA-WLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISN-------------- 287

Query: 700 PFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNF 759
             N +   +            + +L  LDLS   L    +  +      L+ L L  N+ 
Sbjct: 288 --NRLVALN-------LYGQPIPTLKVLDLSHNHLLH--VERNQPQFDRLENLYLDHNSI 336

Query: 760 VTLPASINSLFNLGQLDLED 779
           VTL   +++   L  L L  
Sbjct: 337 VTLK--LSTHHTLKNLTLSH 354

>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 =  100 bits (249), Expect = 1e-21
 Identities = 60/329 (18%), Positives = 108/329 (32%), Gaps = 45/329 (13%)

Query: 475 SLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHL 533
            +      I++ + K +       + K       S   +  L L+   IEE+      + 
Sbjct: 40  DVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYA 98

Query: 534 TGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCSKLKKFPESL-GSMKDLMELFLDG 591
             +  L +     ++ L  H  + +  L  L L     L   P  +  +   L  L +  
Sbjct: 99  HTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSN 156

Query: 592 TSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLG 650
            ++  +     +  T LQ L L++   L  +   ++ + SL   N+S      N+  TL 
Sbjct: 157 NNLERIEDDTFQATTSLQNLQLSSN-RLTHVD--LSLIPSLFHANVSY-----NLLSTLA 208

Query: 651 QVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYP 710
              ++EELD S  +I      + V   L  L                    N +      
Sbjct: 209 IPIAVEELDASHNSINVVRGPVNV--ELTILKLQH----------------NNLTD---- 246

Query: 711 VALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASINSL 769
                  L     L ++DLS   L +  I       +  L++L +S N  V L      +
Sbjct: 247 ----TAWLLNYPGLVEVDLSYNELEK--IMYHPFVKMQRLERLYISNNRLVALNLYGQPI 300

Query: 770 FNLGQLDLEDCKRLQSMPQLPSNLYEVQV 798
             L  LDL     L  + +       ++ 
Sbjct: 301 PTLKVLDLSHN-HLLHVERNQPQFDRLEN 328

>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 = 93.5 bits (232), Expect = 9e-20
 Identities = 61/344 (17%), Positives = 126/344 (36%), Gaps = 41/344 (11%)

Query: 347 SQMTNLRLLKIDNL--QLPEGLEYLS-NKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMC 401
                   + ID     +  G E ++ N  +++ +    ++ LP+       +    N+ 
Sbjct: 24  QYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLN 83

Query: 402 YSRIEELWNEI-KYLNMLKVMKLSHSQNLIKT-PD--FTGVPNLEELILEGCTRLHEIHP 457
             +IEE+      Y + ++ + +    N I+  P   F  VP L  L+LE    L  +  
Sbjct: 84  DLQIEEIDTYAFAYAHTIQKLYMGF--NAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPR 140

Query: 458 SLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGC---------------LKL 499
            +  +  KL  L++ +  +L  +      +  SL+ L LS                   +
Sbjct: 141 GIFHNTPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSNRLTHVDLSLIPSLFHANV 199

Query: 500 TKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQC 559
           +   L        + EL     +I  +   +     L +L L+   NL   +  L     
Sbjct: 200 SYNLLSTLAIPIAVEELDASHNSINVVRGPV--NVELTILKLQHN-NLTDTA-WLLNYPG 255

Query: 560 LKNLTLSGCSKLKKFPE-SLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL 618
           L  + LS   +L+K        M+ L  L++    +  +    + +  L++L+L++  +L
Sbjct: 256 LVEVDLSYN-ELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHN-HL 313

Query: 619 VRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISG 662
           + +         L+ L L     +  +   L    +L+ L +S 
Sbjct: 314 LHVERNQPQFDRLENLYLDHN-SIVTLK--LSTHHTLKNLTLSH 354

>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 = 75.0 bits (184), Expect = 7e-14
 Identities = 55/300 (18%), Positives = 103/300 (34%), Gaps = 65/300 (21%)

Query: 343 AKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCY 402
              F  +  L +L ++            N L  L             F            
Sbjct: 116 PHVFQNVPLLTVLVLER-----------NDLSSLP---------RGIFH----------- 144

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNLIKT-PD--FTGVPNLEELILEGCTRLHEIHPSL 459
                          L  + +S+  N ++   D  F    +L+ L L    RL  +  SL
Sbjct: 145 -----------NTPKLTTLSMSN--NNLERIEDDTFQATTSLQNLQLSSN-RLTHVDLSL 190

Query: 460 LLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLD 519
           +    L   N+     L+TL   I   +++ L  S    +    +       +L+ L L 
Sbjct: 191 I--PSLFHANVSYN-LLSTLAIPI---AVEELDASHN-SINV--VR-GPVNVELTILKLQ 240

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLKKFPESL 578
              + +    + +  GLV ++L   + L+ +  H   ++Q L+ L +S  ++L       
Sbjct: 241 HNNLTDTA-WLLNYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISN-NRLVALNLYG 297

Query: 579 GSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSG 638
             +  L  L L    +  V  +      L+ L L++  ++V L   ++   +LK L LS 
Sbjct: 298 QPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-SIVTLK--LSTHHTLKNLTLSH 354

>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 = 66.9 bits (163), Expect = 2e-11
 Identities = 36/227 (15%), Positives = 74/227 (32%), Gaps = 34/227 (14%)

Query: 593 SIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVP-ETLGQ 651
               + S+++       ++++  +  V        L + K +       ++ +P   L  
Sbjct: 15  EYKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLDS 73

Query: 652 VESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYP 710
              +E L+++   I    +  F   + ++ L                   FN +      
Sbjct: 74  FRQVELLNLNDLQIEEIDTYAFAYAHTIQKLYMG----------------FNAIRY---- 113

Query: 711 VALMLPS--LSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASI- 766
               LP      +  L+ L L    L    +P  I  N   L  L++S NN   +     
Sbjct: 114 ----LPPHVFQNVPLLTVLVLERNDLSS--LPRGIFHNTPKLTTLSMSNNNLERIEDDTF 167

Query: 767 NSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKL 813
            +  +L  L L   +       L  +L+   V+    L TL+  + +
Sbjct: 168 QATTSLQNLQLSSNRLTHVDLSLIPSLFHANVSYN-LLSTLAIPIAV 213

>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 = 50.3 bits (120), Expect = 3e-06
 Identities = 43/340 (12%), Positives = 98/340 (28%), Gaps = 17/340 (5%)

Query: 345 AFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNFQ-LEKTVEFN 399
                  L  + +   +L          +   L  L      L +L    Q +      +
Sbjct: 249 WLLNYPGLVEVDLSYNELEKIMYHPFVKMQR-LERLYISNNRLVALNLYGQPIPTLKVLD 307

Query: 400 MCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEG----CTRLHEI 455
           + ++ +  +       + L+ + L H  N I T   +    L+ L L      C  L  +
Sbjct: 308 LSHNHLLHVERNQPQFDRLENLYLDH--NSIVTLKLSTHHTLKNLTLSHNDWDCNSLRAL 365

Query: 456 HPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSE 515
             ++   +  V    + C     L   +  K      L   L+           +     
Sbjct: 366 FRNVARPA--VDDADQHCKIDYQLEHGLCCKESDKPYLDRLLQYI-ALTSVVEKVQRAQG 422

Query: 516 LFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLR-RLQCLKNLTLSGCSKLKKF 574
                 TI  +     ++T    + L+  + L++  + LR  +Q L N  +     L+  
Sbjct: 423 RCSATDTINSVQSLSHYITQQGGVPLQGNEQLEAEVNELRAEVQQLTNEQIQQEQLLQGL 482

Query: 575 PESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTL 634
              + +      L  DG + +    +       +           R        +  + L
Sbjct: 483 HAEIDTNLRRYRLPKDGLARSSDNLNKVFTHLKERQAFKLRETQARRTEADAKQKETEDL 542

Query: 635 NLSGCSKLQNV-PETLGQVESLEELDISGTAIRRPPSSIF 673
                +  + +  +   Q E  +E  +    +++  +   
Sbjct: 543 EQENIALEKQLDNKRAKQAELRQETSLKRQKVKQLEAKKN 582

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score =  102 bits (256), Expect = 3e-23
 Identities = 60/329 (18%), Positives = 108/329 (32%), Gaps = 45/329 (13%)

Query: 475 SLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHL 533
            +      I++ + K +       + K       S   +  L L+   IEE+      + 
Sbjct: 34  DVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYA 92

Query: 534 TGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLKKFPESL-GSMKDLMELFLDG 591
             +  L +     ++ L  H  + +  L  L L     L   P  +  +   L  L +  
Sbjct: 93  HTIQKLYMGFNA-IRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHNTPKLTTLSMSN 150

Query: 592 TSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLG 650
            ++  +     +  T LQ L L++   L  +   ++ + SL   N+S      N+  TL 
Sbjct: 151 NNLERIEDDTFQATTSLQNLQLSSN-RLTHVD--LSLIPSLFHANVSY-----NLLSTLA 202

Query: 651 QVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYP 710
              ++EELD S  +I      + V   L  L                    N +      
Sbjct: 203 IPIAVEELDASHNSINVVRGPVNV--ELTILKLQH----------------NNLTD---- 240

Query: 711 VALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASINSL 769
                  L     L ++DLS   L +  I       +  L++L +S N  V L      +
Sbjct: 241 ----TAWLLNYPGLVEVDLSYNELEK--IMYHPFVKMQRLERLYISNNRLVALNLYGQPI 294

Query: 770 FNLGQLDLEDCKRLQSMPQLPSNLYEVQV 798
             L  LDL     L  + +       ++ 
Sbjct: 295 PTLKVLDLSHN-HLLHVERNQPQFDRLEN 322

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score =  100 bits (251), Expect = 1e-22
 Identities = 68/347 (19%), Positives = 132/347 (38%), Gaps = 34/347 (9%)

Query: 352 LRLLKIDNL--QLPEGLEYLS-NKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIE 406
              + ID     +  G E ++ N  +++ +    ++ LP+       +    N+   +IE
Sbjct: 23  FYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIE 82

Query: 407 ELWNEI-KYLNMLKVMKLSHSQNLIKT-PD--FTGVPNLEELILEGCTRLHEIHPSLLLH 462
           E+      Y + ++ + +    N I+  P   F  VP L  L+LE    L  +   +  +
Sbjct: 83  EIDTYAFAYAHTIQKLYMGF--NAIRYLPPHVFQNVPLLTVLVLERN-DLSSLPRGIFHN 139

Query: 463 -SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLD 519
             KL  L++ +  +L  +      +  SL+ L LS   +LT   ++    +  L    + 
Sbjct: 140 TPKLTTLSMSNN-NLERIEDDTFQATTSLQNLQLSSN-RLTH--VDL-SLIPSLFHANVS 194

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
              +  L         +  L+     ++  +   +     L  L L     L      L 
Sbjct: 195 YNLLSTLA----IPIAVEELDASHN-SINVVRGPV--NVELTILKLQHN-NLTDTA-WLL 245

Query: 580 SMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSG 638
           +   L+E+ L    + ++       +  L+ L ++N + LV L      + +LK L+LS 
Sbjct: 246 NYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISN-NRLVALNLYGQPIPTLKVLDLSH 304

Query: 639 CSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSG 685
              L +V     Q + LE L +   +I     S    + LK L+ S 
Sbjct: 305 N-HLLHVERNQPQFDRLENLYLDHNSIVTLKLSTH--HTLKNLTLSH 348

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 93.6 bits (233), Expect = 2e-20
 Identities = 64/334 (19%), Positives = 131/334 (39%), Gaps = 36/334 (10%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSN-FQ-LEKTV 396
           A        + LL +++LQ+         Y    ++ L      ++ LP + FQ +    
Sbjct: 62  AALLDSFRQVELLNLNDLQIEEIDTYAFAYAHT-IQKLYMGFNAIRYLPPHVFQNVPLLT 120

Query: 397 EFNMCYSRIEELWNEI-KYLNMLKVMKLSHSQNLIKT-PD--FTGVPNLEELILEGCTRL 452
              +  + +  L   I      L  + +S+  N ++   D  F    +L+ L L    RL
Sbjct: 121 VLVLERNDLSSLPRGIFHNTPKLTTLSMSN--NNLERIEDDTFQATTSLQNLQLSSN-RL 177

Query: 453 HEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMND 512
             +  SL+    L   N+     L+TL   I   +++ L  S    +    +       +
Sbjct: 178 THVDLSLI--PSLFHANVSYN-LLSTLAIPI---AVEELDASHN-SINV--VR-GPVNVE 227

Query: 513 LSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKL 571
           L+ L L    + +    + +  GLV ++L   + L+ +  H   ++Q L+ L +S  ++L
Sbjct: 228 LTILKLQHNNLTDTA-WLLNYPGLVEVDLSYNE-LEKIMYHPFVKMQRLERLYISN-NRL 284

Query: 572 KKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSL 631
                    +  L  L L    +  V  +      L+ L L++  ++V L   ++   +L
Sbjct: 285 VALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHN-SIVTLK--LSTHHTL 341

Query: 632 KTLNLSG----CSKLQNVPETLGQVESLEELDIS 661
           K L LS     C+ L+ +   + +  ++++ D  
Sbjct: 342 KNLTLSHNDWDCNSLRALFRNVARP-AVDDADQH 374

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 77.8 bits (192), Expect = 3e-15
 Identities = 46/288 (15%), Positives = 85/288 (29%), Gaps = 51/288 (17%)

Query: 526 LPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFP-ESLGSMKDL 584
           +  ++Q+      +++               L   K +T      ++K P   L S + +
Sbjct: 13  IDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLDSFRQV 71

Query: 585 MELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLP-SCINGLRSLKTLNLSGCSKL 642
             L L+   I E+ +        +Q L +     +  LP      +  L  L L     L
Sbjct: 72  ELLNLNDLQIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLERN-DL 129

Query: 643 QNVP-ETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFP 700
            ++P         L  L +S   + R     F    +L+ L  S                
Sbjct: 130 SSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNR------------- 176

Query: 701 FNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV 760
                       L    LS + SL   ++S   L      + +    ++++L+ S N+  
Sbjct: 177 ------------LTHVDLSLIPSLFHANVSYNLL------STLAIPIAVEELDASHNSIN 218

Query: 761 TLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLS 808
            +         L  L L+    L     L              LV + 
Sbjct: 219 VVRG--PVNVELTILKLQHN-NLTDTAWL---------LNYPGLVEVD 254

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 73.2 bits (180), Expect = 1e-13
 Identities = 38/239 (15%), Positives = 83/239 (34%), Gaps = 36/239 (15%)

Query: 547 LKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLT 605
            K +   L+      ++ +   ++   F     ++ +   +    +++ ++P+++ +   
Sbjct: 10  YKCIDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFR 69

Query: 606 GLQLLNLNNCSNLVRLPS-CINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGT 663
            ++LLNLN+   +  + +       +++ L +     ++ +P      V  L  L +   
Sbjct: 70  QVELLNLNDL-QIEEIDTYAFAYAHTIQKLYMGFN-AIRYLPPHVFQNVPLLTVLVLERN 127

Query: 664 AIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLH 722
            +   P  IF     L TLS S                 N + +      +   +     
Sbjct: 128 DLSSLPRGIFHNTPKLTTLSMSN----------------NNLER------IEDDTFQATT 165

Query: 723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
           SL  L LS   L    +   +  + SL   N+S N   TL         + +LD     
Sbjct: 166 SLQNLQLSSNRLTH--VD--LSLIPSLFHANVSYNLLSTLAI----PIAVEELDASHNS 216

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 67.0 bits (164), Expect = 1e-11
 Identities = 38/224 (16%), Positives = 76/224 (33%), Gaps = 36/224 (16%)

Query: 597 VPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVP-ETLGQVESL 655
           + S+++       ++++  +  V        L + K +       ++ +P   L     +
Sbjct: 13  IDSNLQYDCVFYDVHIDMQTQDVYFGFEDITLNNQKIVTFKNS-TMRKLPAALLDSFRQV 71

Query: 656 EELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALM 714
           E L+++   I    +  F   + ++ L                   FN +          
Sbjct: 72  ELLNLNDLQIEEIDTYAFAYAHTIQKLYMG----------------FNAIRY-------- 107

Query: 715 LPS--LSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASI-NSLF 770
           LP      +  L+ L L    L    +P  I  N   L  L++S NN   +      +  
Sbjct: 108 LPPHVFQNVPLLTVLVLERNDLSS--LPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATT 165

Query: 771 NLGQLDLEDCKRLQSMP-QLPSNLYEVQVNGCASLVTLSGALKL 813
           +L  L L    RL  +   L  +L+   V+    L TL+  + +
Sbjct: 166 SLQNLQLSSN-RLTHVDLSLIPSLFHANVSYN-LLSTLAIPIAV 207

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 98.9 bits (247), Expect = 1e-22
 Identities = 45/280 (16%), Positives = 94/280 (33%), Gaps = 42/280 (15%)

Query: 505 EFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKN 562
           E   + N      +  +++++   S+ Q    +  L+L     L  +S   L     L+ 
Sbjct: 4   EIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNP-LSQISAADLAPFTKLEL 62

Query: 563 LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP 622
           L LS    L +  + L S+  L  L L+   +      + +   ++ L+  N  N+ R+ 
Sbjct: 63  LNLSSN-VLYETLD-LESLSTLRTLDLNNNYV----QELLVGPSIETLHAANN-NISRVS 115

Query: 623 SCINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV--MNNLK 679
              +  +  K + L+   K+  + +   G    ++ LD+    I     +      + L+
Sbjct: 116 C--SRGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLE 172

Query: 680 TLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAI 739
            L+                    +           +        L  LDLS   L    +
Sbjct: 173 HLNLQYNF---------------IY---------DVKGQVVFAKLKTLDLSSNKLAF--M 206

Query: 740 PNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED 779
             +  +   +  ++L  N  V +  ++    NL   DL  
Sbjct: 207 GPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRG 246

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 86.2 bits (214), Expect = 2e-18
 Identities = 46/296 (15%), Positives = 104/296 (35%), Gaps = 22/296 (7%)

Query: 371 NKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIEEL-WNEIKYLNMLKVMKLSHSQ 427
           N+ ++       LK   ++         E ++  + + ++   ++     L+++ LS   
Sbjct: 10  NRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSS-- 67

Query: 428 NLIKT-PDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMK 486
           N++    D   +  L  L L     + E+         +  L+  +  +++ +      +
Sbjct: 68  NVLYETLDLESLSTLRTLDLNNN-YVQELLVG----PSIETLHAAN-NNISRVSCSR-GQ 120

Query: 487 SLKTLVLSGCLKLTK-KCLEFAGSMNDLSELFLDRTTIEELPLS--IQHLTGLVLLNLKD 543
             K + L+   K+T  + L+  G  + +  L L    I+ +  +        L  LNL+ 
Sbjct: 121 GKKNIYLANN-KITMLRDLDE-GCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNLQY 178

Query: 544 CKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIEL 603
              +  +   +     LK L LS   KL        S   +  + L    +  +  ++  
Sbjct: 179 NF-IYDVKGQVV-FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNNKLVLIEKALRF 235

Query: 604 LTGLQLLNL-NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEEL 658
              L+  +L  N  +   L    +  + ++T+      KL    E    V +L   
Sbjct: 236 SQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVPTLGHY 291

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 86.2 bits (214), Expect = 3e-18
 Identities = 49/255 (19%), Positives = 89/255 (34%), Gaps = 31/255 (12%)

Query: 452 LHEIHPSLLLHSKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGS 509
           +HEI  +    ++  I  + D  SL      +  S  ++K L LSG   L++        
Sbjct: 2   IHEIKQNG---NRYKIEKVTDS-SLKQALASLRQSAWNVKELDLSGN-PLSQISAADLAP 56

Query: 510 MNDLSELFLDRTTIEELPLSIQHLTGLVLLNL--------KDCKNLKSL--SH------T 553
              L  L L    + E    ++ L+ L  L+L            ++++L  ++      +
Sbjct: 57  FTKLELLNLSSNVLYETL-DLESLSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS 115

Query: 554 LRRLQCLKNLTLSGCSKLKKFPE-SLGSMKDLMELFLDGTSIAEVP--SSIELLTGLQLL 610
             R Q  KN+ L+   K+    +   G    +  L L    I  V           L+ L
Sbjct: 116 CSRGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHL 174

Query: 611 NLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPS 670
           NL     +  +   +     LKTL+LS   KL  +         +  + +    +     
Sbjct: 175 NLQYN-FIYDVKGQVV-FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNNKLVLIEK 231

Query: 671 SIFVMNNLKTLSFSG 685
           ++    NL+     G
Sbjct: 232 ALRFSQNLEHFDLRG 246

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 83.9 bits (208), Expect = 1e-17
 Identities = 52/291 (17%), Positives = 98/291 (33%), Gaps = 49/291 (16%)

Query: 549 SLSHTLRRLQCLKNLTLSGCSKLKKFPESLGS-MKDLMELFLDGTSIAEVP-SSIELLTG 606
           ++    +     K   ++    LK+   SL     ++ EL L G  ++++  + +   T 
Sbjct: 1   AIHEIKQNGNRYKIEKVTDS-SLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTK 59

Query: 607 LQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIR 666
           L+LLNL++  N++     +  L +L+TL+L+      N  + L    S+E L  +   I 
Sbjct: 60  LELLNLSS--NVLYETLDLESLSTLRTLDLNN-----NYVQELLVGPSIETLHAANNNIS 112

Query: 667 RPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSK 726
           R   S       K +  +                  +         L          +  
Sbjct: 113 RVSCSRG--QGKKNIYLANNK---------------I-------TMLRDLDEGCRSRVQY 148

Query: 727 LDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSM 786
           LDL    +          +  +L+ LNL  N    +   +     L  LDL    +L  M
Sbjct: 149 LDLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDLSSN-KLAFM 206

Query: 787 P----QLPSNLYEVQVNGCASLVTLSGALKLCKSKCTSINCIGSLKLAGNN 833
                     +  + +     LV +  AL+  ++       +    L GN 
Sbjct: 207 GPEFQSAA-GVTWISLRNN-KLVLIEKALRFSQN-------LEHFDLRGNG 248

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 67.3 bits (165), Expect = 5e-12
 Identities = 48/238 (20%), Positives = 94/238 (39%), Gaps = 19/238 (7%)

Query: 343 AKAFSQMTNLRLLKIDN--LQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNM 400
           A   +  T L LL + +  L     LE LS  LR LD +   ++ L     +E     + 
Sbjct: 51  AADLAPFTKLELLNLSSNVLYETLDLESLST-LRTLDLNNNYVQELLVGPSIE---TLHA 106

Query: 401 CYSRIEELWNEIKYLNMLKVMKLSHSQ-NLIKTPDFTGVPNLEELILEGCTRLHEIHPSL 459
             + I  +          K + L++++  +++  D      ++ L L+    +  ++ + 
Sbjct: 107 ANNNISRVSCSR--GQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLN-EIDTVNFAE 163

Query: 460 LLHS--KLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELF 517
           L  S   L  LNL+    +  + G++    LKTL LS   KL     EF  S   ++ + 
Sbjct: 164 LAASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLSSN-KLAFMGPEF-QSAAGVTWIS 220

Query: 518 LDRTTIEELPLSIQHLTGLVLLNLKD----CKNLKSLSHTLRRLQCLKNLTLSGCSKL 571
           L    +  +  +++    L   +L+     C  L+      +R+Q +   T+   +  
Sbjct: 221 LRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQ 278

>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 = 99.4 bits (248), Expect = 7e-22
 Identities = 86/405 (21%), Positives = 141/405 (34%), Gaps = 94/405 (23%)

Query: 423 LSHSQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTT 478
           L   +N IKT    +F   P+LEEL L     +  + P    +   L  L L+    L  
Sbjct: 37  LDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSN-RLKL 94

Query: 479 LPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLV 537
           +P  +                      F G +++L++L +    I  L   + Q L  L 
Sbjct: 95  IPLGV----------------------FTG-LSNLTKLDISENKIVILLDYMFQDLYNLK 131

Query: 538 LLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLKKFP-ESLGSMKDLMELFLDGTSIA 595
            L + D   L  +S      L  L+ LTL  C  L   P E+L  +  L+ L L   +I 
Sbjct: 132 SLEVGDND-LVYISHRAFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHLNIN 189

Query: 596 EVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE-TLGQVE 653
            +     + L  L++L +++   L  +        +L +L+++ C  L  VP   +  + 
Sbjct: 190 AIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLV 248

Query: 654 SLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL 713
            L  L++S   I     S+                                         
Sbjct: 249 YLRFLNLSYNPISTIEGSML---------------------------------------- 268

Query: 714 MLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASI-NSLFN 771
                  L  L ++ L    L    +       L  L+ LN+S N   TL  S+ +S+ N
Sbjct: 269 -----HELLRLQEIQLVGGQLAV--VEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGN 321

Query: 772 LGQLDLE------DCKRLQSMPQLPSNLYEVQVNG-CASLVTLSG 809
           L  L L+      DC RL  + +    L   +    CA+   + G
Sbjct: 322 LETLILDSNPLACDC-RLLWVFRRRWRLNFNRQQPTCATPEFVQG 365

>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 = 98.3 bits (245), Expect = 2e-21
 Identities = 65/333 (19%), Positives = 122/333 (36%), Gaps = 42/333 (12%)

Query: 439 PNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSG 495
                L L    R+  ++         L  L L +   ++ +      ++ +L+TL L  
Sbjct: 32  TETRLLDLGK-NRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRS 89

Query: 496 CLKLTK-KCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSLS-H 552
             +L       F G +++L++L +    I  L   + Q L  L  L + D   L  +S  
Sbjct: 90  N-RLKLIPLGVFTG-LSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDND-LVYISHR 146

Query: 553 TLRRLQCLKNLTLSGCSKLKKFP-ESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLL 610
               L  L+ LTL  C  L   P E+L  +  L+ L L   +I  +     + L  L++L
Sbjct: 147 AFSGLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVL 205

Query: 611 NLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPP 669
            +++   L  +        +L +L+++ C  L  VP   +  +  L  L++S   I    
Sbjct: 206 EISHWPYLDTMTPNCLYGLNLTSLSITHC-NLTAVPYLAVRHLVYLRFLNLSYNPISTIE 264

Query: 670 SSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLD 728
            S+   +  L+ +   G                               +  GL+ L  L+
Sbjct: 265 GSMLHELLRLQEIQLVGGQ--------LAVVEPY--------------AFRGLNYLRVLN 302

Query: 729 LSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFV 760
           +S   L    +   +  ++ +L+ L L  N   
Sbjct: 303 VSGNQLT--TLEESVFHSVGNLETLILDSNPLA 333

>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 = 92.9 bits (231), Expect = 8e-20
 Identities = 60/279 (21%), Positives = 104/279 (37%), Gaps = 37/279 (13%)

Query: 512 DLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCS 569
           +   L L +  I+ L          L  L L +   + ++       L  L+ L L    
Sbjct: 33  ETRLLDLGKNRIKTLNQDEFASFPHLEELELNEN-IVSAVEPGAFNNLFNLRTLGLRSN- 90

Query: 570 KLKKFP-ESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPS-CIN 626
           +LK  P      + +L +L +    I  +   + + L  L+ L + +  +LV +     +
Sbjct: 91  RLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDN-DLVYISHRAFS 149

Query: 627 GLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFS 684
           GL SL+ L L  C  L ++P E L  +  L  L +    I       F  +  LK L  S
Sbjct: 150 GLNSLEQLTLEKC-NLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEIS 208

Query: 685 GCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPND-I 743
                                     +  M P+     +L+ L ++ C L    +P   +
Sbjct: 209 HWPY----------------------LDTMTPNCLYGLNLTSLSITHCNLTA--VPYLAV 244

Query: 744 GNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCK 781
            +L  L+ LNLS N   T+  S+ + L  L ++ L   +
Sbjct: 245 RHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQ 283

>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 = 88.6 bits (220), Expect = 2e-18
 Identities = 68/353 (19%), Positives = 131/353 (37%), Gaps = 82/353 (23%)

Query: 343 AKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCY 402
              F+   +L  L+++            N +  ++         P  F            
Sbjct: 49  QDEFASFPHLEELELNE-----------NIVSAVE---------PGAFN----------- 77

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNLIKT-PD--FTGVPNLEELILEGCTRLHEIHPSL 459
                       L  L+ + L    N +K  P   FTG+ NL +L +    ++  +   +
Sbjct: 78  -----------NLFNLRTLGLRS--NRLKLIPLGVFTGLSNLTKLDISEN-KIVILLDYM 123

Query: 460 LLH-SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFL 518
                 L  L + D   L  +  +                       F+G +N L +L L
Sbjct: 124 FQDLYNLKSLEVGDN-DLVYISHRA----------------------FSG-LNSLEQLTL 159

Query: 519 DRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSLSH-TLRRLQCLKNLTLSGCSKLKKFPE 576
           ++  +  +P  ++ HL GL++L L+   N+ ++   + +RL  LK L +S    L     
Sbjct: 160 EKCNLTSIPTEALSHLHGLIVLRLRHL-NINAIRDYSFKRLYRLKVLEISHWPYLDTMTP 218

Query: 577 SLGSMKDLMELFLDGTSIAEVPS-SIELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTL 634
           +     +L  L +   ++  VP  ++  L  L+ LNL+  + +  +   + + L  L+ +
Sbjct: 219 NCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSY-NPISTIEGSMLHELLRLQEI 277

Query: 635 NLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSG 685
            L G  +L  V       +  L  L++SG  +     S+F  + NL+TL    
Sbjct: 278 QLVGG-QLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDS 329

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 98.5 bits (245), Expect = 2e-21
 Identities = 51/283 (18%), Positives = 86/283 (30%), Gaps = 52/283 (18%)

Query: 521 TTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGS 580
            T  +   +        L      + +  L   L  +     L L+    L   P++L  
Sbjct: 24  GTYADYFSAWDKWEKQALPGENRNEAVSLLKECL--INQFSELQLNRL-NLSSLPDNLP- 79

Query: 581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS 640
              +  L +   ++  +P     L  L   +      L  LP       SLK L++    
Sbjct: 80  -PQITVLEITQNALISLPELPASLEYLDACDNR----LSTLPE---LPASLKHLDVDNN- 130

Query: 641 KLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFP 700
           +L  +PE       LE ++     +   P       +L+ LS                  
Sbjct: 131 QLTMLPELPAL---LEYINADNNQLTMLPELP---TSLEVLSVRN--------------- 169

Query: 701 FNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQ----LNLSQ 756
            N +          LP L    SL  LD+S   L    +P         ++        +
Sbjct: 170 -NQLTF--------LPEL--PESLEALDVSTNLLES--LPAVPVRNHHSEETEIFFRCRE 216

Query: 757 NNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVN 799
           N    +P +I SL     + LED   L S  +   +    Q +
Sbjct: 217 NRITHIPENILSLDPTCTIILEDN-PLSSRIRESLSQQTAQPD 258

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 86.6 bits (214), Expect = 1e-17
 Identities = 54/331 (16%), Positives = 97/331 (29%), Gaps = 67/331 (20%)

Query: 474 TSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQ 531
            +++        +    +   L G  +     L     +N  SEL L+R  +  LP ++ 
Sbjct: 20  NTISGTYADYFSAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSLPDNL- 78

Query: 532 HLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDG 591
               + +L +     L SL         L+ L      +L   PE   S+K    L +D 
Sbjct: 79  -PPQITVLEITQNA-LISLP---ELPASLEYLDACDN-RLSTLPELPASLK---HLDVDN 129

Query: 592 TSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQ 651
             +  +P   EL   L+ +N +N   L  LP       SL+ L++    +L  +PE    
Sbjct: 130 NQLTMLP---ELPALLEYINADNN-QLTMLPELP---TSLEVLSVRNN-QLTFLPELPE- 180

Query: 652 VESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPV 711
             SLE LD+S   +   P+     ++ +                                
Sbjct: 181 --SLEALDVSTNLLESLPAVPVRNHHSEET------------------------------ 208

Query: 712 ALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFN 771
                              +  +    IP +I +L     + L  N   +      S   
Sbjct: 209 ------------EIFFRCRENRITH--IPENILSLDPTCTIILEDNPLSSRIRESLSQQT 254

Query: 772 LGQLDLEDCKRLQSMPQLPSNLYEVQVNGCA 802
                              + L+    +   
Sbjct: 255 AQPDYHGPRIYFSMSDGQQNTLHRPLADAVT 285

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 68.1 bits (166), Expect = 7e-12
 Identities = 46/276 (16%), Positives = 85/276 (30%), Gaps = 44/276 (15%)

Query: 344 KAFSQMTNLRLLKIDNLQLPEGL-EYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCY 402
            A+ +     L   +  +    L E L N+   L  +R  L SLP N    +     +  
Sbjct: 31  SAWDKWEKQALPGENRNEAVSLLKECLINQFSELQLNRLNLSSLPDNL-PPQITVLEITQ 89

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNLIKT-PDFTGVPNLEELILEGCTRLHEIHPSLLL 461
           + +  L      L  L         N + T P+     +L+ L ++   +L  + P L  
Sbjct: 90  NALISLPELPASLEYLDA-----CDNRLSTLPEL--PASLKHLDVDNN-QLTML-PELP- 139

Query: 462 HSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRT 521
            + L  +N  +   LT LP   +  SL+ L +    +LT            L  L +   
Sbjct: 140 -ALLEYINADN-NQLTMLPELPT--SLEVLSVRNN-QLT----FLPELPESLEALDVSTN 190

Query: 522 TIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSM 581
            +E LP             +                            ++   PE++ S+
Sbjct: 191 LLESLPAVPVRNHHSEETEIF--------------------FRCREN-RITHIPENILSL 229

Query: 582 KDLMELFLDGTSIAEVP-SSIELLTGLQLLNLNNCS 616
                + L+   ++     S+   T     +     
Sbjct: 230 DPTCTIILEDNPLSSRIRESLSQQTAQPDYHGPRIY 265

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 94.5 bits (236), Expect = 4e-21
 Identities = 55/286 (19%), Positives = 98/286 (34%), Gaps = 48/286 (16%)

Query: 508 GSMNDLSELFLDRTTIE---ELPLSIQHLTGLVLLNLKDCKNLK-SLSHTLRRLQCLKNL 563
                ++ L L    +     +P S+ +L  L  L +    NL   +   + +L  L  L
Sbjct: 47  TQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYL 106

Query: 564 TLSGCSKLKKFPESLGSMKDLMELFLDGTSIA-EVPSSIELLTGLQLLNL-NNCSNLV-R 620
            ++  +     P+ L  +K L+ L     +++  +P SI  L  L  +    N   +   
Sbjct: 107 YITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGN--RISGA 164

Query: 621 LPSCINGLRSLKT-LNLSGCSKLQ-NVPETLGQVESLEELDIS-----GTAIRRPPSSIF 673
           +P        L T + +S    L   +P T   + +L  +D+S     G A         
Sbjct: 165 IPDSYGSFSKLFTSMTISRNR-LTGKIPPTFANL-NLAFVDLSRNMLEGDA----SVLFG 218

Query: 674 VMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCG 733
              N + +  +  N              +L           L  +    +L+ LDL +  
Sbjct: 219 SDKNTQKIHLAK-N--------------SLAFD--------LGKVGLSKNLNGLDLRNNR 255

Query: 734 LGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDLE 778
           +  G +P  +  L  L  LN+S NN    +P   N L         
Sbjct: 256 I-YGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGN-LQRFDVSAYA 299

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 90.3 bits (225), Expect = 9e-20
 Identities = 53/223 (23%), Positives = 94/223 (42%), Gaps = 34/223 (15%)

Query: 575 PESLGSMKDLMELFLDGTSI---AEVPSSIELLTGLQLLNLNNCSNLV-RLPSCINGLRS 630
            ++      +  L L G ++     +PSS+  L  L  L +   +NLV  +P  I  L  
Sbjct: 43  CDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQ 102

Query: 631 LKTLNLSGCSKLQ-NVPETLGQVESLEELDISGTAIRRP-PSSIFVMNNLKTLSFSGCN- 687
           L  L ++    +   +P+ L Q+++L  LD S  A+    P SI  + NL  ++F G   
Sbjct: 103 LHYLYITHT-NVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRI 161

Query: 688 -GP-PSSTSWHWHFPFNLMGQRSYPVALML----------PSLSGLHSLSKLDLSDCGLG 735
            G  P S         +         ++ +          P+ + L +L+ +DLS   L 
Sbjct: 162 SGAIPDSY-------GSF---SKLFTSMTISRNRLTGKIPPTFANL-NLAFVDLSRNML- 209

Query: 736 EGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDL 777
           EG      G+  + ++++L++N+    L   +    NL  LDL
Sbjct: 210 EGDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDL 251

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 70.3 bits (173), Expect = 5e-13
 Identities = 39/137 (28%), Positives = 61/137 (44%), Gaps = 26/137 (18%)

Query: 645 VPETLGQVESLEELDISGTAIRRP---PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPF 701
           + +T  Q   +  LD+SG  + +P   PSS+  +  L  L   G N              
Sbjct: 42  LCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGIN-------------- 87

Query: 702 NLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV- 760
           NL+G    P     P+++ L  L  L ++   +  GAIP+ +  + +L  L+ S N    
Sbjct: 88  NLVG--PIP-----PAIAKLTQLHYLYITHTNV-SGAIPDFLSQIKTLVTLDFSYNALSG 139

Query: 761 TLPASINSLFNLGQLDL 777
           TLP SI+SL NL  +  
Sbjct: 140 TLPPSISSLPNLVGITF 156

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 70.3 bits (173), Expect = 5e-13
 Identities = 35/186 (18%), Positives = 58/186 (31%), Gaps = 51/186 (27%)

Query: 597 VPSSIELLTGLQLLNL--NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQ-NVPETLGQVE 653
           +  +      +  L+L   N      +PS +  L  L  L + G + L   +P  + ++ 
Sbjct: 42  LCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLT 101

Query: 654 SLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL 713
            L  L I+ T                  + SG              P             
Sbjct: 102 QLHYLYITHT------------------NVSG------------AIP------------- 118

Query: 714 MLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNL 772
               LS + +L  LD S   L  G +P  I +L +L  +    N     +P S  S   L
Sbjct: 119 --DFLSQIKTLVTLDFSYNAL-SGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL 175

Query: 773 GQ-LDL 777
              + +
Sbjct: 176 FTSMTI 181

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 57.2 bits (139), Expect = 9e-09
 Identities = 23/114 (20%), Positives = 34/114 (29%), Gaps = 21/114 (18%)

Query: 669 PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLD 728
             +      +  L  SG N               L      P      SL+ L  L+ L 
Sbjct: 43  CDTDTQTYRVNNLDLSGLN---------------LPKPYPIP-----SSLANLPYLNFLY 82

Query: 729 LSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDLEDCK 781
           +       G IP  I  L  L  L ++  N    +P  ++ +  L  LD     
Sbjct: 83  IGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNA 136

>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 = 94.1 bits (234), Expect = 4e-20
 Identities = 53/341 (15%), Positives = 109/341 (31%), Gaps = 47/341 (13%)

Query: 505 EFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKN 562
           E   + N      +  +++++   S+ Q    +  L+L     L  +S   L     L+ 
Sbjct: 4   EIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNP-LSQISAADLAPFTKLEL 62

Query: 563 LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP 622
           L LS    L +  + L S+  L  L L+   +      + +   ++ L+  N  N+ R+ 
Sbjct: 63  LNLSSN-VLYETLD-LESLSTLRTLDLNNNYV----QELLVGPSIETLHAANN-NISRVS 115

Query: 623 SCINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV--MNNLK 679
              +  +  K + L+   K+  + +   G    ++ LD+    I     +      + L+
Sbjct: 116 C--SRGQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLE 172

Query: 680 TLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAI 739
            L+                    +           +        L  LDLS   L    +
Sbjct: 173 HLNLQYNF---------------IY---------DVKGQVVFAKLKTLDLSSNKLAF--M 206

Query: 740 PNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK-RLQSMPQLPSNLYEVQV 798
             +  +   +  ++L  N  V +  ++    NL   DL        ++    S    VQ 
Sbjct: 207 GPEFQSAAGVTWISLRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQT 266

Query: 799 NGCASLVTLSG----ALKLCKSKCTSINCIGSLKLAGNNGL 835
               ++  L+G       +         C   L     + L
Sbjct: 267 VAKQTVKKLTGQNEEECTVPTLGHYGAYCCEDLPAPFADRL 307

>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 = 94.1 bits (234), Expect = 4e-20
 Identities = 51/439 (11%), Positives = 126/439 (28%), Gaps = 44/439 (10%)

Query: 369 LSNKLRLLDWHRYPLKSLPSNF--QLEKTVEFNMCYSRIEEL-WNEIKYLNMLKVMKLSH 425
             N+ ++       LK   ++         E ++  + + ++   ++     L+++ LS 
Sbjct: 8   NGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLSS 67

Query: 426 SQNLIKT-PDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKIS 484
             N++    D   +  L  L L     + E+         +  L+  +  +++ +     
Sbjct: 68  --NVLYETLDLESLSTLRTLDLNNN-YVQELLV----GPSIETLHAAN-NNISRVSCSR- 118

Query: 485 MKSLKTLVLSGCLKLTK-KCLEFAGSMNDLSELFLDRTTIEELPLS--IQHLTGLVLLNL 541
            +  K + L+   K+T  + L+     + +  L L    I+ +  +        L  LNL
Sbjct: 119 GQGKKNIYLANN-KITMLRDLDEGC-RSRVQYLDLKLNEIDTVNFAELAASSDTLEHLNL 176

Query: 542 KDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI 601
           +    +  +   +     LK L LS   KL        S   +  + L    +  +  ++
Sbjct: 177 QYNF-IYDVKGQVV-FAKLKTLDLSSN-KLAFMGPEFQSAAGVTWISLRNNKLVLIEKAL 233

Query: 602 ELLTGLQLLNL-NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI 660
                L+  +L  N  +   L    +  + ++T+      KL    E             
Sbjct: 234 RFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECT--VPTLGHY 291

Query: 661 SGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSG 720
                   P+     + L  L                     L+  +      +      
Sbjct: 292 GAYCCEDLPAPFA--DRLIALKRKE---------------HALLSGQGSETERLECEREN 334

Query: 721 LHSLSKLDLSDCGLGEGAIPNDIG-NLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED 779
                ++D          + + +     +   L   +       ++           L+ 
Sbjct: 335 QARQREIDALKEQYRT--VIDQVTLRKQAKITLEQKKKALDEQVSNGRRAHAELDGTLQQ 392

Query: 780 CKRLQSMPQLPSNLYEVQV 798
                 +         +Q+
Sbjct: 393 AVGQIELQHATEEQSPLQL 411

>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 = 81.8 bits (202), Expect = 3e-16
 Identities = 56/340 (16%), Positives = 119/340 (35%), Gaps = 19/340 (5%)

Query: 343 AKAFSQMTNLRLLKIDN--LQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNM 400
           A   +  T L LL + +  L     LE LS  LR LD +   ++ L     +E     + 
Sbjct: 51  AADLAPFTKLELLNLSSNVLYETLDLESLST-LRTLDLNNNYVQELLVGPSIE---TLHA 106

Query: 401 CYSRIEELWNEIKYLNMLKVMKLSHSQ-NLIKTPDFTGVPNLEELILEGCTRLHEIHPSL 459
             + I  +          K + L++++  +++  D      ++ L L+    +  ++ + 
Sbjct: 107 ANNNISRV--SCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKL-NEIDTVNFAE 163

Query: 460 LLHS--KLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELF 517
           L  S   L  LNL+    +  + G++    LKTL LS   KL     EF      ++ + 
Sbjct: 164 LAASSDTLEHLNLQYN-FIYDVKGQVVFAKLKTLDLSSN-KLAFMGPEFQS-AAGVTWIS 220

Query: 518 LDRTTIEELPLSIQHLTGLVLLNLKD----CKNLKSLSHTLRRLQCLKNLTLSGCSKLKK 573
           L    +  +  +++    L   +L+     C  L+      +R+Q +   T+   +   +
Sbjct: 221 LRNNKLVLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNE 280

Query: 574 FPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKT 633
              ++ ++        +          I L      L     S   RL          + 
Sbjct: 281 EECTVPTLGHYGAYCCEDLPAPFADRLIALKRKEHALLSGQGSETERLECERENQARQRE 340

Query: 634 LNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIF 673
           ++         + +   + ++   L+    A+    S+  
Sbjct: 341 IDALKEQYRTVIDQVTLRKQAKITLEQKKKALDEQVSNGR 380

>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 = 79.5 bits (196), Expect = 2e-15
 Identities = 43/240 (17%), Positives = 81/240 (33%), Gaps = 34/240 (14%)

Query: 549 SLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEV-PSSIELLTGL 607
           ++    +     K   ++  S  +       S  ++ EL L G  ++++  + +   T L
Sbjct: 1   AIHEIKQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKL 60

Query: 608 QLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRR 667
           +LLNL++  N++     +  L +L+TL+L+      N  + L    S+E L  +   I R
Sbjct: 61  ELLNLSS--NVLYETLDLESLSTLRTLDLNN-----NYVQELLVGPSIETLHAANNNISR 113

Query: 668 PPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKL 727
              S       K +  +                  +         L          +  L
Sbjct: 114 VSCSRG--QGKKNIYLANNK---------------I-------TMLRDLDEGCRSRVQYL 149

Query: 728 DLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMP 787
           DL    +          +  +L+ LNL  N    +   +     L  LDL    +L  M 
Sbjct: 150 DLKLNEIDTVNFAELAASSDTLEHLNLQYNFIYDVKGQVV-FAKLKTLDLSSN-KLAFMG 207

>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 = 91.7 bits (228), Expect = 2e-19
 Identities = 63/275 (22%), Positives = 97/275 (35%), Gaps = 58/275 (21%)

Query: 512 DLSELFLDRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCS 569
           +   L L    I+ +   + +HL  L +L L    +++ +       L  L  L L    
Sbjct: 76  NTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLELFDN- 133

Query: 570 KLKKFP-ESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCI-N 626
            L   P  +   +  L EL+L    I  +PS     +  L  L+L     L  +      
Sbjct: 134 WLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFE 193

Query: 627 GLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGC 686
           GL +LK LNL  C  ++++P  L  +  LEEL++SG          F             
Sbjct: 194 GLFNLKYLNLGMC-NIKDMP-NLTPLVGLEELEMSGNHFPEIRPGSF------------- 238

Query: 687 NGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPND-IGN 745
                                            GL SL KL + +  +    I  +    
Sbjct: 239 --------------------------------HGLSSLKKLWVMNSQVSL--IERNAFDG 264

Query: 746 LCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLED 779
           L SL +LNL+ NN  +LP  +   L  L +L L  
Sbjct: 265 LASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHH 299

>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 = 81.7 bits (202), Expect = 3e-16
 Identities = 60/246 (24%), Positives = 94/246 (38%), Gaps = 38/246 (15%)

Query: 426 SQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPG 481
            +N I+      F  + +LE L L     + +I        + L  L L D   LT +P 
Sbjct: 83  MENNIQMIQADTFRHLHHLEVLQLGRN-SIRQIEVGAFNGLASLNTLELFDN-WLTVIPS 140

Query: 482 KISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLN 540
                                   F   ++ L EL+L    IE +P      +  L+ L+
Sbjct: 141 GA----------------------FEY-LSKLRELWLRNNPIESIPSYAFNRVPSLMRLD 177

Query: 541 LKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPS 599
           L + K L+ +S      L  LK L L  C  +K  P +L  +  L EL + G    E+  
Sbjct: 178 LGELKKLEYISEGAFEGLFNLKYLNLGMC-NIKDMP-NLTPLVGLEELEMSGNHFPEIRP 235

Query: 600 -SIELLTGLQLLNLNNCSNLVRLPSC-INGLRSLKTLNLSGCSKLQNVPE-TLGQVESLE 656
            S   L+ L+ L + N   +  +     +GL SL  LNL+    L ++P      +  L 
Sbjct: 236 GSFHGLSSLKKLWVMNS-QVSLIERNAFDGLASLVELNLAHN-NLSSLPHDLFTPLRYLV 293

Query: 657 ELDISG 662
           EL +  
Sbjct: 294 ELHLHH 299

>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 = 80.9 bits (200), Expect = 5e-16
 Identities = 49/232 (21%), Positives = 99/232 (42%), Gaps = 20/232 (8%)

Query: 465 LVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLE---FAGSMNDLSELFLD 519
              LNL +  ++  +       +  L+ L L     + +  +E   F G +  L+ L L 
Sbjct: 77  TRYLNLME-NNIQMIQADTFRHLHHLEVLQLGRN-SIRQ--IEVGAFNG-LASLNTLELF 131

Query: 520 RTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCSKLKKFPE- 576
              +  +P    ++L+ L  L L++   ++S+ S+   R+  L  L L    KL+   E 
Sbjct: 132 DNWLTVIPSGAFEYLSKLRELWLRNNP-IESIPSYAFNRVPSLMRLDLGELKKLEYISEG 190

Query: 577 SLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPS-CINGLRSLKTLN 635
           +   + +L  L L   +I ++P+ +  L GL+ L ++  ++   +     +GL SLK L 
Sbjct: 191 AFEGLFNLKYLNLGMCNIKDMPN-LTPLVGLEELEMSG-NHFPEIRPGSFHGLSSLKKLW 248

Query: 636 LSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSG 685
           +    ++  +       + SL EL+++   +   P  +F  +  L  L    
Sbjct: 249 VMNS-QVSLIERNAFDGLASLVELNLAHNNLSSLPHDLFTPLRYLVELHLHH 299

>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 = 78.2 bits (193), Expect = 3e-15
 Identities = 47/241 (19%), Positives = 89/241 (36%), Gaps = 44/241 (18%)

Query: 558 QCLKNLTLSGCSK--LKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNN 614
            C    +   C++  L + P+ +    +   L L   +I  + +     L  L++L L  
Sbjct: 51  SCSNQFSKVVCTRRGLSEVPQGI--PSNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGR 108

Query: 615 CSNLVRLPS-CINGLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSI 672
             ++ ++     NGL SL TL L     L  +P      +  L EL +    I   PS  
Sbjct: 109 N-SIRQIEVGAFNGLASLNTLELFDN-WLTVIPSGAFEYLSKLRELWLRNNPIESIPSYA 166

Query: 673 FV-MNNLKTLSFSGCNG----PPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKL 727
           F  + +L  L              +                           GL +L  L
Sbjct: 167 FNRVPSLMRLDLGELKKLEYISEGA-------------------------FEGLFNLKYL 201

Query: 728 DLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPA-SINSLFNLGQLDLEDCKRLQSM 786
           +L  C + +  +P ++  L  L++L +S N+F  +   S + L +L +L + +  ++  +
Sbjct: 202 NLGMCNIKD--MP-NLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS-QVSLI 257

Query: 787 P 787
            
Sbjct: 258 E 258

>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 = 58.6 bits (142), Expect = 5e-09
 Identities = 55/239 (23%), Positives = 92/239 (38%), Gaps = 45/239 (18%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSN-FQLEKTVE 397
           A  F  + +L +L++    +          L++ L  L+     L  +PS  F+      
Sbjct: 92  ADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLAS-LNTLELFDNWLTVIPSGAFE------ 144

Query: 398 FNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKT-PD--FTGVPNLEELILEGCTRLHE 454
                           YL+ L+ + L +  N I++ P   F  VP+L  L L    +L  
Sbjct: 145 ----------------YLSKLRELWLRN--NPIESIPSYAFNRVPSLMRLDLGELKKLEY 186

Query: 455 IHPSLLLH-SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLE---FAGSM 510
           I          L  LNL  C ++  +P    +  L+ L +SG     +  +    F G +
Sbjct: 187 ISEGAFEGLFNLKYLNLGMC-NIKDMPNLTPLVGLEELEMSGN-HFPE--IRPGSFHG-L 241

Query: 511 NDLSELFLDRTTIEELPL-SIQHLTGLVLLNLKDCKNLKSLSH-TLRRLQCLKNLTLSG 567
           + L +L++  + +  +   +   L  LV LNL    NL SL H     L+ L  L L  
Sbjct: 242 SSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHN-NLSSLPHDLFTPLRYLVELHLHH 299

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 91.0 bits (226), Expect = 2e-19
 Identities = 67/314 (21%), Positives = 109/314 (34%), Gaps = 68/314 (21%)

Query: 512 DLSELFLDRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCS 569
           +   L L    I+ +   S +HL  L +L L     ++++       L  L  L L    
Sbjct: 65  NTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNH-IRTIEIGAFNGLANLNTLELFDN- 122

Query: 570 KLKKFPE-SLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPS-CIN 626
           +L   P  +   +  L EL+L    I  +PS     +  L+ L+L     L  +      
Sbjct: 123 RLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFE 182

Query: 627 GLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGC 686
           GL +L+ LNL+ C  L+ +P  L  +  L+ELD+SG  +       F             
Sbjct: 183 GLSNLRYLNLAMC-NLREIP-NLTPLIKLDELDLSGNHLSAIRPGSF------------- 227

Query: 687 NGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPND-IGN 745
                                            GL  L KL +    +    I  +   N
Sbjct: 228 --------------------------------QGLMHLQKLWMIQSQIQV--IERNAFDN 253

Query: 746 LCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLE------DCKRL---QSMPQLPSNLYE 795
           L SL ++NL+ NN   LP  +   L +L ++ L       +C  L     +  +  +   
Sbjct: 254 LQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHHNPWNCNCDILWLSWWIKDMAPSNTA 313

Query: 796 VQVNGCASLVTLSG 809
                C +   L G
Sbjct: 314 CCAR-CNTPPNLKG 326

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 80.9 bits (200), Expect = 4e-16
 Identities = 57/239 (23%), Positives = 91/239 (38%), Gaps = 35/239 (14%)

Query: 430 IKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKISMKSL 488
           IK   F  + +LE L L     +  I        + L  L L D   LTT+P        
Sbjct: 79  IKVNSFKHLRHLEILQLSRN-HIRTIEIGAFNGLANLNTLELFDN-RLTTIPNGA----- 131

Query: 489 KTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNL 547
                            F   ++ L EL+L    IE +P      +  L  L+L + K L
Sbjct: 132 -----------------FVY-LSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRL 173

Query: 548 KSLS-HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPS-SIELLT 605
             +S      L  L+ L L+ C  L++ P +L  +  L EL L G  ++ +   S + L 
Sbjct: 174 SYISEGAFEGLSNLRYLNLAMC-NLREIP-NLTPLIKLDELDLSGNHLSAIRPGSFQGLM 231

Query: 606 GLQLLNLNNCSNLVRLPSC-INGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISG 662
            LQ L +     +  +     + L+SL  +NL+    L  +P      +  LE + +  
Sbjct: 232 HLQKLWMIQS-QIQVIERNAFDNLQSLVEINLAHN-NLTLLPHDLFTPLHHLERIHLHH 288

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 80.6 bits (199), Expect = 6e-16
 Identities = 48/232 (20%), Positives = 101/232 (43%), Gaps = 20/232 (8%)

Query: 465 LVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLE---FAGSMNDLSELFLD 519
             +LNL +   +  +       ++ L+ L LS    +    +E   F G  N L+ L L 
Sbjct: 66  TRLLNLHE-NQIQIIKVNSFKHLRHLEILQLSRN-HIRT--IEIGAFNGLAN-LNTLELF 120

Query: 520 RTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCSKLKKFPE- 576
              +  +P     +L+ L  L L++   ++S+ S+   R+  L+ L L    +L    E 
Sbjct: 121 DNRLTTIPNGAFVYLSKLKELWLRNNP-IESIPSYAFNRIPSLRRLDLGELKRLSYISEG 179

Query: 577 SLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPS-CINGLRSLKTLN 635
           +   + +L  L L   ++ E+P+ +  L  L  L+L+   +L  +      GL  L+ L 
Sbjct: 180 AFEGLSNLRYLNLAMCNLREIPN-LTPLIKLDELDLSGN-HLSAIRPGSFQGLMHLQKLW 237

Query: 636 LSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSG 685
           +    ++Q +       ++SL E++++   +   P  +F  +++L+ +    
Sbjct: 238 MIQS-QIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHLHH 288

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 77.9 bits (192), Expect = 4e-15
 Identities = 50/237 (21%), Positives = 93/237 (39%), Gaps = 36/237 (15%)

Query: 558 QCLKNLTLSGCSK--LKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNN 614
            C    +   C +  L++ P+ + +  +   L L    I  +  +  + L  L++L L+ 
Sbjct: 40  SCSNQFSKVICVRKNLREVPDGIST--NTRLLNLHENQIQIIKVNSFKHLRHLEILQLSR 97

Query: 615 CSNLVRLPS-CINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSI 672
             ++  +     NGL +L TL L    +L  +P      +  L+EL +    I   PS  
Sbjct: 98  N-HIRTIEIGAFNGLANLNTLELFDN-RLTTIPNGAFVYLSKLKELWLRNNPIESIPSYA 155

Query: 673 FV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSD 731
           F  + +L+ L           +                       +  GL +L  L+L+ 
Sbjct: 156 FNRIPSLRRLDLGELK---RLSYISEG------------------AFEGLSNLRYLNLAM 194

Query: 732 CGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPA-SINSLFNLGQLDLEDCKRLQSMP 787
           C L E  IP ++  L  L +L+LS N+   +   S   L +L +L +    ++Q + 
Sbjct: 195 CNLRE--IP-NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS-QIQVIE 247

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 60.9 bits (148), Expect = 9e-10
 Identities = 57/239 (23%), Positives = 94/239 (39%), Gaps = 45/239 (18%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSN-FQLEKTVE 397
             +F  + +L +L++    +          L+N L  L+     L ++P+  F       
Sbjct: 81  VNSFKHLRHLEILQLSRNHIRTIEIGAFNGLAN-LNTLELFDNRLTTIPNGAFV------ 133

Query: 398 FNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKT-PD--FTGVPNLEELILEGCTRLHE 454
                           YL+ LK + L +  N I++ P   F  +P+L  L L    RL  
Sbjct: 134 ----------------YLSKLKELWLRN--NPIESIPSYAFNRIPSLRRLDLGELKRLSY 175

Query: 455 IHPSLLLH-SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLE---FAGSM 510
           I        S L  LNL  C +L  +P    +  L  L LSG   L+   +    F G +
Sbjct: 176 ISEGAFEGLSNLRYLNLAMC-NLREIPNLTPLIKLDELDLSGN-HLSA--IRPGSFQG-L 230

Query: 511 NDLSELFLDRTTIEELPL-SIQHLTGLVLLNLKDCKNLKSLSH-TLRRLQCLKNLTLSG 567
             L +L++ ++ I+ +   +  +L  LV +NL    NL  L H     L  L+ + L  
Sbjct: 231 MHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHN-NLTLLPHDLFTPLHHLERIHLHH 288

>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 = 91.9 bits (228), Expect = 3e-19
 Identities = 61/438 (13%), Positives = 126/438 (28%), Gaps = 44/438 (10%)

Query: 388 SNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILE 447
           + F L            + E+ N ++ L  +   ++  S   +         +LE L L+
Sbjct: 87  AMFNLIPENWGGYVTPWVTEISNNLRQLKSVHFRRMIVSDLDLDRLAKARADDLETLKLD 146

Query: 448 GCTRLHEIHPSLLLHS--KLVILNLKDCTSLTTLPGKIS-----MKSLKTLVLS--GCLK 498
            C+         ++    K+  L +++ +        +        SL+ L        K
Sbjct: 147 KCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAK 206

Query: 499 LTKKCLE-FAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRL 557
           ++ K LE  A +   L  + +    I EL    +    L             +      L
Sbjct: 207 ISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNL 266

Query: 558 QCLKNLTLSGCSKL--KKFPESLGSMKDLMELFLDGTSI--AEVPSSIELLTGLQLLNLN 613
              + L   G S +   + P        + +L L    +   +  + I+    L++L   
Sbjct: 267 VFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETR 326

Query: 614 NCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVE------------SLEELDIS 661
           N      L       + LK L +   +  Q + +  G V              LE + + 
Sbjct: 327 NVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIALAQGCQELEYMAVY 386

Query: 662 GTAIRRPPSSIFVMN--NLKTLSFSGCNGPPSSTSWHWHFPFNLMGQ----------RSY 709
            + I             NL        +     T          +               
Sbjct: 387 VSDITNESLESIGTYLKNLCDFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLR 446

Query: 710 PVALMLPSL----SGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNF--VTLP 763
              L    L        ++  + L   G  +  +        +L++L +    F    + 
Sbjct: 447 QGGLTDLGLSYIGQYSPNVRWMLLGYVGESDEGLMEFSRGCPNLQKLEMRGCCFSERAIA 506

Query: 764 ASINSLFNLGQLDLEDCK 781
           A++  L +L  L ++  +
Sbjct: 507 AAVTKLPSLRYLWVQGYR 524

>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 = 85.8 bits (212), Expect = 3e-17
 Identities = 69/471 (14%), Positives = 137/471 (29%), Gaps = 82/471 (17%)

Query: 345 AFSQMTNLRLLKIDNLQL--PEGLEYLSNKLRLL-----------DWHRYPLKSLPSNFQ 391
           A ++  +L  LK+D       +GL  +    R +           +     L  L  +  
Sbjct: 133 AKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNT 192

Query: 392 LEKTVEFNMCYSR---IEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEEL---I 445
             + + F M        ++L    +    L  +K+   + L     F    NLEE     
Sbjct: 193 SLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAANLEEFCGGS 252

Query: 446 LEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLE 505
           L     + E + +L+   KL  L L                 ++ L L   L  T+    
Sbjct: 253 LNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCT 312

Query: 506 FAGSMNDLSELFLDRT-TIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRL--QCLKN 562
                 +L  L          L +  Q+   L  L ++   + + +      +  + L  
Sbjct: 313 LIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIERGADEQGMEDEEGLVSQRGLIA 372

Query: 563 LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP 622
           L   GC +L+           +    +   S+  + + ++ L   +L+ L+    +  LP
Sbjct: 373 L-AQGCQELEYM--------AVYVSDITNESLESIGTYLKNLCDFRLVLLDREERITDLP 423

Query: 623 SC------INGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMN 676
                   + G + L+                          D+  + I +         
Sbjct: 424 LDNGVRSLLIGCKKLRRFAFYLRQGGLT--------------DLGLSYIGQYSP------ 463

Query: 677 NLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGE 736
           N++ +         S                      ++    G  +L KL++  C   E
Sbjct: 464 NVRWMLLGYVGE--SDEG-------------------LMEFSRGCPNLQKLEMRGCCFSE 502

Query: 737 GAIPNDIGNLCSLKQLNLSQNNF----VTLPASINSLFNLGQLDLEDCKRL 783
            AI   +  L SL+ L +           L       +N+  +       +
Sbjct: 503 RAIAAAVTKLPSLRYLWVQGYRASMTGQDLMQMARPYWNIELIPSRRVPEV 553

>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 = 64.2 bits (156), Expect = 1e-10
 Identities = 45/313 (14%), Positives = 95/313 (30%), Gaps = 41/313 (13%)

Query: 539 LNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESL---------------GSMKD 583
           + +  C    +     RR   L++L L G  +   F                    +++ 
Sbjct: 55  VTMALCYTA-TPDRLSRRFPNLRSLKLKGKPRAAMFNLIPENWGGYVTPWVTEISNNLRQ 113

Query: 584 LMELFLDGTSIAEVPSSIELL-----TGLQLLNLNNCSNL--VRLPSCINGLRSLKTLNL 636
           L  +      +      ++ L       L+ L L+ CS      L S +   R +KTL +
Sbjct: 114 LKSVHFRRMIV--SDLDLDRLAKARADDLETLKLDKCSGFTTDGLLSIVTHCRKIKTLLM 171

Query: 637 SGCSKLQNVPETLGQV----ESLEELDISGTAIRRPPSSIFV-----MNNLKTLSFSGCN 687
              S  +   + L ++     SLE L+   T   +              +L ++      
Sbjct: 172 EESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFE 231

Query: 688 GPPSSTSWHW--HFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGN 745
                  +    +      G  +  + +    ++ +       L    +G   +P     
Sbjct: 232 ILELVGFFKAAANLEEFCGGSLNEDIGMPEKYMNLVFPRKLCRLGLSYMGPNEMPILFPF 291

Query: 746 LCSLKQLNLSQNNFVT--LPASINSLFNLGQLDLEDC---KRLQSMPQLPSNLYEVQVNG 800
              +++L+L      T      I    NL  L+  +    + L+ + Q    L  +++  
Sbjct: 292 AAQIRKLDLLYALLETEDHCTLIQKCPNLEVLETRNVIGDRGLEVLAQYCKQLKRLRIER 351

Query: 801 CASLVTLSGALKL 813
            A    +     L
Sbjct: 352 GADEQGMEDEEGL 364

>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 = 86.6 bits (215), Expect = 2e-18
 Identities = 53/254 (20%), Positives = 95/254 (37%), Gaps = 39/254 (15%)

Query: 560 LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIEL---LTGLQLLNLNNCS 616
              L L               +  L +L L    ++      +     T L+ L+L+   
Sbjct: 30  ATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN- 88

Query: 617 NLVRLPSCINGLRSLKTLNLSGCSKLQNVPE--TLGQVESLEELDISGTAIRRPPSSIFV 674
            ++ + S   GL  L+ L+      L+ + E      + +L  LDIS T  R   + IF 
Sbjct: 89  GVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN 147

Query: 675 -MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCG 733
            +++L+ L  +G +      ++                       + L +L+ LDLS C 
Sbjct: 148 GLSSLEVLKMAGNSF---QENFLPDI------------------FTELRNLTFLDLSQCQ 186

Query: 734 LGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMPQ--- 788
           L +  +      +L SL+ LN+S NNF +L       L +L  LD      + +  +   
Sbjct: 187 LEQ--LSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLN-HIMTSKKQEL 243

Query: 789 --LPSNLYEVQVNG 800
              PS+L  + +  
Sbjct: 244 QHFPSSLAFLNLTQ 257

>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 = 80.1 bits (198), Expect = 3e-16
 Identities = 54/258 (20%), Positives = 97/258 (37%), Gaps = 36/258 (13%)

Query: 512 DLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCK--NLKSLSHTLRRLQCLKNLTLSGC 568
             + L L+   ++ LP  +   LT L  L+L           S +      LK L LS  
Sbjct: 29  SATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN 88

Query: 569 SKLKKFPESLGSMKDLMELFLDGTSIAEVPSS--IELLTGLQLLNLNNCSNLVRLPSCI- 625
             +     +   ++ L  L    +++ ++        L  L  L++++  +     + I 
Sbjct: 89  -GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT-HTRVAFNGIF 146

Query: 626 NGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSF 683
           NGL SL+ L ++G S  +N       ++ +L  LD+S   + +   + F  +++L+ L+ 
Sbjct: 147 NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNM 206

Query: 684 SGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI 743
           S  N                        +L       L+SL  LD S   +         
Sbjct: 207 SHNN---------------FF-------SLDTFPYKCLNSLQVLDYSLNHIM--TSKKQE 242

Query: 744 --GNLCSLKQLNLSQNNF 759
                 SL  LNL+QN+F
Sbjct: 243 LQHFPSSLAFLNLTQNDF 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 = 75.4 bits (186), Expect = 8e-15
 Identities = 52/231 (22%), Positives = 86/231 (37%), Gaps = 40/231 (17%)

Query: 568 CS--KLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNL--NNCSNLVRLP 622
           C+   L   P  + S      L L+   +  +P  + + LT L  L+L  N  S      
Sbjct: 14  CNSKGLTSVPTGIPS--SATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCS 71

Query: 623 SCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRR-PPSSIFV-MNNLKT 680
               G  SLK L+LS    +  +      +E LE LD   + +++    S+F+ + NL  
Sbjct: 72  QSDFGTTSLKYLDLSFN-GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIY 130

Query: 681 LSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL-MLPS--LSGLHSLSKLDLSDCGLGEG 737
           L  S  +                           +  +   +GL SL  L ++     E 
Sbjct: 131 LDISHTH-------------------------TRVAFNGIFNGLSSLEVLKMAGNSFQEN 165

Query: 738 AIPNDIGNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMP 787
            +P+    L +L  L+LSQ     L  +  NSL +L  L++       S+ 
Sbjct: 166 FLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN-NFFSLD 215

>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 = 63.1 bits (154), Expect = 1e-10
 Identities = 40/208 (19%), Positives = 66/208 (31%), Gaps = 35/208 (16%)

Query: 415 LNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHS--KLVILNLKD 472
              LK + LS +  +  + +F G+  LE L  +    L ++    +  S   L+ L++  
Sbjct: 77  TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHS-NLKQMSEFSVFLSLRNLIYLDISH 135

Query: 473 CTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI 530
                     I   + SL+ L ++G               N L ++F             
Sbjct: 136 T-HTRVAFNGIFNGLSSLEVLKMAGNSFQE----------NFLPDIF------------- 171

Query: 531 QHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLKKFPES-LGSMKDLMELF 588
             L  L  L+L  C+ L+ LS      L  L+ L +S               +  L  L 
Sbjct: 172 TELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMSHN-NFFSLDTFPYKCLNSLQVLD 229

Query: 589 LDGTSIAEVPSSI--ELLTGLQLLNLNN 614
                I            + L  LNL  
Sbjct: 230 YSLNHIMTSKKQELQHFPSSLAFLNLTQ 257

>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 = 87.2 bits (216), Expect = 7e-18
 Identities = 76/457 (16%), Positives = 159/457 (34%), Gaps = 37/457 (8%)

Query: 343 AKAFSQMTNLRLLKIDNLQ---LPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFN 399
                 ++ LR+L I + +   L   +   + +L  LD     L  +  +         +
Sbjct: 38  TSDILSLSKLRILIISHNRIQYLDISVFKFNQELEYLDLSHNKLVKISCH-PTVNLKHLD 96

Query: 400 MCYSRIEEL--WNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEE----LILEGCTRLH 453
           + ++  + L    E   ++ LK + LS +   ++      + +L      L+L       
Sbjct: 97  LSFNAFDALPICKEFGNMSQLKFLGLSTTH--LEKSSVLPIAHLNISKVLLVLGETYGEK 154

Query: 454 EIHPSL--LLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMN 511
           E    L       L I+   +      L   +S+K++  L LS  +K   +  + +  ++
Sbjct: 155 EDPEGLQDFNTESLHIVFPTNKEFHFIL--DVSVKTVANLELSN-IKCVLEDNKCSYFLS 211

Query: 512 DLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKL 571
            L++L      +  L L+    T    + +       ++ +       + N+ L G    
Sbjct: 212 ILAKL-QTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYF-----SISNVKLQGQLDF 265

Query: 572 KKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRS 630
           + F  S  S+K L    +         S I E+ + + + N       +    C + +  
Sbjct: 266 RDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTRMVHMLCPSKISP 325

Query: 631 LKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV---MNNLKTLSFSGCN 687
              L+ S       V E  G +  LE L +    ++       +   M +L+ L  S  +
Sbjct: 326 FLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNS 385

Query: 688 GPPSSTSWHWHFPFNL----MGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI 743
                      +  +L    M                   +  LDL    +   +IP  +
Sbjct: 386 VSYDEKKGDCSWTKSLLSLNMSSNILT---DTIFRCLPPRIKVLDLHSNKI--KSIPKQV 440

Query: 744 GNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLED 779
             L +L++LN++ N   ++P  I + L +L ++ L  
Sbjct: 441 VKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHT 477

>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 = 64.5 bits (157), Expect = 9e-11
 Identities = 69/393 (17%), Positives = 126/393 (32%), Gaps = 59/393 (15%)

Query: 426 SQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPG 481
           SQN I      D   +  L  LI+    R+  +  S+     +L  L+L     L  +  
Sbjct: 29  SQNYISELWTSDILSLSKLRILIISHN-RIQYLDISVFKFNQELEYLDLSH-NKLVKISC 86

Query: 482 KISMKSLKTLVLSG-CLKLTKKCLEFAGSMNDLSELFLDRTTIEELPL-SIQHLTGLVLL 539
                +LK L LS         C EF G+M+ L  L L  T +E+  +  I HL    +L
Sbjct: 87  H-PTVNLKHLDLSFNAFDALPICKEF-GNMSQLKFLGLSTTHLEKSSVLPIAHLNISKVL 144

Query: 540 NLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD--------- 590
            +               LQ     +L       K    +  +       L+         
Sbjct: 145 LVLG--ETYGEKEDPEGLQDFNTESLHIVFPTNKEFHFILDVSVKTVANLELSNIKCVLE 202

Query: 591 ---GTSIAEVPSSIELLTGLQLLNLNNCS----NLVRLPSCINGLR----SLKTLNLSGC 639
               +    + + ++    L  L LNN      + +R+   +        S+  + L G 
Sbjct: 203 DNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSFIRILQLVWHTTVWYFSISNVKLQGQ 262

Query: 640 SKLQNVPETLGQVESLEELDISGTAIRRPPSSIF-VMNNLKTLSFSGCNGPPSSTSWHWH 698
              ++   +   +++L    +       P S I+ + +N+   +F+              
Sbjct: 263 LDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMNIKNFTVSGTR--------- 313

Query: 699 FPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNN 758
                         + +   S +     LD S+  L +  +  + G+L  L+ L L  N 
Sbjct: 314 -------------MVHMLCPSKISPFLHLDFSNNLLTDT-VFENCGHLTELETLILQMNQ 359

Query: 759 FVTLPASIN---SLFNLGQLDLEDCKRLQSMPQ 788
              L         + +L QLD+          +
Sbjct: 360 LKELSKIAEMTTQMKSLQQLDISQNSVSYDEKK 392

>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 = 85.1 bits (211), Expect = 8e-18
 Identities = 56/281 (19%), Positives = 107/281 (38%), Gaps = 44/281 (15%)

Query: 512 DLSELFLDRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCS 569
           D + L L    I E+     ++L  L  L L + K +  +       L  L+ L LS  +
Sbjct: 53  DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNK-ISKISPGAFAPLVKLERLYLSK-N 110

Query: 570 KLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNL-NNCSNLVRLPSCI-N 626
           +LK+ PE +   K L EL +    I +V  S+   L  + ++ L  N      + +    
Sbjct: 111 QLKELPEKM--PKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQ 168

Query: 627 GLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSG 685
           G++ L  + ++    +  +P+ L    SL EL + G  I +  ++    +NNL  L  S 
Sbjct: 169 GMKKLSYIRIADT-NITTIPQGL--PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSF 225

Query: 686 CNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGN 745
            +                        A+   SL+    L +L L++  L +  +P  + +
Sbjct: 226 NS----------------------ISAVDNGSLANTPHLRELHLNNNKLVK--VPGGLAD 261

Query: 746 LCSLKQLNLSQNNFVTLPAS-------INSLFNLGQLDLED 779
              ++ + L  NN   + ++            +   + L  
Sbjct: 262 HKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFS 302

>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 = 82.4 bits (204), Expect = 6e-17
 Identities = 57/333 (17%), Positives = 101/333 (30%), Gaps = 75/333 (22%)

Query: 430 IKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKISMKSL 488
           IK  DF  + NL  LIL    ++ +I P       KL  L L     L  LP K+     
Sbjct: 67  IKDGDFKNLKNLHTLILINN-KISKISPGAFAPLVKLERLYLSK-NQLKELPEKM----- 119

Query: 489 KTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNL 547
                                   L EL +    I ++  S+   L  ++++ L    N 
Sbjct: 120 -----------------PKT----LQELRVHENEITKVRKSVFNGLNQMIVVELGT--N- 155

Query: 548 KSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGL 607
                       LK+  +           +   MK L  + +  T+I  +P    L   L
Sbjct: 156 -----------PLKSSGIE--------NGAFQGMKKLSYIRIADTNITTIPQG--LPPSL 194

Query: 608 QLLNLNNCSNLVRLPS-CINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAI 665
             L+L+    + ++ +  + GL +L  L LS    +  V   +L     L EL ++   +
Sbjct: 195 TELHLDGN-KITKVDAASLKGLNNLAKLGLSFN-SISAVDNGSLANTPHLRELHLNNNKL 252

Query: 666 RRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLS 725
            + P  +     ++ +                    N +              +   S S
Sbjct: 253 VKVPGGLADHKYIQVVYLHN----------------NNISAIGSNDFCPPGYNTKKASYS 296

Query: 726 KLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQN 757
            + L    +    I       +     + L   
Sbjct: 297 GVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGNY 329

>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 = 79.7 bits (197), Expect = 4e-16
 Identities = 61/299 (20%), Positives = 114/299 (38%), Gaps = 32/299 (10%)

Query: 383 LKSLPSNFQLEKTVEFNMCYSRIEELW-NEIKYLNMLKVMKLSHSQ-NLIKTPDFTGVPN 440
           L+ +P +   + T   ++  ++I E+   + K L  L  + L +++ + I    F  +  
Sbjct: 43  LEKVPKDLPPD-TALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVK 101

Query: 441 LEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLK 498
           LE L L    +L E+   +     L  L + +   +T +   +   +  +  + L     
Sbjct: 102 LERLYLSK-NQLKELPEKMP--KTLQELRVHEN-EITKVRKSVFNGLNQMIVVELGT-NP 156

Query: 499 LTKKCLE---FAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS-HTL 554
           L    +E   F G M  LS + +  T I  +P  +     L  L+L   K +  +   +L
Sbjct: 157 LKSSGIENGAFQG-MKKLSYIRIADTNITTIPQGL--PPSLTELHLDGNK-ITKVDAASL 212

Query: 555 RRLQCLKNLTLSGCSKLKKFPE-SLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLN 613
           + L  L  L LS    +      SL +   L EL L+   + +VP  +     +Q++ L+
Sbjct: 213 KGLNNLAKLGLSFN-SISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLH 271

Query: 614 N------CSNLVRLPSCINGLRSLKTLNLSG----CSKLQNVPETLGQVESLEELDISG 662
           N       SN    P       S   ++L        ++Q  P T   V     + +  
Sbjct: 272 NNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQ--PSTFRCVYVRAAVQLGN 328

>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 = 68.1 bits (167), Expect = 3e-12
 Identities = 51/216 (23%), Positives = 85/216 (39%), Gaps = 36/216 (16%)

Query: 568 CS--KLKKFPESLGSMKDLMELFLDGTSIAEVP-SSIELLTGLQLLNLNNCSNLVRLPSC 624
           CS   L+K P+ L    D   L L    I E+     + L  L  L L N   + ++   
Sbjct: 38  CSDLGLEKVPKDLPP--DTALLDLQNNKITEIKDGDFKNLKNLHTLILINN-KISKISPG 94

Query: 625 I-NGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLS 682
               L  L+ L LS  ++L+ +PE + +  +L+EL +    I +   S+F  +N +  + 
Sbjct: 95  AFAPLVKLERLYLSK-NQLKELPEKMPK--TLQELRVHENEITKVRKSVFNGLNQMIVVE 151

Query: 683 FSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPND 742
                              N +            +  G+  LS + ++D  +    IP  
Sbjct: 152 LGT----------------NPLKSSGIENG----AFQGMKKLSYIRIADTNITT--IPQ- 188

Query: 743 IGNLCSLKQLNLSQNNFVTLPA-SINSLFNLGQLDL 777
            G   SL +L+L  N    + A S+  L NL +L L
Sbjct: 189 -GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGL 223

>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 = 65.8 bits (161), Expect = 2e-11
 Identities = 59/318 (18%), Positives = 101/318 (31%), Gaps = 80/318 (25%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEF 398
              F  + NL  L + N ++    P     L   L  L   +  LK LP           
Sbjct: 69  DGDFKNLKNLHTLILINNKISKISPGAFAPLVK-LERLYLSKNQLKELPEK--------- 118

Query: 399 NMCYSRIEELW---NEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEG-CTRLHE 454
                 ++EL    NEI                 ++   F G+  +  + L     +   
Sbjct: 119 --MPKTLQELRVHENEITK---------------VRKSVFNGLNQMIVVELGTNPLKSSG 161

Query: 455 IHPSLLLH-SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDL 513
           I         KL  + + D  ++TT+P                           G    L
Sbjct: 162 IENGAFQGMKKLSYIRIADT-NITTIP--------------------------QGLPPSL 194

Query: 514 SELFLDRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKL 571
           +EL LD   I ++   S++ L  L  L L     + ++   +L     L+ L L+   KL
Sbjct: 195 TELHLDGNKITKVDAASLKGLNNLAKLGLSFNS-ISAVDNGSLANTPHLRELHLNNN-KL 252

Query: 572 KKFPESLGSMKDLMELFLDGTSIAEVPSS-------IELLTGLQLLNLNNCSNLVRL--- 621
            K P  L   K +  ++L   +I+ + S+                ++L +  N V+    
Sbjct: 253 VKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFS--NPVQYWEI 310

Query: 622 -PSCINGLRSLKTLNLSG 638
            PS    +     + L  
Sbjct: 311 QPSTFRCVYVRAAVQLGN 328

>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 = 85.3 bits (211), Expect = 4e-17
 Identities = 76/456 (16%), Positives = 169/456 (37%), Gaps = 41/456 (8%)

Query: 345 AFSQMTNLRLLKIDNLQ---LPEGL-EYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNM 400
             S ++ LR+L++ + +   L   +  +  + L  LD     L+++     +      ++
Sbjct: 71  DISFLSELRVLRLSHNRIRSLDFHVFLFNQD-LEYLDVSHNRLQNISCC-PMASLRHLDL 128

Query: 401 CYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEG---CTRLHEIHP 457
            ++  + L    ++ N+ K+  L  S    +  D   V +L    +        +     
Sbjct: 129 SFNDFDVLPVCKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSYHIKGGET 188

Query: 458 SLLLHSKLVILNLKDCT-SLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSEL 516
             L      +L+L     SL ++   +S+ +L  L LS    +          M  LSEL
Sbjct: 189 ESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSN---IKLNDENCQRLMTFLSEL 245

Query: 517 FLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPE 576
                T+  + L     T    + L      + + +    L  + NLT++     ++F  
Sbjct: 246 TR-GPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEY----LN-IYNLTITERIDREEFTY 299

Query: 577 SLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
           S  ++K LM   +          ++  +   + +  L+          C     S   LN
Sbjct: 300 SETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLN 359

Query: 636 LSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
            +      +V +    ++ L+ L +    ++       +  N+ +L         S  S 
Sbjct: 360 FTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDV----SLNSL 415

Query: 696 HWHFPFNLMGQRSYPVALMLPSLSG-----------LHSLSKLDLSDCGLGEGAIPNDIG 744
           + H  ++      +  ++++ +LS               +  LDL +  +   +IP D+ 
Sbjct: 416 NSH-AYDRTCA--WAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIM--SIPKDVT 470

Query: 745 NLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLED 779
           +L +L++LN++ N   ++P  + + L +L  + L D
Sbjct: 471 HLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHD 506

>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 = 69.1 bits (169), Expect = 4e-12
 Identities = 66/405 (16%), Positives = 129/405 (31%), Gaps = 54/405 (13%)

Query: 426 SQNLIKT---PDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPG 481
           SQN I     PD + +  L  L L    R+  +   + L    L  L++     L  +  
Sbjct: 60  SQNSISELRMPDISFLSELRVLRLSHN-RIRSLDFHVFLFNQDLEYLDV-SHNRLQNISC 117

Query: 482 KISMKSLKTLVLSG-CLKLTKKCLEFAGSMNDLSELFLDRTTIEELPL-SIQHL-TGLVL 538
              M SL+ L LS     +   C EF G++  L+ L L      +L L  + HL    +L
Sbjct: 118 C-PMASLRHLDLSFNDFDVLPVCKEF-GNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCIL 175

Query: 539 LNLKDC-------KNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDG 591
           L+L          ++L+  + T+  L    N   S    +         + ++     + 
Sbjct: 176 LDLVSYHIKGGETESLQIPNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENC 235

Query: 592 TSIAEVPSSIELLTGLQLLNLNNCSN----LVRLPSCINGLR----SLKTLNLSGCSKLQ 643
             +    S +     L  + L +        V+L            ++  L ++     +
Sbjct: 236 QRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDRE 295

Query: 644 NVPETLGQVESLEELDISGTAIRRPPSSIF-VMNNLKTLSFSGCNGPPSSTSWHWHFPFN 702
               +   ++SL    +          +++ V   +     S  + P             
Sbjct: 296 EFTYSETALKSLMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTP------------- 342

Query: 703 LMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTL 762
                     + +       S + L+ +     + ++      L  L+ L L +N     
Sbjct: 343 ---------FIHMVCPPSPSSFTFLNFTQNVFTD-SVFQGCSTLKRLQTLILQRNGLKNF 392

Query: 763 PASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTL 807
                   N+  L+  D     S+  L S+ Y+       S++ L
Sbjct: 393 FKVALMTKNMSSLETLDV----SLNSLNSHAYDRTCAWAESILVL 433

>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 = 61.4 bits (149), Expect = 9e-10
 Identities = 55/372 (14%), Positives = 125/372 (33%), Gaps = 56/372 (15%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPS-NFQLEKTVE 397
            K F  +T L  L +   +        + +L     LLD   Y +K   + + Q+  T  
Sbjct: 139 CKEFGNLTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSYHIKGGETESLQIPNTTV 198

Query: 398 FNMCYSRIEELWN---------EIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEG 448
            ++ +                     L+ +K+   +  + +    + T  P L  + L+ 
Sbjct: 199 LHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQH 258

Query: 449 CTRLHEIHPSLLL---HSKLVILNLKDCT---SLTTLPGKISMKSLKTLVLSG------- 495
                +    L        +  LN+ + T    +       S  +LK+L++         
Sbjct: 259 IETTWKCSVKLFQFFWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFL 318

Query: 496 --------------CLKLTKKCLEF-----AGSMNDLSELFLDRTTIEELPLSI-QHLTG 535
                            L+     F       S +  + L   +    +        L  
Sbjct: 319 FSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCSTLKR 378

Query: 536 LVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLK----KFPESLGSMKDLMELFLDG 591
           L  L L+    LK+        + + +L     S        +  +    + ++ L L  
Sbjct: 379 LQTLILQR-NGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSS 437

Query: 592 TSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE-TLG 650
             +        L   +++L+L+N   ++ +P  +  L++L+ LN++  ++L++VP+    
Sbjct: 438 NMLTGSVFR-CLPPKVKVLDLHNN-RIMSIPKDVTHLQALQELNVAS-NQLKSVPDGVFD 494

Query: 651 QVESLEELDISG 662
           ++ SL+ + +  
Sbjct: 495 RLTSLQYIWLHD 506

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 80.8 bits (200), Expect = 2e-16
 Identities = 55/280 (19%), Positives = 94/280 (33%), Gaps = 43/280 (15%)

Query: 512 DLSELFLDRTTIEELPL-SIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCS 569
           D + L L    I EL     + L  L  L L + K +  +       L+ L+ L +S  +
Sbjct: 55  DTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNK-ISKIHEKAFSPLRKLQKLYISK-N 112

Query: 570 KLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNL-NNCSNLVRLPSCING 627
            L + P +L     L+EL +    I +VP  +   L  +  + +  N             
Sbjct: 113 HLVEIPPNL--PSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFD 170

Query: 628 LRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGC 686
              L  L +S   KL  +P+ L   E+L EL +    I+       +  + L  L     
Sbjct: 171 GLKLNYLRISEA-KLTGIPKDL--PETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHN 227

Query: 687 NGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNL 746
                                     +   SLS L +L +L L +  L    +P  + +L
Sbjct: 228 Q----------------------IRMIENGSLSFLPTLRELHLDNNKLSR--VPAGLPDL 263

Query: 747 CSLKQLNLSQNNFVTLPASI-------NSLFNLGQLDLED 779
             L+ + L  NN   +  +                + L +
Sbjct: 264 KLLQVVYLHTNNITKVGVNDFCPVGFGVKRAYYNGISLFN 303

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 75.4 bits (186), Expect = 1e-14
 Identities = 50/272 (18%), Positives = 95/272 (34%), Gaps = 36/272 (13%)

Query: 512 DLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSK 570
            L  +      ++ +P  I       LL+L++  ++  L     + LQ L  L L     
Sbjct: 34  HLRVVQCSDLGLKAVPKEI--SPDTTLLDLQNN-DISELRKDDFKGLQHLYALVLVNNKI 90

Query: 571 LKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLP-SCINGLR 629
            K   ++   ++ L +L++    + E+P    L + L  L +++   + ++P    +GLR
Sbjct: 91  SKIHEKAFSPLRKLQKLYISKNHLVEIPP--NLPSSLVELRIHDN-RIRKVPKGVFSGLR 147

Query: 630 SLKTLNLSG-CSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNG 688
           ++  + + G   +             L  L IS   +   P  +     L  L       
Sbjct: 148 NMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLP--ETLNELHLDH--- 202

Query: 689 PPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLC 747
                        N +        + L  L     L +L L    +    I N     L 
Sbjct: 203 -------------NKIQA------IELEDLLRYSKLYRLGLGHNQIRM--IENGSLSFLP 241

Query: 748 SLKQLNLSQNNFVTLPASINSLFNLGQLDLED 779
           +L++L+L  N    +PA +  L  L  + L  
Sbjct: 242 TLRELHLDNNKLSRVPAGLPDLKLLQVVYLHT 273

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 73.9 bits (182), Expect = 4e-14
 Identities = 42/326 (12%), Positives = 101/326 (30%), Gaps = 56/326 (17%)

Query: 439 PNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSG 495
           P+   L L+    + E+          L  L L     ++ +  K    ++ L+ L +S 
Sbjct: 54  PDTTLLDLQN-NDISELRKDDFKGLQHLYALVL-VNNKISKIHEKAFSPLRKLQKLYISK 111

Query: 496 CLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSLSHTL 554
              L +  +      + L EL +    I ++P  +   L  +  + +    N        
Sbjct: 112 N-HLVE--IP-PNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGG--N-------- 157

Query: 555 RRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNN 614
                L+N            P +   +K L  L +    +  +P   +L   L  L+L++
Sbjct: 158 ----PLENSGFE--------PGAFDGLK-LNYLRISEAKLTGIPK--DLPETLNELHLDH 202

Query: 615 CSNLVRLPS-CINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSI 672
            + +  +    +     L  L L    +++ +   +L  + +L EL +    + R P+ +
Sbjct: 203 -NKIQAIELEDLLRYSKLYRLGLGHN-QIRMIENGSLSFLPTLRELHLDNNKLSRVPAGL 260

Query: 673 FVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC 732
             +  L+ +                    N + +        +         + + L + 
Sbjct: 261 PDLKLLQVVYLHT----------------NNITKVGVNDFCPVGFGVKRAYYNGISLFNN 304

Query: 733 GLGEGAIPNDI-GNLCSLKQLNLSQN 757
            +    +       +     +     
Sbjct: 305 PVPYWEVQPATFRCVTDRLAIQFGNY 330

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 69.3 bits (170), Expect = 1e-12
 Identities = 68/359 (18%), Positives = 136/359 (37%), Gaps = 46/359 (12%)

Query: 339 LSAGAKAFSQMTNLRLLKI-DNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVE 397
            ++GA+  S + +L  L    +   P G       LR++      LK++P     + T  
Sbjct: 3   EASGAETTSGIPDLDSLPPTYSAMCPFGC---HCHLRVVQCSDLGLKAVPKEISPD-TTL 58

Query: 398 FNMCYSRIEELW-NEIKYLNMLKVMKLSHSQ-NLIKTPDFTGVPNLEELILEGCTRLHEI 455
            ++  + I EL  ++ K L  L  + L +++ + I    F+ +  L++L +     L EI
Sbjct: 59  LDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKN-HLVEI 117

Query: 456 HPSLLLHSKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLE---FAGSM 510
            P+L   S LV L + D   +  +P  +   ++++  + + G   L     E   F G  
Sbjct: 118 PPNLP--SSLVELRIHDN-RIRKVPKGVFSGLRNMNCIEMGGN-PLENSGFEPGAFDGL- 172

Query: 511 NDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCS 569
             L+ L +    +  +P  +     L  L+L   K ++++    L R   L  L L    
Sbjct: 173 -KLNYLRISEAKLTGIPKDL--PETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHN- 227

Query: 570 KLKKFPE-SLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGL 628
           +++     SL  +  L EL LD   ++ VP+ +  L  LQ++ L+            N +
Sbjct: 228 QIRMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHT-----------NNI 276

Query: 629 RSLKTLNLSGCSKLQNVPETLGQVESLEELDISG---TAIRRPPSSIFVMNNLKTLSFS 684
             +   +                      + +           P++   + +   + F 
Sbjct: 277 TKVGVNDFCPVGFGVKRA-------YYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFG 328

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 65.0 bits (159), Expect = 3e-11
 Identities = 42/226 (18%), Positives = 73/226 (32%), Gaps = 57/226 (25%)

Query: 558 QCLKNLTLSGCS--KLKKFPESLGSMKDLMELFLDGTSIAEVP-SSIELLTGLQLLNLNN 614
            C  +L +  CS   LK  P+ +    D   L L    I+E+     + L  L  L L N
Sbjct: 30  GCHCHLRVVQCSDLGLKAVPKEISP--DTTLLDLQNNDISELRKDDFKGLQHLYALVLVN 87

Query: 615 CSNLVRLPS-CINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIF 673
              + ++     + LR L+ L +S  + L  +P       SL EL I             
Sbjct: 88  N-KISKIHEKAFSPLRKLQKLYISK-NHLVEIPP--NLPSSLVELRIHD----------- 132

Query: 674 VMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCG 733
             N ++ +       P                             SGL +++ +++    
Sbjct: 133 --NRIRKV-------PKGV-------------------------FSGLRNMNCIEMGGNP 158

Query: 734 LGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED 779
           L          +   L  L +S+     +P   +    L +L L+ 
Sbjct: 159 LENSGFEPGAFDGLKLNYLRISEAKLTGIPK--DLPETLNELHLDH 202

>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 = 79.5 bits (196), Expect = 6e-16
 Identities = 61/332 (18%), Positives = 120/332 (36%), Gaps = 44/332 (13%)

Query: 383 LKSLPSNFQLEKTVEFNMCYSRIEEL-WNEIKYLNMLKVMKLSHSQNL--IKTPDFTGVP 439
           +  +PS+      +E     +++  +          L+ +++S +  L  I+   F+ +P
Sbjct: 21  VTEIPSDL-PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLP 79

Query: 440 NLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPG--KISMKSLKTLVLSGC 496
            L E+ +E    L  I+P    +   L  L + + T +  LP   KI       L +   
Sbjct: 80  KLHEIRIEKANNLLYINPEAFQNLPNLQYLLISN-TGIKHLPDVHKIHSLQKVLLDIQDN 138

Query: 497 LKLTKKCLE---FAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHT 553
           + +    +E   F G   +   L+L++  I+E+  S  + T L  LNL D  NL+ L   
Sbjct: 139 INIH--TIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELP-- 194

Query: 554 LRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNL 612
                                 +        + L +  T I  +PS   E L  L+  + 
Sbjct: 195 ---------------------NDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARST 233

Query: 613 NNCSNLVRLPSCINGLRSLKTLNLSG---CSKLQNVPETLGQVESLEELDISGTAIRRPP 669
               NL +LP+ +  L +L   +L+    C    N    + ++  +    I    +    
Sbjct: 234 Y---NLKKLPT-LEKLVALMEASLTYPSHCCAFANWRRQISELHPICNKSILRQEVDYMT 289

Query: 670 SSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPF 701
            +    ++L   + S  +     T   + +  
Sbjct: 290 QARGQRSSLAEDNESSYSRGFDMTYTEFDYDL 321

>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 = 65.6 bits (160), Expect = 2e-11
 Identities = 42/274 (15%), Positives = 78/274 (28%), Gaps = 59/274 (21%)

Query: 512 DLSELFLDRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCS 569
           +  EL    T +  +   +      L  + +     L+ + +     L  L  + +   +
Sbjct: 31  NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKAN 90

Query: 570 KLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPS-CINGL 628
            L              E F +             L  LQ L ++N   +  LP       
Sbjct: 91  NLLYINP---------EAFQN-------------LPNLQYLLISNT-GIKHLPDVHKIHS 127

Query: 629 RSLKTLNLSGCSKLQNVPETL--GQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGC 686
                L++     +  +      G       L ++   I+   +S F    L  L+ S  
Sbjct: 128 LQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDN 187

Query: 687 NGPPSSTSWHWHFPFNLMGQRSYPVALMLP--SLSGLHSLSKLDLSDCGLGEGAIPNDI- 743
           N        +                  LP     G      LD+S   +   ++P+   
Sbjct: 188 N--------NLE---------------ELPNDVFHGASGPVILDISRTRI--HSLPSYGL 222

Query: 744 GNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDL 777
            NL  L+  +        LP ++  L  L +  L
Sbjct: 223 ENLKKLRARSTYNLK--KLP-TLEKLVALMEASL 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 = 62.9 bits (153), Expect = 2e-10
 Identities = 40/240 (16%), Positives = 84/240 (35%), Gaps = 24/240 (10%)

Query: 568 CS--KLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSC 624
           C   K+ + P  L    + +EL    T +  +          L+ + ++    L  + + 
Sbjct: 16  CQESKVTEIPSDLPR--NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEAD 73

Query: 625 I-NGLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTL 681
           + + L  L  + +   + L  +  E    + +L+ L IS T I+  P    +       L
Sbjct: 74  VFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLL 133

Query: 682 SFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL------MLPS--LSGLHSLSKLDLSDCG 733
                N    +        F  +   S  + L       + +   +G          +  
Sbjct: 134 DIQD-NINIHTIE---RNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNN 189

Query: 734 LGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMPQLPS 791
           L E  +PND+         L++S+    +LP+    +L  L      + K+L ++ +L +
Sbjct: 190 LEE--LPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYNLKKLPTLEKLVA 247

>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 = 46.0 bits (109), Expect = 4e-05
 Identities = 29/181 (16%), Positives = 54/181 (29%), Gaps = 35/181 (19%)

Query: 630 SLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNG 688
           S +       SK+  +P  L +  +  EL    T +R      F    +L+ +  S  + 
Sbjct: 10  SNRVFLCQE-SKVTEIPSDLPR--NAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQND- 65

Query: 689 PPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC-GLGEGAIPNDI-GNL 746
                                         S L  L ++ +     L    I  +   NL
Sbjct: 66  --VLEVIEAD------------------VFSNLPKLHEIRIEKANNLLY--INPEAFQNL 103

Query: 747 CSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMPQ-----LPSNLYEVQVNG 800
            +L+ L +S      LP            LD++D   + ++ +     L      + +N 
Sbjct: 104 PNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNK 163

Query: 801 C 801
            
Sbjct: 164 N 164

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 79.0 bits (195), Expect = 2e-15
 Identities = 79/400 (19%), Positives = 141/400 (35%), Gaps = 76/400 (19%)

Query: 430 IKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMK 486
           +    F+ + +L+ L +E  T    I  +     S L+IL L        L       + 
Sbjct: 45  LNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDY-NQFLQLETGAFNGLA 103

Query: 487 SLKTLVLSGCLKLTKKCLE---FAGSMNDLSELFLDRTTIEELPLSI--QHLTGLVLLNL 541
           +L+ L L+ C  L    L    F   +  L  L L    I+++  +    ++    +L+L
Sbjct: 104 NLEVLTLTQC-NLDGAVLSGNFFKP-LTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDL 161

Query: 542 K----DC------KNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDG 591
                         N +    TL RL  +    ++      +   +      +  L L G
Sbjct: 162 TFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDLSG 221

Query: 592 TSIAEVPSSIEL----LTGLQLLNLNN---------CSNLVRLPSCI-NGLR--SLKTLN 635
               E  +         T +Q L L+N          +N     +    GL    +KT +
Sbjct: 222 NGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCD 281

Query: 636 LSGCSKLQNVPETL-GQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSST 693
           LS  SK+  + +++      LE+L ++   I +   + F  + +L  L+ S         
Sbjct: 282 LSK-SKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQ-------- 332

Query: 694 SWHWHFPFNLMGQRSYPVALMLPS--LSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLK 750
                   N +G         + S     L  L  LDLS   +   A+ +     L +LK
Sbjct: 333 --------NFLG--------SIDSRMFENLDKLEVLDLSYNHI--RALGDQSFLGLPNLK 374

Query: 751 QLNLSQNNFVTLPASI-NSLFNLGQLDLE------DCKRL 783
           +L L  N   ++P  I + L +L ++ L        C R+
Sbjct: 375 ELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRI 414

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 73.2 bits (180), Expect = 1e-13
 Identities = 67/361 (18%), Positives = 132/361 (36%), Gaps = 30/361 (8%)

Query: 343 AKAFSQMTNLRLLKIDNLQLPEGLE-----YLSNKLRLLDWHRYPLKSLPSN-FQ-LEKT 395
             +FS++ +L+ LK++       +       LS+ L +L         L +  F  L   
Sbjct: 47  ETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSS-LIILKLDYNQFLQLETGAFNGLANL 105

Query: 396 VEFNMCYSRIEELWNEIKYL-NMLKVMKLSHSQNLIKT--PD--FTGVPNLEELILEGCT 450
               +    ++       +   +  +  L    N IK   P   F  +     L L    
Sbjct: 106 EVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTF-N 164

Query: 451 RLHEIHPSLLLH---SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFA 507
           ++  I    LL+       +L L    +L  +  +  +   K         +T   L   
Sbjct: 165 KVKSICEEDLLNFQGKHFTLLRL-SSITLQDMN-EYWLGWEKCGNPFKNTSITTLDLSGN 222

Query: 508 GSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQC--LKNLTL 565
           G    +++ F D     ++   I   +  +  +          + T + L+   +K   L
Sbjct: 223 GFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDL 282

Query: 566 SGCSKLKKFPESL-GSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPS 623
           S  SK+    +S+     DL +L L    I ++  +    LT L  LNL+  + L  + S
Sbjct: 283 SK-SKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQ-NFLGSIDS 340

Query: 624 CI-NGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFVMNNLKTL 681
            +   L  L+ L+LS    ++ + + +   + +L+EL +    ++  P  IF  + L +L
Sbjct: 341 RMFENLDKLEVLDLSYN-HIRALGDQSFLGLPNLKELALDTNQLKSVPDGIF--DRLTSL 397

Query: 682 S 682
            
Sbjct: 398 Q 398

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 62.8 bits (153), Expect = 3e-10
 Identities = 52/305 (17%), Positives = 88/305 (28%), Gaps = 31/305 (10%)

Query: 343 AKAFSQMTNLRLLKIDNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEF 398
              F  +T+L +L + +  +    P        +  +LD     +KS+            
Sbjct: 122 GNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEE------DLL 175

Query: 399 NMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPS 458
           N        L      L  +    L       K  +     ++  L L G     E    
Sbjct: 176 NFQGKHFTLLRLSSITLQDMNEYWLGW----EKCGNPFKNTSITTLDLSGN-GFKESMAK 230

Query: 459 LLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFL 518
                     +    T + +L    S     +       K            + +    L
Sbjct: 231 -------RFFDAIAGTKIQSLILSNSYNMGSSFG-HTNFKDPDNFTFKGLEASGVKTCDL 282

Query: 519 DRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCSKLKKFPE 576
            ++ I  L  S+  H T L  L L     +  +  +    L  L  L LS  + L     
Sbjct: 283 SKSKIFALLKSVFSHFTDLEQLTLAQ-NEINKIDDNAFWGLTHLLKLNLSQ-NFLGSIDS 340

Query: 577 -SLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKT 633
               ++  L  L L    I  +       L  L+ L L+    L  +P  I + L SL+ 
Sbjct: 341 RMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTN-QLKSVPDGIFDRLTSLQK 399

Query: 634 LNLSG 638
           + L  
Sbjct: 400 IWLHT 404

>3v47_A TOLL-like receptor 5B and variable lymphocyte REC chimeric protein; innate immunity, leucine-rich repeat, innate immune receptor system; HET: NAG; 2.47A {Danio rerio} PDB: 3v44_A* Length = 455

 Score = 45.9 bits (109), Expect = 6e-05
 Identities = 25/78 (32%), Positives = 27/78 (34%), Gaps = 3/78 (3%)

Query: 717 SLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQL 775
           S S L  L  L +     G     N    L SL  L L  N F+ L     N L NL  L
Sbjct: 49  SFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVL 108

Query: 776 DLEDCKRLQSMPQLPSNL 793
            L  C  L     L  N 
Sbjct: 109 TLTQCN-LDG-AVLSGNF 124

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 75.9 bits (187), Expect = 5e-15
 Identities = 53/247 (21%), Positives = 110/247 (44%), Gaps = 20/247 (8%)

Query: 439 PNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLK 498
           P   E I    T + +I       ++ +  NLK   S+T    +  + S+  ++ +    
Sbjct: 2   PLGSETITV-PTPIKQIFSDDAF-AETIKDNLKK-KSVTDAVTQNELNSIDQIIANNS-D 57

Query: 499 LTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQ 558
           +    ++    + ++++LFL+   + ++   + +L  L  L L + K +K LS +L+ L+
Sbjct: 58  IKS--VQGIQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENK-VKDLS-SLKDLK 112

Query: 559 CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL 618
            LK+L+L     +      L  +  L  L+L    I ++ + +  LT L  L+L +  N 
Sbjct: 113 KLKSLSLEHN-GISDI-NGLVHLPQLESLYLGNNKITDI-TVLSRLTKLDTLSLED--NQ 167

Query: 619 VRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPP----SSIFV 674
           +     + GL  L+ L LS    + ++   L  +++L+ L++        P    S++ V
Sbjct: 168 ISDIVPLAGLTKLQNLYLSKN-HISDLRA-LAGLKNLDVLELFSQECLNKPINHQSNLVV 225

Query: 675 MNNLKTL 681
            N +K  
Sbjct: 226 PNTVKNT 232

>1h6t_A Internalin B; cell adhesion, leucine rich repeat, IG-like domain, EF-hand domain; 1.6A {Listeria monocytogenes} SCOP: b.1.18.15 c.10.2.1 PDB: 2wqu_A 2uzy_A 2uzx_A 2wqv_A* 2wqw_A 2wqx_A 1d0b_A 1otn_A 1oto_A 1otm_A Length = 291

 Score = 61.6 bits (150), Expect = 2e-10
 Identities = 40/222 (18%), Positives = 81/222 (36%), Gaps = 35/222 (15%)

Query: 560 LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLV 619
           L + T++  + +K+   S  +  + ++  L   S+ +   +   L  +  +  NN  ++ 
Sbjct: 3   LGSETITVPTPIKQI-FSDDAFAETIKDNLKKKSVTDA-VTQNELNSIDQIIANNS-DIK 59

Query: 620 RLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLK 679
            +   I  L ++  L L+G  KL ++ + L  +++L  L +    ++   SS+  +  LK
Sbjct: 60  SV-QGIQYLPNVTKLFLNGN-KLTDI-KPLANLKNLGWLFLDENKVKDL-SSLKDLKKLK 115

Query: 680 TLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAI 739
           +LS                                +  L  L  L  L L +  + +  I
Sbjct: 116 SLSLEHNG------------------------ISDINGLVHLPQLESLYLGNNKITD--I 149

Query: 740 PNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
              +  L  L  L+L  N    +   +  L  L  L L    
Sbjct: 150 TV-LSRLTKLDTLSLEDNQISDIV-PLAGLTKLQNLYLSKNH 189

>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 = 78.2 bits (192), Expect = 6e-15
 Identities = 53/284 (18%), Positives = 103/284 (36%), Gaps = 34/284 (11%)

Query: 441 LEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLT 500
           + E I    T + +I P     ++ +  NLK   S+T    +  + S+  ++ +    + 
Sbjct: 1   MGETITVS-TPIKQIFPDDAF-AETIKDNLKK-KSVTDAVTQNELNSIDQIIANNS-DIK 56

Query: 501 KKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLL-----------NLKDCKNLKS 549
              ++    + ++++LFL+   + ++   + +L  L  L           +LKD K LKS
Sbjct: 57  S--VQGIQYLPNVTKLFLNGNKLTDIK-PLTNLKNLGWLFLDENKIKDLSSLKDLKKLKS 113

Query: 550 LS---------HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSS 600
           LS         + L  L  L++L L    K+      L  +  L  L L+   I+++   
Sbjct: 114 LSLEHNGISDINGLVHLPQLESLYLGNN-KITDI-TVLSRLTKLDTLSLEDNQISDI-VP 170

Query: 601 IELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI 660
           +  LT LQ L L+   N +     + GL++L  L L     L         +     +  
Sbjct: 171 LAGLTKLQNLYLSK--NHISDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKN 228

Query: 661 SGTAIRRPP--SSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFN 702
           +  ++  P   S                     S  ++      
Sbjct: 229 TDGSLVTPEIISDDGDYEKPNVKWHLPEFTNEVSFIFYQPVTIG 272

>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 = 76.3 bits (187), Expect = 2e-14
 Identities = 56/282 (19%), Positives = 102/282 (36%), Gaps = 63/282 (22%)

Query: 513 LSELFLDRTTIEEL-PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKL 571
           + E     T I+++ P         +  NLK  K++     T   L  +  +  +    +
Sbjct: 1   MGETITVSTPIKQIFPDD--AFAETIKDNLKK-KSVTDAV-TQNELNSIDQIIANNS-DI 55

Query: 572 KKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSL 631
           K   + +  + ++ +LFL+G  + ++   +  L  L  L L+   N ++  S +  L+ L
Sbjct: 56  KSV-QGIQYLPNVTKLFLNGNKLTDI-KPLTNLKNLGWLFLDE--NKIKDLSSLKDLKKL 111

Query: 632 KTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPS 691
           K+L+L     + ++   L  +  LE L +               N +  ++         
Sbjct: 112 KSLSLEHN-GISDI-NGLVHLPQLESLYLGN-------------NKITDIT--------- 147

Query: 692 STSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQ 751
                                     LS L  L  L L D  + +  I   +  L  L+ 
Sbjct: 148 -------------------------VLSRLTKLDTLSLEDNQISD--IVP-LAGLTKLQN 179

Query: 752 LNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNL 793
           L LS+N+   L A +  L NL  L+L   + L       SNL
Sbjct: 180 LYLSKNHISDLRA-LAGLKNLDVLELFSQECLNKPINHQSNL 220

>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 = 1e-14
 Identities = 61/386 (15%), Positives = 109/386 (28%), Gaps = 67/386 (17%)

Query: 439 PNLEELILEGCTRLHEIHPSL----LLHSKLVILNLKDCTSLTTLPGKISM----KSLKT 490
            NL+EL L            L      ++ LV LN+    S  +      +     +LK+
Sbjct: 156 RNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLASEVSFSALERLVTRCPNLKS 215

Query: 491 LVLSGCLKLTKKCLEFAGSMNDLSELFL-------DRTTIEELPLSIQHLTGLVLLNLKD 543
           L L+  + L K           L EL                L +++     L  L+   
Sbjct: 216 LKLNRAVPLEK-LATLLQRAPQLEELGTGGYTAEVRPDVYSGLSVALSGCKELRCLSGFW 274

Query: 544 CKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGS-MKDLMELFL-DGTSIAEVPSSI 601
                 L         L  L LS  +        L      L  L++ D    A +    
Sbjct: 275 DAVPAYLPAVYSVCSRLTTLNLSYATVQSYDLVKLLCQCPKLQRLWVLDYIEDAGLEVLA 334

Query: 602 ELLTGLQLLNLNNCSNLVR----------LPSCINGLRSLKTLNLSGCSKLQNVP-ETLG 650
                L+ L +      V           L S   G   L+++ L  C ++ N    T+ 
Sbjct: 335 STCKDLRELRVFPSEPFVMEPNVALTEQGLVSVSMGCPKLESV-LYFCRQMTNAALITIA 393

Query: 651 QV-ESLEELDISGTAIRRPPSSIFVM------------NNLKTLSFSGCNGPPSSTSWHW 697
           +   ++    +     + P                    +L+ LS SG            
Sbjct: 394 RNRPNMTRFRLCIIEPKAPDYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKV------ 447

Query: 698 HFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQN 757
                                +    +  L ++  G  +  + + +    SL++L +   
Sbjct: 448 ----------------FEYIGTYAKKMEMLSVAFAGDSDLGMHHVLSGCDSLRKLEIRDC 491

Query: 758 NFVT--LPASINSLFNLGQLDLEDCK 781
            F    L A+ + L  +  L +  C 
Sbjct: 492 PFGDKALLANASKLETMRSLWMSSCS 517

>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 = 76.9 bits (189), Expect = 2e-14
 Identities = 68/415 (16%), Positives = 125/415 (30%), Gaps = 60/415 (14%)

Query: 439 PNLEELILEGCTRLHEIHPSLLLH---------------SKLVILNLKDCT----SLTTL 479
           P +  + L+G     + +                     + L  + LK        L  +
Sbjct: 66  PKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDCLELI 125

Query: 480 PGKISMKSLKTLVLSGCLKLTKKCLEFAGSMN------DLSELFLDRTTIEELPLSIQHL 533
               S K+ K LVLS C   +   L    +        DL E  +D  +   L       
Sbjct: 126 A--KSFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTY 183

Query: 534 TGLVLLNLKDCKNL---KSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD 590
           T LV LN+    +     +L   + R   LK+L L+    L+K    L     L EL   
Sbjct: 184 TSLVSLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTG 243

Query: 591 GTSIAEVPSSIELLTG-----LQLLNLNNCSNLVR--LPSCINGLRSLKTLNLSGCSKL- 642
           G +    P     L+       +L  L+   + V   LP+  +    L TLNLS  +   
Sbjct: 244 GYTAEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQS 303

Query: 643 QNVPETLGQVESLEELDISGTAIRRPPSSIF-VMNNLKTLSFSGCNGPPSSTSWHWHFPF 701
            ++ + L Q   L+ L +           +     +L+ L                  P 
Sbjct: 304 YDLVKLLCQCPKLQRLWVLDYIEDAGLEVLASTCKDLRELRVFPSEPFVME-------PN 356

Query: 702 NLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVT 761
             + ++      ++    G   L  +      +   A+     N  ++ +  L       
Sbjct: 357 VALTEQG-----LVSVSMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKA 411

Query: 762 LPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKLCKS 816
                    ++G           ++ +   +L  + ++G  +           K 
Sbjct: 412 PDYLTLEPLDIG---------FGAIVEHCKDLRRLSLSGLLTDKVFEYIGTYAKK 457

>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 = 43.3 bits (102), Expect = 4e-04
 Identities = 40/267 (14%), Positives = 74/267 (27%), Gaps = 47/267 (17%)

Query: 586 ELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNV 645
           ++F+         + I     ++ + L    +        +G        +   S     
Sbjct: 47  KVFIGNCYAVSPATVIRRFPKVRSVELKGKPHFADFNLVPDGWGGYVYPWIEAMSS---- 102

Query: 646 PETLGQVESLEELDISGTAIRRPPSSIFV----MNNLKTLSFSGCNGPPSSTSWHWHFPF 701
                    LEE+ +    +      + +      N K L  S C G  +          
Sbjct: 103 -----SYTWLEEIRLKRMVV--TDDCLELIAKSFKNFKVLVLSSCEGFSTDG-------- 147

Query: 702 NLMGQRSYPVALMLPSLSGLHSLSKLDLSDCG---LGEGAIPNDIGNLCSLKQLNLSQNN 758
                       +    +   +L +LDL +     +    + +      SL  LN+S   
Sbjct: 148 ------------LAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSLNISCLA 195

Query: 759 FVTLPASINSLF----NLGQLDLEDCKRLQSMPQLPS---NLYEVQVNGCASLVTLSGAL 811
                +++  L     NL  L L     L+ +  L      L E+   G  + V      
Sbjct: 196 SEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEELGTGGYTAEVRPDVYS 255

Query: 812 KLCK--SKCTSINCIGSLKLAGNNGLA 836
            L    S C  + C+     A    L 
Sbjct: 256 GLSVALSGCKELRCLSGFWDAVPAYLP 282

>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 = 74.9 bits (184), Expect = 2e-14
 Identities = 67/298 (22%), Positives = 111/298 (37%), Gaps = 28/298 (9%)

Query: 366 LEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSH 425
           L    +  + LD     L    +   L + V    C  R        ++ +  +V  +  
Sbjct: 42  LASDESLWQTLDLTGKNLHPDVTGRLLSQGVIAFRC-PRSFMDQPLAEHFSPFRVQHMDL 100

Query: 426 SQNLIKTPDFTGV----PNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPG 481
           S ++I+     G+      L+ L LEG      I  +L  +S LV LNL  C+  +    
Sbjct: 101 SNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFAL 160

Query: 482 KI---SMKSLKTLVLSGCLKLTKKCLE--FAGSMNDLSELFLDR----TTIEELPLSIQH 532
           +    S   L  L LS C   T+K ++   A     +++L L          +L   ++ 
Sbjct: 161 QTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRR 220

Query: 533 LTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLK-KFPESLGSMKDLMELFLD 590
              LV L+L D   LK+       +L  L++L+LS C  +  +    LG +  L  L + 
Sbjct: 221 CPNLVHLDLSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVF 280

Query: 591 GTSIAEVPSSIELLTGLQLLNLNNCSNLVRL---------PSCINGLRSLKTLNLSGC 639
           G       +   L   L  L + NCS+   +            I G++   TL    C
Sbjct: 281 GIVPDG--TLQLLKEALPHLQI-NCSHFTTIARPTIGNKKNQEIWGIKCRLTLQKPSC 335

>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 = 66.8 bits (163), Expect = 9e-12
 Identities = 58/347 (16%), Positives = 115/347 (33%), Gaps = 48/347 (13%)

Query: 518 LDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCL----KNLTLSGCSKLKK 573
               + + LP  +        L L +   +  +     RL       + L L+G +    
Sbjct: 4   FPGVSWDSLPDELLLGI-FSCLCLPELLKVSGVCKRWYRLASDESLWQTLDLTGKNLHPD 62

Query: 574 FPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVR-LPSCINGLRSLK 632
               L S   +       + + +  +       +Q ++L+N    V  L   ++    L+
Sbjct: 63  VTGRLLSQGVI-AFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQ 121

Query: 633 TLNLSGCSKLQNVPETLGQVESLEELDISG------TAIRRPPSSIFVMNNLKTLSFSGC 686
            L+L G      +  TL +  +L  L++SG       A++   SS    + L  L+ S C
Sbjct: 122 NLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSS---CSRLDELNLSWC 178

Query: 687 NGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC--GLGEGAIPNDIG 744
                                     + +       ++++L+LS     L +  +   + 
Sbjct: 179 FDFTE-------------------KHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVR 219

Query: 745 NLCSLKQLNLSQNNFVTLPASINSLFNLGQL---DLEDCKRL--QSMPQLP--SNLYEVQ 797
              +L  L+LS +  +         F L  L    L  C  +  +++ +L     L  +Q
Sbjct: 220 RCPNLVHLDLSDSVMLK-NDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQ 278

Query: 798 VNGC---ASLVTLSGALKLCKSKCTSINCIGSLKLAGNNGLAISMLR 841
           V G     +L  L  AL   +  C+    I    +       I  ++
Sbjct: 279 VFGIVPDGTLQLLKEALPHLQINCSHFTTIARPTIGNKKNQEIWGIK 325

>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 = 62.2 bits (151), Expect = 2e-10
 Identities = 50/301 (16%), Positives = 96/301 (31%), Gaps = 74/301 (24%)

Query: 516 LFLDRTTIEELPLSIQHLTGLVLLNLKDCK-NLKSLSHTLRRLQCLKNLTLSGCSKLKKF 574
               R+ +++          +  ++L +    + +L   L +   L+NL+L G       
Sbjct: 75  FRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLR----- 129

Query: 575 PESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL--VRLPSCINGLRSLK 632
                         L    +    +++   + L  LNL+ CS      L + ++    L 
Sbjct: 130 --------------LSDPIV----NTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLD 171

Query: 633 TLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSS 692
            LNLS C             + ++      +              +  L+ SG       
Sbjct: 172 ELNLSWCFDFTE--------KHVQVAVAHVS------------ETITQLNLSGYRKNLQK 211

Query: 693 TSWHWHFPFNLMGQRSYPVALMLPSLS-GLHSLSKLDLSDC-GLGEGAIPNDIGNLCSLK 750
           +                     L +L     +L  LDLSD   L       +   L  L+
Sbjct: 212 SD--------------------LSTLVRRCPNLVHLDLSDSVMLKNDCF-QEFFQLNYLQ 250

Query: 751 QLNLSQNNFVTLPASINSLF---NLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTL 807
            L+LS+   +  P ++  L     L  L +       ++  L   L  +Q+N C+   T+
Sbjct: 251 HLSLSRCYDII-PETLLELGEIPTLKTLQVFGIVPDGTLQLLKEALPHLQIN-CSHFTTI 308

Query: 808 S 808
           +
Sbjct: 309 A 309

>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 = 74.3 bits (183), Expect = 2e-14
 Identities = 52/260 (20%), Positives = 102/260 (39%), Gaps = 20/260 (7%)

Query: 416 NMLKVMKLSHSQNLI-KTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCT 474
            +   +K++  ++ +  T     +  +  L   G   +  I   +   + L+ L LKD  
Sbjct: 17  ALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGT-GVTTIEG-VQYLNNLIGLELKDN- 73

Query: 475 SLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLT 534
            +T L    ++  +  L LSG   L    +     +  +  L L  T I ++   +  L+
Sbjct: 74  QITDLAPLKNLTKITELELSGN-PLKN--VSAIAGLQSIKTLDLTSTQITDVT-PLAGLS 129

Query: 535 GLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSI 594
            L +L L   + + ++S  L  L  L+ L++    ++      L ++  L  L  D   I
Sbjct: 130 NLQVLYLDLNQ-ITNIS-PLAGLTNLQYLSIGNA-QVSDL-TPLANLSKLTTLKADDNKI 185

Query: 595 AEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQ--V 652
           +++ S +  L  L  ++L N  N +   S +    +L  + L+    + N P       V
Sbjct: 186 SDI-SPLASLPNLIEVHLKN--NQISDVSPLANTSNLFIVTLTNQ-TITNQPVFYNNNLV 241

Query: 653 ESLEELDISGTAIRRPPSSI 672
                   SG  I   P++I
Sbjct: 242 VPNVVKGPSGAPI--APATI 259

>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 = 74.0 bits (182), Expect = 3e-14
 Identities = 51/262 (19%), Positives = 101/262 (38%), Gaps = 41/262 (15%)

Query: 521 TTIEEL-PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
           T I  + P     L   + +       +     T   L  +  L+  G   +    E + 
Sbjct: 7   TAINVIFPDP--ALANAIKIAAGKSN-VTDTV-TQADLDGITTLSAFGT-GVTTI-EGVQ 60

Query: 580 SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGC 639
            + +L+ L L    I ++ + ++ LT +  L L+   N ++  S I GL+S+KTL+L+  
Sbjct: 61  YLNNLIGLELKDNQITDL-APLKNLTKITELELSG--NPLKNVSAIAGLQSIKTLDLTST 117

Query: 640 SKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHF 699
            ++ +V   L  + +L+ L +    I    S +  + NL+ LS          +      
Sbjct: 118 -QITDVTP-LAGLSNLQVLYLDLNQITN-ISPLAGLTNLQYLSIGNAQ----VSD----- 165

Query: 700 PFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNF 759
                          L  L+ L  L+ L   D  + +  I   + +L +L +++L  N  
Sbjct: 166 ---------------LTPLANLSKLTTLKADDNKISD--ISP-LASLPNLIEVHLKNNQI 207

Query: 760 VTLPASINSLFNLGQLDLEDCK 781
             +   + +  NL  + L +  
Sbjct: 208 SDVSP-LANTSNLFIVTLTNQT 228

>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 = 73.1 bits (180), Expect = 4e-14
 Identities = 45/223 (20%), Positives = 79/223 (35%), Gaps = 14/223 (6%)

Query: 472 DCTS--LTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLS 529
            C    L  +P  I   + + + L G          F     +L+ L+L    +  +  +
Sbjct: 17  SCPQQGLQAVPVGIP-AASQRIFLHGNRISHVPAASFRA-CRNLTILWLHSNVLARIDAA 74

Query: 530 I-QHLTGLVLLNLKDCKNLKSLS-HTLRRLQCLKNLTLSGCSKLKKFPE-SLGSMKDLME 586
               L  L  L+L D   L+S+   T   L  L  L L  C  L++        +  L  
Sbjct: 75  AFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLFRGLAALQY 133

Query: 587 LFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGCSKLQN 644
           L+L   ++  +P      L  L  L L+  + +  +P     GL SL  L L    ++ +
Sbjct: 134 LYLQDNALQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDRLLLHQN-RVAH 191

Query: 645 VPE-TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSG 685
           V       +  L  L +    +   P+     +  L+ L  + 
Sbjct: 192 VHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLND 234

>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 = 73.1 bits (180), Expect = 4e-14
 Identities = 55/248 (22%), Positives = 91/248 (36%), Gaps = 39/248 (15%)

Query: 575 PESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLK 632
             S  + ++L  L+L    +A + ++    L  L+ L+L++ + L  +     +GL  L 
Sbjct: 49  AASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLH 108

Query: 633 TLNLSGCSKLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPP 690
           TL+L  C  LQ +       + +L+ L +   A++  P   F  + NL  L   G     
Sbjct: 109 TLHLDRC-GLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG----- 162

Query: 691 SSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSL 749
                      N +       ++   +  GLHSL +L L    +    +      +L  L
Sbjct: 163 -----------NRI------SSVPERAFRGLHSLDRLLLHQNRVA--HVHPHAFRDLGRL 203

Query: 750 KQLNLSQNNFVTLPASI-NSLFNLGQLDLE------DCKRLQSMPQ-LPSNLYEVQVNGC 801
             L L  NN   LP      L  L  L L       DC R + +   L           C
Sbjct: 204 MTLYLFANNLSALPTEALAPLRALQYLRLNDNPWVCDC-RARPLWAWLQKFRGSSSEVPC 262

Query: 802 ASLVTLSG 809
           +    L+G
Sbjct: 263 SLPQRLAG 270

>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 = 64.6 bits (158), Expect = 3e-11
 Identities = 49/232 (21%), Positives = 83/232 (35%), Gaps = 42/232 (18%)

Query: 568 CS--KLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSC 624
           C    L+  P  + +      +FL G  I+ VP++       L +L L++   L R+ + 
Sbjct: 18  CPQQGLQAVPVGIPA--ASQRIFLHGNRISHVPAASFRACRNLTILWLHSN-VLARIDAA 74

Query: 625 I-NGLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTL 681
              GL  L+ L+LS  ++L++V   T   +  L  L +    ++     +F  +  L+ L
Sbjct: 75  AFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYL 134

Query: 682 SFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL-MLPS--LSGLHSLSKLDLSDCGLGEGA 738
                                          L  LP      L +L+ L L    +   +
Sbjct: 135 YLQDNA-------------------------LQALPDDTFRDLGNLTHLFLHGNRI--SS 167

Query: 739 IPNDI-GNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMPQ 788
           +P      L SL +L L QN    +       L  L  L L     L ++P 
Sbjct: 168 VPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANN-LSALPT 218

>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 = 61.2 bits (149), Expect = 4e-10
 Identities = 54/262 (20%), Positives = 86/262 (32%), Gaps = 56/262 (21%)

Query: 383 LKSLPSNFQLEKTVEFNMCYSRIEELW-NEIKYLNMLKVMKLSHSQ-NLIKTPDFTGVPN 440
           L+++P       +    +  +RI  +     +    L ++ L  +    I    FTG+  
Sbjct: 23  LQAVPVGI-PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLAL 81

Query: 441 LEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKL 499
           LE+L L    +L  + P+      +L  L+L  C  L  L   +                
Sbjct: 82  LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGL---------------- 124

Query: 500 TKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSLSHTLRRLQ 558
                 F G +  L  L+L    ++ LP    + L  L  L L    N         R+ 
Sbjct: 125 ------FRG-LAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG--N---------RIS 166

Query: 559 CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSN 617
            +      G   L +             L L    +A V       L  L  L L    N
Sbjct: 167 SVPERAFRGLHSLDR-------------LLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-N 212

Query: 618 LVRLPSCI-NGLRSLKTLNLSG 638
           L  LP+     LR+L+ L L+ 
Sbjct: 213 LSALPTEALAPLRALQYLRLND 234

>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 = 49.6 bits (119), Expect = 2e-06
 Identities = 42/213 (19%), Positives = 64/213 (30%), Gaps = 57/213 (26%)

Query: 580 SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPS-CINGLRSLKTLNLSG 638
             +  +        +  VP  I      Q + L+  + +  +P+      R+L  L L  
Sbjct: 9   YNEPKVTTSCPQQGLQAVPVGI--PAASQRIFLHG-NRISHVPAASFRACRNLTILWLHS 65

Query: 639 CSKLQNVPE-TLGQVESLEELDISG-TAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWH 696
              L  +       +  LE+LD+S    +R    + F                       
Sbjct: 66  N-VLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATF----------------------- 101

Query: 697 WHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLS 755
                                  GL  L  L L  CGL E  +   +   L +L+ L L 
Sbjct: 102 ----------------------HGLGRLHTLHLDRCGLQE--LGPGLFRGLAALQYLYLQ 137

Query: 756 QNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMP 787
            N    LP      L NL  L L    R+ S+P
Sbjct: 138 DNALQALPDDTFRDLGNLTHLFLHG-NRISSVP 169

>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 = 48.1 bits (115), Expect = 8e-06
 Identities = 42/176 (23%), Positives = 73/176 (41%), Gaps = 37/176 (21%)

Query: 343 AKAFSQMTNLRLLKI-DNLQL----PEGLEYLSNKLRLLDWHRYPLKSLPSN-FQLEKTV 396
           A AF+ +  L  L + DN QL    P     L   L  L   R  L+ L    F+     
Sbjct: 73  AAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGR-LHTLHLDRCGLQELGPGLFR----- 126

Query: 397 EFNMCYSRIEELW---NEIKY--------LNMLKVMKLSHSQNLIKT-PD--FTGVPNLE 442
              +  + ++ L+   N ++         L  L  + L    N I + P+  F G+ +L+
Sbjct: 127 --GL--AALQYLYLQDNALQALPDDTFRDLGNLTHLFLHG--NRISSVPERAFRGLHSLD 180

Query: 443 ELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSG 495
            L+L    R+  +HP       +L+ L L    +L+ LP +    +++L+ L L+ 
Sbjct: 181 RLLLHQN-RVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTEALAPLRALQYLRLND 234

>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 = 45.8 bits (109), Expect = 4e-05
 Identities = 52/235 (22%), Positives = 86/235 (36%), Gaps = 59/235 (25%)

Query: 343 AKAFSQMTNLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCY 402
           A +F    NL +L + +           N L  +D          + F            
Sbjct: 49  AASFRACRNLTILWLHS-----------NVLARID---------AAAFT----------- 77

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNL--IKTPDFTGVPNLEELILEGCTRLHEIHPSLL 460
                       L +L+ + LS +  L  +    F G+  L  L L+ C  L E+ P L 
Sbjct: 78  -----------GLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRC-GLQELGPGLF 125

Query: 461 LH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLE---FAGSMNDLS 514
              + L  L L+D  +L  LP      + +L  L L G  +++   +    F G ++ L 
Sbjct: 126 RGLAALQYLYLQDN-ALQALPDDTFRDLGNLTHLFLHGN-RISS--VPERAFRG-LHSLD 180

Query: 515 ELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSLSH-TLRRLQCLKNLTLSG 567
            L L +  +  +     + L  L+ L L    NL +L    L  L+ L+ L L+ 
Sbjct: 181 RLLLHQNRVAHVHPHAFRDLGRLMTLYLFAN-NLSALPTEALAPLRALQYLRLND 234

>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 = 73.6 bits (181), Expect = 5e-14
 Identities = 46/246 (18%), Positives = 94/246 (38%), Gaps = 23/246 (9%)

Query: 434 DFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKT 490
           D     NL+ L+L     ++ I          L  L+L     L+ L       + SL  
Sbjct: 71  DLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYN-YLSNLSSSWFKPLSSLTF 128

Query: 491 LVLSGC-LKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLK 548
           L L G   K   +   F+           +  T  ++       LT L  L +    +L+
Sbjct: 129 LNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS-DLQ 187

Query: 549 SLSH-TLRRLQCLKNLTLSGCSKLKKFPE----SLGSMK--DLMELFLDGTSIAEVPS-- 599
           S    +L+ +Q + +L L    +     E       S++  +L +  LD    +E+ +  
Sbjct: 188 SYEPKSLKSIQNVSHLILHMK-QHILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGE 246

Query: 600 --SIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE-TLGQVESLE 656
             S+      + + + +  +L ++   +N +  L  L  S   +L++VP+    ++ SL+
Sbjct: 247 TNSLIKKFTFRNVKITD-ESLFQVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLTSLQ 304

Query: 657 ELDISG 662
           ++ +  
Sbjct: 305 KIWLHT 310

>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 = 71.3 bits (175), Expect = 3e-13
 Identities = 50/268 (18%), Positives = 96/268 (35%), Gaps = 27/268 (10%)

Query: 512 DLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCS 569
            +  L L    I  +  S  Q    L  L L     + ++   +   L  L++L LS   
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNG-INTIEEDSFSSLGSLEHLDLSYN- 110

Query: 570 KLKKFPESL-GSMKDLMELFLDGTSIAEVPSSI--ELLTGLQLLNLNNCSNLVRLPS-CI 625
            L     S    +  L  L L G     +  +     LT LQ+L + N     ++     
Sbjct: 111 YLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDF 170

Query: 626 NGLRSLKTLNLSGCSKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIF-VMNNLKTLSF 683
            GL  L+ L +     LQ+   ++L  ++++  L +              V ++++ L  
Sbjct: 171 AGLTFLEELEIDAS-DLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLEL 229

Query: 684 SG-----------CNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDC 732
                          G  +S    + F    +      +  ++  L+ +  L +L+ S  
Sbjct: 230 RDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDE--SLFQVMKLLNQISGLLELEFSRN 287

Query: 733 GLGEGAIPNDI-GNLCSLKQLNLSQNNF 759
            L   ++P+ I   L SL+++ L  N +
Sbjct: 288 QLK--SVPDGIFDRLTSLQKIWLHTNPW 313

>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 = 61.3 bits (149), Expect = 6e-10
 Identities = 47/255 (18%), Positives = 80/255 (31%), Gaps = 31/255 (12%)

Query: 531 QHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSK-LKKFPESLGSMKDLMELFL 589
            H   +V +        K  S     L C +N    G S  L   P  L     +  L L
Sbjct: 2   PHTLWMVWVLGVIISLSKEESSNQASLSCDRNGICKGSSGSLNSIPSGLTE--AVKSLDL 59

Query: 590 DGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGCSKLQNVPE 647
               I  + +S  +    LQ L L +   +  +     + L SL+ L+LS    L N+  
Sbjct: 60  SNNRITYISNSDLQRCVNLQALVLTSN-GINTIEEDSFSSLGSLEHLDLSYN-YLSNLSS 117

Query: 648 -TLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQ 706
                + SL  L++ G             N  KTL  +      +          +    
Sbjct: 118 SWFKPLSSLTFLNLLG-------------NPYKTLGETSLFSHLTKLQILRVGNMDTF-- 162

Query: 707 RSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPAS 765
                       +GL  L +L++    L           ++ ++  L L     + L   
Sbjct: 163 TKIQRKD----FAGLTFLEELEIDASDLQS--YEPKSLKSIQNVSHLILHMKQHILLLEI 216

Query: 766 I-NSLFNLGQLDLED 779
             +   ++  L+L D
Sbjct: 217 FVDVTSSVECLELRD 231

>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 = 59.7 bits (145), Expect = 2e-09
 Identities = 48/306 (15%), Positives = 91/306 (29%), Gaps = 74/306 (24%)

Query: 343 AKAFSQMTNLRLLKIDNLQL---PEGL-EYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEF 398
                +  NL+ L + +  +    E     L + L  LD     L +L S++        
Sbjct: 69  NSDLQRCVNLQALVLTSNGINTIEEDSFSSLGS-LEHLDLSYNYLSNLSSSW-------- 119

Query: 399 NMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPS 458
                                               F  + +L  L L G      +  +
Sbjct: 120 ------------------------------------FKPLSSLTFLNLLGN-PYKTLGET 142

Query: 459 LLLH--SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLS 514
            L    +KL IL + +  + T +  K    +  L+ L +     L     +   S+ ++S
Sbjct: 143 SLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDAS-DLQSYEPKSLKSIQNVS 201

Query: 515 ELFLDRTTIEELP-LSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKK 573
            L L       L  + +   + +  L L+D                L     +   K   
Sbjct: 202 HLILHMKQHILLLEIFVDVTSSVECLELRD------TDLDTFHFSELSTGETNSLIKKFT 255

Query: 574 FPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLK 632
                        + +   S+ +V   +  ++GL  L  +    L  +P  I + L SL+
Sbjct: 256 ----------FRNVKITDESLFQVMKLLNQISGLLELEFSRN-QLKSVPDGIFDRLTSLQ 304

Query: 633 TLNLSG 638
            + L  
Sbjct: 305 KIWLHT 310

>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 = 70.8 bits (174), Expect = 6e-14
 Identities = 26/164 (15%), Positives = 66/164 (40%), Gaps = 11/164 (6%)

Query: 527 PLSIQHLTGLVLLNLKDC--KNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDL 584
            ++   +  L  + L +    +L  + +       +K+LT++       +   +  + +L
Sbjct: 37  NITEAQMNSLTYITLANINVTDLTGIEY----AHNIKDLTINNI-HATNY-NPISGLSNL 90

Query: 585 MELFLDGTSIA-EVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQ 643
             L + G  +  +   ++  LT L LL++++ ++   + + IN L  + +++LS    + 
Sbjct: 91  ERLRIMGKDVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAIT 150

Query: 644 NVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN 687
           ++   L  +  L+ L+I    +      I     L  L      
Sbjct: 151 DI-MPLKTLPELKSLNIQFDGVHD-YRGIEDFPKLNQLYAFSQT 192

>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 = 64.6 bits (158), Expect = 7e-12
 Identities = 32/176 (18%), Positives = 65/176 (36%), Gaps = 31/176 (17%)

Query: 608 QLLNLNNCSNLVRLPSCINGLRSLKTLNLSGC--SKLQNVPETLGQVESLEELDISGTAI 665
             LN     +     +    + SL  + L+    + L      +    ++++L I+    
Sbjct: 24  AYLNGLLGQSSTANIT-EAQMNSLTYITLANINVTDLTG----IEYAHNIKDLTINNIHA 78

Query: 666 RRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLS 725
               + I  ++NL+ L   G +                        +  +P+LSGL SL+
Sbjct: 79  TNY-NPISGLSNLERLRIMGKDV----------------------TSDKIPNLSGLTSLT 115

Query: 726 KLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK 781
            LD+S     +  +   I  L  +  ++LS N  +T    + +L  L  L+++   
Sbjct: 116 LLDISHSAHDDSILTK-INTLPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFDG 170

>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 = 60.0 bits (146), Expect = 3e-10
 Identities = 24/156 (15%), Positives = 47/156 (30%), Gaps = 10/156 (6%)

Query: 485 MKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDC 544
           M SL  + L+    +T   L      +++ +L ++          I  L+ L  L +   
Sbjct: 43  MNSLTYITLANI-NVTD--LTGIEYAHNIKDLTINNIHATNYN-PISGLSNLERLRIMGK 98

Query: 545 KNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELL 604
                    L  L  L  L +S  +        + ++  +  + L           ++ L
Sbjct: 99  DVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTL 158

Query: 605 TGLQLLNLNNC--SNLVRLPSCINGLRSLKTLNLSG 638
             L+ LN+      +       I     L  L    
Sbjct: 159 PELKSLNIQFDGVHDY----RGIEDFPKLNQLYAFS 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 = 48.0 bits (115), Expect = 3e-06
 Identities = 29/182 (15%), Positives = 65/182 (35%), Gaps = 32/182 (17%)

Query: 346 FSQMTNLRLLKIDNLQLP--EGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYS 403
            +QM +L  + + N+ +    G+EY  N           +K L             +   
Sbjct: 40  EAQMNSLTYITLANINVTDLTGIEYAHN-----------IKDL------------TINNI 76

Query: 404 RIEELWNEIKYLNMLKVMKLSHSQ-NLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH 462
                 N I  L+ L+ +++        K P+ +G+ +L  L +       +   + +  
Sbjct: 77  HATNY-NPISGLSNLERLRIMGKDVTSDKIPNLSGLTSLTLLDISHS-AHDDSILTKINT 134

Query: 463 -SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRT 521
             K+  ++L    ++T +    ++  LK+L +     +             L++L+    
Sbjct: 135 LPKVNSIDLSYNGAITDIMPLKTLPELKSLNIQFD-GVHD--YRGIEDFPKLNQLYAFSQ 191

Query: 522 TI 523
           TI
Sbjct: 192 TI 193

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 68.1 bits (167), Expect = 1e-12
 Identities = 37/175 (21%), Positives = 77/175 (44%), Gaps = 12/175 (6%)

Query: 513 LSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLK 572
             +  L + ++ +L  S + L+G+   N  D  N++SL+  ++    LK L LS   ++ 
Sbjct: 21  AVKQNLGKQSVTDLV-SQKELSGVQNFNG-DNSNIQSLAG-MQFFTNLKELHLSHN-QIS 76

Query: 573 KFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLK 632
                L  +  L EL ++   +     ++  +    L  L   +N +R    +  L++L+
Sbjct: 77  DL-SPLKDLTKLEELSVNRNRL----KNLNGIPSACLSRLFLDNNELRDTDSLIHLKNLE 131

Query: 633 TLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCN 687
            L++    KL+++   LG +  LE LD+ G  I      +  +  +  +  +G  
Sbjct: 132 ILSIRNN-KLKSI-VMLGFLSKLEVLDLHGNEITN-TGGLTRLKKVNWIDLTGQK 183

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 63.9 bits (156), Expect = 4e-11
 Identities = 37/206 (17%), Positives = 74/206 (35%), Gaps = 35/206 (16%)

Query: 576 ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
                + + ++  L   S+ ++  S + L+G+Q  N +N  + ++  + +    +LK L+
Sbjct: 13  FPDPGLANAVKQNLGKQSVTDL-VSQKELSGVQNFNGDN--SNIQSLAGMQFFTNLKELH 69

Query: 636 LSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSW 695
           LS   ++ ++   L  +  LEEL ++   ++    +      L  L              
Sbjct: 70  LSHN-QISDL-SPLKDLTKLEELSVNRNRLKNL--NGIPSACLSRLFLDNNELR------ 119

Query: 696 HWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLS 755
                                SL  L +L  L + +  L    I   +G L  L+ L+L 
Sbjct: 120 ------------------DTDSLIHLKNLEILSIRNNKLKS--IVM-LGFLSKLEVLDLH 158

Query: 756 QNNFVTLPASINSLFNLGQLDLEDCK 781
            N        +  L  +  +DL   K
Sbjct: 159 GNEITNTG-GLTRLKKVNWIDLTGQK 183

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 47.7 bits (114), Expect = 8e-06
 Identities = 31/197 (15%), Positives = 73/197 (37%), Gaps = 14/197 (7%)

Query: 347 SQMTNLRLLKIDNLQL--PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSR 404
             + N     +    +      + LS  ++  +     ++SL          E ++ +++
Sbjct: 16  PGLANAVKQNLGKQSVTDLVSQKELSG-VQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQ 74

Query: 405 IEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSK 464
           I +L   +K L  L+ + ++   N +K  +      L  L L+    L +    L+    
Sbjct: 75  ISDLSP-LKDLTKLEELSVNR--NRLKNLNGIPSACLSRLFLDNN-ELRDTDS-LIHLKN 129

Query: 465 LVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIE 524
           L IL++++   L ++     +  L+ L L G  ++T         +  ++ + L      
Sbjct: 130 LEILSIRNN-KLKSIVMLGFLSKLEVLDLHGN-EITN--TGGLTRLKKVNWIDLTGQKCV 185

Query: 525 ELPLSIQHLTGLVLLNL 541
             P+   +   L + N 
Sbjct: 186 NEPVK--YQPELYITNT 200

>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 = 68.2 bits (166), Expect = 7e-12
 Identities = 48/351 (13%), Positives = 107/351 (30%), Gaps = 47/351 (13%)

Query: 441 LEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLT 500
           +     E C  +    P  +      +L + D   L+        ++  + V      L 
Sbjct: 248 VHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTPDGRNRPSHV--WLCDLP 305

Query: 501 KKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCL 560
              L      +    ++    + +E  L           +    + L     ++ +   L
Sbjct: 306 AASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECW-CRDSATDEQLFRCELSVEKSTVL 364

Query: 561 KNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQ-LLNLNNC---- 615
           ++  L  C +L++      +   L+ + L   ++  +    E L     L  ++      
Sbjct: 365 QSE-LESCKELQEL--EPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAY 421

Query: 616 ------SNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPP 669
                   L+           ++ L+L+    L  +   L Q+  +  LD+S   +R  P
Sbjct: 422 LDDLRSKFLLENSVLKMEYADVRVLHLAHK-DLTVLCH-LEQLLLVTHLDLSHNRLRALP 479

Query: 670 SSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDL 729
            ++  +  L+ L  S                 N +          +  ++ L  L +L L
Sbjct: 480 PALAALRCLEVLQASD----------------NALEN--------VDGVANLPRLQELLL 515

Query: 730 SDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLF----NLGQLD 776
            +  L + A    + +   L  LNL  N+          L     ++  + 
Sbjct: 516 CNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSVSSIL 566

>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 = 60.9 bits (147), Expect = 1e-09
 Identities = 42/337 (12%), Positives = 94/337 (27%), Gaps = 28/337 (8%)

Query: 368 YLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQ 427
           Y    L   + H        S  +   +V F+   +    +   +  ++   +     + 
Sbjct: 231 YHRWLLGRAEPHDVLCCVHVSREEACLSVCFSRPLTVGSRMGTLLLMVDEAPLSVEWRTP 290

Query: 428 NLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKS 487
           +    P    + +L    L      H                L             + + 
Sbjct: 291 DGRNRPSHVWLCDLPAASLNDQLPQHTFRVIWTGSDSQKECVLLKDRPECWCRDSATDEQ 350

Query: 488 LKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTT-----------IEELPLSIQHLTGL 536
           L    LS  ++ +        S  +L EL  +              ++ L    + L   
Sbjct: 351 LFRCELS--VEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYF 408

Query: 537 VLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKF---------PESLGSMKDLMEL 587
             L   D      L     +     ++     + ++              L  +  +  L
Sbjct: 409 STLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCHLEQLLLVTHL 468

Query: 588 FLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE 647
            L    +  +P ++  L  L++L  ++   L  +   +  L  L+ L L    +LQ    
Sbjct: 469 DLSHNRLRALPPALAALRCLEVLQASDN-ALENVDG-VANLPRLQELLLCNN-RLQQSAA 525

Query: 648 --TLGQVESLEELDISGTAIRRPPSSI-FVMNNLKTL 681
              L     L  L++ G ++ +       +   L ++
Sbjct: 526 IQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSV 562

>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 = 54.4 bits (130), Expect = 2e-07
 Identities = 30/212 (14%), Positives = 55/212 (25%), Gaps = 32/212 (15%)

Query: 583 DLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKL 642
              E  L                 L    L+       L S +   + L+ L       L
Sbjct: 327 SQKECVLLKDRPECWCRDSATDEQLFRCELS-VEKSTVLQSELESCKELQELEPENKWCL 385

Query: 643 QNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTS-WHWHFPF 701
             +   +  ++ L               ++   + LK +            S +      
Sbjct: 386 LTIILLMRALDPLLYE----------KETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSV 435

Query: 702 NLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVT 761
             M                   +  L L+   L    + + +  L  +  L+LS N    
Sbjct: 436 LKMEY---------------ADVRVLHLAHKDLTV--LCH-LEQLLLVTHLDLSHNRLRA 477

Query: 762 LPASINSLFNLGQLDLEDCK--RLQSMPQLPS 791
           LP ++ +L  L  L   D     +  +  LP 
Sbjct: 478 LPPALAALRCLEVLQASDNALENVDGVANLPR 509

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 66.1 bits (161), Expect = 1e-11
 Identities = 60/302 (19%), Positives = 88/302 (29%), Gaps = 61/302 (20%)

Query: 504 LEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNL---KSLSHTLRRLQC- 559
           +E  G    L  L     T  +L      +  L L  L         + L   LR L   
Sbjct: 36  VELYGGGRSLEYLLKRVDTEADLGQFTDIIKSLSLKRLTVRAARIPSRILFGALRVLGIS 95

Query: 560 -LKNLTLSGCSKLKKFPESLG--SMKDLMELFLDGTSIAEVPSSIE-----LLTGLQLLN 611
            L+ LTL         P  L   +  DL  L L   S A   + +      L  GL++L+
Sbjct: 96  GLQELTLENLEVTGTAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLS 155

Query: 612 LNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPET----LGQVESLEELDISGTAIRR 667
           +    +L      +    +L TL+LS   +L            +  +L+ L +       
Sbjct: 156 IAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLALRN----- 210

Query: 668 PPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKL 727
                     ++T S                                    +    L  L
Sbjct: 211 --------AGMETPSGVCSA-----------------------------LAAARVQLQGL 233

Query: 728 DLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMP 787
           DLS   L + A          L  LNLS      +P  + +   L  LDL    RL   P
Sbjct: 234 DLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQVPKGLPA--KLSVLDLSYN-RLDRNP 290

Query: 788 QL 789
             
Sbjct: 291 SP 292

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 62.2 bits (151), Expect = 2e-10
 Identities = 54/278 (19%), Positives = 88/278 (31%), Gaps = 35/278 (12%)

Query: 421 MKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLL---HSKLVILNLKDCTSLT 477
            ++    +L +  D     +L+ L +        I    L     S L  L L++     
Sbjct: 50  KRVDTEADLGQFTDIIKSLSLKRLTVRAARIPSRILFGALRVLGISGLQELTLENLEVTG 109

Query: 478 TLP---GKISMKSLKTLVLSGCLKLTKKCLE---FAGSMNDLSELFLDRTTIEELPLS-I 530
           T P    + +   L  L L      T+              L  L + +          +
Sbjct: 110 TAPPPLLEATGPDLNILNLRNVSWATRDAWLAELQQWLKPGLKVLSIAQAHSLNFSCEQV 169

Query: 531 QHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLD 590
           +    L  L+L D  N +     L    C               P    +++ L      
Sbjct: 170 RVFPALSTLDLSD--NPELGERGLISALC---------------PLKFPTLQVLALRNAG 212

Query: 591 GTSI-AEVPSSIELLTGLQLLNL--NNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPE 647
             +      +       LQ L+L  N+  +    PSC +    L +LNLS    L+ VP+
Sbjct: 213 METPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSC-DWPSQLNSLNLSFT-GLKQVPK 270

Query: 648 TLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSG 685
            L     L  LD+S   + R PS    +  +  LS  G
Sbjct: 271 GLPA--KLSVLDLSYNRLDRNPSPDE-LPQVGNLSLKG 305

>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 = 61.2 bits (149), Expect = 2e-10
 Identities = 36/213 (16%), Positives = 62/213 (29%), Gaps = 36/213 (16%)

Query: 415 LNMLKVMKLSHSQNL--IKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLK 471
           L  +  + +S    L  +++  F  +  +  + +     L  I P  L     L  L + 
Sbjct: 54  LPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIF 113

Query: 472 DCTSLTTLPGKI---SMKSLKTLVLSGCLKLTKKCLE---FAGSMNDLSELFLDRTTIEE 525
           +   L   P      S      L ++    +T   +    F G  N+   L L       
Sbjct: 114 NT-GLKMFPDLTKVYSTDIFFILEITDNPYMTS--IPVNAFQGLCNETLTLKLYNNGFTS 170

Query: 526 LPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLM 585
           +     + T L  + L   K L  +                G                  
Sbjct: 171 VQGYAFNGTKLDAVYLNKNKYLTVID----------KDAFGGVYSG------------PS 208

Query: 586 ELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL 618
            L +  TS+  +PS  + L  L+ L   N   L
Sbjct: 209 LLDVSQTSVTALPS--KGLEHLKELIARNTWTL 239

>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 = 56.2 bits (136), Expect = 9e-09
 Identities = 35/255 (13%), Positives = 69/255 (27%), Gaps = 61/255 (23%)

Query: 439 PNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKTLVLSG 495
           P+ + L L   T L  I      +   +  + +    +L  L      ++  +  + +  
Sbjct: 31  PSTQTLKLIE-THLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRN 89

Query: 496 CLKLTKKCLE---FAGSMNDLSELFLDRTTIEELP--LSIQHLTGLVLLNLKDCKNLKSL 550
              LT   ++       +  L  L +  T ++  P    +       +L + D   + S+
Sbjct: 90  TRNLTY--IDPDALKE-LPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSI 146

Query: 551 SHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLL 610
                  Q L N                      + L L       V        G +  
Sbjct: 147 PVNA--FQGLCNE--------------------TLTLKLYNNGFTSVQGYA--FNGTK-- 180

Query: 611 NLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETL--GQVESLEELDISGTAIRRP 668
                               L  + L+    L  + +    G       LD+S T++   
Sbjct: 181 --------------------LDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTAL 220

Query: 669 PSSIFV-MNNLKTLS 682
           PS     +  L   +
Sbjct: 221 PSKGLEHLKELIARN 235

>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 = 52.7 bits (127), Expect = 1e-07
 Identities = 31/213 (14%), Positives = 71/213 (33%), Gaps = 38/213 (17%)

Query: 343 AKAFSQMTNLRLLKID-NLQL----PEGLEYLSNKLRLLDWHRYP-LKSLPSN-FQ-LEK 394
           + AFS + N+  + +  ++ L          LS  +  ++      L  +  +  + L  
Sbjct: 48  SHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSK-VTHIEIRNTRNLTYIDPDALKELPL 106

Query: 395 TVEFNMCYSRIEEL--WNEIKYLNMLKVMKLSHSQNLIKTPD--FTGVPN-LEELILEGC 449
                +  + ++      ++   ++  +++++ +  +   P   F G+ N    L L   
Sbjct: 107 LKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTLKLYN- 165

Query: 450 TRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGS 509
                +       +KL  + L     LT +                          F G 
Sbjct: 166 NGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDA----------------------FGGV 203

Query: 510 MNDLSELFLDRTTIEELPLSI-QHLTGLVLLNL 541
            +  S L + +T++  LP    +HL  L+  N 
Sbjct: 204 YSGPSLLDVSQTSVTALPSKGLEHLKELIARNT 236

>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 = 47.7 bits (114), Expect = 7e-06
 Identities = 38/241 (15%), Positives = 66/241 (27%), Gaps = 81/241 (33%)

Query: 586 ELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPS-CINGLRSLKTLNLSGCSKLQN 644
           +  +    I  +PS   L    Q L L    +L  +PS   + L ++  + +S    LQ 
Sbjct: 15  DFRVTCKDIQRIPS---LPPSTQTLKLIET-HLRTIPSHAFSNLPNISRIYVSIDVTLQQ 70

Query: 645 VPE-TLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNL 703
           +   +   +  +  ++I  T             NL  +                      
Sbjct: 71  LESHSFYNLSKVTHIEIRNT------------RNLTYI--------DPDA---------- 100

Query: 704 MGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGE------------------------GAI 739
                         L  L  L  L + + GL                           +I
Sbjct: 101 --------------LKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSI 146

Query: 740 P-NDIGNLCS-LKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQ-----LPSN 792
           P N    LC+    L L  N F ++     +   L  + L   K L  + +     + S 
Sbjct: 147 PVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDAFGGVYSG 206

Query: 793 L 793
            
Sbjct: 207 P 207

>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 = 4e-04
 Identities = 38/209 (18%), Positives = 65/209 (31%), Gaps = 48/209 (22%)

Query: 639 CSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHW 697
           C  +Q +P       S + L +  T +R  PS  F  + N+  +  S      +      
Sbjct: 20  CKDIQRIPSLP---PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDV---TLQQLES 73

Query: 698 HFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSD-CGLGEGAIPNDI-GNLCSLKQLNLS 755
           H                  S   L  ++ +++ +   L    I  D    L  LK L + 
Sbjct: 74  H------------------SFYNLSKVTHIEIRNTRNLTY--IDPDALKELPLLKFLGIF 113

Query: 756 QNNFVTLPA--SINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGCASLVTLSGALKL 813
                  P    + S      L++ D   + S   +P N           L   +  LKL
Sbjct: 114 NTGLKMFPDLTKVYSTDIFFILEITDNPYMTS---IPVNA-------FQGLCNETLTLKL 163

Query: 814 CKSKCTSINC-------IGSLKLAGNNGL 835
             +  TS+         + ++ L  N  L
Sbjct: 164 YNNGFTSVQGYAFNGTKLDAVYLNKNKYL 192

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 57.8 bits (140), Expect = 5e-09
 Identities = 50/229 (21%), Positives = 76/229 (33%), Gaps = 38/229 (16%)

Query: 558 QCLKNLTLSGCS--KLKKFPESLGSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNN 614
             + +     C    L   P  L    D   L L    +     +     T L  LNL+ 
Sbjct: 7   SKVASHLEVNCDKRNLTALPPDLPK--DTTILHLSENLLYTFSLATLMPYTRLTQLNLDR 64

Query: 615 CSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV 674
              L +L      L  L TL+LS   +LQ++P     + +L  LD+S   +   P     
Sbjct: 65  AE-LTKLQV-DGTLPVLGTLDLSHN-QLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALR 121

Query: 675 -MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPS--LSGLHSLSKLDLSD 731
            +  L+ L   G                N +          LP   L+    L KL L++
Sbjct: 122 GLGELQELYLKG----------------NEL--------KTLPPGLLTPTPKLEKLSLAN 157

Query: 732 CGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED 779
             L    +P  +   L +L  L L +N+  T+P        L    L  
Sbjct: 158 NNLT--ELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHG 204

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 57.8 bits (140), Expect = 5e-09
 Identities = 52/177 (29%), Positives = 76/177 (42%), Gaps = 12/177 (6%)

Query: 467 ILNLKDCTSLTTLPGKI--SMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIE 524
           IL+L +   L T           L  L L    +LTK  L+  G++  L  L L    ++
Sbjct: 35  ILHLSE-NLLYTFSLATLMPYTRLTQLNLDRA-ELTK--LQVDGTLPVLGTLDLSHNQLQ 90

Query: 525 ELPLSIQHLTGLVLLNLKDCKNLKSLSH-TLRRLQCLKNLTLSGCSKLKKFPESL-GSMK 582
            LPL  Q L  L +L++   + L SL    LR L  L+ L L G ++LK  P  L     
Sbjct: 91  SLPLLGQTLPALTVLDVSFNR-LTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTP 148

Query: 583 DLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSG 638
            L +L L   ++ E+P+ +   L  L  L L   ++L  +P    G   L    L G
Sbjct: 149 KLEKLSLANNNLTELPAGLLNGLENLDTLLLQE-NSLYTIPKGFFGSHLLPFAFLHG 204

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 51.3 bits (123), Expect = 6e-07
 Identities = 36/141 (25%), Positives = 59/141 (41%), Gaps = 8/141 (5%)

Query: 546 NLKSLSHT-LRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELL 604
            L + S   L     L  L L    +L K     G++  L  L L    +  +P   + L
Sbjct: 42  LLYTFSLATLMPYTRLTQLNLDRA-ELTKLQVD-GTLPVLGTLDLSHNQLQSLPLLGQTL 99

Query: 605 TGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGCSKLQNVPE-TLGQVESLEELDISG 662
             L +L+++    L  LP     GL  L+ L L G ++L+ +P   L     LE+L ++ 
Sbjct: 100 PALTVLDVSFN-RLTSLPLGALRGLGELQELYLKG-NELKTLPPGLLTPTPKLEKLSLAN 157

Query: 663 TAIRRPPSSIFV-MNNLKTLS 682
             +   P+ +   + NL TL 
Sbjct: 158 NNLTELPAGLLNGLENLDTLL 178

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 49.3 bits (118), Expect = 2e-06
 Identities = 33/169 (19%), Positives = 56/169 (33%), Gaps = 33/169 (19%)

Query: 622 PSC-INGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFV-MNNLK 679
           P C ++ + S   +N      L  +P  L   +    L +S   +     +  +    L 
Sbjct: 2   PICEVSKVASHLEVNCDK-RNLTALPPDLP--KDTTILHLSENLLYTFSLATLMPYTRLT 58

Query: 680 TLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAI 739
            L+                                L     L  L  LDLS   L   ++
Sbjct: 59  QLNLDRAE------------------------LTKLQVDGTLPVLGTLDLSHNQLQ--SL 92

Query: 740 PNDIGNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLDLEDCKRLQSMP 787
           P     L +L  L++S N   +LP      L  L +L L+  + L+++P
Sbjct: 93  PLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLP 140

>1p9a_G Platelet glycoprotein IB alpha chain precursor; platelet receptors, glycocalicin, leucine rich repeats, BLOO clotting; HET: NAG BMA; 1.70A {Homo sapiens} SCOP: c.10.2.7 PDB: 1ook_G* 1qyy_A* 3pmh_G* 1m0z_A 1m10_B 1sq0_B 1gwb_A* 1p8v_A* 1u0n_D 3p72_A Length = 290

 Score = 48.6 bits (116), Expect = 5e-06
 Identities = 39/207 (18%), Positives = 66/207 (31%), Gaps = 57/207 (27%)

Query: 584 LMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGCSKL 642
            +E+  D  ++  +P  +       +L+L+  + L             L  LNL    +L
Sbjct: 12  HLEVNCDKRNLTALPPDL--PKDTTILHLSE-NLLYTFSLATLMPYTRLTQLNLDRA-EL 67

Query: 643 QNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFN 702
             +    G +  L  LD+S              N L++L                     
Sbjct: 68  TKLQ-VDGTLPVLGTLDLSH-------------NQLQSLP-------------------- 93

Query: 703 LMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVT 761
                             L +L+ LD+S   L   ++P      L  L++L L  N   T
Sbjct: 94  -------------LLGQTLPALTVLDVSFNRLT--SLPLGALRGLGELQELYLKGNELKT 138

Query: 762 LPASI-NSLFNLGQLDLEDCKRLQSMP 787
           LP  +      L +L L +   L  +P
Sbjct: 139 LPPGLLTPTPKLEKLSLANNN-LTELP 164

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 56.9 bits (138), Expect = 8e-09
 Identities = 41/188 (21%), Positives = 75/188 (39%), Gaps = 17/188 (9%)

Query: 512 DLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDCKNLKSL-SHTLRRLQCLKNLTLSGCS 569
               L L    +  L          L +L+L  C+ ++++     + L  L  L L+G +
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCE-IQTIEDGAYQSLSHLSTLILTG-N 86

Query: 570 KLKKFPESL-GSMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNL---VRLPSC 624
            ++         +  L +L    T++A + +     L  L+ LN+ +  NL    +LP  
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH--NLIQSFKLPEY 144

Query: 625 INGLRSLKTLNLSGCSKLQNVPE----TLGQVESLE-ELDISGTAIRRPPSSIFVMNNLK 679
            + L +L+ L+LS   K+Q++       L Q+  L   LD+S   +       F    LK
Sbjct: 145 FSNLTNLEHLDLSSN-KIQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLK 203

Query: 680 TLSFSGCN 687
            L+     
Sbjct: 204 ELALDTNQ 211

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 56.1 bits (136), Expect = 1e-08
 Identities = 44/215 (20%), Positives = 79/215 (36%), Gaps = 35/215 (16%)

Query: 583 DLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGCS 640
               L L    +  + S        LQ+L+L+ C  +  +       L  L TL L+G +
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLILTG-N 86

Query: 641 KLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWH 698
            +Q++       + SL++L    T +    +     +  LK L+ +              
Sbjct: 87  PIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAH------------- 133

Query: 699 FPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLK----QLN 753
              NL+  +S+ +       S L +L  LDLS   +   +I       L  +      L+
Sbjct: 134 ---NLI--QSFKLP---EYFSNLTNLEHLDLSSNKIQ--SIYCTDLRVLHQMPLLNLSLD 183

Query: 754 LSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQ 788
           LS N    +         L +L L+  + L+S+P 
Sbjct: 184 LSLNPMNFIQPGAFKEIRLKELALDTNQ-LKSVPD 217

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 56.1 bits (136), Expect = 2e-08
 Identities = 51/193 (26%), Positives = 72/193 (37%), Gaps = 18/193 (9%)

Query: 434 DFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKI--SMKSLKT 490
            F   P L+ L L  C  +  I        S L  L L     + +L       + SL+ 
Sbjct: 47  SFFSFPELQVLDLSRC-EIQTIEDGAYQSLSHLSTLIL-TGNPIQSLALGAFSGLSSLQK 104

Query: 491 LVLSGCLKLTKKCLEF--AGSMNDLSELFLDRTTIEELPLS--IQHLTGLVLLNLKDCKN 546
           LV      L    LE    G +  L EL +    I+   L     +LT L  L+L   K 
Sbjct: 105 LVAVET-NLA--SLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNK- 160

Query: 547 LKSLSH-TLRRLQCLKNLTLS---GCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSI- 601
           ++S+    LR L  +  L LS     + +            L EL LD   +  VP  I 
Sbjct: 161 IQSIYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIF 220

Query: 602 ELLTGLQLLNLNN 614
           + LT LQ + L+ 
Sbjct: 221 DRLTSLQKIWLHT 233

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 55.7 bits (135), Expect = 2e-08
 Identities = 37/205 (18%), Positives = 78/205 (38%), Gaps = 33/205 (16%)

Query: 590 DGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPS-CINGLRSLKTLNLSGCSKLQNVPE- 647
              +  ++P ++      + L+L+  + L  L S        L+ L+LS C ++Q + + 
Sbjct: 15  MELNFYKIPDNL--PFSTKNLDLSF-NPLRHLGSYSFFSFPELQVLDLSRC-EIQTIEDG 70

Query: 648 TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQ 706
               +  L  L ++G  I+      F  +++L+ L     N      S   +FP      
Sbjct: 71  AYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETN----LAS-LENFPI----- 120

Query: 707 RSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASI 766
                         L +L +L+++   +    +P    NL +L+ L+LS N   ++  + 
Sbjct: 121 ------------GHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 168

Query: 767 -NSLFNLGQLDLE---DCKRLQSMP 787
              L  +  L+L        +  + 
Sbjct: 169 LRVLHQMPLLNLSLDLSLNPMNFIQ 193

>2z62_A TOLL-like receptor 4, variable lymphocyte recepto; TLR, VLR hybrid, MD-2, LPS, glycoprotein response, inflammatory response, innate immunity; HET: NAG FUL BMA; 1.70A {Homo sapiens} PDB: 2z65_A* 3ul8_A* 3ula_A* 3ul7_A* Length = 276

 Score = 42.7 bits (101), Expect = 3e-04
 Identities = 35/190 (18%), Positives = 67/190 (35%), Gaps = 38/190 (20%)

Query: 343 AKAFSQMTNLRLLKIDNLQL---PEGLEYLSNKLRLLDWHRYPLKSLPSNF--QLEKTVE 397
           + +F     L++L +   ++    +G     + L  L     P++SL       L    +
Sbjct: 45  SYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQK 104

Query: 398 FNMCYSRIEELWNEI-KYLNMLKVMKLSHSQ--NLIKTPDFTGVPNLEELILEGC----- 449
                + +  L N    +L  LK + ++H+   +      F+ + NLE L L        
Sbjct: 105 LVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSI 164

Query: 450 --------TRLHEIHPSLLLHS--------------KLVILNLKDCTSLTTLPGKI--SM 485
                    ++  ++ SL L                +L  L L D   L ++P  I   +
Sbjct: 165 YCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELAL-DTNQLKSVPDGIFDRL 223

Query: 486 KSLKTLVLSG 495
            SL+ + L  
Sbjct: 224 TSLQKIWLHT 233

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 56.8 bits (137), Expect = 1e-08
 Identities = 40/245 (16%), Positives = 69/245 (28%), Gaps = 66/245 (26%)

Query: 583 DLMELFLDGTSIAEVPSSIEL--LTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGC 639
               L L   +++ + +      LT L  L L++  +L  + S     + +L+ L+LS  
Sbjct: 40  YTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSN 98

Query: 640 SKLQNVP-ETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWH 698
             L  +       +++LE L +    I     + F                         
Sbjct: 99  -HLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAF------------------------- 132

Query: 699 FPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI----GNLCSLKQLNL 754
                                 +  L KL LS   +     P ++      L  L  L+L
Sbjct: 133 --------------------EDMAQLQKLYLSQNQISR--FPVELIKDGNKLPKLMLLDL 170

Query: 755 SQNNFVTLPA-SINSLFNLGQLDLE--------DCKRLQSMPQLPSNLYEVQVNGCASLV 805
           S N    LP   +  L    +  L         DCK  Q             ++    L 
Sbjct: 171 SSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLECDCKLYQLFSHWQYRQLSSVMDFQEDLY 230

Query: 806 TLSGA 810
            +   
Sbjct: 231 CMHSK 235

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 48.3 bits (115), Expect = 7e-06
 Identities = 45/204 (22%), Positives = 70/204 (34%), Gaps = 60/204 (29%)

Query: 593 SIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCI--NGLRSLKTLNLSGCSKLQNVPE-TL 649
            +  VP S+   +   LL+L++  NL RL +      L +L +L LS    L  +     
Sbjct: 29  QLPNVPQSLP--SYTALLDLSHN-NLSRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAF 84

Query: 650 GQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSY 709
             V +L  LD+S              N+L TL                            
Sbjct: 85  VPVPNLRYLDLSS-------------NHLHTL--------DEFL---------------- 107

Query: 710 PVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPA---- 764
                    S L +L  L L +  +    +  +   ++  L++L LSQN     P     
Sbjct: 108 --------FSDLQALEVLLLYNNHIV--VVDRNAFEDMAQLQKLYLSQNQISRFPVELIK 157

Query: 765 SINSLFNLGQLDLEDCKRLQSMPQ 788
             N L  L  LDL    +L+ +P 
Sbjct: 158 DGNKLPKLMLLDLSS-NKLKKLPL 180

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 48.3 bits (115), Expect = 8e-06
 Identities = 46/272 (16%), Positives = 87/272 (31%), Gaps = 39/272 (14%)

Query: 427 QNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH-SKLVILNLKDCTSLTTLPGKISM 485
             L      T + NL  L+L     L+ I     +    L  L+L     L TL      
Sbjct: 52  SRLRAEWTPTRLTNLHSLLLSHN-HLNFISSEAFVPVPNLRYLDLSSN-HLHTLD----- 104

Query: 486 KSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSI-QHLTGLVLLNLKDC 544
                 + S    L                L L    I  +  +  + +  L  L L   
Sbjct: 105 ----EFLFSDLQALE--------------VLLLYNNHIVVVDRNAFEDMAQLQKLYLSQN 146

Query: 545 KNLKSLS----HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLME--LFLDGTSIAEVP 598
           + +            +L  L  L LS     K     L  +   ++  L+L    +    
Sbjct: 147 Q-ISRFPVELIKDGNKLPKLMLLDLSSNKLKKLPLTDLQKLPAWVKNGLYLHNNPLECDC 205

Query: 599 SSIELLTGLQLLNLNNCSNLVRLPSCING--LRSLKTLNLSGCSKLQNVPETLGQVESLE 656
              +L +  Q   L++  +      C++   L ++ +L+   CS+     E+  +    +
Sbjct: 206 KLYQLFSHWQYRQLSSVMDFQEDLYCMHSKKLHNIFSLDFFNCSE---YKESAWEAHLGD 262

Query: 657 ELDISGTAIRRPPSSIFVMNNLKTLSFSGCNG 688
            L I     ++  + ++V  + + +   G NG
Sbjct: 263 TLTIRCDTKQQGMTKVWVSPSNEQVLSQGSNG 294

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 52.8 bits (127), Expect = 9e-08
 Identities = 33/150 (22%), Positives = 66/150 (44%), Gaps = 13/150 (8%)

Query: 521 TTIEELPLSIQHLTGLVLLNLK------DCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKF 574
           TTI++     +    +V    +          ++ +  TL  L+  K+L LS    ++K 
Sbjct: 5   TTIKDAIRIFEERKSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTN-NIEKI 63

Query: 575 PESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTL 634
             SL  M++L  L L    I ++ +   +   L+ L ++   N +   S I  L +L+ L
Sbjct: 64  -SSLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISY--NQIASLSGIEKLVNLRVL 120

Query: 635 NLSGC--SKLQNVPETLGQVESLEELDISG 662
            +S    +    + + L  ++ LE+L ++G
Sbjct: 121 YMSNNKITNWGEI-DKLAALDKLEDLLLAG 149

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 49.3 bits (118), Expect = 1e-06
 Identities = 34/127 (26%), Positives = 57/127 (44%), Gaps = 9/127 (7%)

Query: 515 ELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKF 574
           EL      IE++  ++  L     L L    N++ +S  L  ++ L+ L+L     +KK 
Sbjct: 29  ELHGMIPPIEKMDATLSTLKACKHLAL-STNNIEKISS-LSGMENLRILSLGRN-LIKKI 85

Query: 575 PESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLR---SL 631
                    L EL++    IA + S IE L  L++L ++N  N +     I+ L     L
Sbjct: 86  ENLDAVADTLEELWISYNQIASL-SGIEKLVNLRVLYMSN--NKITNWGEIDKLAALDKL 142

Query: 632 KTLNLSG 638
           + L L+G
Sbjct: 143 EDLLLAG 149

>1ds9_A Outer arm dynein; leucine-rich repeat, beta-BETA-alpha cylinder, flagella, contractIle protein; NMR {Chlamydomonas reinhardtii} SCOP: c.10.3.1 PDB: 1m9l_A Length = 198

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 30/189 (15%), Positives = 62/189 (32%), Gaps = 36/189 (19%)

Query: 591 GTSIAEVPSSIELLTGLQLLNL------NNCSNLVRLPSCINGLRSLKTLNLSGC--SKL 642
            T+I +     E    +                + ++ + ++ L++ K L LS     K+
Sbjct: 4   ATTIKDAIRIFEERKSVVATEAEKVELHGMIPPIEKMDATLSTLKACKHLALSTNNIEKI 63

Query: 643 QNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFN 702
            +    L  +E+L  L +    I++  +   V + L+ L  S                 N
Sbjct: 64  SS----LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISY----------------N 103

Query: 703 LMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTL 762
            +          L  +  L +L  L +S+  +      + +  L  L+ L L+ N     
Sbjct: 104 QIAS--------LSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYND 155

Query: 763 PASINSLFN 771
               N+   
Sbjct: 156 YKENNATSE 164

>2ifg_A High affinity nerve growth factor receptor; TRK, TRKA, receptor-ligand complex transferase; HET: NAG NDG MAN BMA; 3.40A {Homo sapiens} SCOP: b.1.1.4 b.1.1.4 c.10.2.7 Length = 347

 Score = 53.2 bits (127), Expect = 2e-07
 Identities = 20/92 (21%), Positives = 34/92 (36%), Gaps = 3/92 (3%)

Query: 596 EVPSSIELLTGLQLLNLNNCSNLVRLPS-CINGLRSLKTLNLSGCSKLQNV-PETLGQVE 653
           +    +     L  L + N  +L  L    + GL  L+ L +     L+ V P+      
Sbjct: 22  DSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKS-GLRFVAPDAFHFTP 80

Query: 654 SLEELDISGTAIRRPPSSIFVMNNLKTLSFSG 685
            L  L++S  A+           +L+ L  SG
Sbjct: 81  RLSRLNLSFNALESLSWKTVQGLSLQELVLSG 112

>2ca6_A RAN GTPase-activating protein 1; GAP, GTPase activation, hemihedral twinning, leucine-rich repeat protein, LRR, merohedral twinning; 2.2A {Schizosaccharomyces pombe} SCOP: c.10.1.2 PDB: 1k5g_C* 1k5d_C 1yrg_A Length = 386

 Score = 53.6 bits (129), Expect = 2e-07
 Identities = 53/316 (16%), Positives = 95/316 (30%), Gaps = 69/316 (21%)

Query: 483 ISMKSLKTLVLSGCLKLTKKCLEFAG---SMNDLSELFLDRTTI-----EELPLSIQHLT 534
           ++  S++   L      T+            + + E+ L   TI       L  +I    
Sbjct: 1   MARFSIEGKSLKLDAITTEDEKSVFAVLLEDDSVKEIVLSGNTIGTEAARWLSENIASKK 60

Query: 535 GLVLLNLKDC----------KNLKSLSHTLRRLQCLKNLTLSGCS----KLKKFPESLGS 580
            L +    D           + L+ L   L +   L  + LS  +      +   + L  
Sbjct: 61  DLEIAEFSDIFTGRVKDEIPEALRLLLQALLKCPKLHTVRLSDNAFGPTAQEPLIDFLSK 120

Query: 581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS 640
              L  L+L    +    +  ++   LQ L +N                 L+++      
Sbjct: 121 HTPLEHLYLHNNGLGPQ-AGAKIARALQELAVN---------KKAKNAPPLRSIICGRN- 169

Query: 641 KLQNVP-----ETLGQVESLEELDISGTAIRRP------PSSIFVMNNLKTLSFSGCNGP 689
           +L+N       +T      L  + +    IR           +     LK L        
Sbjct: 170 RLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLEGLAYCQELKVLDLQDNT-- 227

Query: 690 PSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLG-EGAIP-----NDI 743
                      F  +G  +  +A+ L S     +L +L L+DC L   GA       + +
Sbjct: 228 -----------FTHLGSSA--LAIALKSWP---NLRELGLNDCLLSARGAAAVVDAFSKL 271

Query: 744 GNLCSLKQLNLSQNNF 759
            N   L+ L L  N  
Sbjct: 272 EN-IGLQTLRLQYNEI 286

>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 = 53.0 bits (128), Expect = 4e-07
 Identities = 56/334 (16%), Positives = 102/334 (30%), Gaps = 85/334 (25%)

Query: 539 LNLKDCK----NLKSLSHTLRRLQCLK----NLTLSGCSKLKKFPESLGSMKDLMELFLD 590
           L+++  +        L   L++ Q ++     LT + C  +     +L     L EL L 
Sbjct: 8   LDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDI---SSALRVNPALAELNLR 64

Query: 591 GTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS----KLQNVP 646
              + +V        G+  +        ++ PSC      ++ L+L  C         + 
Sbjct: 65  SNELGDV--------GVHCV-----LQGLQTPSC-----KIQKLSLQNCCLTGAGCGVLS 106

Query: 647 ETLGQVESLEELDISGTAIRRPPSSIF------VMNNLKTLSFSGCNGPPSSTSWHWHFP 700
            TL  + +L+EL +S   +      +           L+ L    C+   +S        
Sbjct: 107 STLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCRLEKLQLEYCSLSAAS-------- 158

Query: 701 FNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPN----DIGNLCSLKQLNLSQ 756
                        +   L       +L +S+  + E  +         + C L+ L L  
Sbjct: 159 ----------CEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLES 208

Query: 757 NNF-----VTLPASINSLFNLGQLDLEDC-------KRLQSMPQLPS-NLYEVQVNGC-- 801
                     L   + S  +L +L L            L      PS  L  + +  C  
Sbjct: 209 CGVTSDNCRDLCGIVASKASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGI 268

Query: 802 --ASLVTLSGALKLCKSKCTSINCIGSLKLAGNN 833
                  L   L+  +S       +  L LAGN 
Sbjct: 269 TAKGCGDLCRVLRAKES-------LKELSLAGNE 295

>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 = 50.7 bits (122), Expect = 2e-06
 Identities = 70/357 (19%), Positives = 114/357 (31%), Gaps = 91/357 (25%)

Query: 437 GVPNLEELILEGC----TRLHEIHPSLLLHSKLVILNLKD-----------CTSLTTLPG 481
            +   + + L+ C     R  +I  +L ++  L  LNL+               L     
Sbjct: 26  LLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGL----- 80

Query: 482 KISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNL 541
           +     ++ L L  C  LT            LS       T++EL LS   L        
Sbjct: 81  QTPSCKIQKLSLQNC-CLTGAGCG------VLSSTLRTLPTLQELHLSDNLLGD------ 127

Query: 542 KDCKNLKSLSHTLRRLQC-LKNLTLSGCSK----LKKFPESLGSMKDLMELFLDGTSIAE 596
                L+ L   L   QC L+ L L  CS      +     L +  D  EL +    I E
Sbjct: 128 ---AGLQLLCEGLLDPQCRLEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINE 184

Query: 597 VPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS----KLQNVPETLGQV 652
             + + +L   Q L  + C               L+ L L  C       +++   +   
Sbjct: 185 --AGVRVLC--QGLKDSPCQ--------------LEALKLESCGVTSDNCRDLCGIVASK 226

Query: 653 ESLEELDISGTAIRRP------PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQ 706
            SL EL +    +         P  +   + L+TL    C    ++              
Sbjct: 227 ASLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECG--ITAKGCGD--------- 275

Query: 707 RSYPVALMLPSLSGLHSLSKLDLSDCGLG-EGAI---PNDIGNLCSLKQLNLSQNNF 759
               +  +L +     SL +L L+   LG EGA       +   C L+ L +   +F
Sbjct: 276 ----LCRVLRAKE---SLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSF 325

>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 = 47.6 bits (114), Expect = 2e-05
 Identities = 91/473 (19%), Positives = 152/473 (32%), Gaps = 138/473 (29%)

Query: 343 AKAFSQMTNLRLLKIDNLQL-PEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMC 401
           + A      L  L + + +L   G+  +   L+              + +++K    ++ 
Sbjct: 49  SSALRVNPALAELNLRSNELGDVGVHCVLQGLQT------------PSCKIQK---LSLQ 93

Query: 402 YSRI-----EELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIH 456
              +       L + ++ L  L+ + LS +          G+  L E +L+   RL +  
Sbjct: 94  NCCLTGAGCGVLSSTLRTLPTLQELHLSDNL-----LGDAGLQLLCEGLLDPQCRLEK-- 146

Query: 457 PSLLLHS--------KLVILNLKDCTSLTTL---------PG--------KISMKSLKTL 491
             L L          + +   L+       L          G        K S   L+ L
Sbjct: 147 --LQLEYCSLSAASCEPLASVLRAKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEAL 204

Query: 492 VLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLT--GLVLLNLKDCKNLKS 549
            L  C  +T           DL  +   + ++ EL L    L   G+  L    C  L  
Sbjct: 205 KLESC-GVTSDNCR------DLCGIVASKASLRELALGSNKLGDVGMAEL----CPGLLH 253

Query: 550 LSHTLRRLQCLKN-LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQ 608
            S  LR L   +  +T  GC  L      L + + L EL L G  + +         G +
Sbjct: 254 PSSRLRTLWIWECGITAKGCGDLC---RVLRAKESLKELSLAGNELGD--------EGAR 302

Query: 609 LLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS----KLQNVPETLGQVESLEELDISGTA 664
           LL        +  P C      L++L +  CS       +    L Q   L EL IS   
Sbjct: 303 LL-----CETLLEPGC-----QLESLWVKSCSFTAACCSHFSSVLAQNRFLLELQISNNR 352

Query: 665 IR-----------RPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVAL 713
           +              P S      L+ L  + C+                +   S   + 
Sbjct: 353 LEDAGVRELCQGLGQPGS-----VLRVLWLADCD----------------VSDSS--CSS 389

Query: 714 MLPSLSGLHSLSKLDLSDCGLGEG-------AIPNDIGNLCSLKQLNLSQNNF 759
           +  +L   HSL +LDLS+  LG+        ++       C L+QL L    +
Sbjct: 390 LAATLLANHSLRELDLSNNCLGDAGILQLVESVRQ---PGCLLEQLVLYDIYW 439

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 49.1 bits (117), Expect = 1e-06
 Identities = 19/138 (13%), Positives = 45/138 (32%), Gaps = 20/138 (14%)

Query: 526 LPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLM 585
           LP        +  ++  D   +      +  LQ ++ + L  C                 
Sbjct: 53  LPTGPLDKYKIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHY--------------- 97

Query: 586 ELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLV-RLPSCINGLRSLKTLNLSGCSKLQN 644
              ++   +  +     L   +  + + +C N+  +    ++  R+LK L LS    ++ 
Sbjct: 98  ---IEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRNLKYLFLSDLPGVKE 154

Query: 645 VPET-LGQVESLEELDIS 661
             +       SL  L++ 
Sbjct: 155 KEKIVQAFKTSLPSLELK 172

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 43.7 bits (103), Expect = 7e-05
 Identities = 16/89 (17%), Positives = 32/89 (35%), Gaps = 7/89 (7%)

Query: 435 FTGVPNLEELILEGCTR-----LHEIHPSLLLHSKLVILNLKDCTSLT--TLPGKISMKS 487
             G+  +E++ L  C       L  +     L   ++ + +  C ++T   +      ++
Sbjct: 81  MEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEIISCGNVTDKGIIALHHFRN 140

Query: 488 LKTLVLSGCLKLTKKCLEFAGSMNDLSEL 516
           LK L LS    + +K          L  L
Sbjct: 141 LKYLFLSDLPGVKEKEKIVQAFKTSLPSL 169

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 43.3 bits (102), Expect = 9e-05
 Identities = 16/134 (11%), Positives = 37/134 (27%), Gaps = 30/134 (22%)

Query: 440 NLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTL------PGKISMKSLKTLVL 493
            ++ +       +      +     +  + L  C  +           +   KS+  + +
Sbjct: 62  KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEI 121

Query: 494 SGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHT 553
             C  +T K +                        ++ H   L  L L D   +K     
Sbjct: 122 ISCGNVTDKGII-----------------------ALHHFRNLKYLFLSDLPGVKEKEKI 158

Query: 554 LRRLQ-CLKNLTLS 566
           ++  +  L +L L 
Sbjct: 159 VQAFKTSLPSLELK 172

>3e4g_A ATP synthase subunit S, mitochondrial; leucine-rich repeat, CF0, hydrogen ION transport, inner membrane, ION transport, membrane, mitochondrion; 0.96A {Bos taurus} PDB: 3e3z_A 3dze_A 3e2j_A Length = 176

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 15/90 (16%), Positives = 36/90 (40%), Gaps = 7/90 (7%)

Query: 606 GLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSK-----LQNVPETLGQVESLEELDI 660
            +Q ++  +   +      + GL+ ++ + L  C       L+ + +     +S+ E++I
Sbjct: 62  KIQAIDATDSCIMSIGFDHMEGLQYVEKIRLCKCHYIEDGCLERLSQLENLQKSMLEMEI 121

Query: 661 SG-TAIR-RPPSSIFVMNNLKTLSFSGCNG 688
                +  +   ++    NLK L  S   G
Sbjct: 122 ISCGNVTDKGIIALHHFRNLKYLFLSDLPG 151

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 49.6 bits (119), Expect = 2e-06
 Identities = 57/213 (26%), Positives = 84/213 (39%), Gaps = 46/213 (21%)

Query: 583 DLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCI-NGLRSLKTLNLSGCS 640
           D  +L L    ++ +PS     LT L+LL LN+ + L  LP+ I   L++L+TL ++   
Sbjct: 38  DTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLND-NKLQTLPAGIFKELKNLETLWVTDN- 95

Query: 641 KLQNVPE-TLGQVESLEELDISGTAIRRPPSSIFV-MNNLKTLSFSGCNGPPSSTSWHWH 698
           KLQ +P     Q+ +L EL +    ++  P  +F  +  L  LS                
Sbjct: 96  KLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE----------- 144

Query: 699 FPFNLMGQRSYPVALMLPSLS-----GLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQL 752
                           L SL       L SL +L L +  L    +P      L  LK L
Sbjct: 145 ----------------LQSLPKGVFDKLTSLKELRLYNNQL--KRVPEGAFDKLTELKTL 186

Query: 753 NLSQNNFVTLPASI-NSLFNLGQLDLE----DC 780
            L  N    +P    +SL  L  L L+    DC
Sbjct: 187 KLDNNQLKRVPEGAFDSLEKLKMLQLQENPWDC 219

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 45.4 bits (108), Expect = 5e-05
 Identities = 23/71 (32%), Positives = 36/71 (50%), Gaps = 5/71 (7%)

Query: 719 SGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASI-NSLFNLGQLD 776
             L +L  L ++D  L   A+P  +   L +L +L L +N   +LP  + +SL  L  L 
Sbjct: 82  KELKNLETLWVTDNKLQ--ALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLS 139

Query: 777 LEDCKRLQSMP 787
           L   + LQS+P
Sbjct: 140 LGYNE-LQSLP 149

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 47.0 bits (112), Expect = 6e-06
 Identities = 21/114 (18%), Positives = 44/114 (38%), Gaps = 6/114 (5%)

Query: 576 ESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLN 635
               +     EL L G  I  + +    L     ++ ++   + +L      LR LKTL 
Sbjct: 13  AQYTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDN-EIRKL-DGFPLLRRLKTLL 70

Query: 636 LSGCSKLQNVPETLGQ-VESLEELDISGTAIRRPP--SSIFVMNNLKTLSFSGC 686
           ++  +++  + E L Q +  L EL ++  ++        +  + +L  L     
Sbjct: 71  VNN-NRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRN 123

>1a9n_A U2A', U2A'; complex (nuclear protein/RNA), RNA, snRNP, ribonucleoprotein, RNA binding protein/RNA complex; 2.38A {Homo sapiens} SCOP: c.10.2.4 Length = 176

 Score = 40.8 bits (96), Expect = 6e-04
 Identities = 27/151 (17%), Positives = 50/151 (33%), Gaps = 30/151 (19%)

Query: 420 VMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTL 479
           ++KL+  + + +   +T      EL L G  ++  I        +   ++  D   +  L
Sbjct: 1   MVKLTA-ELIEQAAQYTNAVRDRELDLRGY-KIPVIENLGATLDQFDAIDFSDN-EIRKL 57

Query: 480 PGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLL 539
            G   ++ LKTL+++                N +  +              Q L  L  L
Sbjct: 58  DGFPLLRRLKTLLVNN---------------NRICRI---------GEGLDQALPDLTEL 93

Query: 540 NLKDCK--NLKSLSHTLRRLQCLKNLTLSGC 568
            L +     L  L   L  L+ L  L +   
Sbjct: 94  ILTNNSLVELGDLDP-LASLKSLTYLCILRN 123

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 41.2 bits (97), Expect = 3e-04
 Identities = 34/150 (22%), Positives = 58/150 (38%), Gaps = 16/150 (10%)

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
           R  +E    +   +  LVL N +   N   L       + L+ L+      L     +L 
Sbjct: 6   RIHLELRNRTPSDVKELVLDNSRS--NEGKLEGLTDEFEELEFLSTINV-GLTSI-ANLP 61

Query: 580 SMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPSCIN---GLRSLKTLN 635
            +  L +L L    ++     + E    L  LNL+   N ++  S I     L +LK+L+
Sbjct: 62  KLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSG--NKIKDLSTIEPLKKLENLKSLD 119

Query: 636 LSG--CSKLQN----VPETLGQVESLEELD 659
           L     + L +    V + L Q+  L+  D
Sbjct: 120 LFNCEVTNLNDYRENVFKLLPQLTYLDGYD 149

>2ra8_A Uncharacterized protein Q64V53_bacfr; WGR domain, LRR domain, leucine rich repeats, BFR43, structural genomics, PSI-2; 1.95A {Bacteroides fragilis} Length = 362

 Score = 43.4 bits (101), Expect = 3e-04
 Identities = 39/241 (16%), Positives = 65/241 (26%), Gaps = 46/241 (19%)

Query: 566 SGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSS-------IELLTGLQLLNLNNCSNL 618
                     E+         LF       E   S         +L  + LLN       
Sbjct: 123 DCSDIADGIVENKEKFAHFEGLFWGDIDFEEQEISWIEQVDLSPVLDAMPLLNNLKIKGT 182

Query: 619 VRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVE--SLEELDI----------SGTAIR 666
             L        +LK+L +       +V E +   +  +LE+L +              + 
Sbjct: 183 NNLSIGKKPRPNLKSLEIISGGLPDSVVEDILGSDLPNLEKLVLYVGVEDYGFDGDMNVF 242

Query: 667 RPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSK 726
           RP  S     NLK L                        +    V  M      L  L  
Sbjct: 243 RPLFSKDRFPNLKWLGIVDA-------------------EEQNVVVEMFLESDILPQLET 283

Query: 727 LDLSDCGLGEG---AIPNDIGNLCSLKQLNLSQNNF-----VTLPASINSLFNLGQLDLE 778
           +D+S   L +     + + +  +  LK +N+  N         L  S+    ++      
Sbjct: 284 MDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKELQKSLPMKIDVSDSQEY 343

Query: 779 D 779
           D
Sbjct: 344 D 344

>2ell_A Acidic leucine-rich nuclear phosphoprotein 32 FAM B; phapi2 protein, silver-stainable protein SSP29, acidic prote in leucines, structural genomics; NMR {Homo sapiens} PDB: 2rr6_A 2jqd_A Length = 168

 Score = 40.9 bits (96), Expect = 6e-04
 Identities = 36/153 (23%), Positives = 57/153 (37%), Gaps = 16/153 (10%)

Query: 520 RTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLG 579
           R  +E    +   +  LVL N K   N   +         L+ L+L     L     +L 
Sbjct: 13  RIHLELRNRTPAAVRELVLDNCKS--NDGKIEGLTAEFVNLEFLSLINV-GLISV-SNLP 68

Query: 580 SMKDLMELFLDGTSIAEVPSSI-ELLTGLQLLNLNNCSNLVRLPS---CINGLRSLKTLN 635
            +  L +L L    I      + E L  L  LNL+   N ++  S    +  L  LK+L+
Sbjct: 69  KLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSG--NKLKDISTLEPLKKLECLKSLD 126

Query: 636 LSG--CSKLQN----VPETLGQVESLEELDISG 662
           L     + L +    V + L Q+  L+  D   
Sbjct: 127 LFNCEVTNLNDYRESVFKLLPQLTYLDGYDRED 159

>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 = 42.1 bits (99), Expect = 7e-04
 Identities = 49/305 (16%), Positives = 84/305 (27%), Gaps = 62/305 (20%)

Query: 560 LKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTG----LQLLNLNNC 615
           + +LTL+G    + F         L  L +    I                + + N    
Sbjct: 27  ITHLTLTGKLNAEDFRHLRDEFPSLKVLDISNAEIKMYSGKAGTYPNGKFYIYMANFVPA 86

Query: 616 SNLVRLP-SCINGLRSLKTLNL------------SGCSKLQNV--PETLGQVESLEELDI 660
                +      G ++L+ + L             GC  L+     +        E L  
Sbjct: 87  YAFSNVVNGVTKGKQTLEKVILSEKIKNIEDAAFKGCDNLKICQIRKKTAPNLLPEALAD 146

Query: 661 SGTAIRRPPSSI---FVMNNLKTLSFSGCNGPPSSTSWHWHFPFNL--MGQRSYPVALML 715
           S TAI  P  S       N  +  +F       ++          +  +        L  
Sbjct: 147 SVTAIFIPLGSSDAYRFKNRWEHFAFIEGEPLETTI-----QVGAMGKLEDEIMKAGLQP 201

Query: 716 PSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQL 775
             ++ L    K       L           + +L  L++S+ N  T+P   +  F     
Sbjct: 202 RDINFLTIEGK-------LDNADFKLIRDYMPNLVSLDISKTNATTIP---DFTF----- 246

Query: 776 DLEDCKRLQSMPQLPSNLYEVQVN---GCASL---VTL--------SGALKLCKSKCTSI 821
                K L  + +LP NL  +       C  L   + L         GA   C +    +
Sbjct: 247 --AQKKYLLKI-KLPHNLKTIGQRVFSNCGRLAGTLELPASVTAIEFGAFMGCDN-LRYV 302

Query: 822 NCIGS 826
              G 
Sbjct: 303 LATGD 307

>2v70_A SLIT-2, SLIT homolog 2 protein N-product; neurogenesis, glycoprotein, secreted, chemotaxis, LRR structural protein, differentiation; HET: NAG; 3.01A {Homo sapiens} Length = 220

 Score = 41.2 bits (97), Expect = 8e-04
 Identities = 33/192 (17%), Positives = 59/192 (30%), Gaps = 56/192 (29%)

Query: 593 SIAEVPSSIELLTGLQLLNLNNCSNLVRLPS--CINGLRSLKTLNLSGCSKLQNVPE-TL 649
            + ++P  I        L LNN +    L +      L  L+ +N S   K+ ++ E   
Sbjct: 22  KLNKIPEHIP--QYTAELRLNN-NEFTVLEATGIFKKLPQLRKINFSNN-KITDIEEGAF 77

Query: 650 GQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSY 709
                + E+ ++   +      +F                                    
Sbjct: 78  EGASGVNEILLTSNRLENVQHKMF------------------------------------ 101

Query: 710 PVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDI-GNLCSLKQLNLSQNNFVTLPASI-N 767
                     GL SL  L L    +    + ND    L S++ L+L  N   T+     +
Sbjct: 102 ---------KGLESLKTLMLRSNRIT--CVGNDSFIGLSSVRLLSLYDNQITTVAPGAFD 150

Query: 768 SLFNLGQLDLED 779
           +L +L  L+L  
Sbjct: 151 TLHSLSTLNLLA 162

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	1046
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	7e-37
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	1e-15
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	4e-10
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-10
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-08
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	6e-06
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	2e-04
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	0.004
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	2e-09
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	4e-08
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 {	2e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	2e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-04
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.004
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	5e-08
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	3e-07
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	6e-06
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	5e-07
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	3e-04
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	8e-06
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	1e-05
d1m9la_	198	c.10.3.1 (A:) Outer arm dynein light chain 1 {Gree	9e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	2e-04
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.001
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	0.004
d2ca6a1	344	c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal dom	5e-04
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.001
d1a9na_	162	c.10.2.4 (A:) Splicesomal U2A' protein {Human (Hom	0.002

>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 =  138 bits (348), Expect = 7e-37
 Identities = 36/229 (15%), Positives = 74/229 (32%), Gaps = 16/229 (6%)

Query: 1   MMGIWGMGGLGKTTLARVAYD----LISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSD 56
            + + G  G GK+ +A  A      LI   +D   +L +     +    + +    +L  
Sbjct: 46  FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILLMLKS 105

Query: 57  LLKL----ADISIWNVDDGINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSK 112
              L    +   + +V     I  + + +   L V DDV   E        R       +
Sbjct: 106 EDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQEET------IRWAQELRLR 159

Query: 113 IVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKY 172
            ++TTRD ++  A          +  L  DE                 +  ++  + ++ 
Sbjct: 160 CLVTTRDVEISNAAS-QTCEFIEVTSLEIDECYDFLEAYGMPMPVGE-KEEDVLNKTIEL 217

Query: 173 AGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGL 221
           + G P  L +       ++ +       +L+      +  I   S+  L
Sbjct: 218 SSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSL 266

>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 = 76.6 bits (187), Expect = 1e-15
 Identities = 45/277 (16%), Positives = 94/277 (33%), Gaps = 14/277 (5%)

Query: 512 DLSELFLDRTTIEEL-PLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSK 570
           D + L L    I E+     ++L  L  L L + K  K        L  L+ L LS    
Sbjct: 32  DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL 91

Query: 571 LKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRS 630
            +   +   ++++L     + T + +   +      +  L  N   +         G++ 
Sbjct: 92  KELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKK 151

Query: 631 LKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIR-RPPSSIFVMNNLKTLSFSGCNGP 689
           L  + ++    +  +P+  G   SL EL + G  I     +S+  +NNL  L  S  +  
Sbjct: 152 LSYIRIADT-NITTIPQ--GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSIS 208

Query: 690 PSSTSWHWHFPF-NLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGL-----GEGAIPNDI 743
                   + P    +   +  +  +   L+    +  + L +  +      +   P   
Sbjct: 209 AVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGYN 268

Query: 744 GNLCSLKQLNLSQNNFVTL---PASINSLFNLGQLDL 777
               S   ++L  N        P++   ++    + L
Sbjct: 269 TKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQL 305

>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 = 60.1 bits (144), Expect = 4e-10
 Identities = 38/194 (19%), Positives = 64/194 (32%), Gaps = 9/194 (4%)

Query: 590 DGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETL 649
               + +VP  +       LL+L N             L++L TL L      +  P   
Sbjct: 18  SDLGLEKVPKDL--PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAF 75

Query: 650 GQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSST--SWHWHFPFNLMGQR 707
             +  LE L +S   ++  P  +        +  +       S     +      L    
Sbjct: 76  APLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNP 135

Query: 708 SYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVT-LPASI 766
                +   +  G+  LS + ++D  +    IP   G   SL +L+L  N       AS+
Sbjct: 136 LKSSGIENGAFQGMKKLSYIRIADTNITT--IPQ--GLPPSLTELHLDGNKITKVDAASL 191

Query: 767 NSLFNLGQLDLEDC 780
             L NL +L L   
Sbjct: 192 KGLNNLAKLGLSFN 205

>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 = 61.9 bits (149), Expect = 2e-10
 Identities = 28/172 (16%), Positives = 59/172 (34%), Gaps = 9/172 (5%)

Query: 608 QLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRR 667
            L  L+   N ++    +  L +L  L+L+   ++ N+   L  +  L EL +    I  
Sbjct: 220 NLDELSLNGNQLKDIGTLASLTNLTDLDLANN-QISNLAP-LSGLTKLTELKLGANQISN 277

Query: 668 PPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKL 727
                 +       +           S   +          +     +  +S L  L +L
Sbjct: 278 ISP---LAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRL 334

Query: 728 DLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED 779
             ++  + +    + + NL ++  L+   N    L   + +L  + QL L D
Sbjct: 335 FFANNKVSD---VSSLANLTNINWLSAGHNQISDLTP-LANLTRITQLGLND 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 = 55.0 bits (131), Expect = 2e-08
 Identities = 34/193 (17%), Positives = 78/193 (40%), Gaps = 12/193 (6%)

Query: 612 LNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSS 671
           L   +N +   + +  L +L  L+L+G  +L+++  TL  + +L +LD++   I      
Sbjct: 202 LIATNNQISDITPLGILTNLDELSLNGN-QLKDIG-TLASLTNLTDLDLANNQISNLAP- 258

Query: 672 IFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSD 731
           +  +  L  L          + S           + +      +  +S L +L+ L L  
Sbjct: 259 LSGLTKLTELKLGANQIS--NISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYF 316

Query: 732 CGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLP- 790
             +     P  + +L  L++L  + N   +  +S+ +L N+  L      ++  +  L  
Sbjct: 317 NNI-SDISP--VSSLTKLQRLFFANNKV-SDVSSLANLTNINWLSAGHN-QISDLTPLAN 371

Query: 791 -SNLYEVQVNGCA 802
            + + ++ +N  A
Sbjct: 372 LTRITQLGLNDQA 384

>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 = 48.8 bits (115), Expect = 2e-06
 Identities = 27/153 (17%), Positives = 59/153 (38%), Gaps = 8/153 (5%)

Query: 345 AFSQMTNLRLLKIDNLQLPEGLEYLSN--KLRLLDWHRYPLKSLPSNFQLEKTVEFNMCY 402
             + +TNL  L + N Q+   L  LS   KL  L      + ++     L       +  
Sbjct: 236 TLASLTNLTDLDLANNQI-SNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNE 294

Query: 403 SRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLH 462
           +++E+  + I  L  L  + L  + N+      + +  L+ L      ++ ++  SL   
Sbjct: 295 NQLED-ISPISNLKNLTYLTLYFN-NISDISPVSSLTKLQRLFFANN-KVSDV-SSLANL 350

Query: 463 SKLVILNLKDCTSLTTLPGKISMKSLKTLVLSG 495
           + +  L+      ++ L    ++  +  L L+ 
Sbjct: 351 TNINWLSAGHN-QISDLTPLANLTRITQLGLND 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 = 47.3 bits (111), Expect = 6e-06
 Identities = 34/192 (17%), Positives = 75/192 (39%), Gaps = 11/192 (5%)

Query: 376 LDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDF 435
           L      +  +     L    E ++  ++++++   +  L  L  + L+++Q +      
Sbjct: 202 LIATNNQISDITPLGILTNLDELSLNGNQLKDI-GTLASLTNLTDLDLANNQ-ISNLAPL 259

Query: 436 TGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSG 495
           +G+  L EL L G  ++  I P   L +        +   L  +    ++K+L  L L  
Sbjct: 260 SGLTKLTELKL-GANQISNISPLAGLTAL--TNLELNENQLEDISPISNLKNLTYLTLYF 316

Query: 496 CLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSLSHTLR 555
              ++   +    S+  L  LF     + ++  S+ +LT +  L+      +  L+  L 
Sbjct: 317 N-NISD--ISPVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHN-QISDLTP-LA 370

Query: 556 RLQCLKNLTLSG 567
            L  +  L L+ 
Sbjct: 371 NLTRITQLGLND 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 = 43.1 bits (100), Expect = 2e-04
 Identities = 32/176 (18%), Positives = 65/176 (36%), Gaps = 9/176 (5%)

Query: 368 YLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQ 427
            +   L  L  +   LK + +   L    + ++  ++I  L   +  L  L  +KL    
Sbjct: 216 GILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLA-PLSGLTKLTELKLGA-N 273

Query: 428 NLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKS 487
            +       G+  L  L L           S L +  L  L L    +++ +    S+  
Sbjct: 274 QISNISPLAGLTALTNLELNENQLEDISPISNLKN--LTYLTL-YFNNISDISPVSSLTK 330

Query: 488 LKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQHLTGLVLLNLKD 543
           L+ L  +   K++   +    ++ +++ L      I +L   + +LT +  L L D
Sbjct: 331 LQRLFFANN-KVSD--VSSLANLTNINWLSAGHNQISDLT-PLANLTRITQLGLND 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 = 38.4 bits (88), Expect = 0.004
 Identities = 54/317 (17%), Positives = 106/317 (33%), Gaps = 42/317 (13%)

Query: 510 MNDLSELFLDRTTIEELPLSIQHLTGLVLLNL-----------KDCKNLKSLSHTLRRLQ 558
           ++ ++ L  DR  I+ +   +++L  L  +N            K+   L  +     ++ 
Sbjct: 43  LDQVTTLQADRLGIKSID-GVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIA 101

Query: 559 CLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNL 618
            +  L             +  +  D ++   +   +    ++I  ++ L  L      + 
Sbjct: 102 DITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSF 161

Query: 619 VRLPSCINGLRSLKTLNLSGCSKL-QNVPETLGQVESLEELDISGTAIRRPPSSIFVMNN 677
               + +  L +L TL     S    +    L ++ +LE L  +   I         + N
Sbjct: 162 GNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGI-LTN 220

Query: 678 LKTLSFSGCN--GPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLG 735
           L  LS +G       +  S       +L   +       L  LSGL  L++L L    + 
Sbjct: 221 LDELSLNGNQLKDIGTLASLTNLTDLDLANNQIS----NLAPLSGLTKLTELKLGANQIS 276

Query: 736 E-------------------GAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLD 776
                                   + I NL +L  L L  NN   +   ++SL  L +L 
Sbjct: 277 NISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDIS-PVSSLTKLQRLF 335

Query: 777 LEDCK--RLQSMPQLPS 791
             + K   + S+  L +
Sbjct: 336 FANNKVSDVSSLANLTN 352

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]} Length = 266

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]

 Score = 57.4 bits (137), Expect = 2e-09
 Identities = 28/203 (13%), Positives = 56/203 (27%), Gaps = 3/203 (1%)

Query: 577 SLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNL 636
            +  +   +E+  D  ++  +P   +L     +L+L+         + +     L  LNL
Sbjct: 5   EVSKVASHLEVNCDKRNLTALPP--DLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNL 62

Query: 637 SGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWH 696
                 +   +    V    +L  +                +  +SF+     P      
Sbjct: 63  DRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRG 122

Query: 697 WHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQ 756
                 L  + +    L  P L       +                +  L +L  L L +
Sbjct: 123 LGELQELYLKGNELKTLP-PGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQE 181

Query: 757 NNFVTLPASINSLFNLGQLDLED 779
           N+  T+P        L    L  
Sbjct: 182 NSLYTIPKGFFGSHLLPFAFLHG 204

>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 = 54.1 bits (128), Expect = 4e-08
 Identities = 21/105 (20%), Positives = 42/105 (40%), Gaps = 9/105 (8%)

Query: 695 WHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNL 754
                    +   +     +        SL +L++S+  L E  +P     L   ++L  
Sbjct: 257 SGLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSNNKLIE--LPALPPRL---ERLIA 311

Query: 755 SQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVN 799
           S N+   +P       NL QL +E    L+  P +P ++ ++++N
Sbjct: 312 SFNHLAEVP---ELPQNLKQLHVEYNP-LREFPDIPESVEDLRMN 352

>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 = 44.0 bits (102), Expect = 7e-05
 Identities = 19/76 (25%), Positives = 33/76 (43%), Gaps = 8/76 (10%)

Query: 604 LTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGT 663
              L+ LN++N   L+ LP+       L+ L  S    L  VPE      +L++L +   
Sbjct: 283 PPSLEELNVSNN-KLIELPALPP---RLERLIASFN-HLAEVPELPQ---NLKQLHVEYN 334

Query: 664 AIRRPPSSIFVMNNLK 679
            +R  P     + +L+
Sbjct: 335 PLREFPDIPESVEDLR 350

>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 = 42.5 bits (98), Expect = 2e-04
 Identities = 20/79 (25%), Positives = 34/79 (43%), Gaps = 9/79 (11%)

Query: 723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKR 782
              +L+L++ GL    +P    +L   + L  S N+   LP    SL    +  L D   
Sbjct: 39  QAHELELNNLGLSS--LPELPPHL---ESLVASCNSLTELPELPQSL----KSLLVDNNN 89

Query: 783 LQSMPQLPSNLYEVQVNGC 801
           L+++  LP  L  + V+  
Sbjct: 90  LKALSDLPPLLEYLGVSNN 108

>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 = 2e-04
 Identities = 17/75 (22%), Positives = 31/75 (41%), Gaps = 8/75 (10%)

Query: 581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCS 640
              L EL +    + E+P+       L+ L  +   +L  +P      ++LK L++    
Sbjct: 283 PPSLEELNVSNNKLIELPALP---PRLERLIASFN-HLAEVPEL---PQNLKQLHVEYN- 334

Query: 641 KLQNVPETLGQVESL 655
            L+  P+    VE L
Sbjct: 335 PLREFPDIPESVEDL 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 = 41.7 bits (96), Expect = 3e-04
 Identities = 18/81 (22%), Positives = 29/81 (35%), Gaps = 8/81 (9%)

Query: 552 HTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLN 611
                   L+ L +S   KL + P     ++    L      +AEVP   EL   L+ L+
Sbjct: 278 SLCDLPPSLEELNVSNN-KLIELPALPPRLE---RLIASFNHLAEVP---ELPQNLKQLH 330

Query: 612 LNNCSNLVRLPSCINGLRSLK 632
           +     L   P     +  L+
Sbjct: 331 VEYN-PLREFPDIPESVEDLR 350

>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 = 41.7 bits (96), Expect = 3e-04
 Identities = 18/57 (31%), Positives = 27/57 (47%), Gaps = 4/57 (7%)

Query: 745 NLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQLPSNLYEVQVNGC 801
              SL++LN+S N  + LPA       L +L       L  +P+LP NL ++ V   
Sbjct: 282 LPPSLEELNVSNNKLIELPALPP---RLERLIASFN-HLAEVPELPQNLKQLHVEYN 334

>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 = 38.3 bits (87), Expect = 0.004
 Identities = 17/64 (26%), Positives = 22/64 (34%), Gaps = 7/64 (10%)

Query: 624 CINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSF 683
             +   SL+ LN+S   KL  +P        LE L  S   +   P       NLK L  
Sbjct: 279 LCDLPPSLEELNVSNN-KLIELPALPP---RLERLIASFNHLAEVPELP---QNLKQLHV 331

Query: 684 SGCN 687
               
Sbjct: 332 EYNP 335

>d1ogqa_ c.10.2.8 (A:) Polygalacturonase inhibiting protein PGIP {Kidney bean (Phaseolus vulgaris) [TaxId: 3885]} Length = 313

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]

 Score = 53.6 bits (127), Expect = 5e-08
 Identities = 48/264 (18%), Positives = 89/264 (33%), Gaps = 7/264 (2%)

Query: 532 HLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKL-KKFPESLGSMKDLMELFL- 589
            +  L L  L +      +  +L  L  L  L + G + L    P ++  +  L  L++ 
Sbjct: 51  RVNNLDLSGL-NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYIT 109

Query: 590 DGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETL 649
                  +P  +  +  L  L+ +  +    LP  I+ L +L  +   G      +P++ 
Sbjct: 110 HTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSY 169

Query: 650 GQVESLEELDISGTA--IRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQR 707
           G    L             + P +   +N              +S  +        +   
Sbjct: 170 GSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLA 229

Query: 708 SYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASIN 767
              +A  L  +    +L+ LDL +  +  G +P  +  L  L  LN+S NN         
Sbjct: 230 KNSLAFDLGKVGLSKNLNGLDLRNNRI-YGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGG 288

Query: 768 SLFNLGQLDLEDCKRLQSMPQLPS 791
           +L         + K L   P LP+
Sbjct: 289 NLQRFDVSAYANNKCLCGSP-LPA 311

>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 = 50.9 bits (120), Expect = 3e-07
 Identities = 33/230 (14%), Positives = 72/230 (31%), Gaps = 38/230 (16%)

Query: 563 LTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCS-NLVRL 621
           L L+G +        L S + ++      + + +  +       +Q ++L+N    +  L
Sbjct: 5   LDLTGKNLHPDVTGRLLS-QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTL 63

Query: 622 PSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTL 681
              ++    L+ L+L G      +  TL +  +L  L++SG +     +   ++++   L
Sbjct: 64  HGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRL 123

Query: 682 SFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALML-------------------------- 715
                +     T  H       + +    + L                            
Sbjct: 124 DELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLS 183

Query: 716 ----------PSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLS 755
                          L+ L  L LS C         ++G + +LK L + 
Sbjct: 184 DSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVF 233

>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 = 47.0 bits (110), Expect = 6e-06
 Identities = 41/257 (15%), Positives = 74/257 (28%), Gaps = 36/257 (14%)

Query: 448 GCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFA 507
               LH      LL   ++            L    S   ++ + LS  +          
Sbjct: 8   TGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGIL 67

Query: 508 GSMNDLSELFLDRTTI-EELPLSIQHLTGLVLLNLKDCKNLKSLSHTLRRLQCLK----- 561
              + L  L L+   + + +  ++   + LV LNL  C      +       C +     
Sbjct: 68  SQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFSEFALQTLLSSCSRLDELN 127

Query: 562 ------------------------NLTLSGCSKLKKFPESLGSMKDLMELFLDGTSI--- 594
                                    L LSG  K  +  +    ++    L     S    
Sbjct: 128 LSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVM 187

Query: 595 --AEVPSSIELLTGLQLLNLNNCSNLV-RLPSCINGLRSLKTLNLSGCSKLQNVPETLGQ 651
              +       L  LQ L+L+ C +++      +  + +LKTL + G      +      
Sbjct: 188 LKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGIVPDGTLQLLKEA 247

Query: 652 VESLEELDISGTAIRRP 668
           +  L+      T I RP
Sbjct: 248 LPHLQINCSHFTTIARP 264

>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 = 47.4 bits (112), Expect = 5e-07
 Identities = 23/141 (16%), Positives = 42/141 (29%), Gaps = 26/141 (18%)

Query: 632 KTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPS 691
           + L+L+    L  +   L Q+  +  LD+S   +R  P ++  +  L+ L  S       
Sbjct: 1   RVLHLAHK-DLTVLCH-LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENV 58

Query: 692 STSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQ 751
               +      L                         L +  L + A    + +   L  
Sbjct: 59  DGVANLPRLQEL------------------------LLCNNRLQQSAAIQPLVSCPRLVL 94

Query: 752 LNLSQNNFVTLPASINSLFNL 772
           LNL  N+          L  +
Sbjct: 95  LNLQGNSLCQEEGIQERLAEM 115

>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 = 39.3 bits (91), Expect = 3e-04
 Identities = 29/123 (23%), Positives = 51/123 (41%), Gaps = 6/123 (4%)

Query: 539 LNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVP 598
           L+L    +L  L H L +L  + +L LS   +L+  P +L +++ L  L     ++  V 
Sbjct: 3   LHLAHK-DLTVLCH-LEQLLLVTHLDLSHN-RLRALPPALAALRCLEVLQASDNALENVD 59

Query: 599 SSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSG--CSKLQNVPETLGQ-VESL 655
               L    +LL  NN          +     L  LNL G    + + + E L + + S+
Sbjct: 60  GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSV 119

Query: 656 EEL 658
             +
Sbjct: 120 SSI 122

>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 = 45.8 bits (107), Expect = 8e-06
 Identities = 34/198 (17%), Positives = 69/198 (34%), Gaps = 12/198 (6%)

Query: 580 SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGC 639
           +  + ++  L   S+ +  +  EL   +  +  NN  + ++    I  L ++  L L+G 
Sbjct: 22  AFAETIKDNLKKKSVTDAVTQNEL-NSIDQIIANN--SDIKSVQGIQYLPNVTKLFLNGN 78

Query: 640 SKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHF 699
                    L  ++ L  L   G           + +          +   +  S     
Sbjct: 79  K--------LTDIKPLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDINGL 130

Query: 700 PFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNF 759
                 +  Y     +  ++ L  L+KLD       + +    +  L  L+ L LS+N+ 
Sbjct: 131 VHLPQLESLYLGNNKITDITVLSRLTKLDTLSLEDNQISDIVPLAGLTKLQNLYLSKNHI 190

Query: 760 VTLPASINSLFNLGQLDL 777
             L  ++  L NL  L+L
Sbjct: 191 SDLR-ALAGLKNLDVLEL 207

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

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]

 Score = 45.1 bits (105), Expect = 1e-05
 Identities = 29/195 (14%), Positives = 57/195 (29%), Gaps = 20/195 (10%)

Query: 591 GTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLG 650
            T+I +     E    +             +P                   ++ +  TL 
Sbjct: 4   ATTIKDAIRIFEERKSVVATEAEKVELHGMIP------------------PIEKMDATLS 45

Query: 651 QVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYP 710
            +++ + L +S   I +   S+  M NL+ LS                         SY 
Sbjct: 46  TLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLE-ELWISYN 103

Query: 711 VALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLF 770
               L  +  L +L  L +S+  +      + +  L  L+ L L+ N         N+  
Sbjct: 104 QIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATS 163

Query: 771 NLGQLDLEDCKRLQS 785
                 ++    L+ 
Sbjct: 164 EYRIEVVKRLPNLKK 178

>d1m9la_ c.10.3.1 (A:) Outer arm dynein light chain 1 {Green algae (Chlamydomonas reinhardtii) [TaxId: 3055]} Length = 198

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]

 Score = 39.3 bits (90), Expect = 9e-04
 Identities = 29/158 (18%), Positives = 58/158 (36%), Gaps = 3/158 (1%)

Query: 393 EKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRL 452
            + VE +     IE++   +  L   K + LS   N+ K    +G+ NL  L       L
Sbjct: 25  AEKVELHGMIPPIEKMDATLSTLKACKHLALST-NNIEKISSLSGMENLRILS--LGRNL 81

Query: 453 HEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMND 512
            +   +L   +  +         + +L G   + +L+ L +S         ++   +++ 
Sbjct: 82  IKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDK 141

Query: 513 LSELFLDRTTIEELPLSIQHLTGLVLLNLKDCKNLKSL 550
           L +L L    +          +   +  +K   NLK L
Sbjct: 142 LEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKL 179

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 42.7 bits (98), Expect = 2e-04
 Identities = 14/109 (12%), Positives = 34/109 (31%), Gaps = 11/109 (10%)

Query: 607 LQLLNLNNCS-NLVRLPSCINGLRSLKTLNLSGCS----KLQNVPETLGQVESLEELDIS 661
           +Q L++     +  R    +  L+  + + L  C     + +++   L    +L EL++ 
Sbjct: 4   IQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLR 63

Query: 662 GTAIRRPPSSIFV------MNNLKTLSFSGCNGPPSSTSWHWHFPFNLM 704
              +        +         ++ LS   C    +           L 
Sbjct: 64  SNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTGAGCGVLSSTLRTLP 112

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 40.7 bits (93), Expect = 0.001
 Identities = 14/45 (31%), Positives = 19/45 (42%), Gaps = 3/45 (6%)

Query: 718 LSGLHSLSKLDLSDCGLGE---GAIPNDIGNLCSLKQLNLSQNNF 759
           L  L     + L DCGL E     I + +    +L +LNL  N  
Sbjct: 23  LPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNEL 67

>d1z7xw1 c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (Homo sapiens) [TaxId: 9606]} Length = 460

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]

 Score = 38.4 bits (87), Expect = 0.004
 Identities = 8/64 (12%), Positives = 21/64 (32%), Gaps = 5/64 (7%)

Query: 723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNF-----VTLPASINSLFNLGQLDL 777
            +  LD+    L +      +  L   + + L            + +++     L +L+L
Sbjct: 3   DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNL 62

Query: 778 EDCK 781
              +
Sbjct: 63  RSNE 66

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]} Length = 344

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]

 Score = 41.4 bits (95), Expect = 5e-04
 Identities = 12/82 (14%), Positives = 22/82 (26%), Gaps = 4/82 (4%)

Query: 695 WHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGE---GAIPNDI-GNLCSLK 750
                   L+  R     +   S      L  L L    +       +   I   +  L 
Sbjct: 246 RELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLL 305

Query: 751 QLNLSQNNFVTLPASINSLFNL 772
            L L+ N F      ++ +  +
Sbjct: 306 FLELNGNRFSEEDDVVDEIREV 327

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]} Length = 227

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]

 Score = 39.6 bits (91), Expect = 0.001
 Identities = 24/217 (11%), Positives = 63/217 (29%), Gaps = 24/217 (11%)

Query: 580 SMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSG- 638
           ++ + +++    +++ +   +   L G+  L+      +  +   +  L +L  L L   
Sbjct: 17  ALANAIKIAAGKSNVTDT-VTQADLDGITTLSAFGT-GVTTIEG-VQYLNNLIGLELKDN 73

Query: 639 -------CSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPS 691
                     L  + E       L+ +             +           +G +    
Sbjct: 74  QITDLAPLKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQV 133

Query: 692 STSWHWHFPFNLM---------GQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPND 742
                                           L  L+ L  L+ L   D  + +    + 
Sbjct: 134 LYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPLANLSKLTTLKADDNKISD---ISP 190

Query: 743 IGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED 779
           + +L +L +++L  N    +   + +  NL  + L +
Sbjct: 191 LASLPNLIEVHLKNNQISDVS-PLANTSNLFIVTLTN 226

>d1a9na_ c.10.2.4 (A:) Splicesomal U2A' protein {Human (Homo sapiens) [TaxId: 9606]} Length = 162

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]

 Score = 38.0 bits (87), Expect = 0.002
 Identities = 21/146 (14%), Positives = 45/146 (30%), Gaps = 7/146 (4%)

Query: 616 SNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVM 675
           + L+   +        + L+L G  K+  +      ++  + +D S   IR+       +
Sbjct: 5   AELIEQAAQYTNAVRDRELDLRGY-KIPVIENLGATLDQFDAIDFSDNEIRKLDGFPL-L 62

Query: 676 NNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLS-----KLDLS 730
             LKTL  +               P       +    + L  L  L SL       +  +
Sbjct: 63  RRLKTLLVNNNRICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRN 122

Query: 731 DCGLGEGAIPNDIGNLCSLKQLNLSQ 756
                +      I  +  ++ L+  +
Sbjct: 123 PVTNKKHYRLYVIYKVPQVRVLDFQK 148

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	1046
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.97
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.95
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.95
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.94
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.93
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.93
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.89
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.89
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.88
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.88
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.88
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.79
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.78
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.75
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.75
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.74
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.73
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.71
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.7
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.68
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.67
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.67
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.57
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.51
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	99.47
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.39
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.34
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.33
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.3
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.26
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.23
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.14
d2ifga3	156	High affinity nerve growth factor receptor, N-term	99.07
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.92
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	98.85
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.83
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	98.83
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.83
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	98.79
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.78
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.76
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.76
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.73
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.73
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.69
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.68
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.66
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.64
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.56
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.51
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.44
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.42
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.36
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.19
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.16
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.85
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.71
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.64
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.57
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	97.44
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	97.36
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.32
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.27
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	97.13
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	97.11
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.1
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.06
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.05
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.05
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.02
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.01
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.01
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	96.94
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.94
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.94
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.93
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.89
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.88
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.87
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	96.87
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.85
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.81
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.79
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.74
d1j8yf2	211	GTPase domain of the signal sequence recognition p	96.7
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.65
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.65
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.64
d1okkd2	207	GTPase domain of the signal recognition particle r	96.64
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.63
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.61
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	96.6
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.58
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.58
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.57
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.52
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.52
d1vmaa2	213	GTPase domain of the signal recognition particle r	96.51
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.5
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.49
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.49
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.48
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.47
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.47
d1xpua3	289	Transcription termination factor Rho, ATPase domai	96.45
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.45
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.43
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.39
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.39
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.32
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.27
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	96.23
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.23
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	96.23
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	96.22
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.22
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	96.21
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.2
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.18
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.16
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.15
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.13
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.1
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.0
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.0
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.98
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	95.97
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	95.88
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	95.84
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	95.81
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.71
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	95.67
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	95.67
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	95.62
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	95.6
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	95.59
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	95.58
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	95.53
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	95.52
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	95.51
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.47
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	95.46
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.23
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.16
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	95.13
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.13
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	95.11
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	95.04
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	95.0
d1g2912	240	Maltose transport protein MalK, N-terminal domain	94.87
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.66
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	94.64
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	94.6
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.58
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	94.57
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	94.51
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.49
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.47
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	94.44
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.28
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	94.26
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.21
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	94.17
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.16
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.09
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	94.08
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	94.05
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	94.0
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	93.98
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	93.86
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	93.77
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.59
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	93.55
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	93.55
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	93.54
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.41
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.4
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.36
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	93.25
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.24
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	93.13
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	93.08
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	93.01
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	93.0
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.98
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	92.97
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	92.96
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.88
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.87
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	92.83
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	92.66
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.59
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	92.57
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	92.48
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	92.46
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	92.44
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	92.43
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	92.4
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	92.39
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	92.38
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	92.36
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	92.35
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.3
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	92.29
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	92.28
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	92.26
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	92.24
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	92.18
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.14
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	92.14
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	92.13
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	92.05
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.05
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	92.04
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	92.02
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	91.92
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	91.88
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	91.86
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	91.83
d2fh5b1	207	Signal recognition particle receptor beta-subunit	91.78
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	91.74
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	91.72
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	91.71
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	91.68
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	91.64
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	91.58
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	91.55
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	91.43
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	91.39
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	91.39
d1nrjb_	209	Signal recognition particle receptor beta-subunit	91.28
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	91.24
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	91.18
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	91.16
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	91.07
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	91.04
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	90.99
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.95
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	90.88
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	90.84
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	90.82
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	90.78
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	90.61
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	90.57
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	90.45
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.29
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	90.13
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	90.04
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	89.96
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	89.85
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	89.85
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	89.84
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	89.74
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	89.05
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	88.97
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	87.78
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	87.07
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	86.89
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	86.39
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	86.1
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	85.06
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	85.03
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	84.81
d2p6ra3	202	Hel308 helicase {Archaeoglobus fulgidus [TaxId: 22	84.62
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	84.45
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	84.34
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	83.09
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	83.01
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	82.92
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	82.01
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	81.81
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	81.25
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	81.08

>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=3.5e-44  Score=276.52  Aligned_cols=221  Identities=16%  Similarity=0.157  Sum_probs=174.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH----HCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCC------CCCCCCC
Q ss_conf             9899928988089999999988----70666603999844001103689899999999987410386------4344100
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL----ISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI------SIWNVDD   70 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~----~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~------~~~~~~~   70 (1046)
                      +|+|+||||+||||||+++|++    ....|+.++|+...+..+ ... +......++..+......      .......
T Consensus        46 ~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~-~~~-l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  123 (277)
T d2a5yb3          46 FLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAP-KST-FDLFTDILLMLKSEDDLLNFPSVEHVTSVVL  123 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCST-THH-HHHHHHHHHHHTTTSCCTTCCCCTTCCHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCC-HHH-HHHHHHHHHHHHCCHHHCCCCCCHHHHHHHH
T ss_conf             89997799788899999999855655401276489999368777-778-9999999998722022027863212336999


Q ss_pred             HHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHCCCCCCEEECCCCCHHHHHHHHHH
Q ss_conf             09999975259818999935899688877761669879998799993883568881589833486589996789999978
Q 001603           71 GINIIGSRLRQKKVLLVIDDVADVEQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSM  150 (1046)
Q Consensus        71 ~~~~i~~~l~~k~~LlVlDdv~~~~~l~~l~~~~~~~~~gs~IiiTtR~~~~~~~~~~~~~~~~~v~~L~~~ea~~Lf~~  150 (1046)
                      ....+.+.+.++|+|+||||||+.++++.+..      .|++||||||++.++..+..+ .++|+|++|+.+||++||++
T Consensus       124 ~~~~~~~~L~~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~~~~-~~~~~l~~L~~~ea~~Lf~~  196 (277)
T d2a5yb3         124 KRMICNALIDRPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAASQT-CEFIEVTSLEIDECYDFLEA  196 (277)
T ss_dssp             HHHHHHHHTTSTTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGCCSC-EEEEECCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCCEEEECCHHHHHHHHHHHCC------CCCEEEEEEEHHHHHHHCCCC-CCEEECCCCCHHHHHHHHHH
T ss_conf             99999998446881675250667766555204------575599996448999863788-71687788997999999999


Q ss_pred             HHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCCHHHHHHHC
Q ss_conf             20279999913999999999871899348999963208999689999999874199970688886220245143230320
Q 001603          151 KAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLNGRSVDLWRSTLKRLKKEPPNRIINILQISFDGLQDLEKKIFL  230 (1046)
Q Consensus       151 ~a~~~~~~~~~~~~~~~~i~~~~~g~PLal~~~~~~l~~~~~~~w~~~l~~l~~~~~~~i~~~l~~s~~~L~~~~k~~fl  230 (1046)
                      ++|....+ +..++++++|+++|+|+||||+++|+.++.++.++|....++|+......+..+++.||+.||.+.|.||-
T Consensus       197 ~~~~~~~~-~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~~~v~~il~~sY~~L~~~lk~c~~  275 (277)
T d2a5yb3         197 YGMPMPVG-EKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITPYSYKSLAMALQRCVE  275 (277)
T ss_dssp             TSCCCC---CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCSSTTCCCSSSSSSSHHHHHHHHHH
T ss_pred             HHCCCCCC-HHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf             84776674-25679999999995899899999999865598999999999973486788999999988512699999997


Q ss_pred             E
Q ss_conf             3
Q 001603          231 D  231 (1046)
Q Consensus       231 ~  231 (1046)
                      +
T Consensus       276 ~  276 (277)
T d2a5yb3         276 V  276 (277)
T ss_dssp             T
T ss_pred             H
T ss_conf             3

>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=100.00  E-value=1.7e-29  Score=189.17  Aligned_cols=339  Identities=21%  Similarity=0.246  Sum_probs=179.3

Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCEEEECCCCCCHHHCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEEECCCC
Q ss_conf             74389833899998899777789129976888801000101378877589767996877789999999889998417777
Q 001603          372 KLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTR  451 (1046)
Q Consensus       372 ~Lr~L~l~~~~l~~lp~~~~~~~L~~L~l~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~~~~l~~L~~L~L~~c~~  451 (1046)
                      +|+.|+++++.++++..--.+++|++|++++|+|+.++. +..+++|++|++++|... .++.+..+++|+.|++.++..
T Consensus        45 ~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~~~~~~~  122 (384)
T d2omza2          45 QVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIA-DITPLANLTNLTGLTLFNNQI  122 (384)
T ss_dssp             TCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCC-CCGGGTTCTTCCEEECCSSCC
T ss_pred             CCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCC
T ss_conf             878998999898776242458999989681881798863-347711010301343332-222111233433344332222


Q ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHCC
Q ss_conf             84016442288985099525899998559967756554451247767732100012667898837625665432351000
Q 001603          452 LHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQ  531 (1046)
Q Consensus       452 ~~~~~~~i~~l~~L~~L~l~~~~~l~~lp~~~~l~~L~~L~l~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~l~  531 (1046)
                      .....  ......+..+....+. +..+....                       .................    ..+.
T Consensus       123 ~~~~~--~~~~~~~~~~~~~~~~-l~~~~~~~-----------------------~~~~~~~~~~~~~~~~~----~~~~  172 (384)
T d2omza2         123 TDIDP--LKNLTNLNRLELSSNT-ISDISALS-----------------------GLTSLQQLSFGNQVTDL----KPLA  172 (384)
T ss_dssp             CCCGG--GTTCTTCSEEEEEEEE-ECCCGGGT-----------------------TCTTCSEEEEEESCCCC----GGGT
T ss_pred             CCCCC--CCCCCCCCCCCCCCCC-CCCCCCCC-----------------------CCCCCCCCCCCCCCCHH----HHHC
T ss_conf             22222--2222222112134663-13100232-----------------------22211222221232201----1112


Q ss_pred             CCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             38998699448999974230544315867678414987888677321687644605334745654570000579999786
Q 001603          532 HLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLN  611 (1046)
Q Consensus       532 ~l~~L~~L~l~~~~~l~~l~~~~~~l~~L~~L~L~~~~~~~~~p~~l~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~  611 (1046)
                      ............+.  .........+++++.+.++++......|  ...+++|+.|.+.++.+..++ .+..+++|+.|+
T Consensus       173 ~~~~~~~~~~~~~~--~~~~~~~~~l~~~~~l~l~~n~i~~~~~--~~~~~~L~~L~l~~n~l~~~~-~l~~l~~L~~L~  247 (384)
T d2omza2         173 NLTTLERLDISSNK--VSDISVLAKLTNLESLIATNNQISDITP--LGILTNLDELSLNGNQLKDIG-TLASLTNLTDLD  247 (384)
T ss_dssp             TCTTCCEEECCSSC--CCCCGGGGGCTTCSEEECCSSCCCCCGG--GGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEE
T ss_pred             CCCCCCCCCCCCCC--CCCCCCCCCCCCCCEEECCCCCCCCCCC--CCCCCCCCEEECCCCCCCCCC-HHHCCCCCCHHC
T ss_conf             45421101122243--3321100223532333035774478786--444577878888777778961-343256534100


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCC
Q ss_conf             69999987568746799878888326977998767223788887525235863458996023104786364478889999
Q 001603          612 LNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPS  691 (1046)
Q Consensus       612 L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~  691 (1046)
                      +.+|......  .+..+++|+.|+++++.... ++ .+..++.++.+.+..+.+..++ .+..+++++.|++++|.... 
T Consensus       248 l~~n~l~~~~--~~~~~~~L~~L~l~~~~l~~-~~-~~~~~~~l~~l~~~~n~l~~~~-~~~~~~~l~~L~ls~n~l~~-  321 (384)
T d2omza2         248 LANNQISNLA--PLSGLTKLTELKLGANQISN-IS-PLAGLTALTNLELNENQLEDIS-PISNLKNLTYLTLYFNNISD-  321 (384)
T ss_dssp             CCSSCCCCCG--GGTTCTTCSEEECCSSCCCC-CG-GGTTCTTCSEEECCSSCCSCCG-GGGGCTTCSEEECCSSCCSC-
T ss_pred             CCCCCCCCCC--CCCCCCCCCEEECCCCCCCC-CC-CCCCCCCCCCCCCCCCCCCCCC-CCCHHCCCCEEECCCCCCCC-
T ss_conf             4467447877--53554668775456744578-77-3235652222332323333322-10000246767777887789-


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCC
Q ss_conf             99855675543346767762135898557898888966799999998853334767888552888987435645530245
Q 001603          692 STSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFN  771 (1046)
Q Consensus       692 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~  771 (1046)
                                             ...+..+++|++|++++|.+.  .++ .+..+++|++|++++|+++.+++ +.++++
T Consensus       322 -----------------------l~~l~~l~~L~~L~L~~n~l~--~l~-~l~~l~~L~~L~l~~N~l~~l~~-l~~l~~  374 (384)
T d2omza2         322 -----------------------ISPVSSLTKLQRLFFANNKVS--DVS-SLANLTNINWLSAGHNQISDLTP-LANLTR  374 (384)
T ss_dssp             -----------------------CGGGGGCTTCCEEECCSSCCC--CCG-GGGGCTTCCEEECCSSCCCBCGG-GTTCTT
T ss_pred             -----------------------CCCCCCCCCCCEEECCCCCCC--CCH-HHCCCCCCCEEECCCCCCCCCHH-HCCCCC
T ss_conf             -----------------------845366898898989899899--974-67089999989897995899800-003999


Q ss_pred             CCEECCCCC
Q ss_conf             570113366
Q 001603          772 LGQLDLEDC  780 (1046)
Q Consensus       772 L~~L~L~~c  780 (1046)
                      |+.|++++|
T Consensus       375 L~~L~L~~N  383 (384)
T d2omza2         375 ITQLGLNDQ  383 (384)
T ss_dssp             CSEEECCCE
T ss_pred             CCEEECCCC
T ss_conf             999639789

>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=99.97  E-value=2.9e-27  Score=175.95  Aligned_cols=338  Identities=19%  Similarity=0.266  Sum_probs=198.2

Q ss_pred             CCCCCEEEECCCCCCHHHCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCEEEC
Q ss_conf             77891299768888010001013788775897679968777899999998899984177778401644228898509952
Q 001603          391 QLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNL  470 (1046)
Q Consensus       391 ~~~~L~~L~l~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~~~~l~~L~~L~L~~c~~~~~~~~~i~~l~~L~~L~l  470 (1046)
                      .+.+|++|++++++|+.+ +++..+++|++|++++|+. ..++.+.++++|++|++++|.... ++ .++.+++|+.|++
T Consensus        42 ~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~~  117 (384)
T d2omza2          42 DLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQL-TDITPLKNLTKLVDILMNNNQIAD-IT-PLANLTNLTGLTL  117 (384)
T ss_dssp             HHTTCCEEECCSSCCCCC-TTGGGCTTCCEEECCSSCC-CCCGGGTTCTTCCEEECCSSCCCC-CG-GGTTCTTCCEEEC
T ss_pred             HHCCCCEEECCCCCCCCC-CCCCCCCCCCEEECCCCCC-CCCCCCCCCCCCCCCCCCCCCCCC-CC-CCCCCCCCCCCCC
T ss_conf             957878998999898776-2424589999896818817-988633477110103013433322-22-1112334333443


Q ss_pred             CCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHCCC-CCCCCEEECCCCCCCCC
Q ss_conf             58999985599677565544512477677321000126678988376256654323510003-89986994489999742
Q 001603          471 KDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQH-LTGLVLLNLKDCKNLKS  549 (1046)
Q Consensus       471 ~~~~~l~~lp~~~~l~~L~~L~l~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~l~~-l~~L~~L~l~~~~~l~~  549 (1046)
                      .++. ...++.......+..                         .....+.+..+...... ........... ...  
T Consensus       118 ~~~~-~~~~~~~~~~~~~~~-------------------------~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-~~~--  168 (384)
T d2omza2         118 FNNQ-ITDIDPLKNLTNLNR-------------------------LELSSNTISDISALSGLTSLQQLSFGNQV-TDL--  168 (384)
T ss_dssp             CSSC-CCCCGGGTTCTTCSE-------------------------EEEEEEEECCCGGGTTCTTCSEEEEEESC-CCC--
T ss_pred             CCCC-CCCCCCCCCCCCCCC-------------------------CCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CHH--
T ss_conf             3222-222222222222211-------------------------21346631310023222211222221232-201--


Q ss_pred             CHHHHHCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCC
Q ss_conf             30544315867678414987888677321687644605334745654570000579999786699999875687467998
Q 001603          550 LSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLR  629 (1046)
Q Consensus       550 l~~~~~~l~~L~~L~L~~~~~~~~~p~~l~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~l~~lp~~~~~l~  629 (1046)
                        ..+.............+  ..........++++..+.+.++.+..++. ....++|+.|++.+|... .++ .+..++
T Consensus       169 --~~~~~~~~~~~~~~~~~--~~~~~~~~~~l~~~~~l~l~~n~i~~~~~-~~~~~~L~~L~l~~n~l~-~~~-~l~~l~  241 (384)
T d2omza2         169 --KPLANLTTLERLDISSN--KVSDISVLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLK-DIG-TLASLT  241 (384)
T ss_dssp             --GGGTTCTTCCEEECCSS--CCCCCGGGGGCTTCSEEECCSSCCCCCGG-GGGCTTCCEEECCSSCCC-CCG-GGGGCT
T ss_pred             --HHHCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCEEECCCCCCC-CCC-HHHCCC
T ss_conf             --11124542110112224--33321100223532333035774478786-444577878888777778-961-343256


Q ss_pred             CCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             78888326977998767223788887525235863458996023104786364478889999998556755433467677
Q 001603          630 SLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSY  709 (1046)
Q Consensus       630 ~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~  709 (1046)
                      +|+.+++++|...+ ++ .++.+++|+.|+++++.+++++ .+..++.++.+.+..|....                   
T Consensus       242 ~L~~L~l~~n~l~~-~~-~~~~~~~L~~L~l~~~~l~~~~-~~~~~~~l~~l~~~~n~l~~-------------------  299 (384)
T d2omza2         242 NLTDLDLANNQISN-LA-PLSGLTKLTELKLGANQISNIS-PLAGLTALTNLELNENQLED-------------------  299 (384)
T ss_dssp             TCSEEECCSSCCCC-CG-GGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSCCSC-------------------
T ss_pred             CCCHHCCCCCCCCC-CC-CCCCCCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCCCCCC-------------------
T ss_conf             53410044674478-77-5355466877545674457877-32356522223323233333-------------------


Q ss_pred             CCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEECCCCCCCCCCCCCC
Q ss_conf             62135898557898888966799999998853334767888552888987435645530245570113366356668999
Q 001603          710 PVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMPQL  789 (1046)
Q Consensus       710 ~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip~l  789 (1046)
                           +..+..+++++.|++++|++.  .++ .+..+++|++|++++|+++.++ .+..+++|++|++++|+. +.++.+
T Consensus       300 -----~~~~~~~~~l~~L~ls~n~l~--~l~-~l~~l~~L~~L~L~~n~l~~l~-~l~~l~~L~~L~l~~N~l-~~l~~l  369 (384)
T d2omza2         300 -----ISPISNLKNLTYLTLYFNNIS--DIS-PVSSLTKLQRLFFANNKVSDVS-SLANLTNINWLSAGHNQI-SDLTPL  369 (384)
T ss_dssp             -----CGGGGGCTTCSEEECCSSCCS--CCG-GGGGCTTCCEEECCSSCCCCCG-GGGGCTTCCEEECCSSCC-CBCGGG
T ss_pred             -----CCCCCHHCCCCEEECCCCCCC--CCC-CCCCCCCCCEEECCCCCCCCCH-HHCCCCCCCEEECCCCCC-CCCHHH
T ss_conf             -----221000024676777788778--984-5366898898989899899974-670899999898979958-998000


Q ss_pred             --CCCCCEEECCC
Q ss_conf             --98975266189
Q 001603          790 --PSNLYEVQVNG  800 (1046)
Q Consensus       790 --p~~L~~L~~~~  800 (1046)
                        .++|+.|++++
T Consensus       370 ~~l~~L~~L~L~~  382 (384)
T d2omza2         370 ANLTRITQLGLND  382 (384)
T ss_dssp             TTCTTCSEEECCC
T ss_pred             CCCCCCCEEECCC
T ss_conf             0399999963978

>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=99.95  E-value=4.7e-28  Score=180.66  Aligned_cols=72  Identities=28%  Similarity=0.395  Sum_probs=55.5

Q ss_pred             CCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCC-CCCHHHHHCCCCCEECCCCCCCCCCCCCCCC
Q ss_conf             85578988889667999999988533347678885528889874-3564553024557011336635666899998
Q 001603          717 SLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDLEDCKRLQSMPQLPS  791 (1046)
Q Consensus       717 ~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~-~lp~~i~~l~~L~~L~L~~c~~l~~ip~lp~  791 (1046)
                      .+..+++|+.|++++|++ .+.+|..++.+++|++|+|++|+++ .+|. +..+++|+.+++++|+.+...| +|+
T Consensus       239 ~~~~~~~L~~L~Ls~N~l-~g~iP~~l~~L~~L~~L~Ls~N~l~g~iP~-~~~L~~L~~l~l~~N~~l~g~p-lp~  311 (313)
T d1ogqa_         239 KVGLSKNLNGLDLRNNRI-YGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDVSAYANNKCLCGSP-LPA  311 (313)
T ss_dssp             GCCCCTTCCEEECCSSCC-EECCCGGGGGCTTCCEEECCSSEEEEECCC-STTGGGSCGGGTCSSSEEESTT-SSC
T ss_pred             CCCCCCCCCCCCCCCCEE-CCCCCHHHHCCCCCCEEECCCCCCCCCCCC-CCCCCCCCHHHHCCCCCCCCCC-CCC
T ss_conf             222455444444765706-660876884799999897958835166898-6667998978868895001989-889

>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=99.95  E-value=2.6e-24  Score=158.33  Aligned_cols=83  Identities=23%  Similarity=0.369  Sum_probs=65.8

Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCEEEECCCCCCHHHCC-CCCCCCCCCEEECCCCCCCCCCCC-CCCCCCCCEEEEECC
Q ss_conf             743898338999988997777891299768888010001-013788775897679968777899-999998899984177
Q 001603          372 KLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN-EIKYLNMLKVMKLSHSQNLIKTPD-FTGVPNLEELILEGC  449 (1046)
Q Consensus       372 ~Lr~L~l~~~~l~~lp~~~~~~~L~~L~l~~~~i~~l~~-~~~~l~~L~~L~Ls~~~~~~~~~~-~~~l~~L~~L~L~~c  449 (1046)
                      ..+.+++++..++++|.++ ++++++|++++|+|+.++. .+..+++|+.|+++++......+. |.++++|+.|++++|
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~~n   89 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDL-PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKN   89 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSC-CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSS
T ss_pred             CCCEEEECCCCCCCCCCCC-CCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEECCCCC
T ss_conf             5999985599988519888-999798978499189869657604656523112344344523566527985578315687


Q ss_pred             CCCCCCC
Q ss_conf             7784016
Q 001603          450 TRLHEIH  456 (1046)
Q Consensus       450 ~~~~~~~  456 (1046)
                      . +..++
T Consensus        90 ~-l~~l~   95 (305)
T d1xkua_          90 Q-LKELP   95 (305)
T ss_dssp             C-CSBCC
T ss_pred             C-CCCCC
T ss_conf             5-67676

>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=99.94  E-value=2.9e-26  Score=169.97  Aligned_cols=230  Identities=19%  Similarity=0.260  Sum_probs=127.1

Q ss_pred             CHHHHHCCCCCCEEECCC-CCCCCCCCCCCCCCCCCCEEECCCCCCCCC-CCCCCCCCCCCEEECCCCCCCCCCCCCCCC
Q ss_conf             305443158676784149-878886773216876446053347456545-700005799997866999998756874679
Q 001603          550 LSHTLRRLQCLKNLTLSG-CSKLKKFPESLGSMKDLMELFLDGTSIAEV-PSSIELLTGLQLLNLNNCSNLVRLPSCING  627 (1046)
Q Consensus       550 l~~~~~~l~~L~~L~L~~-~~~~~~~p~~l~~l~~L~~L~L~~~~i~~l-p~~l~~l~~L~~L~L~~~~~l~~lp~~~~~  627 (1046)
                      +|..+.++++|++|++++ +...+.+|..++++++|+.|++++|.+..+ +..+..+..|+.+++..|.....+|..+..
T Consensus        68 lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l~l~~N~~~~~~p~~l~~  147 (313)
T d1ogqa_          68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISS  147 (313)
T ss_dssp             CCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEEECCSSEEESCCCGGGGG
T ss_pred             CCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHCC
T ss_conf             98478467533520202654333002431145420011020356434433222220111001111224555568512206


Q ss_pred             CCCCCEEECCCCCCCCCCCCCCCCCCCC-CEEECCCCCCCCC-CCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             9878888326977998767223788887-5252358634589-9602310478636447888999999855675543346
Q 001603          628 LRSLKTLNLSGCSKLQNVPETLGQVESL-EELDISGTAIRRP-PSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMG  705 (1046)
Q Consensus       628 l~~L~~L~l~~c~~l~~lp~~~~~l~~L-~~L~L~~~~i~~~-p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~  705 (1046)
                      ++.|+.+++++|...+.+|..+..+..+ +.+++++|.+++. |..+..+ .+..+++..+.....              
T Consensus       148 l~~L~~l~l~~n~l~~~ip~~~~~l~~l~~~l~~~~n~l~~~~~~~~~~l-~~~~l~l~~~~~~~~--------------  212 (313)
T d1ogqa_         148 LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDLSRNMLEGD--------------  212 (313)
T ss_dssp             CTTCCEEECCSSCCEEECCGGGGCCCTTCCEEECCSSEEEEECCGGGGGC-CCSEEECCSSEEEEC--------------
T ss_pred             CCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC--------------
T ss_conf             74000000235533562031214431123231022464353324332222-222333333433222--------------


Q ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCC-CCCHHHHHCCCCCEECCCCCCCCC
Q ss_conf             7677621358985578988889667999999988533347678885528889874-356455302455701133663566
Q 001603          706 QRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV-TLPASINSLFNLGQLDLEDCKRLQ  784 (1046)
Q Consensus       706 ~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~-~lp~~i~~l~~L~~L~L~~c~~l~  784 (1046)
                              ++..+..+++++.+++++|.+ .+. +..+..+++|+.|+|++|+++ .+|..+..+++|++|+|++|+..+
T Consensus       213 --------~~~~~~~~~~l~~l~~~~~~l-~~~-~~~~~~~~~L~~L~Ls~N~l~g~iP~~l~~L~~L~~L~Ls~N~l~g  282 (313)
T d1ogqa_         213 --------ASVLFGSDKNTQKIHLAKNSL-AFD-LGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCG  282 (313)
T ss_dssp             --------CGGGCCTTSCCSEEECCSSEE-CCB-GGGCCCCTTCCEEECCSSCCEECCCGGGGGCTTCCEEECCSSEEEE
T ss_pred             --------CCCCCCCCCCCCCCCCCCCCC-CCC-CCCCCCCCCCCCCCCCCCEECCCCCHHHHCCCCCCEEECCCCCCCC
T ss_conf             --------222222222211122222222-222-2222245544444476570666087688479999989795883516


Q ss_pred             CCCCCC--CCCCEEECCCCCCC
Q ss_conf             689999--89752661897444
Q 001603          785 SMPQLP--SNLYEVQVNGCASL  804 (1046)
Q Consensus       785 ~ip~lp--~~L~~L~~~~C~sL  804 (1046)
                      .+|+..  .+|+.+++.+...|
T Consensus       283 ~iP~~~~L~~L~~l~l~~N~~l  304 (313)
T d1ogqa_         283 EIPQGGNLQRFDVSAYANNKCL  304 (313)
T ss_dssp             ECCCSTTGGGSCGGGTCSSSEE
T ss_pred             CCCCCCCCCCCCHHHHCCCCCC
T ss_conf             6898666799897886889500

>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=99.93  E-value=5.7e-23  Score=150.42  Aligned_cols=85  Identities=19%  Similarity=0.142  Sum_probs=53.3

Q ss_pred             CCEEEECCCCCCHHHCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             9129976888801000101378877589767996877789-999999889998417777840164422889850995258
Q 001603          394 KTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTP-DFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKD  472 (1046)
Q Consensus       394 ~L~~L~l~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~-~~~~l~~L~~L~L~~c~~~~~~~~~i~~l~~L~~L~l~~  472 (1046)
                      ....++-++.+++++|..+.  +++++|+|++|+.....+ .|.++++|++|++++|......+..+..+++|+.|++++
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~~   88 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSK   88 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSCC--TTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CCCEEEECCCCCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEECCCC
T ss_conf             59999855999885198889--9979897849918986965760465652311234434452356652798557831568


Q ss_pred             CCCCCCCCC
Q ss_conf             999985599
Q 001603          473 CTSLTTLPG  481 (1046)
Q Consensus       473 ~~~l~~lp~  481 (1046)
                      + .++.+|.
T Consensus        89 n-~l~~l~~   96 (305)
T d1xkua_          89 N-QLKELPE   96 (305)
T ss_dssp             S-CCSBCCS
T ss_pred             C-CCCCCCC
T ss_conf             7-5676764

>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=99.93  E-value=1.9e-21  Score=141.38  Aligned_cols=315  Identities=23%  Similarity=0.223  Sum_probs=150.1

Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCEEEECCCCCCHHHCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEEEECCCC
Q ss_conf             74389833899998899777789129976888801000101378877589767996877789999999889998417777
Q 001603          372 KLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLIKTPDFTGVPNLEELILEGCTR  451 (1046)
Q Consensus       372 ~Lr~L~l~~~~l~~lp~~~~~~~L~~L~l~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~~~~~~~~l~~L~~L~L~~c~~  451 (1046)
                      .++.|+++++.++++|..  +++|++|++++|+|+.+|..   +.+|+.|+++++... .++++  .+.|++|++++|. 
T Consensus        39 ~l~~LdLs~~~L~~lp~~--~~~L~~L~Ls~N~l~~lp~~---~~~L~~L~l~~n~l~-~l~~l--p~~L~~L~L~~n~-  109 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPEL--PPHLESLVASCNSLTELPEL---PQSLKSLLVDNNNLK-ALSDL--PPLLEYLGVSNNQ-  109 (353)
T ss_dssp             TCSEEECTTSCCSCCCSC--CTTCSEEECCSSCCSSCCCC---CTTCCEEECCSSCCS-CCCSC--CTTCCEEECCSSC-
T ss_pred             CCCEEEECCCCCCCCCCC--CCCCCEEECCCCCCCCCCCC---HHHHHHHHHHHCCCC-HHHHH--CCCCCCCCCCCCC-
T ss_conf             998999379998878898--78988898999979633620---332033266551432-03210--2211111334554-


Q ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHCC
Q ss_conf             84016442288985099525899998559967756554451247767732100012667898837625665432351000
Q 001603          452 LHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGCLKLTKKCLEFAGSMNDLSELFLDRTTIEELPLSIQ  531 (1046)
Q Consensus       452 ~~~~~~~i~~l~~L~~L~l~~~~~l~~lp~~~~l~~L~~L~l~~~~~l~~~~~~~~~~l~~L~~L~l~~~~i~~lp~~l~  531 (1046)
                      +..++ .++.+++|+.|+++++.. ...+..  ...+..+.+..+...   ....++.++.++.+.+..+....++..  
T Consensus       110 l~~lp-~~~~l~~L~~L~l~~~~~-~~~~~~--~~~l~~l~~~~~~~~---~~~~l~~l~~l~~L~l~~n~~~~~~~~--  180 (353)
T d1jl5a_         110 LEKLP-ELQNSSFLKIIDVDNNSL-KKLPDL--PPSLEFIAAGNNQLE---ELPELQNLPFLTAIYADNNSLKKLPDL--  180 (353)
T ss_dssp             CSSCC-CCTTCTTCCEEECCSSCC-SCCCCC--CTTCCEEECCSSCCS---SCCCCTTCTTCCEEECCSSCCSSCCCC--
T ss_pred             CCCCC-CHHHHCCCEEECCCCCCC-CCCCCC--CCCCCCHHHCCCCCC---CCCCCCCCCCCEECCCCCCCCCCCCCC--
T ss_conf             32221-001101312311356510-013223--333210000122222---333200012220011123344322221--


Q ss_pred             CCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             38998699448999974230544315867678414987888677321687644605334745654570000579999786
Q 001603          532 HLTGLVLLNLKDCKNLKSLSHTLRRLQCLKNLTLSGCSKLKKFPESLGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLN  611 (1046)
Q Consensus       532 ~l~~L~~L~l~~~~~l~~l~~~~~~l~~L~~L~L~~~~~~~~~p~~l~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~  611 (1046)
                                                                       ......+...+..+..++. ...++.|+.++
T Consensus       181 -------------------------------------------------~~~~~~l~~~~~~~~~~~~-~~~l~~L~~l~  210 (353)
T d1jl5a_         181 -------------------------------------------------PLSLESIVAGNNILEELPE-LQNLPFLTTIY  210 (353)
T ss_dssp             -------------------------------------------------CTTCCEEECCSSCCSSCCC-CTTCTTCCEEE
T ss_pred             -------------------------------------------------CCCCCCCCCCCCCCCCCCC-CCCCCCCCCCC
T ss_conf             -------------------------------------------------2222223344432222122-34555333122


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCC
Q ss_conf             69999987568746799878888326977998767223788887525235863458996023104786364478889999
Q 001603          612 LNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPS  691 (1046)
Q Consensus       612 L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~  691 (1046)
                      +.+|.... .+.   ...++..+.+..+.... .+.   ....+....+..+.+..+...   ........+..+..   
T Consensus       211 l~~n~~~~-~~~---~~~~l~~~~~~~~~~~~-~~~---~~~~l~~~~~~~~~~~~l~~l---~~~~~~~~~~~~~~---  276 (353)
T d1jl5a_         211 ADNNLLKT-LPD---LPPSLEALNVRDNYLTD-LPE---LPQSLTFLDVSENIFSGLSEL---PPNLYYLNASSNEI---  276 (353)
T ss_dssp             CCSSCCSS-CCS---CCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCCSEESCC---CTTCCEEECCSSCC---
T ss_pred             CCCCCCCC-CCC---CCCCCCCCCCCCCCCCC-CCC---CCCCCCCCCCCCCCCCCCCCC---CCHHCCCCCCCCCC---
T ss_conf             25422234-553---23343332223333344-433---344322222222333222345---30001233335753---


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCC
Q ss_conf             99855675543346767762135898557898888966799999998853334767888552888987435645530245
Q 001603          692 STSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFN  771 (1046)
Q Consensus       692 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~  771 (1046)
                                             ......+++|++|++++|++.  .+|.   .+++|+.|+|++|+++.+|..   +++
T Consensus       277 -----------------------~~~~~~~~~L~~L~Ls~N~l~--~lp~---~~~~L~~L~L~~N~L~~l~~~---~~~  325 (353)
T d1jl5a_         277 -----------------------RSLCDLPPSLEELNVSNNKLI--ELPA---LPPRLERLIASFNHLAEVPEL---PQN  325 (353)
T ss_dssp             -----------------------SEECCCCTTCCEEECCSSCCS--CCCC---CCTTCCEEECCSSCCSCCCCC---CTT
T ss_pred             -----------------------CCCCCCCCCCCEEECCCCCCC--CCCC---CCCCCCEEECCCCCCCCCCCC---CCC
T ss_conf             -----------------------234566898898979799168--3566---548799898999968754532---288


Q ss_pred             CCEECCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             57011336635666899998975266189
Q 001603          772 LGQLDLEDCKRLQSMPQLPSNLYEVQVNG  800 (1046)
Q Consensus       772 L~~L~L~~c~~l~~ip~lp~~L~~L~~~~  800 (1046)
                      |++|++++|+ ++.+|++|.+|+.|++.+
T Consensus       326 L~~L~L~~N~-L~~lp~~~~~L~~L~~~~  353 (353)
T d1jl5a_         326 LKQLHVEYNP-LREFPDIPESVEDLRMNS  353 (353)
T ss_dssp             CCEEECCSSC-CSSCCCCCTTCCEEECCC
T ss_pred             CCEEECCCCC-CCCCCCCCCCCCEEECCC
T ss_conf             8989876991-897776526567128969

>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=99.89  E-value=2.5e-21  Score=140.67  Aligned_cols=62  Identities=23%  Similarity=0.196  Sum_probs=29.3

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEECCCCCC
Q ss_conf             578988889667999999988533347678885528889874356455302455701133663
Q 001603          719 SGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCK  781 (1046)
Q Consensus       719 ~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~  781 (1046)
                      ..+++|+.+++++|++ .+..+..+..+++|++|+|++|+++++|.++..+++|+.|+|++|+
T Consensus       145 ~~l~~l~~l~l~~N~l-~~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         145 TPTPKLEKLSLANNNL-TELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNP  206 (266)
T ss_dssp             TTCTTCCEEECTTSCC-SCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCCCSEEECCSCC
T ss_pred             CCCCCCHHCCCCCCCC-CCCCCCCCCCCCCCCEEECCCCCCCCCCHHHCCCCCCCEEEECCCC
T ss_conf             2211100000001565-2237200134212423430139785568667778889999836999

>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=99.89  E-value=2.3e-21  Score=140.86  Aligned_cols=133  Identities=28%  Similarity=0.376  Sum_probs=52.4

Q ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCC-CCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCC
Q ss_conf             679987888832697799876722378888752523586345899-6023104786364478889999998556755433
Q 001603          625 INGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPP-SSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNL  703 (1046)
Q Consensus       625 ~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i~~~p-~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~  703 (1046)
                      +.++++|++|++++|......+..+..+.+|+.+++++|.++.++ ..+..+++|+.|++++|.....            
T Consensus       101 ~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~l~~i~~~~f~~~~~L~~L~l~~N~l~~l------------  168 (284)
T d1ozna_         101 FHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSV------------  168 (284)
T ss_dssp             TTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSCCCCCCTTTTTTCTTCCEEECCSSCCCEE------------
T ss_pred             HCCCCCCCEEECCCCCCCCCCCCCCCHHCCCCHHHHCCCCCCCCCHHHHCCCCCHHHCCCCCCCCCCC------------
T ss_conf             01010277875688544320135332000121102001431445805740434050223141765662------------


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCC-HHHHHCCCCCEECCCCC
Q ss_conf             467677621358985578988889667999999988533347678885528889874356-45530245570113366
Q 001603          704 MGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLP-ASINSLFNLGQLDLEDC  780 (1046)
Q Consensus       704 ~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp-~~i~~l~~L~~L~L~~c  780 (1046)
                                .+..+..+++|+.+++++|++ .+..|..+..+++|++|++++|.+..++ ..+..+++|++|++++|
T Consensus       169 ----------~~~~f~~l~~L~~l~l~~N~l-~~i~~~~f~~l~~L~~L~l~~N~i~~~~~~~~~~~~~L~~L~l~~N  235 (284)
T d1ozna_         169 ----------PERAFRGLHSLDRLLLHQNRV-AHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLNDN  235 (284)
T ss_dssp             ----------CTTTTTTCTTCCEEECCSSCC-CEECTTTTTTCTTCCEEECCSSCCSCCCHHHHTTCTTCCEEECCSS
T ss_pred             ----------CHHHHCCCCCCCHHHHHHCCC-CCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCC
T ss_conf             ----------566654656341314211434-6628167665320002333335221000002355465688981199

>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=99.88  E-value=3.2e-19  Score=128.14  Aligned_cols=134  Identities=17%  Similarity=0.167  Sum_probs=66.3

Q ss_pred             CCCEEEECCCCCCCCHHCCCCCCCEEEECCCCCCCCCCCCCCCCCEEEECCCCCCHHHCCCCCCCCCCCEEECCCCCCCC
Q ss_conf             86199738944799400036574389833899998899777789129976888801000101378877589767996877
Q 001603          351 NLRLLKIDNLQLPEGLEYLSNKLRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWNEIKYLNMLKVMKLSHSQNLI  430 (1046)
Q Consensus       351 ~Lr~L~l~~~~l~~~~~~l~~~Lr~L~l~~~~l~~lp~~~~~~~L~~L~l~~~~i~~l~~~~~~l~~L~~L~Ls~~~~~~  430 (1046)
                      +++.|+++++.+..-+. .+..|++|+++++.++++|..  +.+|+.|+++++.++.++.-   .+.|++|+++++.. .
T Consensus        39 ~l~~LdLs~~~L~~lp~-~~~~L~~L~Ls~N~l~~lp~~--~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~~n~l-~  111 (353)
T d1jl5a_          39 QAHELELNNLGLSSLPE-LPPHLESLVASCNSLTELPEL--PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSNNQL-E  111 (353)
T ss_dssp             TCSEEECTTSCCSCCCS-CCTTCSEEECCSSCCSSCCCC--CTTCCEEECCSSCCSCCCSC---CTTCCEEECCSSCC-S
T ss_pred             CCCEEEECCCCCCCCCC-CCCCCCEEECCCCCCCCCCCC--HHHHHHHHHHHCCCCHHHHH---CCCCCCCCCCCCCC-C
T ss_conf             99899937999887889-878988898999979633620--33203326655143203210---22111113345543-2


Q ss_pred             CCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             789999999889998417777840164422889850995258999985599677565544512477
Q 001603          431 KTPDFTGVPNLEELILEGCTRLHEIHPSLLLHSKLVILNLKDCTSLTTLPGKISMKSLKTLVLSGC  496 (1046)
Q Consensus       431 ~~~~~~~l~~L~~L~L~~c~~~~~~~~~i~~l~~L~~L~l~~~~~l~~lp~~~~l~~L~~L~l~~~  496 (1046)
                      .+|.+..+++|+.|++.++.... .+.   ....+..+.+..+.. ........++.++.+.+.++
T Consensus       112 ~lp~~~~l~~L~~L~l~~~~~~~-~~~---~~~~l~~l~~~~~~~-~~~~~l~~l~~l~~L~l~~n  172 (353)
T d1jl5a_         112 KLPELQNSSFLKIIDVDNNSLKK-LPD---LPPSLEFIAAGNNQL-EELPELQNLPFLTAIYADNN  172 (353)
T ss_dssp             SCCCCTTCTTCCEEECCSSCCSC-CCC---CCTTCCEEECCSSCC-SSCCCCTTCTTCCEEECCSS
T ss_pred             CCCCHHHHCCCEEECCCCCCCCC-CCC---CCCCCCCHHHCCCCC-CCCCCCCCCCCCEECCCCCC
T ss_conf             22100110131231135651001-322---333321000012222-23332000122200111233

>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=99.88  E-value=1.3e-21  Score=142.39  Aligned_cols=51  Identities=12%  Similarity=0.128  Sum_probs=22.0

Q ss_pred             EEECCCCCCCCCCCCCCCCCEEEECCCCCCHHHCC-CCCCCCCCCEEECCCCC
Q ss_conf             98338999988997777891299768888010001-01378877589767996
Q 001603          376 LDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN-EIKYLNMLKVMKLSHSQ  427 (1046)
Q Consensus       376 L~l~~~~l~~lp~~~~~~~L~~L~l~~~~i~~l~~-~~~~l~~L~~L~Ls~~~  427 (1046)
                      +.+++..++++|..+ +..+++|++++|+|+.++. .+..+++|++++++++.
T Consensus        16 v~c~~~~L~~iP~~i-p~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~   67 (284)
T d1ozna_          16 TSCPQQGLQAVPVGI-PAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNV   67 (284)
T ss_dssp             EECCSSCCSSCCTTC-CTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSC
T ss_pred             EECCCCCCCCCCCCC-CCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCC
T ss_conf             984799989449788-9998889774881798797786414213000013445

>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=99.88  E-value=1.2e-20  Score=136.52  Aligned_cols=133  Identities=24%  Similarity=0.217  Sum_probs=67.4

Q ss_pred             CCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CHHHCCCCCEE
Q ss_conf             57999978669999987568746799878888326977998767223788887525235863458996-02310478636
Q 001603          603 LLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPS-SIFVMNNLKTL  681 (1046)
Q Consensus       603 ~l~~L~~L~L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i~~~p~-~~~~l~~L~~L  681 (1046)
                      .+++|+.|++++|.. ...+..+..+++|+.|+++++......+..+..+.+++.|++++|.++.++. .+..+++|+.+
T Consensus        75 ~l~~L~~L~Ls~N~l-~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~l~~l~~~~~~~l~~l~~l  153 (266)
T d1p9ag_          75 TLPVLGTLDLSHNQL-QSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKL  153 (266)
T ss_dssp             CCTTCCEEECCSSCC-SSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEE
T ss_pred             CCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEECCCCCCCCCCCHHC
T ss_conf             122321111122222-1111121222222222222231101100112222111122124342102212333221110000


Q ss_pred             ECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCC
Q ss_conf             4478889999998556755433467677621358985578988889667999999988533347678885528889874
Q 001603          682 SFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV  760 (1046)
Q Consensus       682 ~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~  760 (1046)
                      ++++|......                      +..+..+++|++|+|++|.+  ..+|..+..+++|+.|+|++|.+.
T Consensus       154 ~l~~N~l~~~~----------------------~~~~~~l~~L~~L~Ls~N~L--~~lp~~~~~~~~L~~L~L~~Np~~  208 (266)
T d1p9ag_         154 SLANNNLTELP----------------------AGLLNGLENLDTLLLQENSL--YTIPKGFFGSHLLPFAFLHGNPWL  208 (266)
T ss_dssp             ECTTSCCSCCC----------------------TTTTTTCTTCCEEECCSSCC--CCCCTTTTTTCCCSEEECCSCCBC
T ss_pred             CCCCCCCCCCC----------------------CCCCCCCCCCCEEECCCCCC--CCCCHHHCCCCCCCEEEECCCCCC
T ss_conf             00015652237----------------------20013421242343013978--556866777888999983699987

>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=99.79  E-value=1.3e-17  Score=118.59  Aligned_cols=168  Identities=23%  Similarity=0.324  Sum_probs=89.9

Q ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCE
Q ss_conf             16876446053347456545700005799997866999998756874679987888832697799876722378888752
Q 001603          578 LGSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEE  657 (1046)
Q Consensus       578 l~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~  657 (1046)
                      +..+++|+.|++++|.+..+++ +..+++++.+.+.+|... .++ .+..+++|+.+.+++|.....  ..+...+.+..
T Consensus        59 l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n~~~-~i~-~l~~l~~L~~l~l~~~~~~~~--~~~~~~~~~~~  133 (227)
T d1h6ua2          59 VQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGNPLK-NVS-AIAGLQSIKTLDLTSTQITDV--TPLAGLSNLQV  133 (227)
T ss_dssp             GGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSCCCS-CCG-GGTTCTTCCEEECTTSCCCCC--GGGTTCTTCCE
T ss_pred             HHCCCCCCEEECCCCEEECCCC-CCCCCCCCCCCCCCCCCC-CCC-CCCCCCCCCCCCCCCCCCCCC--CHHCCCCCHHH
T ss_conf             7448888376357853202543-112334320121112222-222-222222221221222443311--00000230122


Q ss_pred             EECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC
Q ss_conf             52358634589960231047863644788899999985567554334676776213589855789888896679999999
Q 001603          658 LDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEG  737 (1046)
Q Consensus       658 L~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~  737 (1046)
                      +.++++.+.... .+...++|+.|.+++|....                        ...+.++++|+.|++++|.+.  
T Consensus       134 l~~~~~~~~~~~-~~~~~~~L~~L~l~~n~~~~------------------------~~~l~~l~~L~~L~Ls~n~l~--  186 (227)
T d1h6ua2         134 LYLDLNQITNIS-PLAGLTNLQYLSIGNAQVSD------------------------LTPLANLSKLTTLKADDNKIS--  186 (227)
T ss_dssp             EECCSSCCCCCG-GGGGCTTCCEEECCSSCCCC------------------------CGGGTTCTTCCEEECCSSCCC--
T ss_pred             HHCHHHHHCHHH-HHCCCCCCCCCCCCCCCCCC------------------------CHHHCCCCCCEECCCCCCCCC--
T ss_conf             200000000000-00102111002333333331------------------------001056463356445888417--


Q ss_pred             CCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEECCCC
Q ss_conf             885333476788855288898743564553024557011336
Q 001603          738 AIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED  779 (1046)
Q Consensus       738 ~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~  779 (1046)
                      .++. +..+++|++|+|++|+++.++ .+..+++|+.|++++
T Consensus       187 ~l~~-l~~l~~L~~L~Ls~N~lt~i~-~l~~l~~L~~L~lsn  226 (227)
T d1h6ua2         187 DISP-LASLPNLIEVHLKNNQISDVS-PLANTSNLFIVTLTN  226 (227)
T ss_dssp             CCGG-GGGCTTCCEEECTTSCCCBCG-GGTTCTTCCEEEEEE
T ss_pred             CCHH-HCCCCCCCEEECCCCCCCCCC-CCCCCCCCCEEEEEC
T ss_conf             7853-447999998979599689980-203699989897129

>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=99.78  E-value=2e-17  Score=117.47  Aligned_cols=99  Identities=16%  Similarity=0.293  Sum_probs=51.4

Q ss_pred             CCEEEECCCCCCCCCCCCCCCCCEEEECCCCCCHHHCC-CCCCCCCCCEEECCCCCCCCCCCC--CCCCCCCCEEEEECC
Q ss_conf             43898338999988997777891299768888010001-013788775897679968777899--999998899984177
Q 001603          373 LRLLDWHRYPLKSLPSNFQLEKTVEFNMCYSRIEELWN-EIKYLNMLKVMKLSHSQNLIKTPD--FTGVPNLEELILEGC  449 (1046)
Q Consensus       373 Lr~L~l~~~~l~~lp~~~~~~~L~~L~l~~~~i~~l~~-~~~~l~~L~~L~Ls~~~~~~~~~~--~~~l~~L~~L~L~~c  449 (1046)
                      .+.+++.+..++++|..+ +.++++|++++|.|+.++. .+.++++|++|+++++.....++.  |.++++++++.+..+
T Consensus        10 ~~~i~c~~~~l~~iP~~l-~~~l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~~~~~i~~~~f~~l~~l~~l~~~~~   88 (242)
T d1xwdc1          10 NRVFLCQESKVTEIPSDL-PRNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             SSEEEEESCSCSSCCSCS-CSCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             CCEEEEECCCCCCCCCCC-CCCCCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCC
T ss_conf             999998189988768888-9988999876991896496686146432321102211242010011222222222111112


Q ss_pred             CCCCCCC-CCCCCCCCCCEEECCC
Q ss_conf             7784016-4422889850995258
Q 001603          450 TRLHEIH-PSLLLHSKLVILNLKD  472 (1046)
Q Consensus       450 ~~~~~~~-~~i~~l~~L~~L~l~~  472 (1046)
                      +.+...+ ..+..+++|+.+++.+
T Consensus        89 n~l~~~~~~~~~~l~~L~~l~l~~  112 (242)
T d1xwdc1          89 NNLLYINPEAFQNLPNLQYLLISN  112 (242)
T ss_dssp             TTCCEECTTSEECCTTCCEEEEES
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCH
T ss_conf             343222222122222222223421

>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=99.75  E-value=4.7e-17  Score=115.23  Aligned_cols=165  Identities=22%  Similarity=0.327  Sum_probs=102.4

Q ss_pred             CCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEEC
Q ss_conf             76446053347456545700005799997866999998756874679987888832697799876722378888752523
Q 001603          581 MKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDI  660 (1046)
Q Consensus       581 l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L  660 (1046)
                      +.+|+.|++.++.+..++ +++.+++|+.|++++|.... ++ .+..+++|+.|++++|. +..++ .+..+++|+.|++
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 LNSIDQIIANNSDIKSVQ-GIQYLPNVTKLFLNGNKLTD-IK-PLANLKNLGWLFLDENK-VKDLS-SLKDLKKLKSLSL  119 (210)
T ss_dssp             HHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCC-CG-GGTTCTTCCEEECCSSC-CCCGG-GGTTCTTCCEEEC
T ss_pred             HCCCCEEECCCCCCCCCH-HHHHCCCCCEEECCCCCCCC-CC-CCCCCCCCCCCCCCCCC-CCCCC-CCCCCCCCCCCCC
T ss_conf             548458978279888744-47648998987698960258-60-11358621201433333-21222-1212221112234


Q ss_pred             CCCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCC
Q ss_conf             58634589960231047863644788899999985567554334676776213589855789888896679999999885
Q 001603          661 SGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP  740 (1046)
Q Consensus       661 ~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip  740 (1046)
                      +++.+..++ .+..+++++.+.+++|....                        +..+..+++|+.+++++|.+.  .++
T Consensus       120 ~~~~~~~~~-~l~~l~~l~~l~~~~n~l~~------------------------~~~~~~l~~L~~l~l~~n~l~--~i~  172 (210)
T d1h6ta2         120 EHNGISDIN-GLVHLPQLESLYLGNNKITD------------------------ITVLSRLTKLDTLSLEDNQIS--DIV  172 (210)
T ss_dssp             TTSCCCCCG-GGGGCTTCCEEECCSSCCCC------------------------CGGGGGCTTCSEEECCSSCCC--CCG
T ss_pred             CCCCCCCCC-CCCCCCCCCCCCCCCCCCCC------------------------CCCCCCCCCCCCCCCCCCCCC--CCC
T ss_conf             565322112-20111112221122233345------------------------431000133210013464302--564


Q ss_pred             CCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEECCCC
Q ss_conf             333476788855288898743564553024557011336
Q 001603          741 NDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLED  779 (1046)
Q Consensus       741 ~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~  779 (1046)
                       .+..+++|+.|++++|+++.+| .+..+++|+.|+|++
T Consensus       173 -~l~~l~~L~~L~Ls~N~i~~l~-~l~~l~~L~~L~Ls~  209 (210)
T d1h6ta2         173 -PLAGLTKLQNLYLSKNHISDLR-ALAGLKNLDVLELFS  209 (210)
T ss_dssp             -GGTTCTTCCEEECCSSCCCBCG-GGTTCTTCSEEEEEE
T ss_pred             -CCCCCCCCCEEECCCCCCCCCH-HHCCCCCCCEEECCC
T ss_conf             -5367898999989799899872-116999989997118

>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=99.75  E-value=6.8e-17  Score=114.24  Aligned_cols=174  Identities=22%  Similarity=0.365  Sum_probs=80.3

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEE
Q ss_conf             68764460533474565457000057999978669999987568746799878888326977998767223788887525
Q 001603          579 GSMKDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEEL  658 (1046)
Q Consensus       579 ~~l~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L  658 (1046)
                      ..+.+|+.|.+.++.+..++ .++.+++|+.|++++|......+  +..+++|+.+.+++|... .++ .+..+++|+.+
T Consensus        38 ~~l~~L~~L~l~~~~i~~l~-~l~~l~~L~~L~ls~n~i~~~~~--l~~l~~l~~l~~~~n~~~-~i~-~l~~l~~L~~l  112 (227)
T d1h6ua2          38 ADLDGITTLSAFGTGVTTIE-GVQYLNNLIGLELKDNQITDLAP--LKNLTKITELELSGNPLK-NVS-AIAGLQSIKTL  112 (227)
T ss_dssp             HHHHTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCCCGG--GTTCCSCCEEECCSCCCS-CCG-GGTTCTTCCEE
T ss_pred             HHCCCCCEEECCCCCCCCCH-HHHCCCCCCEEECCCCEEECCCC--CCCCCCCCCCCCCCCCCC-CCC-CCCCCCCCCCC
T ss_conf             78488689977799997664-57448888376357853202543--112334320121112222-222-22222222122


Q ss_pred             ECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCC
Q ss_conf             23586345899602310478636447888999999855675543346767762135898557898888966799999998
Q 001603          659 DISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGA  738 (1046)
Q Consensus       659 ~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~  738 (1046)
                      .++++.....+ .+...+.+..+.++++....                        ...+..+++|+.|++++|.+..  
T Consensus       113 ~l~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~------------------------~~~~~~~~~L~~L~l~~n~~~~--  165 (227)
T d1h6ua2         113 DLTSTQITDVT-PLAGLSNLQVLYLDLNQITN------------------------ISPLAGLTNLQYLSIGNAQVSD--  165 (227)
T ss_dssp             ECTTSCCCCCG-GGTTCTTCCEEECCSSCCCC------------------------CGGGGGCTTCCEEECCSSCCCC--
T ss_pred             CCCCCCCCCCC-HHCCCCCHHHHHCHHHHHCH------------------------HHHHCCCCCCCCCCCCCCCCCC--
T ss_conf             12224433110-00002301222000000000------------------------0000102111002333333331--


Q ss_pred             CCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEECCCCCCCCCCCC
Q ss_conf             8533347678885528889874356455302455701133663566689
Q 001603          739 IPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDCKRLQSMP  787 (1046)
Q Consensus       739 ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c~~l~~ip  787 (1046)
                      . ..+..+++|+.|++++|+++.++. +..+++|++|++++|+ ++.++
T Consensus       166 ~-~~l~~l~~L~~L~Ls~n~l~~l~~-l~~l~~L~~L~Ls~N~-lt~i~  211 (227)
T d1h6ua2         166 L-TPLANLSKLTTLKADDNKISDISP-LASLPNLIEVHLKNNQ-ISDVS  211 (227)
T ss_dssp             C-GGGTTCTTCCEEECCSSCCCCCGG-GGGCTTCCEEECTTSC-CCBCG
T ss_pred             C-HHHCCCCCCEECCCCCCCCCCCHH-HCCCCCCCEEECCCCC-CCCCC
T ss_conf             0-010564633564458884177853-4479999989795996-89980

>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=99.74  E-value=1.3e-18  Score=124.41  Aligned_cols=40  Identities=25%  Similarity=0.225  Sum_probs=16.2

Q ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             5578988889667999999988533347678885528889
Q 001603          718 LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQN  757 (1046)
Q Consensus       718 l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n  757 (1046)
                      +..+++|++|++++|.-.++.....+..+++|+.|++++|
T Consensus       196 l~~~~~L~~L~L~~C~~i~~~~l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         196 FFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             GGGCTTCCEEECTTCTTCCGGGGGGGGGCTTCCEEECTTS
T ss_pred             HCCCCCCCEEECCCCCCCCHHHHHHHHCCCCCCEEEEECC
T ss_conf             2135768779899999787378999726999898964488

>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=99.73  E-value=2.4e-16  Score=111.00  Aligned_cols=160  Identities=23%  Similarity=0.346  Sum_probs=71.4

Q ss_pred             CCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECC
Q ss_conf             64460533474565457000057999978669999987568746799878888326977998767223788887525235
Q 001603          582 KDLMELFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDIS  661 (1046)
Q Consensus       582 ~~L~~L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~  661 (1046)
                      .+++.|++.++.+..++ .++.+++|+.|++++|.... ++. +.++++|+.|++++|.... ++ .+..+++|+.|+++
T Consensus        40 ~~l~~L~l~~~~i~~l~-~l~~l~nL~~L~Ls~N~l~~-~~~-l~~l~~L~~L~l~~n~~~~-~~-~l~~l~~L~~L~l~  114 (199)
T d2omxa2          40 DQVTTLQADRLGIKSID-GVEYLNNLTQINFSNNQLTD-ITP-LKNLTKLVDILMNNNQIAD-IT-PLANLTNLTGLTLF  114 (199)
T ss_dssp             TTCCEEECTTSCCCCCT-TGGGCTTCCEEECCSSCCCC-CGG-GTTCTTCCEEECCSSCCCC-CG-GGTTCTTCSEEECC
T ss_pred             CCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCCCCCC-CCC-CCCCCCCCCCCCCCCCCCC-CC-CCCCCCCCCCCCCC
T ss_conf             68789989999997752-02137886757545655667-640-1677522311112222222-21-11112232221112


Q ss_pred             CCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCC
Q ss_conf             86345899602310478636447888999999855675543346767762135898557898888966799999998853
Q 001603          662 GTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPN  741 (1046)
Q Consensus       662 ~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~  741 (1046)
                      ++.....+ .+..+++|+.|++++|....                        ++.+..+++|+.|++++|.+.  .++ 
T Consensus       115 ~~~~~~~~-~~~~l~~L~~L~l~~n~l~~------------------------~~~l~~~~~L~~L~l~~n~l~--~l~-  166 (199)
T d2omxa2         115 NNQITDID-PLKNLTNLNRLELSSNTISD------------------------ISALSGLTSLQQLNFSSNQVT--DLK-  166 (199)
T ss_dssp             SSCCCCCG-GGTTCTTCSEEECCSSCCCC------------------------CGGGTTCTTCSEEECCSSCCC--CCG-
T ss_pred             CCCCCCCC-CCCHHHHHHHHHHHHHHHCC------------------------CCCCCCCCCCCCCCCCCCCCC--CCC-
T ss_conf             22222321-00012236776431111002------------------------343332111111223455556--770-


Q ss_pred             CCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEE
Q ss_conf             3347678885528889874356455302455701
Q 001603          742 DIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQL  775 (1046)
Q Consensus       742 ~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L  775 (1046)
                      .+..+++|+.|++++|+++.++ .+..+++|+.|
T Consensus       167 ~l~~l~~L~~L~ls~N~i~~i~-~l~~L~~L~~L  199 (199)
T d2omxa2         167 PLANLTTLERLDISSNKVSDIS-VLAKLTNLESL  199 (199)
T ss_dssp             GGTTCTTCCEEECCSSCCCCCG-GGGGCTTCSEE
T ss_pred             CCCCCCCCCEEECCCCCCCCCC-CCCCCCCCCCC
T ss_conf             1167998999978799799881-01278998949

>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=99.71  E-value=1.4e-18  Score=124.25  Aligned_cols=38  Identities=29%  Similarity=0.428  Sum_probs=15.0

Q ss_pred             CCCEEECCCCCCCCC---CCCCCCCCCCCCCEEECCCCCCC
Q ss_conf             888896679999999---88533347678885528889874
Q 001603          723 SLSKLDLSDCGLGEG---AIPNDIGNLCSLKQLNLSQNNFV  760 (1046)
Q Consensus       723 ~L~~L~Ls~~~l~~~---~ip~~l~~l~~L~~L~Ls~n~l~  760 (1046)
                      .|++|++++|.+.+.   .++..+..+++|++|+|++|+++
T Consensus       370 ~L~~L~Ls~n~i~~~~~~~l~~~l~~~~~L~~L~Ls~N~i~  410 (460)
T d1z7xw1         370 VLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLG  410 (460)
T ss_dssp             CCCEEECTTSCCCHHHHHHHHHHHHHCCCCCEEECCSSSCC
T ss_pred             CCCEEECCCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCC
T ss_conf             77889897997975999999999962998898989999698

>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=99.70  E-value=4.7e-19  Score=127.08  Aligned_cols=137  Identities=21%  Similarity=0.260  Sum_probs=65.2

Q ss_pred             CCCCCEEECCCCCCCCC----CCCCCCCCCCCCEEECCCCCCCCCC-----CC-HHHCCCCCEEECCCCCCCCCCCCCCC
Q ss_conf             98788883269779987----6722378888752523586345899-----60-23104786364478889999998556
Q 001603          628 LRSLKTLNLSGCSKLQN----VPETLGQVESLEELDISGTAIRRPP-----SS-IFVMNNLKTLSFSGCNGPPSSTSWHW  697 (1046)
Q Consensus       628 l~~L~~L~l~~c~~l~~----lp~~~~~l~~L~~L~L~~~~i~~~p-----~~-~~~l~~L~~L~l~~c~~~~~~~~~~~  697 (1046)
                      ...++.+++++|.....    ....+...+.++.+++++|.+....     .. ......|+.+.+++|......     
T Consensus       254 ~~~l~~l~l~~n~i~~~~~~~~~~~l~~~~~l~~l~l~~n~i~~~~~~~l~~~l~~~~~~L~~l~l~~~~l~~~~-----  328 (460)
T d1z7xw1         254 SSRLRTLWIWECGITAKGCGDLCRVLRAKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAAC-----  328 (460)
T ss_dssp             TCCCCEEECTTSCCCHHHHHHHHHHHHHCTTCCEEECTTCCCHHHHHHHHHHHHTSTTCCCCEEECTTSCCBGGG-----
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCHHHHH-----
T ss_conf             111000013454332123343322111234333444443332245642111012333444333323334102334-----


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC---CCCCCCC-CCCCCCEEECCCCCCCC-----CCHHHHH
Q ss_conf             7554334676776213589855789888896679999999---8853334-76788855288898743-----5645530
Q 001603          698 HFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEG---AIPNDIG-NLCSLKQLNLSQNNFVT-----LPASINS  768 (1046)
Q Consensus       698 ~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~---~ip~~l~-~l~~L~~L~Ls~n~l~~-----lp~~i~~  768 (1046)
                                   ...+...+...++|++|+|++|.+.+.   .++..+. ..+.|+.|+|++|+++.     +...+..
T Consensus       329 -------------~~~l~~~~~~~~~L~~L~Ls~N~i~~~g~~~l~~~l~~~~~~L~~L~Ls~n~i~~~~~~~l~~~l~~  395 (460)
T d1z7xw1         329 -------------CSHFSSVLAQNRFLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLA  395 (460)
T ss_dssp             -------------HHHHHHHHHHCSSCCEEECCSSBCHHHHHHHHHHHHTSTTCCCCEEECTTSCCCHHHHHHHHHHHHH
T ss_pred             -------------HHHCCCCCCCCCCHHHHHEEEECCCCCCCCHHHHHHHCCCCCCCEEECCCCCCCHHHHHHHHHHHHC
T ss_conf             -------------4321332211011113201210135766400111220456777889897997975999999999962


Q ss_pred             CCCCCEECCCCCCC
Q ss_conf             24557011336635
Q 001603          769 LFNLGQLDLEDCKR  782 (1046)
Q Consensus       769 l~~L~~L~L~~c~~  782 (1046)
                      +++|++|++++|+.
T Consensus       396 ~~~L~~L~Ls~N~i  409 (460)
T d1z7xw1         396 NHSLRELDLSNNCL  409 (460)
T ss_dssp             CCCCCEEECCSSSC
T ss_pred             CCCCCEEECCCCCC
T ss_conf             99889898999969

>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=99.68  E-value=2.9e-15  Score=104.60  Aligned_cols=151  Identities=22%  Similarity=0.325  Sum_probs=74.4

Q ss_pred             CCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCEEE
Q ss_conf             57999978669999987568746799878888326977998767223788887525235863458996023104786364
Q 001603          603 LLTGLQLLNLNNCSNLVRLPSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLS  682 (1046)
Q Consensus       603 ~l~~L~~L~L~~~~~l~~lp~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i~~~p~~~~~l~~L~~L~  682 (1046)
                      .+.+++.|++.+|... .+ ..+..+++|++|++++|... .++. ++.+++|+.|++++|.+..++ .+..++.|+.|+
T Consensus        38 ~l~~l~~L~l~~~~i~-~l-~~l~~l~nL~~L~Ls~N~l~-~~~~-l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~  112 (199)
T d2omxa2          38 DLDQVTTLQADRLGIK-SI-DGVEYLNNLTQINFSNNQLT-DITP-LKNLTKLVDILMNNNQIADIT-PLANLTNLTGLT  112 (199)
T ss_dssp             HHTTCCEEECTTSCCC-CC-TTGGGCTTCCEEECCSSCCC-CCGG-GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEE
T ss_pred             HHCCCCEEECCCCCCC-CC-CCCCCCCCCCCCCCCCCCCC-CCCC-CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCC
T ss_conf             9468789989999997-75-20213788675754565566-7640-167752231111222222221-111122322211


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCC
Q ss_conf             47888999999855675543346767762135898557898888966799999998853334767888552888987435
Q 001603          683 FSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTL  762 (1046)
Q Consensus       683 l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~l  762 (1046)
                      +++|....                        ...+..+++|+.|++++|.+.  .++ .+..+++|+.|++++|+++.+
T Consensus       113 l~~~~~~~------------------------~~~~~~l~~L~~L~l~~n~l~--~~~-~l~~~~~L~~L~l~~n~l~~l  165 (199)
T d2omxa2         113 LFNNQITD------------------------IDPLKNLTNLNRLELSSNTIS--DIS-ALSGLTSLQQLNFSSNQVTDL  165 (199)
T ss_dssp             CCSSCCCC------------------------CGGGTTCTTCSEEECCSSCCC--CCG-GGTTCTTCSEEECCSSCCCCC
T ss_pred             CCCCCCCC------------------------CCCCCHHHHHHHHHHHHHHHC--CCC-CCCCCCCCCCCCCCCCCCCCC
T ss_conf             12222223------------------------210001223677643111100--234-333211111122345555677


Q ss_pred             CHHHHHCCCCCEECCCCCCCCCCCC
Q ss_conf             6455302455701133663566689
Q 001603          763 PASINSLFNLGQLDLEDCKRLQSMP  787 (1046)
Q Consensus       763 p~~i~~l~~L~~L~L~~c~~l~~ip  787 (1046)
                      + .+..+++|+.|++++|+ ++.++
T Consensus       166 ~-~l~~l~~L~~L~ls~N~-i~~i~  188 (199)
T d2omxa2         166 K-PLANLTTLERLDISSNK-VSDIS  188 (199)
T ss_dssp             G-GGTTCTTCCEEECCSSC-CCCCG
T ss_pred             C-CCCCCCCCCEEECCCCC-CCCCC
T ss_conf             0-11679989999787997-99881

>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=99.67  E-value=5.6e-15  Score=102.87  Aligned_cols=49  Identities=18%  Similarity=0.271  Sum_probs=24.5

Q ss_pred             CCCCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCCH-HHHHCCCCCEECCCC
Q ss_conf             6799999998853-33476788855288898743564-553024557011336
Q 001603          729 LSDCGLGEGAIPN-DIGNLCSLKQLNLSQNNFVTLPA-SINSLFNLGQLDLED  779 (1046)
Q Consensus       729 Ls~~~l~~~~ip~-~l~~l~~L~~L~Ls~n~l~~lp~-~i~~l~~L~~L~L~~  779 (1046)
                      +++|.+  ..+|. .+..+++|+.|++++|+++.+|. .+..+++|+.+++.+
T Consensus       184 l~~n~l--~~l~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~l~~L~~l~~~~  234 (242)
T d1xwdc1         184 SDNNNL--EELPNDVFHGASGPVILDISRTRIHSLPSYGLENLKKLRARSTYN  234 (242)
T ss_dssp             TTCTTC--CCCCTTTTTTSCCCSEEECTTSCCCCCCSSSCTTCCEEESSSEES
T ss_pred             CCCCCC--CCCCHHHHCCCCCCCEEECCCCCCCCCCHHHHCCCCCCCCCCCCC
T ss_conf             354324--642478866899999898979928945977973771341476788

>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=99.67  E-value=2e-15  Score=105.47  Aligned_cols=35  Identities=31%  Similarity=0.426  Sum_probs=16.4

Q ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECC
Q ss_conf             55789888896679999999885333476788855288
Q 001603          718 LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLS  755 (1046)
Q Consensus       718 l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls  755 (1046)
                      +..+++|++|++++|.+.  .++ .+..+++|+.|+|+
T Consensus       174 l~~l~~L~~L~Ls~N~i~--~l~-~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         174 LAGLTKLQNLYLSKNHIS--DLR-ALAGLKNLDVLELF  208 (210)
T ss_dssp             GTTCTTCCEEECCSSCCC--BCG-GGTTCTTCSEEEEE
T ss_pred             CCCCCCCCEEECCCCCCC--CCH-HHCCCCCCCEEECC
T ss_conf             367898999989799899--872-11699998999711

>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=99.57  E-value=3e-14  Score=98.53  Aligned_cols=128  Identities=24%  Similarity=0.279  Sum_probs=55.5

Q ss_pred             EECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCC-CCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCC
Q ss_conf             53347456545700005799997866999998756-87467998788883269779987672237888875252358634
Q 001603          587 LFLDGTSIAEVPSSIELLTGLQLLNLNNCSNLVRL-PSCINGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAI  665 (1046)
Q Consensus       587 L~L~~~~i~~lp~~l~~l~~L~~L~L~~~~~l~~l-p~~~~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i  665 (1046)
                      ++.+++.++.+|..+  .++++.|++++|.+...+ +..+.++++|+.|++++|......+..+..+++|+.|++++|.+
T Consensus        13 v~Cs~~~L~~iP~~l--p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~N~l   90 (192)
T d1w8aa_          13 VDCTGRGLKEIPRDI--PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI   90 (192)
T ss_dssp             EECTTSCCSSCCSCC--CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCC
T ss_pred             EEEECCCCCCCCCCC--CCCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCC
T ss_conf             997089967029898--978788984898775530200257876272130136322121212221122221010035534


Q ss_pred             CCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCC
Q ss_conf             58996023104786364478889999998556755433467677621358985578988889667999999988533347
Q 001603          666 RRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIPNDIGN  745 (1046)
Q Consensus       666 ~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip~~l~~  745 (1046)
                      +.++                                             +..|.++++|++|+|++|.+ ....+..+..
T Consensus        91 ~~l~---------------------------------------------~~~F~~l~~L~~L~L~~N~l-~~i~~~~f~~  124 (192)
T d1w8aa_          91 KEIS---------------------------------------------NKMFLGLHQLKTLNLYDNQI-SCVMPGSFEH  124 (192)
T ss_dssp             CEEC---------------------------------------------SSSSTTCTTCCEEECCSSCC-CEECTTSSTT
T ss_pred             CCCC---------------------------------------------HHHHHCCCCCCCCCCCCCCC-CCCCHHHHCC
T ss_conf             4349---------------------------------------------79980797465524577453-5359778568


Q ss_pred             CCCCCEEECCCCCCCCC
Q ss_conf             67888552888987435
Q 001603          746 LCSLKQLNLSQNNFVTL  762 (1046)
Q Consensus       746 l~~L~~L~Ls~n~l~~l  762 (1046)
                      +++|++|+|++|.+...
T Consensus       125 l~~L~~l~L~~N~~~~~  141 (192)
T d1w8aa_         125 LNSLTSLNLASNPFNCN  141 (192)
T ss_dssp             CTTCCEEECTTCCBCCS
T ss_pred             CCCCCCCCCCCCCCCCC
T ss_conf             75334200036443435

>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=99.51  E-value=6.7e-16  Score=108.36  Aligned_cols=16  Identities=31%  Similarity=0.382  Sum_probs=6.9

Q ss_pred             CCCCCEEECCCCCCCC
Q ss_conf             6788855288898743
Q 001603          746 LCSLKQLNLSQNNFVT  761 (1046)
Q Consensus       746 l~~L~~L~Ls~n~l~~  761 (1046)
                      +++|+.|+|++|.+..
T Consensus       301 ~~~L~~L~l~~N~~~~  316 (344)
T d2ca6a1         301 MPDLLFLELNGNRFSE  316 (344)
T ss_dssp             CTTCCEEECTTSBSCT
T ss_pred             CCCCCEEECCCCCCCC
T ss_conf             8999989787980898

>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=99.47  E-value=1.1e-14  Score=101.09  Aligned_cols=65  Identities=25%  Similarity=0.324  Sum_probs=38.4

Q ss_pred             CCCCCCCCEEECCCCCCCCCCC---CCCCC--CCCCCCEEECCCCCCCC-----CCHHHH-HCCCCCEECCCCCCC
Q ss_conf             5578988889667999999988---53334--76788855288898743-----564553-024557011336635
Q 001603          718 LSGLHSLSKLDLSDCGLGEGAI---PNDIG--NLCSLKQLNLSQNNFVT-----LPASIN-SLFNLGQLDLEDCKR  782 (1046)
Q Consensus       718 l~~l~~L~~L~Ls~~~l~~~~i---p~~l~--~l~~L~~L~Ls~n~l~~-----lp~~i~-~l~~L~~L~L~~c~~  782 (1046)
                      +..+++|++|++++|.+.+...   ...+.  ..++|+.|++++|+++.     +...+. ++++|+.|++++|..
T Consensus       239 l~~~~~L~~L~Ls~n~i~~~g~~~l~~~l~~~~~~~L~~L~ls~N~i~~~~~~~l~~~l~~~~~~L~~L~l~~N~~  314 (344)
T d2ca6a1         239 LKSWPNLRELGLNDCLLSARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRF  314 (344)
T ss_dssp             GGGCTTCCEEECTTCCCCHHHHHHHHHHHHTCSSCCCCEEECCSSCCBHHHHHHHHHHHHHHCTTCCEEECTTSBS
T ss_pred             CCCCCCCHHHHHHCCCCCCHHHHHHHHHHHHCCCCCCCEEECCCCCCCHHHHHHHHHHHHCCCCCCCEEECCCCCC
T ss_conf             3232211110300475671566788877631568888989898986980899999999970389999897879808

>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=99.39  E-value=8.4e-13  Score=89.92  Aligned_cols=36  Identities=31%  Similarity=0.307  Sum_probs=13.0

Q ss_pred             CCCCCCEEECCCCCCCCCCH--HHHHCCCCCEECCCCC
Q ss_conf             76788855288898743564--5530245570113366
Q 001603          745 NLCSLKQLNLSQNNFVTLPA--SINSLFNLGQLDLEDC  780 (1046)
Q Consensus       745 ~l~~L~~L~Ls~n~l~~lp~--~i~~l~~L~~L~L~~c  780 (1046)
                      .+++|+.|++++|+++.++.  .+..+++|+.|++++|
T Consensus        85 ~l~~L~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N  122 (162)
T d1a9na_          85 ALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRN  122 (162)
T ss_dssp             HCTTCCEEECCSCCCCCGGGGGGGGGCTTCCEEECCSS
T ss_pred             CCCCCCCCEECCCCCCCCCCCCCCCCCCCCCHHHCCCC
T ss_conf             34534434203000166542110013653206640799

>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=99.34  E-value=2.7e-12  Score=86.87  Aligned_cols=57  Identities=25%  Similarity=0.297  Sum_probs=30.8

Q ss_pred             CCCCCCEEECCCCCCCCCCCC--CCCCCCCCCCEEECCCCCCCCCCH----HHHHCCCCCEECCC
Q ss_conf             789888896679999999885--333476788855288898743564----55302455701133
Q 001603          720 GLHSLSKLDLSDCGLGEGAIP--NDIGNLCSLKQLNLSQNNFVTLPA----SINSLFNLGQLDLE  778 (1046)
Q Consensus       720 ~l~~L~~L~Ls~~~l~~~~ip--~~l~~l~~L~~L~Ls~n~l~~lp~----~i~~l~~L~~L~L~  778 (1046)
                      .+++|+.|++++|.+..  ++  ..+..+++|+.|++++|.++..|.    .+..+++|+.||-.
T Consensus        85 ~l~~L~~L~L~~N~i~~--~~~l~~l~~l~~L~~L~l~~N~i~~~~~~r~~~i~~lp~L~~LD~~  147 (162)
T d1a9na_          85 ALPDLTELILTNNSLVE--LGDLDPLASLKSLTYLCILRNPVTNKKHYRLYVIYKVPQVRVLDFQ  147 (162)
T ss_dssp             HCTTCCEEECCSCCCCC--GGGGGGGGGCTTCCEEECCSSGGGGSTTHHHHHHHHCTTCSEETTE
T ss_pred             CCCCCCCCEECCCCCCC--CCCCCCCCCCCCCCHHHCCCCCCCCCCCHHHHHHHHCCCCCEECCC
T ss_conf             34534434203000166--5421100136532066407996345610699999878995833797

>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=99.33  E-value=1.3e-11  Score=82.75  Aligned_cols=89  Identities=24%  Similarity=0.259  Sum_probs=39.0

Q ss_pred             CCCCCCCCEEECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEE
Q ss_conf             37888875252358634589960231047863644788899999985567554334676776213589855789888896
Q 001603          649 LGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLD  728 (1046)
Q Consensus       649 ~~~l~~L~~L~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~  728 (1046)
                      ++.+++|++|++++|.++.+|..+..+++|+.|++++|....                        .+.+..+++|+.|+
T Consensus        16 l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~------------------------l~~~~~l~~L~~L~   71 (124)
T d1dcea3          16 LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALEN------------------------VDGVANLPRLQELL   71 (124)
T ss_dssp             GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCC------------------------CGGGTTCSSCCEEE
T ss_pred             CCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCCCCCC------------------------CCCCCCCCCCCEEE
T ss_conf             105898898979787168652156554313545324321123------------------------57412335557688


Q ss_pred             CCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCC
Q ss_conf             679999999885333476788855288898743
Q 001603          729 LSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVT  761 (1046)
Q Consensus       729 Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~  761 (1046)
                      +++|.+..-.....+..+++|+.|++++|.++.
T Consensus        72 l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~i~~  104 (124)
T d1dcea3          72 LCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQ  104 (124)
T ss_dssp             CCSSCCCSSSTTGGGGGCTTCCEEECTTSGGGG
T ss_pred             CCCCCCCCCCCCHHHCCCCCCCEEECCCCCCCC
T ss_conf             889865888882565379999999897996886

>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=99.30  E-value=1.4e-10  Score=76.77  Aligned_cols=176  Identities=16%  Similarity=0.210  Sum_probs=97.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHH-CCCCCHHHHHHHHHHHHHH----------C-C-------
Q ss_conf             9899928988089999999988706666039998440011-0368989999999998741----------0-3-------
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKS-EKEGSVVSLQKQLLSDLLK----------L-A-------   61 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~-~~~~~~~~l~~~ll~~l~~----------~-~-------   61 (1046)
                      +|.|+|++|+|||+|++++.+.....+   .|+. .+... ........+...+......          . .       
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~~~~~~~---~~i~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGINELNLPY---IYLD-LRKFEERNYISYKDFLLELQKEINKLVKRLPSLLKALKNIQGIVI  106 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHTCCE---EEEE-GGGGTTCSCCCHHHHHHHHHHHHHHHHHHCTTHHHHTTTSTTEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCE---EEEE-ECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC
T ss_conf             799986999829999999999779986---9997-214533332439999999999754455555777777775303343


Q ss_pred             -------CCCCCCCCCHHHHHHH--HHCCCEEEEEEECCCCHH---------HHHHHHHCCCCCCCCCEEEEEECCHHHH
Q ss_conf             -------8643441000999997--525981899993589968---------8877761669879998799993883568
Q 001603           62 -------DISIWNVDDGINIIGS--RLRQKKVLLVIDDVADVE---------QLQNLARKRDWFGPGSKIVITTRDKQLL  123 (1046)
Q Consensus        62 -------~~~~~~~~~~~~~i~~--~l~~k~~LlVlDdv~~~~---------~l~~l~~~~~~~~~gs~IiiTtR~~~~~  123 (1046)
                             .............+..  ....+++++|+|+++...         .+..+...    ......+++.+.....
T Consensus       107 ~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~i~~~~~~~~~  182 (283)
T d2fnaa2         107 MGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPALAYAYDN----LKRIKFIMSGSEMGLL  182 (283)
T ss_dssp             CSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHHHHHHHH----CTTEEEEEEESSHHHH
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHCCCCHHHHHHHHHHHHHH----HHHHHHHHCCCCCHHH
T ss_conf             443222341001345899999998763155554566405541333269999999999875----3113442035650678


Q ss_pred             HHHCC----------CCCCEEECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHHHHCC
Q ss_conf             88158----------983348658999678999997820279999913999999999871899348999963208
Q 001603          124 VAHEV----------DEEHIYNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLGSFLN  188 (1046)
Q Consensus       124 ~~~~~----------~~~~~~~v~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~g~PLal~~~~~~l~  188 (1046)
                      .....          .....+++++++.+|+.+++...+.......+.    ..+++++++|+|.+|..++..+.
T Consensus       183 ~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i~~~~~G~P~~L~~~~~~~~  253 (283)
T d2fnaa2         183 YDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVVYEKIGGIPGWLTYFGFIYL  253 (283)
T ss_dssp             HHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHHHHHHCSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCHHCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCHHH----HHHHHHHHCCCHHHHHHHHHHHH
T ss_conf             999975421000103410588628878899999999665456999999----99999996997999999999998

>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=99.26  E-value=2.6e-11  Score=81.02  Aligned_cols=99  Identities=22%  Similarity=0.229  Sum_probs=47.9

Q ss_pred             CEEECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCC
Q ss_conf             52523586345899602310478636447888999999855675543346767762135898557898888966799999
Q 001603          656 EELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMGQRSYPVALMLPSLSGLHSLSKLDLSDCGLG  735 (1046)
Q Consensus       656 ~~L~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~  735 (1046)
                      +.|++++|.++.++. +..+++|++|++++|....                       +++.+..+++|+.|++++|.+.
T Consensus         1 R~L~Ls~n~l~~l~~-l~~l~~L~~L~ls~N~l~~-----------------------lp~~~~~l~~L~~L~l~~N~i~   56 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH-LEQLLLVTHLDLSHNRLRA-----------------------LPPALAALRCLEVLQASDNALE   56 (124)
T ss_dssp             SEEECTTSCCSSCCC-GGGGTTCCEEECCSSCCCC-----------------------CCGGGGGCTTCCEEECCSSCCC
T ss_pred             CEEECCCCCCCCCCC-CCCCCCCCEEECCCCCCCC-----------------------CHHHHHHHHCCCCCCCCCCCCC
T ss_conf             989868998988710-1058988989797871686-----------------------5215655431354532432112


Q ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCCH--HHHHCCCCCEECCCCCC
Q ss_conf             99885333476788855288898743564--55302455701133663
Q 001603          736 EGAIPNDIGNLCSLKQLNLSQNNFVTLPA--SINSLFNLGQLDLEDCK  781 (1046)
Q Consensus       736 ~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~--~i~~l~~L~~L~L~~c~  781 (1046)
                        .+| .+..+++|+.|++++|+++.++.  .+..+++|+.|++++|+
T Consensus        57 --~l~-~~~~l~~L~~L~l~~N~i~~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          57 --NVD-GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             --CCG-GGTTCSSCCEEECCSSCCCSSSTTGGGGGCTTCCEEECTTSG
T ss_pred             --CCC-CCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCEEECCCCC
T ss_conf             --357-412335557688889865888882565379999999897996

>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=99.23  E-value=5.4e-14  Score=97.00  Aligned_cols=58  Identities=22%  Similarity=0.272  Sum_probs=25.2

Q ss_pred             CCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCH--HHHHCCCCCEECCCCCCCC
Q ss_conf             888896679999999885333476788855288898743564--5530245570113366356
Q 001603          723 SLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPA--SINSLFNLGQLDLEDCKRL  783 (1046)
Q Consensus       723 ~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~--~i~~l~~L~~L~L~~c~~l  783 (1046)
                      +|+.|++++|.+.  .+ ..+..+++|+.|++++|+++.++.  .+..+++|+.|++++|+..
T Consensus        94 ~L~~L~l~~N~i~--~l-~~~~~l~~L~~L~L~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~  153 (198)
T d1m9la_          94 TLEELWISYNQIA--SL-SGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLEDLLLAGNPLY  153 (198)
T ss_dssp             HCCEEECSEEECC--CH-HHHHHHHHSSEEEESEEECCCHHHHHHHTTTTTCSEEEECSSHHH
T ss_pred             CCCCCCCCCCCCC--CC-CCCCCCCCCCCCCCCCCHHCCCCCCCCCCCCCCCCEEECCCCCCC
T ss_conf             2333333332222--22-222222234111234102125542212367776302342798434

>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=99.14  E-value=7.6e-13  Score=90.19  Aligned_cols=123  Identities=24%  Similarity=0.259  Sum_probs=61.1

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCEEECCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf             79987888832697799876722378888752523586345899602310478636447888999999855675543346
Q 001603          626 NGLRSLKTLNLSGCSKLQNVPETLGQVESLEELDISGTAIRRPPSSIFVMNNLKTLSFSGCNGPPSSTSWHWHFPFNLMG  705 (1046)
Q Consensus       626 ~~l~~L~~L~l~~c~~l~~lp~~~~~l~~L~~L~L~~~~i~~~p~~~~~l~~L~~L~l~~c~~~~~~~~~~~~~~~~~~~  705 (1046)
                      ..+++|++|++++|.. ..++ .+..+++|+.|++++|.++.++.....+++|+.|++++|....               
T Consensus        45 ~~L~~L~~L~Ls~n~I-~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~---------------  107 (198)
T d1m9la_          45 STLKACKHLALSTNNI-EKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIAS---------------  107 (198)
T ss_dssp             HHTTTCCEEECSEEEE-SCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCC---------------
T ss_pred             HCCCCCCEEECCCCCC-CCCC-CCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC---------------
T ss_conf             6260461519944689-9864-4247825357341353432100003322123333333322222---------------


Q ss_pred             CCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCC--CCCCCCCCCCEEECCCCCCCCCCHH-----------HHHCCCC
Q ss_conf             76776213589855789888896679999999885--3334767888552888987435645-----------5302455
Q 001603          706 QRSYPVALMLPSLSGLHSLSKLDLSDCGLGEGAIP--NDIGNLCSLKQLNLSQNNFVTLPAS-----------INSLFNL  772 (1046)
Q Consensus       706 ~~~~~~~~~~~~l~~l~~L~~L~Ls~~~l~~~~ip--~~l~~l~~L~~L~Ls~n~l~~lp~~-----------i~~l~~L  772 (1046)
                               ++.+..+++|+.|++++|.+.  .++  ..+..+++|+.|++++|.+...+..           +..+|+|
T Consensus       108 ---------l~~~~~l~~L~~L~L~~N~i~--~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L  176 (198)
T d1m9la_         108 ---------LSGIEKLVNLRVLYMSNNKIT--NWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNL  176 (198)
T ss_dssp             ---------HHHHHHHHHSSEEEESEEECC--CHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSC
T ss_pred             ---------CCCCCCCCCCCCCCCCCCHHC--CCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCC
T ss_conf             ---------222222223411123410212--554221236777630234279843467632222055899999878895


Q ss_pred             CEEC
Q ss_conf             7011
Q 001603          773 GQLD  776 (1046)
Q Consensus       773 ~~L~  776 (1046)
                      +.||
T Consensus       177 ~~LD  180 (198)
T d1m9la_         177 KKLD  180 (198)
T ss_dssp             CEES
T ss_pred             CEEC
T ss_conf             8769

>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=99.07  E-value=3.6e-10  Score=74.29  Aligned_cols=62  Identities=29%  Similarity=0.313  Sum_probs=27.2

Q ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCEECCCCC
Q ss_conf             557898888966799999998853334767888552888987435645530245570113366
Q 001603          718 LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFVTLPASINSLFNLGQLDLEDC  780 (1046)
Q Consensus       718 l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~~lp~~i~~l~~L~~L~L~~c  780 (1046)
                      |.++++|+.|++++|++ ...-+..+..+++|+.|+|++|+++++|..+....+|+.|+|++|
T Consensus        52 f~~l~~L~~L~Ls~N~l-~~i~~~~f~~l~~L~~L~Ls~N~l~~l~~~~~~~~~l~~L~L~~N  113 (156)
T d2ifga3          52 LRGLGELRNLTIVKSGL-RFVAPDAFHFTPRLSRLNLSFNALESLSWKTVQGLSLQELVLSGN  113 (156)
T ss_dssp             SCSCCCCSEEECCSSCC-CEECTTGGGSCSCCCEEECCSSCCSCCCSTTTCSCCCCEEECCSS
T ss_pred             HCCCCCCCCCEEECCCC-CCCCCCCCCCCCCCCCEECCCCCCCCCCHHHHCCCCCCCCCCCCC
T ss_conf             25666667216202124-774201112455433332267878515745633532124335798

>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=98.92  E-value=7.1e-09  Score=66.55  Aligned_cols=41  Identities=29%  Similarity=0.198  Sum_probs=17.8

Q ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCEEECCCCCCC
Q ss_conf             5578988889667999999988533347678885528889874
Q 001603          718 LSGLHSLSKLDLSDCGLGEGAIPNDIGNLCSLKQLNLSQNNFV  760 (1046)
Q Consensus       718 l~~l~~L~~L~Ls~~~l~~~~ip~~l~~l~~L~~L~Ls~n~l~  760 (1046)
                      |..+++|++|+|++|.+  ..+|...-...+|+.|+|++|.+.
T Consensus        76 f~~l~~L~~L~Ls~N~l--~~l~~~~~~~~~l~~L~L~~Np~~  116 (156)
T d2ifga3          76 FHFTPRLSRLNLSFNAL--ESLSWKTVQGLSLQELVLSGNPLH  116 (156)
T ss_dssp             GGSCSCCCEEECCSSCC--SCCCSTTTCSCCCCEEECCSSCCC
T ss_pred             CCCCCCCCCEECCCCCC--CCCCHHHHCCCCCCCCCCCCCCCC
T ss_conf             12455433332267878--515745633532124335798633

>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=98.85  E-value=4.7e-07  Score=55.72  Aligned_cols=148  Identities=16%  Similarity=0.178  Sum_probs=80.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHH--
Q ss_conf             899928988089999999988706666039998440011036898999999999874103864344100099999752--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL--   79 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l--   79 (1046)
                      +.|+|++|+||||+|+.+++.+...........+...   ... ..........+..................+.+.+  
T Consensus        46 lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~---~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  121 (276)
T d1fnna2          46 ATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFI---YRN-FTAIIGEIARSLNIPFPRRGLSRDEFLALLVEHLRE  121 (276)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTT---CCS-HHHHHHHHHHHTTCCCCSSCCCHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEECCHH---HHH-HHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_conf             6888989998999999999997544688578732300---112-466654567764334555325435789999998752


Q ss_pred             CCCEEEEEEECCCCHHH-----HHHHHHCCCCC-CCCCEEEEEECCHHHHHHH-----CCCCCCEEECCCCCHHHHHHHH
Q ss_conf             59818999935899688-----87776166987-9998799993883568881-----5898334865899967899999
Q 001603           80 RQKKVLLVIDDVADVEQ-----LQNLARKRDWF-GPGSKIVITTRDKQLLVAH-----EVDEEHIYNLEVLSNDEALQLF  148 (1046)
Q Consensus        80 ~~k~~LlVlDdv~~~~~-----l~~l~~~~~~~-~~gs~IiiTtR~~~~~~~~-----~~~~~~~~~v~~L~~~ea~~Lf  148 (1046)
                      ......+++|++++...     ...+....... .....+|.++.+.......     .......+.+.+++.+|..+++
T Consensus       122 ~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~r~~~~~i~~~~~~~~e~~~il  201 (276)
T d1fnna2         122 RDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPSTRGIMGKYVIRFSPYTKDQIFDIL  201 (276)
T ss_dssp             TTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHHHHHHHTTCEEECCCCBHHHHHHHH
T ss_pred             CCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHCCHHHHHHHCCHHCCCCCHHHHHHHHHH
T ss_conf             06543320368887535431068888740443356524886258764544311303665511011034412388899999


Q ss_pred             HHHHC
Q ss_conf             78202
Q 001603          149 SMKAF  153 (1046)
Q Consensus       149 ~~~a~  153 (1046)
                      .+.+-
T Consensus       202 ~~r~~  206 (276)
T d1fnna2         202 LDRAK  206 (276)
T ss_dssp             HHHHH
T ss_pred             HHHHH
T ss_conf             99999

>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=98.83  E-value=8.3e-08  Score=60.20  Aligned_cols=168  Identities=17%  Similarity=0.153  Sum_probs=89.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCC-C-CCCCCHHHHHHHHH
Q ss_conf             899928988089999999988706666039998440011036898999999999874103864-3-44100099999752
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADIS-I-WNVDDGINIIGSRL   79 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~-~~~~~~~~~i~~~l   79 (1046)
                      +-++|+.|+||||+|+.+.+.+.......         ....+ .....+.+...-.  .+.. . ......+..+++.+
T Consensus        37 ~Ll~Gp~G~GKtt~a~~~~~~l~~~~~~~---------~~~~~-~~~~~~~i~~~~~--~~~~~~~~~~~~~i~~ir~~~  104 (239)
T d1njfa_          37 YLFSGTRGVGKTSIARLLAKGLNCETGIT---------ATPCG-VCDNCREIEQGRF--VDLIEIDAASRTKVEDTRDLL  104 (239)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHCTTCSC---------SSCCS-CSHHHHHHHHTCC--TTEEEEETTCSSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCCC---------CCCCC-CCHHHHHHHCCCC--CEEEEECCHHCCCHHHHHHHH
T ss_conf             98888998758999999999846855666---------67555-4247999974798--707996112007899999999


Q ss_pred             --------CCCEEEEEEECCCCH--HHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHCCCCCCEEECCCCCHHHHHHHHH
Q ss_conf             --------598189999358996--8887776166987999879999388356888158983348658999678999997
Q 001603           80 --------RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFS  149 (1046)
Q Consensus        80 --------~~k~~LlVlDdv~~~--~~l~~l~~~~~~~~~gs~IiiTtR~~~~~~~~~~~~~~~~~v~~L~~~ea~~Lf~  149 (1046)
                              .++..++|+|++|..  +....|...........++|++|.+..-...........+++.+++.++-.+.+.
T Consensus       105 ~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~~i~SRc~~i~~~~~~~~~i~~~l~  184 (239)
T d1njfa_         105 DNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVTILSRCLQFHLKALDVEQIRHQLE  184 (239)
T ss_dssp             HSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHH
T ss_pred             HHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCHHHHHHHCCCCCCCCCHHHHHHHHH
T ss_conf             99974652599879999781108999999999998568988699997388563676576121022224676787666887


Q ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHCCCCH-HHHHH
Q ss_conf             82027999991399999999987189934-89999
Q 001603          150 MKAFKTRQPMGEYVELSKRVLKYAGGLPL-ALTVL  183 (1046)
Q Consensus       150 ~~a~~~~~~~~~~~~~~~~i~~~~~g~PL-al~~~  183 (1046)
                      ..+.......+  .+....+++.++|.+- |+..+
T Consensus       185 ~i~~~e~~~~~--~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         185 HILNEEHIAHE--PRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HHHHHHTCCBC--HHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHCCCCC--HHHHHHHHHHCCCCHHHHHHHH
T ss_conf             87764314789--9999999997699799999999

>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=98.83  E-value=4.3e-08  Score=61.92  Aligned_cols=155  Identities=12%  Similarity=0.172  Sum_probs=89.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-CCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             8999289880899999999887066-660399984400110368989999999998741038643441000999997525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~   80 (1046)
                      +-++|+.|+||||+|+.+++.+... +...++..+   .+...+ .............. ..               ...
T Consensus        38 lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~---~~~~~~-~~~~~~~~~~~~~~-~~---------------~~~   97 (227)
T d1sxjc2          38 LLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELN---ASDDRG-IDVVRNQIKDFAST-RQ---------------IFS   97 (227)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEEC---TTSCCS-HHHHHTHHHHHHHB-CC---------------SSS
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEEC---CCCCCC-EEEEECCHHHCCCC-CC---------------CCC
T ss_conf             99988998775589999999851677764157731---555687-54321000101110-00---------------257


Q ss_pred             CCEEEEEEECCCCH--HHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCCCC
Q ss_conf             98189999358996--8887776166987999879999388356888158983348658999678999997820279999
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQP  158 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~--~~l~~l~~~~~~~~~gs~IiiTtR~~~~~~~~~~~~~~~~~v~~L~~~ea~~Lf~~~a~~~~~~  158 (1046)
                      .++..+|+|+++..  .....+...+....+..+++++|....-....-......+++++++.++-.+.+...+......
T Consensus        98 ~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~i~~~~~~~~~i~~~l~~I~~~e~i~  177 (227)
T d1sxjc2          98 KGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTRFRFQPLPQEAIERRIANVLVHEKLK  177 (227)
T ss_dssp             CSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHTTTCC
T ss_pred             CCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             77189999663200023789999886311200232012670877599999887540123565200011021221111245


Q ss_pred             CCHHHHHHHHHHHHHCCCCH
Q ss_conf             91399999999987189934
Q 001603          159 MGEYVELSKRVLKYAGGLPL  178 (1046)
Q Consensus       159 ~~~~~~~~~~i~~~~~g~PL  178 (1046)
                      .+  .+....|++.++|...
T Consensus       178 i~--~~~l~~i~~~s~Gd~R  195 (227)
T d1sxjc2         178 LS--PNAEKALIELSNGDMR  195 (227)
T ss_dssp             BC--HHHHHHHHHHHTTCHH
T ss_pred             CC--HHHHHHHHHHCCCCHH
T ss_conf             89--8999999998499699

>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=98.83  E-value=8.2e-08  Score=60.25  Aligned_cols=160  Identities=14%  Similarity=0.115  Sum_probs=89.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHH----HC---CCCCCCCCCCHHHH
Q ss_conf             899928988089999999988706666039998440011036898999999999874----10---38643441000999
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL----KL---ADISIWNVDDGINI   74 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~----~~---~~~~~~~~~~~~~~   74 (1046)
                      +-++|+.|+||||+|+.+++.+-..-..         .....+ ...-.+.+.....    ..   .+...... +.++.
T Consensus        27 lLl~Gp~G~GKtt~a~~~a~~l~~~~~~---------~~~~~~-~~~~~~~i~~~~~~~~~~~~~~~~~~~i~~-~~ir~   95 (207)
T d1a5ta2          27 LLIQALPGMGDDALIYALSRYLLCQQPQ---------GHKSCG-HCRGCQLMQAGTHPDYYTLAPEKGKNTLGV-DAVRE   95 (207)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCSSCB---------TTBCCS-CSHHHHHHHHTCCTTEEEECCCTTCSSBCH-HHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCCCCC---------CCCCCC-CCCHHHHHHHCCCCCCCHHHHHHCCCCCCC-CHHHH
T ss_conf             9888999875999999999821010123---------212233-420155654303431101234313453332-11467


Q ss_pred             HHHHH-----CCCEEEEEEECCCCH--HHHHHHHHCCCCCCCCCEEEEEECCHH-HHHHHCCCCCCEEECCCCCHHHHHH
Q ss_conf             99752-----598189999358996--888777616698799987999938835-6888158983348658999678999
Q 001603           75 IGSRL-----RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQ  146 (1046)
Q Consensus        75 i~~~l-----~~k~~LlVlDdv~~~--~~l~~l~~~~~~~~~gs~IiiTtR~~~-~~~~~~~~~~~~~~v~~L~~~ea~~  146 (1046)
                      +.+.+     .+++-++|+|++|..  +....+.........+.++|.||++.. +....... ...+.+.+++.++..+
T Consensus        96 l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SR-c~~i~~~~~~~~~~~~  174 (207)
T d1a5ta2          96 VTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSR-CRLHYLAPPPEQYAVT  174 (207)
T ss_dssp             HHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCCHHHHHH
T ss_pred             HHHHHHHCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHCCE-EEEEECCCCCHHHHHH
T ss_conf             765321100357640477313442000014999999985011110455306865510320021-5788268999999999


Q ss_pred             HHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHH
Q ss_conf             9978202799999139999999998718993489
Q 001603          147 LFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       147 Lf~~~a~~~~~~~~~~~~~~~~i~~~~~g~PLal  180 (1046)
                      .+....-    ..   .+.+..+++.++|.|-..
T Consensus       175 ~L~~~~~----~~---~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         175 WLSREVT----MS---QDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             HHHHHCC----CC---HHHHHHHHHHTTTCHHHH
T ss_pred             HHHHCCC----CC---HHHHHHHHHHCCCCHHHH
T ss_conf             9997489----99---999999999769999999

>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=98.79  E-value=6.1e-08  Score=60.99  Aligned_cols=157  Identities=15%  Similarity=0.172  Sum_probs=89.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCC-CEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             89992898808999999998870666-60399984400110368989999999998741038643441000999997525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF-DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~   80 (1046)
                      +-++|+.|+||||+|+.+++.+...+ ...++..+.   +...+ ...+...+ .........              ...
T Consensus        39 ~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~---~~~~~-~~~i~~~~-~~~~~~~~~--------------~~~   99 (224)
T d1sxjb2          39 MIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNA---SDDRG-IDVVRNQI-KHFAQKKLH--------------LPP   99 (224)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECT---TSCCS-HHHHHTHH-HHHHHBCCC--------------CCT
T ss_pred             EEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCC---CCCCC-CEEHHHHH-HHHHHHHCC--------------CCC
T ss_conf             999889998705469999999725664322111113---45578-52116678-878876224--------------777


Q ss_pred             CCEEEEEEECCCCHHH--HHHHHHCCCCCCCCCEEEEEECCHH-HHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             9818999935899688--8777616698799987999938835-688815898334865899967899999782027999
Q 001603           81 QKKVLLVIDDVADVEQ--LQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~~~--l~~l~~~~~~~~~gs~IiiTtR~~~-~~~~~~~~~~~~~~v~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      .+.-++|+|+++....  ...+...........+++++|.+.. +...... ....+++++++.++-...+...+.+...
T Consensus       100 ~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~s-r~~~i~~~~~~~~~i~~~l~~i~~~e~~  178 (224)
T d1sxjb2         100 GKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQS-QCAILRYSKLSDEDVLKRLLQIIKLEDV  178 (224)
T ss_dssp             TCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHT-TSEEEECCCCCHHHHHHHHHHHHHHHTC
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHHHH-HHHHHHHCCCCHHHHHHHHHHHHHHCCC
T ss_conf             635999982443232157787752011233333665314743021067887-7777653133224567888777774046


Q ss_pred             CCCHHHHHHHHHHHHHCCCCHHH
Q ss_conf             99139999999998718993489
Q 001603          158 PMGEYVELSKRVLKYAGGLPLAL  180 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~g~PLal  180 (1046)
                      ..+  .+....|++.++|.+...
T Consensus       179 ~i~--~~~l~~I~~~s~Gd~R~a  199 (224)
T d1sxjb2         179 KYT--NDGLEAIIFTAEGDMRQA  199 (224)
T ss_dssp             CBC--HHHHHHHHHHHTTCHHHH
T ss_pred             CCC--HHHHHHHHHHCCCCHHHH
T ss_conf             789--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=98.78  E-value=4.2e-07  Score=55.99  Aligned_cols=167  Identities=13%  Similarity=0.084  Sum_probs=82.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCC-----CEE-EEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHH
Q ss_conf             89992898808999999998870666-----603-999844001103689899999999987410386434410009999
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF-----DGS-TFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f-----~~~-~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|++|+|||++++++++.+....     ... .++.    ...... ...........+.................+
T Consensus        49 l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~----~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  123 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVN----AFNAPN-LYTILSLIVRQTGYPIQVRGAPALDILKAL  123 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEE----GGGCCS-HHHHHHHHHHHHTCCCCCTTCCHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEC----CCCCCC-HHHHHHHHHHHCCCCCCCCCCHHHHHHHHH
T ss_conf             996789998999999999999875415556784166303----333465-046788876530432333451278899999


Q ss_pred             HHHH--CCCEEEEEEECCCCHH--------HHHHHH---HCC-CCC--CCCCEEEEEECCHHHH------HHHCCCCCCE
Q ss_conf             9752--5981899993589968--------887776---166-987--9998799993883568------8815898334
Q 001603           76 GSRL--RQKKVLLVIDDVADVE--------QLQNLA---RKR-DWF--GPGSKIVITTRDKQLL------VAHEVDEEHI  133 (1046)
Q Consensus        76 ~~~l--~~k~~LlVlDdv~~~~--------~l~~l~---~~~-~~~--~~gs~IiiTtR~~~~~------~~~~~~~~~~  133 (1046)
                      .+..  .....++++|.++...        ....+.   ..+ ...  ..-..|++++......      ..........
T Consensus       124 ~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i~i~~~~~~~~~~~~~~~~~~~r~~~~  203 (287)
T d1w5sa2         124 VDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFLLVASDVRALSYMREKIPQVESQIGFK  203 (287)
T ss_dssp             HHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEEEEEEETHHHHHHHHHCHHHHTTCSEE
T ss_pred             HHHHHHCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCHHHCCCCEEEEEECCCHHHHHHHHHHCCCHHCCCCEE
T ss_conf             99998546766541257888515665542678988999874320104565147762430899999986252011232206


Q ss_pred             EECCCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             8658999678999997820279999913999999999871
Q 001603          134 YNLEVLSNDEALQLFSMKAFKTRQPMGEYVELSKRVLKYA  173 (1046)
Q Consensus       134 ~~v~~L~~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~  173 (1046)
                      +.+++++.+|..+++...+-....+..-..+..+.|++++
T Consensus       204 i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         204 LHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             EECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             EECCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             5225775999999876667775246877999999999997

>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=98.76  E-value=4.9e-08  Score=61.57  Aligned_cols=98  Identities=10%  Similarity=0.179  Sum_probs=57.8

Q ss_pred             CCCEEEEEEECCCCH--HHHHHHHHCCCCCCCCCEEEEEECCHH-HHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf             598189999358996--888777616698799987999938835-68881589833486589996789999978202799
Q 001603           80 RQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        80 ~~k~~LlVlDdv~~~--~~l~~l~~~~~~~~~gs~IiiTtR~~~-~~~~~~~~~~~~~~v~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      ..+.-++|+|++|..  +....+...........++|+||.+.+ +....... ...+++.+++.++..+.+...+-...
T Consensus       129 ~~~~~iiiide~d~l~~~~~~~l~~~~e~~~~~~~~Il~tn~~~~i~~~l~sR-~~~i~~~~~~~~~~~~~l~~i~~~e~  207 (252)
T d1sxje2         129 AHRYKCVIINEANSLTKDAQAALRRTMEKYSKNIRLIMVCDSMSPIIAPIKSQ-CLLIRCPAPSDSEISTILSDVVTNER  207 (252)
T ss_dssp             --CCEEEEEECTTSSCHHHHHHHHHHHHHSTTTEEEEEEESCSCSSCHHHHTT-SEEEECCCCCHHHHHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCCCCCCCCHHHHCCCCCCCCCCCCEEEECCCCCHHHHHHCC-HHEEEECCCCHHHHHHHHHHHHHHCC
T ss_conf             78724999424333454311122100221356643000102111002544210-00243035330468999999999839


Q ss_pred             CCCCHHHHHHHHHHHHHCCCCHH
Q ss_conf             99913999999999871899348
Q 001603          157 QPMGEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       157 ~~~~~~~~~~~~i~~~~~g~PLa  179 (1046)
                      .+.+ ..+....++..+.|.+..
T Consensus       208 ~~~~-~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         208 IQLE-TKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             CEEC-CSHHHHHHHHHHTTCHHH
T ss_pred             CCCC-CHHHHHHHHHHCCCCHHH
T ss_conf             9989-699999999986994999

>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=98.76  E-value=3.2e-07  Score=56.73  Aligned_cols=145  Identities=19%  Similarity=0.200  Sum_probs=86.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             89992898808999999998870666603999844001103689899999999987410386434410009999975259
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~~   81 (1046)
                      +.|||+.|.|||.|++++++.........+++.           ..++...+...+...          ....+.+.++ 
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~-----------~~~~~~~~~~~~~~~----------~~~~~~~~~~-   96 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSS-----------ADDFAQAMVEHLKKG----------TINEFRNMYK-   96 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEE-----------HHHHHHHHHHHHHHT----------CHHHHHHHHH-
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCCEEEEC-----------HHHHHHHHHHHHHCC----------CHHHHHHHHH-
T ss_conf             799888998399999999987446765048844-----------378799999998716----------6266789876-


Q ss_pred             CEEEEEEECCCCH---HHHHH-HHHCCCC-CCCCCEEEEEECCHHH---------HHHHCCCCCCEEECCCCCHHHHHHH
Q ss_conf             8189999358996---88877-7616698-7999879999388356---------8881589833486589996789999
Q 001603           82 KKVLLVIDDVADV---EQLQN-LARKRDW-FGPGSKIVITTRDKQL---------LVAHEVDEEHIYNLEVLSNDEALQL  147 (1046)
Q Consensus        82 k~~LlVlDdv~~~---~~l~~-l~~~~~~-~~~gs~IiiTtR~~~~---------~~~~~~~~~~~~~v~~L~~~ea~~L  147 (1046)
                      ..-++++||++..   +.|+. +....+. ...|..||+|++....         .......  -+++++ +++++..++
T Consensus        97 ~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g--~~~~i~-p~d~~~~~i  173 (213)
T d1l8qa2          97 SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGG--ILVEIE-LDNKTRFKI  173 (213)
T ss_dssp             TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTS--EEEECC-CCHHHHHHH
T ss_pred             HCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHCCCCCHHHHHHHHCC--EEEEEC-CCCHHHHHH
T ss_conf             21301011265505865778899999998763166389954875100134326788886185--689978-882799999


Q ss_pred             HHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             97820279999913999999999871
Q 001603          148 FSMKAFKTRQPMGEYVELSKRVLKYA  173 (1046)
Q Consensus       148 f~~~a~~~~~~~~~~~~~~~~i~~~~  173 (1046)
                      +.+.+-...-.-++  ++..-+++++
T Consensus       174 L~~~a~~rgl~l~~--~v~~yl~~~~  197 (213)
T d1l8qa2         174 IKEKLKEFNLELRK--EVIDYLLENT  197 (213)
T ss_dssp             HHHHHHHTTCCCCH--HHHHHHHHHC
T ss_pred             HHHHHHHCCCCCCH--HHHHHHHHHC
T ss_conf             99999982999999--9999999856

>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=98.73  E-value=6.9e-08  Score=60.70  Aligned_cols=164  Identities=11%  Similarity=0.154  Sum_probs=88.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCC--CEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHH
Q ss_conf             89992898808999999998870666--6039998440011036898999999999874103864344100099999752
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF--DGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRL   79 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l   79 (1046)
                      +.++|+.|+||||+|+.+++++....  ....+..+.   +...+ ...... ..........     .......+....
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~---~~~~~-~~~~~~-~~~~~~~~~~-----~~~~~~~~~~~~  105 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNA---SDERG-ISIVRE-KVKNFARLTV-----SKPSKHDLENYP  105 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECS---SSCCC-HHHHTT-HHHHHHHSCC-----CCCCTTHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHEEC---CCCCC-CHHHHH-HHHHHHHHHH-----HHHHHHHHHHCC
T ss_conf             9998999998499999999997097633432122002---11356-067899-9988765444-----324678776135


Q ss_pred             CCCEEEEEEECCCCHH--HHHHHHHCCCCCCCCCEEEEEECCHH-HHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCC
Q ss_conf             5981899993589968--88777616698799987999938835-68881589833486589996789999978202799
Q 001603           80 RQKKVLLVIDDVADVE--QLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTR  156 (1046)
Q Consensus        80 ~~k~~LlVlDdv~~~~--~l~~l~~~~~~~~~gs~IiiTtR~~~-~~~~~~~~~~~~~~v~~L~~~ea~~Lf~~~a~~~~  156 (1046)
                      ..+.-.+|+|+++...  ....+...........++|+|+.+.. ...... .....+++++++.++..+++...+.+..
T Consensus       106 ~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~-sr~~~i~f~~~~~~~~~~~L~~i~~~e~  184 (237)
T d1sxjd2         106 CPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLA-SQCSKFRFKALDASNAIDRLRFISEQEN  184 (237)
T ss_dssp             CCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH-HHSEEEECCCCCHHHHHHHHHHHHHTTT
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC-CHHHHHCCCCCCCCCCCHHHHHHHHHHC
T ss_conf             667369999551336777788876301222233332122466422233111-0001102333333211001011455526


Q ss_pred             CCCCHHHHHHHHHHHHHCCCCH
Q ss_conf             9991399999999987189934
Q 001603          157 QPMGEYVELSKRVLKYAGGLPL  178 (1046)
Q Consensus       157 ~~~~~~~~~~~~i~~~~~g~PL  178 (1046)
                      ...+  .+....|++.++|.+.
T Consensus       185 i~i~--~~~l~~ia~~s~gd~R  204 (237)
T d1sxjd2         185 VKCD--DGVLERILDISAGDLR  204 (237)
T ss_dssp             CCCC--HHHHHHHHHHTSSCHH
T ss_pred             CCCC--HHHHHHHHHHCCCCHH
T ss_conf             7578--9999999998599899

>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=98.73  E-value=8.2e-08  Score=60.25  Aligned_cols=155  Identities=14%  Similarity=0.095  Sum_probs=85.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             89992898808999999998870666603999844001103689899999999987410386434410009999975259
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~~   81 (1046)
                      |.++|++|.|||++|+++++.....    ++..+.........  .                  .........+...-..
T Consensus        41 iLL~GppGtGKT~l~~ala~~~~~~----~~~i~~~~l~~~~~--g------------------~~~~~l~~~f~~A~~~   96 (258)
T d1e32a2          41 ILLYGPPGTGKTLIARAVANETGAF----FFLINGPEIMSKLA--G------------------ESESNLRKAFEEAEKN   96 (258)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCE----EEEECHHHHTTSCT--T------------------HHHHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCCHHHHHHHHHHHCCE----EEEEECHHHCCCCC--C------------------CHHHHHHHHHHHHHHC
T ss_conf             6876699888308999999874883----79997304302545--6------------------1788889999999864


Q ss_pred             CEEEEEEECCCCHH-------------HHHHHHHCC--CCCCCCCEEEEEECCHHHHHHHCC---CCCCEEECCCCCHHH
Q ss_conf             81899993589968-------------887776166--987999879999388356888158---983348658999678
Q 001603           82 KKVLLVIDDVADVE-------------QLQNLARKR--DWFGPGSKIVITTRDKQLLVAHEV---DEEHIYNLEVLSNDE  143 (1046)
Q Consensus        82 k~~LlVlDdv~~~~-------------~l~~l~~~~--~~~~~gs~IiiTtR~~~~~~~~~~---~~~~~~~v~~L~~~e  143 (1046)
                      ++.+|++||+|..-             ....+....  .....+..||.||.....+...-.   .-++.++++..+.++
T Consensus        97 ~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~tTn~~~~ld~al~r~gRfd~~i~~~~P~~~~  176 (258)
T d1e32a2          97 APAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDATG  176 (258)
T ss_dssp             CSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEEESCGGGSCGGGTSTTSSCEEEECCCCCHHH
T ss_pred             CCEEEEEHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCEEEECCCCCCCCHHHHHCCCCCCEEECCCCCHHH
T ss_conf             99499852111322578877770689998775001101234688117975799310252454246302323789999889


Q ss_pred             HHHHHHHHHCCCCCC-CCHHHHHHHHHHHHHCCCCHH-HHHHH
Q ss_conf             999997820279999-913999999999871899348-99996
Q 001603          144 ALQLFSMKAFKTRQP-MGEYVELSKRVLKYAGGLPLA-LTVLG  184 (1046)
Q Consensus       144 a~~Lf~~~a~~~~~~-~~~~~~~~~~i~~~~~g~PLa-l~~~~  184 (1046)
                      ..++|..+..+.... ..+    ...+++.+.|+--| |+.+.
T Consensus       177 R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~adl~~lv  215 (258)
T d1e32a2         177 RLEILQIHTKNMKLADDVD----LEQVANETHGHVGADLAALC  215 (258)
T ss_dssp             HHHHHHHTTTTSCBCTTCC----HHHHHHHCTTCCHHHHHHHH
T ss_pred             HHHHHHHHCCCCCCCCCCC----HHHHHHCCCCCCHHHHHHHH
T ss_conf             9987322045763345530----34444206677899999999

>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=98.69  E-value=1.6e-07  Score=58.49  Aligned_cols=146  Identities=17%  Similarity=0.114  Sum_probs=78.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHH-HHHHHC
Q ss_conf             8999289880899999999887066660399984400110368989999999998741038643441000999-997525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINI-IGSRLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~-i~~~l~   80 (1046)
                      |.++|+.|.|||++|+++++.....    ++..+......++-                     ......+.. +...-.
T Consensus        45 iLl~GppGtGKT~la~aia~~~~~~----~~~i~~~~l~~~~~---------------------g~~~~~l~~~f~~a~~   99 (247)
T d1ixza_          45 VLLVGPPGVGKTHLARAVAGEARVP----FITASGSDFVEMFV---------------------GVGAARVRDLFETAKR   99 (247)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCC----EEEEEHHHHHHSCT---------------------THHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCC----EEEEEHHHHHHCCC---------------------CHHHHHHHHHHHHHHH
T ss_conf             8876689888359999999873997----79978699646245---------------------3899999999999997


Q ss_pred             CCEEEEEEECCCCHH----------------HHHHHHHCCCCC--CCCCEEEEEECCHHHHHH-H----CCCCCCEEECC
Q ss_conf             981899993589968----------------887776166987--999879999388356888-1----58983348658
Q 001603           81 QKKVLLVIDDVADVE----------------QLQNLARKRDWF--GPGSKIVITTRDKQLLVA-H----EVDEEHIYNLE  137 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~~----------------~l~~l~~~~~~~--~~gs~IiiTtR~~~~~~~-~----~~~~~~~~~v~  137 (1046)
                      ..+.+|++||+|..-                .+..+......+  ..+..||-||...+.+.. .    ..+.  .+++.
T Consensus       100 ~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~vivi~tTn~~~~ld~al~R~~Rf~~--~i~~~  177 (247)
T d1ixza_         100 HAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDR--QIAID  177 (247)
T ss_dssp             SSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEEEEEESCGGGSCGGGGSTTSSCE--EEECC
T ss_pred             CCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCE--EEEEC
T ss_conf             6997999977366474678998887589999999999996387778998999807994006996758987857--99979


Q ss_pred             CCCHHHHHHHHHHHHCCCCC-CCCHHHHHHHHHHHHHCCCCH
Q ss_conf             99967899999782027999-991399999999987189934
Q 001603          138 VLSNDEALQLFSMKAFKTRQ-PMGEYVELSKRVLKYAGGLPL  178 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~g~PL  178 (1046)
                      ..+.++..+++..+..+... ...+    ...+++.+.|..-
T Consensus       178 ~P~~~eR~~il~~~l~~~~~~~~~~----~~~la~~t~g~s~  215 (247)
T d1ixza_         178 APDVKGREQILRIHARGKPLAEDVD----LALLAKRTPGFVG  215 (247)
T ss_dssp             SCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCH
T ss_pred             CCCHHHHHHHHHHHHCCCCCCCCCC----HHHHHHHCCCCCH
T ss_conf             9699999999998750657765468----9999977889889

>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=98.68  E-value=1.7e-07  Score=58.42  Aligned_cols=127  Identities=20%  Similarity=0.182  Sum_probs=62.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             89992898808999999998870666603999844001103689899999999987410386434410009999975259
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~~   81 (1046)
                      |.++|++|+|||++|+++++.....|-   .+. .-+.-  .+....-..+.+.                 ..+....+.
T Consensus        43 vLL~GppGtGKT~la~alA~~~~~~~~---~i~-~~~~~--~g~~~~~~~~~i~-----------------~if~~A~~~   99 (246)
T d1d2na_          43 VLLEGPPHSGKTALAAKIAEESNFPFI---KIC-SPDKM--IGFSETAKCQAMK-----------------KIFDDAYKS   99 (246)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCSEE---EEE-CGGGC--TTCCHHHHHHHHH-----------------HHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCCCCC---CCC-CCCCC--CCCCCCCHHHHHH-----------------HHHHHHHHC
T ss_conf             998896999889999998620100233---345-65223--5654211224444-----------------456555532


Q ss_pred             CEEEEEEECCCCH------------HHHHHHHHCCCCC-CCCC--EEEEEECCHHHHHHHCCCC--CCEEECCCCCH-HH
Q ss_conf             8189999358996------------8887776166987-9998--7999938835688815898--33486589996-78
Q 001603           82 KKVLLVIDDVADV------------EQLQNLARKRDWF-GPGS--KIVITTRDKQLLVAHEVDE--EHIYNLEVLSN-DE  143 (1046)
Q Consensus        82 k~~LlVlDdv~~~------------~~l~~l~~~~~~~-~~gs--~IiiTtR~~~~~~~~~~~~--~~~~~v~~L~~-~e  143 (1046)
                      .+.++++|++|..            ..+..+....... ..+.  .||.||...+.+.......  ...++++.+.. ++
T Consensus       100 ~p~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~  179 (246)
T d1d2na_         100 QLSCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQ  179 (246)
T ss_dssp             SEEEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHH
T ss_pred             CCCEEEHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHCCCHHHCCCCCEEEECCCCHHHHH
T ss_conf             42223310256676513454412478999999986077765450145532488322561020186633885599105999


Q ss_pred             HHHHHHHH
Q ss_conf             99999782
Q 001603          144 ALQLFSMK  151 (1046)
Q Consensus       144 a~~Lf~~~  151 (1046)
                      -++.+...
T Consensus       180 il~~l~~~  187 (246)
T d1d2na_         180 LLEALELL  187 (246)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHC
T ss_conf             99999742

>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=98.66  E-value=6.4e-08  Score=60.88  Aligned_cols=154  Identities=14%  Similarity=0.189  Sum_probs=84.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-CCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             8999289880899999999887066-660399984400110368989999999998741038643441000999997525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~   80 (1046)
                      +.++|+.|+||||+|+.+++.+... +....+..+...   ..+ ...+. ....+......               ...
T Consensus        48 lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~---~~~-~~~~~-~~~~~~~~~~~---------------~~~  107 (231)
T d1iqpa2          48 LLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD---ERG-INVIR-EKVKEFARTKP---------------IGG  107 (231)
T ss_dssp             EEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTC---HHH-HHTTH-HHHHHHHHSCC---------------GGG
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCC---CCC-HHHHH-HHHHHHHHHHH---------------CCC
T ss_conf             99978999748799999999987314677715875676---666-34888-88888875100---------------157


Q ss_pred             CCEEEEEEECCCCH--HHHHHHHHCCCCCCCCCEEEEEECCHH-HHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             98189999358996--888777616698799987999938835-688815898334865899967899999782027999
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFKTRQ  157 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~--~~l~~l~~~~~~~~~gs~IiiTtR~~~-~~~~~~~~~~~~~~v~~L~~~ea~~Lf~~~a~~~~~  157 (1046)
                      .++.++++|+++..  .....+............+|.||.... +..... .....+.+.+.+.++....+.+.+.+..-
T Consensus       108 ~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~-sR~~~i~~~~~~~~~~~~~l~~~~~~e~i  186 (231)
T d1iqpa2         108 ASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQ-SRCAIFRFRPLRDEDIAKRLRYIAENEGL  186 (231)
T ss_dssp             CSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHH-HTEEEEECCCCCHHHHHHHHHHHHHTTTC
T ss_pred             CCCEEEEEHHHHHCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHCHHHHH-CCCCCCCCCCCCHHHHHHHHHHHHHHHCC
T ss_conf             87228861434431214789876411247764478861487665657684-73121012334304677899888998399


Q ss_pred             CCCHHHHHHHHHHHHHCCCCH
Q ss_conf             991399999999987189934
Q 001603          158 PMGEYVELSKRVLKYAGGLPL  178 (1046)
Q Consensus       158 ~~~~~~~~~~~i~~~~~g~PL  178 (1046)
                      ..  ..+....|++.++|..-
T Consensus       187 ~i--~~~~l~~I~~~~~gdiR  205 (231)
T d1iqpa2         187 EL--TEEGLQAILYIAEGDMR  205 (231)
T ss_dssp             EE--CHHHHHHHHHHHTTCHH
T ss_pred             CC--CHHHHHHHHHHCCCCHH
T ss_conf             98--99999999998399799

>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=98.64  E-value=3.5e-07  Score=56.51  Aligned_cols=147  Identities=17%  Similarity=0.155  Sum_probs=81.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCC-CCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             899928988089999999988706666039998440011036-8989999999998741038643441000999997525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKE-GSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~-~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~   80 (1046)
                      +.++|++|.|||++|+++++.....    ++..+.......+ +                     .........+...-+
T Consensus        48 iLL~GppGtGKT~la~~iA~~~~~~----~~~i~~~~l~~~~~g---------------------~~~~~l~~~f~~A~~  102 (256)
T d1lv7a_          48 VLMVGPPGTGKTLLAKAIAGEAKVP----FFTISGSDFVEMFVG---------------------VGASRVRDMFEQAKK  102 (256)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCC----EEEECSCSSTTSCCC---------------------CCHHHHHHHHHHHHT
T ss_pred             EEEECCCCCCCCHHHHHHHHHCCCC----EEEEEHHHHHHCCHH---------------------HHHHHHHHHHHHHHH
T ss_conf             7866899888228999999982998----799886994260010---------------------789999999999997


Q ss_pred             CCEEEEEEECCCCH-------------H---HHHHHHHCCCC--CCCCCEEEEEECCHHHH-HH----HCCCCCCEEECC
Q ss_conf             98189999358996-------------8---88777616698--79998799993883568-88----158983348658
Q 001603           81 QKKVLLVIDDVADV-------------E---QLQNLARKRDW--FGPGSKIVITTRDKQLL-VA----HEVDEEHIYNLE  137 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~-------------~---~l~~l~~~~~~--~~~gs~IiiTtR~~~~~-~~----~~~~~~~~~~v~  137 (1046)
                      ..+++|++||+|..             .   .+..+....+.  ...+..||.||.+...+ ..    ...+.  .+++.
T Consensus       103 ~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~vIatTn~~~~ld~al~R~gRfd~--~i~i~  180 (256)
T d1lv7a_         103 AAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDR--QVVVG  180 (256)
T ss_dssp             TCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEEEEEESCTTTSCGGGGSTTSSCE--EEECC
T ss_pred             CCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHCCCCCCCE--EEECC
T ss_conf             5998999977566575678988887489999999999995387777998999807993107985768987877--98779


Q ss_pred             CCCHHHHHHHHHHHHCCCCC-CCCHHHHHHHHHHHHHCCCCHH
Q ss_conf             99967899999782027999-9913999999999871899348
Q 001603          138 VLSNDEALQLFSMKAFKTRQ-PMGEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~g~PLa  179 (1046)
                      ..+.++..++|..+..+... +..+    ...+++.+.|+.-|
T Consensus       181 ~P~~~~R~~il~~~l~~~~~~~~~~----~~~la~~t~G~s~a  219 (256)
T d1lv7a_         181 LPDVRGREQILKVHMRRVPLAPDID----AAIIARGTPGFSGA  219 (256)
T ss_dssp             CCCHHHHHHHHHHHHTTSCBCTTCC----HHHHHHTCTTCCHH
T ss_pred             CCCHHHHHHHHHHHCCCCCCCCCCC----HHHHHHHCCCCCHH
T ss_conf             9599999999998425998686569----99999868998999

>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=98.56  E-value=2.3e-06  Score=51.67  Aligned_cols=129  Identities=19%  Similarity=0.183  Sum_probs=78.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC------CCEEEEEEECHHHHC---CCCCHHHHHHHHHHHHHHCCCCCCCCCCCHH
Q ss_conf             8999289880899999999887066------660399984400110---3689899999999987410386434410009
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE------FDGSTFLANVREKSE---KEGSVVSLQKQLLSDLLKLADISIWNVDDGI   72 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~---~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~   72 (1046)
                      +.++|++|+|||+++..++.++...      ....+|..+......   ..+......+.++.++               
T Consensus        42 ~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~~~---------------  106 (268)
T d1r6bx2          42 PLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLKQL---------------  106 (268)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHHHH---------------
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECHHHCCCCCCHHHHHHHHHHHHHH---------------
T ss_conf             67988898867799999999998178450003541278640567506763005899999999986---------------


Q ss_pred             HHHHHHHCCCEEEEEEECCCCH----------HHHHHHHHCCCCCCCCCEEEEEECCHHHHHHHCCCCC-----CEEECC
Q ss_conf             9999752598189999358996----------8887776166987999879999388356888158983-----348658
Q 001603           73 NIIGSRLRQKKVLLVIDDVADV----------EQLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEE-----HIYNLE  137 (1046)
Q Consensus        73 ~~i~~~l~~k~~LlVlDdv~~~----------~~l~~l~~~~~~~~~gs~IiiTtR~~~~~~~~~~~~~-----~~~~v~  137 (1046)
                            -..+.+++++|+++..          .+...++.+.-. ...-++|.||..++.......+.+     ..+.|+
T Consensus       107 ------~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~~~e~d~al~rrF~~I~V~  179 (268)
T d1r6bx2         107 ------EQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSNIFEKDRALARRFQKIDIT  179 (268)
T ss_dssp             ------SSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHCCCCCTTSSGGGEEEEECC
T ss_pred             ------HCCCCCEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHH-CCCCEEEEECCHHHHHHHHHHCHHHHHHHCCCCCC
T ss_conf             ------12678468843369886277778864117987648874-79875999579999999986167888652100368


Q ss_pred             CCCHHHHHHHHHHHH
Q ss_conf             999678999997820
Q 001603          138 VLSNDEALQLFSMKA  152 (1046)
Q Consensus       138 ~L~~~ea~~Lf~~~a  152 (1046)
                      .++.+++.+++...+
T Consensus       180 Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         180 EPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHH
T ss_conf             989999999999866

>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=98.51  E-value=3.1e-07  Score=56.80  Aligned_cols=149  Identities=13%  Similarity=0.117  Sum_probs=82.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHC-CCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHC
Q ss_conf             8999289880899999999887066660399984400110-368989999999998741038643441000999997525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSE-KEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~-~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~   80 (1046)
                      |-++|+.|.|||++|++++.....+    +|..+...... ..+....                     .....+...-.
T Consensus        44 iLL~Gp~GtGKT~l~~ala~~~~~~----~~~~~~~~l~~~~~~~~~~---------------------~l~~~f~~A~~   98 (265)
T d1r7ra3          44 VLFYGPPGCGKTLLAKAIANECQAN----FISIKGPELLTMWFGESEA---------------------NVREIFDKARQ   98 (265)
T ss_dssp             EEEBCCTTSSHHHHHHHHHHHTTCE----EEEECHHHHHTSCTTTHHH---------------------HHHHHHHHHHH
T ss_pred             EEEECCCCCCCHHHHHHHHHHHCCC----EEEEEHHHHHHCCCCCHHH---------------------HHHHHHHHHHH
T ss_conf             7887899876304778878771894----7998879952531651589---------------------99999999986


Q ss_pred             CCEEEEEEECCCCHH----------------HHHHHHHCCCCC--CCCCEEEEEECCHHHH-HHHC--CCCCCEEECCCC
Q ss_conf             981899993589968----------------887776166987--9998799993883568-8815--898334865899
Q 001603           81 QKKVLLVIDDVADVE----------------QLQNLARKRDWF--GPGSKIVITTRDKQLL-VAHE--VDEEHIYNLEVL  139 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~~----------------~l~~l~~~~~~~--~~gs~IiiTtR~~~~~-~~~~--~~~~~~~~v~~L  139 (1046)
                      ..++++++||+|..-                ....+.......  ..+..||.||...+.+ ....  ..-.+.++++..
T Consensus        99 ~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p  178 (265)
T d1r7ra3          99 AAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLP  178 (265)
T ss_dssp             TCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CCEEEECCBSCTTTSCGGGSSTTSEEEEECCCC
T ss_pred             CCCCCEEHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHCCHHHHCCCCCCEEEEECCH
T ss_conf             39843568754632455787678873799999999999962867779989999179922279978078776479995660


Q ss_pred             CHHHHHHHHHHHHCCCCC-CCCHHHHHHHHHHHHHCCCCHH
Q ss_conf             967899999782027999-9913999999999871899348
Q 001603          140 SNDEALQLFSMKAFKTRQ-PMGEYVELSKRVLKYAGGLPLA  179 (1046)
Q Consensus       140 ~~~ea~~Lf~~~a~~~~~-~~~~~~~~~~~i~~~~~g~PLa  179 (1046)
                      +.++..++|..+..+... ...+    ...+++++.|...+
T Consensus       179 ~~~~R~~il~~~l~~~~~~~~~~----l~~la~~t~g~s~~  215 (265)
T d1r7ra3         179 DEKSRVAILKANLRKSPVAKDVD----LEFLAKMTNGFSGA  215 (265)
T ss_dssp             CCHHHHHHHHHHTTCC----CCC----CHHHHHHHCSSCCH
T ss_pred             HHHHHHHHHHHHHCCCCCHHHHH----HHHHHHCCCCCCHH
T ss_conf             78889999999960577102436----89998258999999

>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=98.44  E-value=1.2e-05  Score=47.40  Aligned_cols=148  Identities=17%  Similarity=0.098  Sum_probs=79.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             89992898808999999998870666603999844001103689899999999987410386434410009999975259
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~~   81 (1046)
                      +.++|++|+||||+|+.+++.+...|-   .+. .   +.... ..++.. .+..                       ..
T Consensus        38 ~L~~GPpGtGKT~lA~~la~~~~~~~~---~~~-~---~~~~~-~~~~~~-~~~~-----------------------~~   85 (238)
T d1in4a2          38 VLLAGPPGLGKTTLAHIIASELQTNIH---VTS-G---PVLVK-QGDMAA-ILTS-----------------------LE   85 (238)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHHTCCEE---EEE-T---TTCCS-HHHHHH-HHHH-----------------------CC
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCCCCC---CCC-C---CCCCC-HHHHHH-HHHH-----------------------HC
T ss_conf             898799997388999999850388853---325-7---44224-888999-9875-----------------------43


Q ss_pred             CEEEEEEECCCCHHH--HHHH---HHCC---------------CCCCCCCEEEEEECCH-HHHHHHCCCCCCEEECCCCC
Q ss_conf             818999935899688--8777---6166---------------9879998799993883-56888158983348658999
Q 001603           82 KKVLLVIDDVADVEQ--LQNL---ARKR---------------DWFGPGSKIVITTRDK-QLLVAHEVDEEHIYNLEVLS  140 (1046)
Q Consensus        82 k~~LlVlDdv~~~~~--l~~l---~~~~---------------~~~~~gs~IiiTtR~~-~~~~~~~~~~~~~~~v~~L~  140 (1046)
                      ++..+++|.++....  -+.+   ....               ....+...+|.+|... .............+.++..+
T Consensus        86 ~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~I~at~~~~~~~~~~~~r~~~~~~~~~~~  165 (238)
T d1in4a2          86 RGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGATTRSGLLSSPLRSRFGIILELDFYT  165 (238)
T ss_dssp             TTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEEEEEESCGGGSCHHHHTTCSEEEECCCCC
T ss_pred             CCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCEEEEEEEEEECCCC
T ss_conf             58824777898840677764214024414544543760024444578876999954787555543113300799844787


Q ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHH
Q ss_conf             6789999978202799999139999999998718993489999
Q 001603          141 NDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVL  183 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~g~PLal~~~  183 (1046)
                      .++...++...+......  ...+....++++++|.+-.+..+
T Consensus       166 ~~~~~~~l~~~~~~~~~~--~~~~~l~~i~~~s~gd~R~ai~~  206 (238)
T d1in4a2         166 VKELKEIIKRAASLMDVE--IEDAAAEMIAKRSRGTPRIAIRL  206 (238)
T ss_dssp             HHHHHHHHHHHHHHTTCC--BCHHHHHHHHHTSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCH--HHHHHHHHHHHHCCCCHHHHHHH
T ss_conf             787777777765301100--25799999999679989999999

>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=98.42  E-value=1.1e-05  Score=47.59  Aligned_cols=147  Identities=18%  Similarity=0.091  Sum_probs=77.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             89992898808999999998870666603999844001103689899999999987410386434410009999975259
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~~   81 (1046)
                      +.++|++|+||||+|+.+++.....|    ...+.   + .......                      ....+.+.+..
T Consensus        38 ~Ll~GPpG~GKTtla~~la~~~~~~~----~~~~~---~-~~~~~~~----------------------~~~~~~~~~~~   87 (239)
T d1ixsb2          38 LLLFGPPGLGKTTLAHVIAHELGVNL----RVTSG---P-AIEKPGD----------------------LAAILANSLEE   87 (239)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTCCE----EEEET---T-TCCSHHH----------------------HHHHHHTTCCT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCE----EECCC---C-CCCCCHH----------------------HHHHHHHHCCC
T ss_conf             89889799878889999999849874----75468---7-5343214----------------------68998851038


Q ss_pred             CEEEEEEECCCCHH--HHHHHHHC--------CCC----------CCCCCEEEEEE-CCHHHHHHHCCCCCCEEECCCCC
Q ss_conf             81899993589968--88777616--------698----------79998799993-88356888158983348658999
Q 001603           82 KKVLLVIDDVADVE--QLQNLARK--------RDW----------FGPGSKIVITT-RDKQLLVAHEVDEEHIYNLEVLS  140 (1046)
Q Consensus        82 k~~LlVlDdv~~~~--~l~~l~~~--------~~~----------~~~gs~IiiTt-R~~~~~~~~~~~~~~~~~v~~L~  140 (1046)
                       +..+++|.++...  .-+.+...        ...          ..+...++.+| +...............+++...+
T Consensus        88 -~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~l~~~~~~~~~~~~~  166 (239)
T d1ixsb2          88 -GDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTLIGATTRPGLITAPLLSRFGIVEHLEYYT  166 (239)
T ss_dssp             -TCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEEEEEESCCSSCSCGGGGGCSEEEECCCCC
T ss_pred             -CCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCEEEEEECCCCCCCCCHHHCCCCEEEEEECCC
T ss_conf             -8734431100110447875001243332121104655654334689977999630683334410101221456752057


Q ss_pred             HHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHH
Q ss_conf             67899999782027999991399999999987189934899
Q 001603          141 NDEALQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALT  181 (1046)
Q Consensus       141 ~~ea~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~g~PLal~  181 (1046)
                      .++..+.....+.......  ..+....+++.++|.+-...
T Consensus       167 ~~~~~~i~~~~~~~~~i~~--~~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         167 PEELAQGVMRDARLLGVRI--TEEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             HHHHHHHHHHHHGGGCCCB--CHHHHHHHHHHTTSSHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCCC--CHHHHHHHHHHCCCCHHHHH
T ss_conf             4555578899999848765--26789999997699999999

>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=98.36  E-value=6.9e-06  Score=48.80  Aligned_cols=164  Identities=12%  Similarity=0.146  Sum_probs=81.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             89992898808999999998870666603999844001103689899999999987410386434410009999975259
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~~   81 (1046)
                      +.++|++|+||||+|+++++.....    .+..+..+.   .+ ... ..............   ...............
T Consensus        55 lll~GPpG~GKTt~a~~la~~~~~~----~~~~~~~~~---~~-~~~-~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~  122 (253)
T d1sxja2          55 AMLYGPPGIGKTTAAHLVAQELGYD----ILEQNASDV---RS-KTL-LNAGVKNALDNMSV---VGYFKHNEEAQNLNG  122 (253)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHTTCE----EEEECTTSC---CC-HHH-HHHTGGGGTTBCCS---TTTTTC----CCSST
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHH----HHCCCCCCC---HH-HHH-HHHHHHHHHHCCHH---HHHHHHHHHCCCCCC
T ss_conf             9998799998889999999998751----201344322---11-688-99999887631212---101334320145566


Q ss_pred             CEEEEEEECCCCHH-----HHHHHHHCCCCCCCCCEEEEEECCHH--HHHHHCCCCCCEEECCCCCHHHHHHHHHHHHCC
Q ss_conf             81899993589968-----88777616698799987999938835--688815898334865899967899999782027
Q 001603           82 KKVLLVIDDVADVE-----QLQNLARKRDWFGPGSKIVITTRDKQ--LLVAHEVDEEHIYNLEVLSNDEALQLFSMKAFK  154 (1046)
Q Consensus        82 k~~LlVlDdv~~~~-----~l~~l~~~~~~~~~gs~IiiTtR~~~--~~~~~~~~~~~~~~v~~L~~~ea~~Lf~~~a~~  154 (1046)
                      +..++++|+++...     .+..+.....  .....+++|+.+..  ...... .....+++.+++.++-.+.+...+-+
T Consensus       123 ~~~vi~ide~~~~~~~~~~~~~~~~~~~~--~~~~~ii~i~~~~~~~~~~~l~-~~~~~i~f~~~~~~~i~~~l~~i~~~  199 (253)
T d1sxja2         123 KHFVIIMDEVDGMSGGDRGGVGQLAQFCR--KTSTPLILICNERNLPKMRPFD-RVCLDIQFRRPDANSIKSRLMTIAIR  199 (253)
T ss_dssp             TSEEEEECSGGGCCTTSTTHHHHHHHHHH--HCSSCEEEEESCTTSSTTGGGT-TTSEEEECCCCCHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEECCCCCCCHHHHHHHHHHHHC--CCCCCCCCCCCCCCCCCCCCCC-CEEEEEECCCCCHHHHHHHHHHHHHH
T ss_conf             51377763011111000134677765401--2342221113555521135324-40365311453146788999999998


Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCC-HHHHH
Q ss_conf             99999139999999998718993-48999
Q 001603          155 TRQPMGEYVELSKRVLKYAGGLP-LALTV  182 (1046)
Q Consensus       155 ~~~~~~~~~~~~~~i~~~~~g~P-Lal~~  182 (1046)
                      .....+.  +....|++.++|.. -|+..
T Consensus       200 e~i~i~~--~~l~~i~~~s~GDiR~ai~~  226 (253)
T d1sxja2         200 EKFKLDP--NVIDRLIQTTRGDIRQVINL  226 (253)
T ss_dssp             HTCCCCT--THHHHHHHHTTTCHHHHHHH
T ss_pred             HCCCCCH--HHHHHHHHHCCCCHHHHHHH
T ss_conf             0999999--99999999679709999999

>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=98.19  E-value=1.5e-05  Score=46.78  Aligned_cols=130  Identities=13%  Similarity=0.095  Sum_probs=74.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC------CCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHH
Q ss_conf             8999289880899999999887066------6603999844001103689899999999987410386434410009999
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE------FDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|++|+|||+++..++.++...      .+..+|..++...-......                   .........+
T Consensus        46 ~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~ag~~~~-------------------g~~e~r~~~i  106 (387)
T d1qvra2          46 PVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYR-------------------GEFEERLKAV  106 (387)
T ss_dssp             CEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------------------------CHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHHHHHCCCCHHHCCCEEEEEEHHHHHCCCCCC-------------------HHHHHHHHHH
T ss_conf             768799998899999999999980899978869668995576665266741-------------------3689999999


Q ss_pred             HHHH-C-CCEEEEEEECCCCHHH---------HHHHHHCCCCCCCCCEEEEEECCHHHHHHHCCCCC-----CEEECCCC
Q ss_conf             9752-5-9818999935899688---------87776166987999879999388356888158983-----34865899
Q 001603           76 GSRL-R-QKKVLLVIDDVADVEQ---------LQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEE-----HIYNLEVL  139 (1046)
Q Consensus        76 ~~~l-~-~k~~LlVlDdv~~~~~---------l~~l~~~~~~~~~gs~IiiTtR~~~~~~~~~~~~~-----~~~~v~~L  139 (1046)
                      ...+ . ..++++++|++...-.         ...++.+... ...-++|-+|.....- ....+.+     ..+.|+..
T Consensus       107 ~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~-rg~~~~I~~tT~~ey~-~~e~d~al~rrF~~v~v~ep  184 (387)
T d1qvra2         107 IQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-RGELRLIGATTLDEYR-EIEKDPALERRFQPVYVDEP  184 (387)
T ss_dssp             HHHHHTTCSSEEEEECCC-------------------HHHHH-TTCCCEEEEECHHHHH-HHTTCTTTCSCCCCEEECCC
T ss_pred             HHHHCCCCCCEEEEECCHHHHHCCCCCCCCCCHHHHHHHHHH-CCCCCEEEECCHHHHH-HHCCCHHHHHHCCCCCCCCC
T ss_conf             998505899669872408888427778774138999999973-7885166636899998-76336799982461127998


Q ss_pred             CHHHHHHHHHHHH
Q ss_conf             9678999997820
Q 001603          140 SNDEALQLFSMKA  152 (1046)
Q Consensus       140 ~~~ea~~Lf~~~a  152 (1046)
                      +.+++.+++...+
T Consensus       185 ~~~~~~~il~~~~  197 (387)
T d1qvra2         185 TVEETISILRGLK  197 (387)
T ss_dssp             CHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHH
T ss_conf             6788999999999

>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=98.16  E-value=2.2e-05  Score=45.77  Aligned_cols=127  Identities=13%  Similarity=0.066  Sum_probs=69.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCC------CCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHH
Q ss_conf             899928988089999999988706------66603999844001103689899999999987410386434410009999
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH------EFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINII   75 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~------~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i   75 (1046)
                      +.++|.+|+|||+++..++.++..      .....+|..+....-.......+.                   .+....+
T Consensus        46 ~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~ld~~~LiAg~~~rG~~-------------------E~rl~~i  106 (195)
T d1jbka_          46 PVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGALVAGAKYRGEF-------------------EERLKGV  106 (195)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEECHHHHHTTTCSHHHH-------------------HHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCCCCHHHCCCEEEEEEHHHHHCCCCCCHHH-------------------HHHHHHH
T ss_conf             399835875447999999999980899978818569996699986458740779-------------------9999999


Q ss_pred             H-HHH-CCCEEEEEEECCCCHH---------HHHHHHHCCCCCCCCCEEEEEECCHHHHHHHCCCCC-----CEEECCCC
Q ss_conf             9-752-5981899993589968---------887776166987999879999388356888158983-----34865899
Q 001603           76 G-SRL-RQKKVLLVIDDVADVE---------QLQNLARKRDWFGPGSKIVITTRDKQLLVAHEVDEE-----HIYNLEVL  139 (1046)
Q Consensus        76 ~-~~l-~~k~~LlVlDdv~~~~---------~l~~l~~~~~~~~~gs~IiiTtR~~~~~~~~~~~~~-----~~~~v~~L  139 (1046)
                      . +.. ...++++++|++...-         +...++.+.-. ...-++|.||..+..-.....+.+     ..+.|+.+
T Consensus       107 l~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-rg~l~~IgatT~eey~~~~e~d~aL~rrF~~I~V~Ep  185 (195)
T d1jbka_         107 LNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTLDEYRQYIEKDAALERRFQKVFVAEP  185 (195)
T ss_dssp             HHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECHHHHHHHTTTCHHHHTTEEEEECCCC
T ss_pred             HHHHHCCCCCEEEECCHHHHHHCCCCCCCCCCHHHHHHHHHH-CCCCEEEECCCHHHHHHHHHCCHHHHHCCCEEECCCC
T ss_conf             998731798089972608998437877775238999999985-7995498518999999998738899963987545898


Q ss_pred             CHHHHHHHH
Q ss_conf             967899999
Q 001603          140 SNDEALQLF  148 (1046)
Q Consensus       140 ~~~ea~~Lf  148 (1046)
                      +.+++.+++
T Consensus       186 ~~e~t~~IL  194 (195)
T d1jbka_         186 SVEDTIAIL  194 (195)
T ss_dssp             CHHHHHTTC
T ss_pred             CHHHHHHHH
T ss_conf             989999985

>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=97.85  E-value=2.1e-06  Score=51.92  Aligned_cols=63  Identities=24%  Similarity=0.164  Sum_probs=25.6

Q ss_pred             CCCCCEEECCCCCCCCC-CCCCCCCCCCCCCEEECCCCCCCCCCH-HHHHCCCCCEECCCCCCCC
Q ss_conf             89888896679999999-885333476788855288898743564-5530245570113366356
Q 001603          721 LHSLSKLDLSDCGLGEG-AIPNDIGNLCSLKQLNLSQNNFVTLPA-SINSLFNLGQLDLEDCKRL  783 (1046)
Q Consensus       721 l~~L~~L~Ls~~~l~~~-~ip~~l~~l~~L~~L~Ls~n~l~~lp~-~i~~l~~L~~L~L~~c~~l  783 (1046)
                      +++|++|+|++|.+..- .++..+..+++|+.|+|++|.++.+++ ..-...+|+.|++++|+..
T Consensus        64 ~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~  128 (162)
T d1koha1          64 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLS  128 (162)
T ss_dssp             CTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTS
T ss_pred             CCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEEECCCCCCC
T ss_conf             87878863777666677315889865885610004357213423442220331042664899767

>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=97.71  E-value=0.00011  Score=41.56  Aligned_cols=116  Identities=11%  Similarity=0.027  Sum_probs=63.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCC---EEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHH
Q ss_conf             899928988089999999988706666---03999844001103689899999999987410386434410009999975
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD---GSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSR   78 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~---~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~   78 (1046)
                      +-++|+.|.||||+|..+.+.+.....   ...++..   ....-+ +.++. .+...+.....                
T Consensus        18 ~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D~~~i~~---~~~~I~-Id~IR-~i~~~~~~~~~----------------   76 (198)
T d2gnoa2          18 ILINGEDLSYPREVSLELPEYVEKFPPKASDVLEIDP---EGENIG-IDDIR-TIKDFLNYSPE----------------   76 (198)
T ss_dssp             EEEECSSSSHHHHHHHHHHHHHHTSCCCTTTEEEECC---SSSCBC-HHHHH-HHHHHHTSCCS----------------
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCCCCCCCCEEEEEC---CCCCCC-HHHHH-HHHHHHHHCCC----------------
T ss_conf             9988989988899999999998434567998899807---767899-89999-99999961754----------------


Q ss_pred             HCCCEEEEEEECCCCH--HHHHHHHHCCCCCCCCCEEEEEECCHH-HHHHHCCCCCCEEECCCCC
Q ss_conf             2598189999358996--888777616698799987999938835-6888158983348658999
Q 001603           79 LRQKKVLLVIDDVADV--EQLQNLARKRDWFGPGSKIVITTRDKQ-LLVAHEVDEEHIYNLEVLS  140 (1046)
Q Consensus        79 l~~k~~LlVlDdv~~~--~~l~~l~~~~~~~~~gs~IiiTtR~~~-~~~~~~~~~~~~~~v~~L~  140 (1046)
                       .+++=++|+|+++.+  +...+|...+....+++++|.+|.+.. +....... ...+.+....
T Consensus        77 -~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SR-C~~i~~~~p~  139 (198)
T d2gnoa2          77 -LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSR-VFRVVVNVPK  139 (198)
T ss_dssp             -SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTT-SEEEECCCCH
T ss_pred             -CCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCHHHCHHHHHCC-EEEEECCCCH
T ss_conf             -58987999947310366666478887737898852222069956687887352-2777679936

>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=97.64  E-value=6e-06  Score=49.15  Aligned_cols=56  Identities=25%  Similarity=0.134  Sum_probs=26.9

Q ss_pred             CCCCCCCEEECCCCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCC--------HHHHHCCCCCEEC
Q ss_conf             57898888966799999998853-3347678885528889874356--------4553024557011
Q 001603          719 SGLHSLSKLDLSDCGLGEGAIPN-DIGNLCSLKQLNLSQNNFVTLP--------ASINSLFNLGQLD  776 (1046)
Q Consensus       719 ~~l~~L~~L~Ls~~~l~~~~ip~-~l~~l~~L~~L~Ls~n~l~~lp--------~~i~~l~~L~~L~  776 (1046)
                      ..+++|+.|++++|.+.+  ++. .......|+.|++++|.+....        ..+..+|+|+.||
T Consensus        88 ~~l~~L~~L~Ls~N~i~~--l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i~~~~P~L~~LD  152 (162)
T d1koha1          88 QKAPNLKILNLSGNELKS--ERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAIRERFPKLLRLD  152 (162)
T ss_dssp             HHSTTCCCCCCTTSCCCC--GGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHHHTTSTTCCEET
T ss_pred             HHCCCCCCCCCCCCCCCC--CHHHHHHHCCCCCEEECCCCCCCCCCCCCHHHHHHHHHHCCCCCEEC
T ss_conf             658856100043572134--23442220331042664899767676661569999999889978799

>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=97.57  E-value=0.0011  Score=35.71  Aligned_cols=25  Identities=32%  Similarity=0.436  Sum_probs=22.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             8999289880899999999887066
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |+|.|+.|+|||||++.+...+...
T Consensus         3 i~I~G~~G~GKSTLl~~i~~~l~~~   27 (178)
T d1ye8a1           3 IIITGEPGVGKTTLVKKIVERLGKR   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHGGG
T ss_pred             EEEECCCCCHHHHHHHHHHHCCCCC
T ss_conf             9999899938999999998148888

>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=97.44  E-value=0.00014  Score=41.03  Aligned_cols=27  Identities=22%  Similarity=0.240  Sum_probs=22.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             899928988089999999988706666
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFD   28 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~   28 (1046)
                      +.++|++|+|||.+|++++..+..++.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~~~~~~~  152 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEALGGKDK  152 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHHHHTTSC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             888779985088999999998637998

>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=97.36  E-value=0.00019  Score=40.30  Aligned_cols=25  Identities=24%  Similarity=0.333  Sum_probs=21.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             8999289880899999999887066
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      |.++|++|.||||+|+++++.....
T Consensus        35 ilL~GpPGtGKT~la~~la~~~~~~   59 (273)
T d1gvnb_          35 FLLGGQPGSGKTSLRSAIFEETQGN   59 (273)
T ss_dssp             EEEECCTTSCTHHHHHHHHHHTTTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHCC
T ss_conf             9988979988999999999986515

>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=97.32  E-value=0.00026  Score=39.38  Aligned_cols=76  Identities=21%  Similarity=0.253  Sum_probs=39.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf             89992898808999999998870666603999844001103689899999999987410386434410009999975259
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGSRLRQ   81 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~~l~~   81 (1046)
                      +.++||+|+|||.||+++++.....    .+..+..+....+. +...-......+......       ....     ..
T Consensus        52 iLl~GPpG~GKT~lAkalA~~~~~~----~~~i~~s~~~~~~~-~~~~~~~~~~~~f~~a~~-------~~~~-----~~  114 (309)
T d1ofha_          52 ILMIGPTGVGKTEIARRLAKLANAP----FIKVEATKFTEVGY-VGKEVDSIIRDLTDSAGG-------AIDA-----VE  114 (309)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHHTCC----EEEEEGGGGSSCCS-GGGSTTHHHHHHHHTTTT-------CHHH-----HH
T ss_pred             EEEECCCCCCHHHHHHHHHHCCCCC----HHCCCCCCCCCCEE-EEEECCCCCCCCCHHHHC-------CCCC-----CC
T ss_conf             9998999988889999986213221----00034433010115-764113333332123312-------3200-----35


Q ss_pred             CEEEEEEECCCCH
Q ss_conf             8189999358996
Q 001603           82 KKVLLVIDDVADV   94 (1046)
Q Consensus        82 k~~LlVlDdv~~~   94 (1046)
                      ++.+|.||.+|..
T Consensus       115 ~~~IIf~DEIdki  127 (309)
T d1ofha_         115 QNGIVFIDEIDKI  127 (309)
T ss_dssp             HHCEEEEECGGGG
T ss_pred             CCCEEEEHHHHHH
T ss_conf             7856884246454

>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=97.27  E-value=0.00011  Score=41.70  Aligned_cols=34  Identities=18%  Similarity=0.172  Sum_probs=26.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCC-CEEEEEE
Q ss_conf             989992898808999999998870666-6039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF-DGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~~~   34 (1046)
                      +|.+.|++|.||||+|+++++++...| +...++.
T Consensus         8 ~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~   42 (183)
T d1m8pa3           8 TIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL   42 (183)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf             99988999999999999999998650798403211

>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=97.13  E-value=0.0003  Score=39.05  Aligned_cols=15  Identities=7%  Similarity=-0.031  Sum_probs=6.2

Q ss_pred             CCCCCCCEEECCCCC
Q ss_conf             476788855288898
Q 001603          744 GNLCSLKQLNLSQNN  758 (1046)
Q Consensus       744 ~~l~~L~~L~Ls~n~  758 (1046)
                      ...++|++|++++|.
T Consensus        97 ~~n~sL~~L~l~~n~  111 (167)
T d1pgva_          97 LVTQSIVEFKADNQR  111 (167)
T ss_dssp             TTTCCCSEEECCCCS
T ss_pred             HHCCCCCEEECCCCC
T ss_conf             848938987788776

>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=97.11  E-value=0.00045  Score=37.99  Aligned_cols=90  Identities=22%  Similarity=0.282  Sum_probs=49.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHC-CCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHH-H-C----CCCCC-C--CCCCH
Q ss_conf             89992898808999999998870-6666039998440011036898999999999874-1-0----38643-4--41000
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS-HEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-K-L----ADISI-W--NVDDG   71 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~-~----~~~~~-~--~~~~~   71 (1046)
                      ++|.|..|+|||+|+..+..... .+-+.++|.. +.+-.   ..+.++.+++...-. . .    ..+.+ .  +....
T Consensus        71 ~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~-iGer~---~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~  146 (276)
T d2jdid3          71 IGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAG-VGERT---REGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPG  146 (276)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEE-ESCCH---HHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEE-ECCCH---HHHHHHHHHHHHCCCCCCCCCCCEEEEEEECCCCCHH
T ss_conf             7766799989899999999988761799699999-55575---9999999998861765456664238999978999999


Q ss_pred             --------HHHHHHHHC---CCEEEEEEECCCCHH
Q ss_conf             --------999997525---981899993589968
Q 001603           72 --------INIIGSRLR---QKKVLLVIDDVADVE   95 (1046)
Q Consensus        72 --------~~~i~~~l~---~k~~LlVlDdv~~~~   95 (1046)
                              ...+-++++   ++.||+++||+....
T Consensus       147 ~r~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~A  181 (276)
T d2jdid3         147 ARARVALTGLTVAEYFRDQEGQDVLLFIDNIFRFT  181 (276)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCSCEEEEEECTHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHH
T ss_conf             99999999999999988637984899970606899

>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=97.10  E-value=0.00029  Score=39.16  Aligned_cols=27  Identities=30%  Similarity=0.310  Sum_probs=23.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             989992898808999999998870666
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      .|.|+|++|+||||+++++...+....
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~l~~~~   29 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEVLKSSG   29 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             999988999719999999999999779

>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=97.06  E-value=0.0034  Score=32.78  Aligned_cols=34  Identities=24%  Similarity=0.138  Sum_probs=24.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      |+.++|+.|+||||.+.+++.....+-..+.++.
T Consensus        12 vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit   45 (207)
T d1ls1a2          12 LWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVA   45 (207)
T ss_dssp             EEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             8999899999889999999999997799279995

>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=97.05  E-value=0.00019  Score=40.24  Aligned_cols=25  Identities=24%  Similarity=0.268  Sum_probs=21.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             9899928988089999999988706
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      .|.+.|++|+||||+|+.++++...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~L~~   28 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQLNM   28 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             4999899999999999999999699

>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=97.05  E-value=0.0011  Score=35.78  Aligned_cols=28  Identities=14%  Similarity=0.153  Sum_probs=23.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             9899928988089999999988706666
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFD   28 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~   28 (1046)
                      +|.++|.+|.||||+|+++++.......
T Consensus         4 li~l~GlpgsGKSTla~~L~~~l~~~~~   31 (213)
T d1bifa1           4 LIVMVGLPARGKTYISKKLTRYLNFIGV   31 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             9999899999999999999999974699

>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=97.02  E-value=0.00019  Score=40.25  Aligned_cols=23  Identities=22%  Similarity=0.291  Sum_probs=21.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             89992898808999999998870
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |+|.|+.|+||||||+++.++..
T Consensus        10 I~i~G~~GsGKTTla~~La~~~~   32 (192)
T d1lw7a2          10 VAILGGESSGKSVLVNKLAAVFN   32 (192)
T ss_dssp             EEEECCTTSHHHHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99989999989999999999849

>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=97.01  E-value=0.00031  Score=38.95  Aligned_cols=34  Identities=26%  Similarity=0.285  Sum_probs=26.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|||.|+.|.||||+|+++.+.............
T Consensus        24 iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~   57 (198)
T d1rz3a_          24 VLGIDGLSRSGKTTLANQLSQTLREQGISVCVFH   57 (198)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCCCCCCCEECC
T ss_conf             9997898878999999999998363466520012

>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=97.01  E-value=0.00078  Score=36.57  Aligned_cols=23  Identities=22%  Similarity=0.125  Sum_probs=20.9

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|.|.|++|.||||+|+.++++.
T Consensus         8 iI~i~G~pGSGKsT~a~~La~~~   30 (194)
T d1qf9a_           8 VVFVLGGPGSGKGTQCANIVRDF   30 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89998999998899999999997

>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=96.94  E-value=0.00056  Score=37.42  Aligned_cols=34  Identities=26%  Similarity=0.342  Sum_probs=27.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++-|+|+.|.||||+|-++....+.+-..++|++
T Consensus        56 itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyid   89 (263)
T d1u94a1          56 IVEIYGPESSGKTTLTLQVIAAAQREGKTCAFID   89 (263)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEC
T ss_conf             8998057774789999999999870898799986

>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=96.94  E-value=0.00028  Score=39.25  Aligned_cols=24  Identities=29%  Similarity=0.307  Sum_probs=21.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             899928988089999999988706
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      |.|.|++|.||||+|+++.++...
T Consensus         7 I~i~G~pGsGKTTia~~La~~l~~   30 (173)
T d1rkba_           7 ILLTGTPGVGKTTLGKELASKSGL   30 (173)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             989899999989999999999799

>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=96.94  E-value=0.00032  Score=38.92  Aligned_cols=26  Identities=23%  Similarity=0.342  Sum_probs=22.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             89992898808999999998870666
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      |.+.||+|+||||+|+.++++..-.|
T Consensus         4 IvliG~~G~GKSTig~~La~~l~~~f   29 (165)
T d2iyva1           4 AVLVGLPGSGKSTIGRRLAKALGVGL   29 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCE
T ss_conf             89988999988999999999849986

>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=96.93  E-value=0.00077  Score=36.62  Aligned_cols=11  Identities=45%  Similarity=0.549  Sum_probs=3.6

Q ss_pred             CCCEEECCCCC
Q ss_conf             88855288898
Q 001603          748 SLKQLNLSQNN  758 (1046)
Q Consensus       748 ~L~~L~Ls~n~  758 (1046)
                      +|+.|+|++|.
T Consensus        73 ~L~~L~L~~n~   83 (167)
T d1pgva_          73 SLRVLNVESNF   83 (167)
T ss_dssp             SCCEEECCSSB
T ss_pred             CCCCEEEEHHH
T ss_conf             43300330102

>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=96.89  E-value=0.00025  Score=39.57  Aligned_cols=34  Identities=21%  Similarity=0.163  Sum_probs=27.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.+.|++|.||||+|+++..+....+....++.
T Consensus        21 vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~~   54 (195)
T d1x6va3          21 TVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTLD   54 (195)
T ss_dssp             EEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCHH
T ss_conf             9998899999999999999999974479731000

>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=96.88  E-value=0.00053  Score=37.57  Aligned_cols=33  Identities=18%  Similarity=0.173  Sum_probs=25.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCC-CEEEEE
Q ss_conf             989992898808999999998870666-603999
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF-DGSTFL   33 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f-~~~~~~   33 (1046)
                      |++|+|..|.|||||++++.+....+. ...+..
T Consensus         4 vi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v~~   37 (170)
T d1np6a_           4 LLAFAAWSGTGKTTLLKKLIPALCARGIRPGLIK   37 (170)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEC
T ss_conf             8999918999899999999999997797687741

>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=96.87  E-value=0.0069  Score=30.96  Aligned_cols=33  Identities=27%  Similarity=0.314  Sum_probs=24.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ||.++|+.|+||||.+.+++.+.+.+-. .+.+.
T Consensus        11 vi~lvGptGvGKTTTiAKLA~~~~~~g~-kV~li   43 (211)
T d2qy9a2          11 VILMVGVNGVGKTTTIGKLARQFEQQGK-SVMLA   43 (211)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTC-CEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEE
T ss_conf             9999899999989999999999997799-47998

>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=96.87  E-value=0.0018  Score=34.40  Aligned_cols=84  Identities=21%  Similarity=0.160  Sum_probs=45.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCC----CCCCCCCHHHHHH
Q ss_conf             989992898808999999998870666603999844001103689899999999987410386----4344100099999
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADI----SIWNVDDGINIIG   76 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~----~~~~~~~~~~~i~   76 (1046)
                      ++-|+|+.|.||||+|.+++...+..-..++|++ .   ..... ..     .+.+++.+.+.    .....++....+.
T Consensus        62 i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyID-t---E~~~~-~e-----~a~~~GvD~d~il~~~~~~~E~~~~~~~  131 (269)
T d1mo6a1          62 VIEIYGPESSGKTTVALHAVANAQAAGGVAAFID-A---EHALD-PD-----YAKKLGVDTDSLLVSQPDTGEQALEIAD  131 (269)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEE-S---SCCCC-HH-----HHHHHTCCGGGCEEECCSSHHHHHHHHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEE-C---CCCCC-HH-----HHHHHCCCHHHEEEECCCCHHHHHHHHH
T ss_conf             6999648874889999999998754898899998-9---76679-99-----9998099889958966998999999999


Q ss_pred             HHHC-CCEEEEEEECCCCH
Q ss_conf             7525-98189999358996
Q 001603           77 SRLR-QKKVLLVIDDVADV   94 (1046)
Q Consensus        77 ~~l~-~k~~LlVlDdv~~~   94 (1046)
                      ...+ ++.-|||+|.+...
T Consensus       132 ~l~~~~~~~liIiDSi~al  150 (269)
T d1mo6a1         132 MLIRSGALDIVVIDSVAAL  150 (269)
T ss_dssp             HHHHTTCEEEEEEECSTTC
T ss_pred             HHHHCCCCCEEEEECCCCC
T ss_conf             9985599878999330245

>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=96.85  E-value=0.00037  Score=38.49  Aligned_cols=24  Identities=33%  Similarity=0.378  Sum_probs=21.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             899928988089999999988706
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      |.+.||+|.||||+|+.++++...
T Consensus         3 I~liG~~GsGKsTi~k~La~~l~~   26 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKDLDL   26 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             999899999889999999998399

>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=96.81  E-value=0.0003  Score=39.08  Aligned_cols=24  Identities=25%  Similarity=0.326  Sum_probs=21.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|.|.|++|.||||+|+++.....
T Consensus         4 lI~i~G~~GsGKTTva~~L~~~~~   27 (176)
T d2bdta1           4 LYIITGPAGVGKSTTCKRLAAQLD   27 (176)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             899989999998999999999809

>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=96.79  E-value=0.0016  Score=34.75  Aligned_cols=23  Identities=22%  Similarity=0.154  Sum_probs=20.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|.|.|++|.||||+|+.++++.
T Consensus        10 iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_          10 VIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             89998999999899999999985

>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=96.74  E-value=0.00099  Score=35.98  Aligned_cols=34  Identities=21%  Similarity=0.294  Sum_probs=25.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      .|+|+|-||+||||+|..+.......-..+..++
T Consensus         3 ~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID   36 (269)
T d1cp2a_           3 QVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVG   36 (269)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             9999899857799999999999996899589996

>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=96.70  E-value=0.0046  Score=31.99  Aligned_cols=34  Identities=18%  Similarity=0.130  Sum_probs=24.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ||.++|+.|+||||.+.+++...+.+-..+.++.
T Consensus        14 vi~lvGptGvGKTTTiAKLA~~~~~~g~kV~lit   47 (211)
T d1j8yf2          14 VIMLVGVQGTGKATTAGKLAYFYKKKGFKVGLVG   47 (211)
T ss_dssp             EEEEECSCCC----HHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             9999899999989999999999997799369997

>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=96.65  E-value=0.00081  Score=36.50  Aligned_cols=21  Identities=29%  Similarity=0.466  Sum_probs=19.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +++|+|+.|.|||||++.+..
T Consensus        42 ~vaivG~sGsGKSTLl~li~g   62 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQN   62 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
T ss_conf             999999999849999999861

>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=96.65  E-value=0.001  Score=35.93  Aligned_cols=31  Identities=26%  Similarity=0.321  Sum_probs=25.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEE
Q ss_conf             9899928988089999999988706666039
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGST   31 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~   31 (1046)
                      +|+|.|+.|.||||+++.+.+++........
T Consensus         3 iI~i~G~~GsGKsT~~~~L~~~l~~~~~~~~   33 (190)
T d1khta_           3 VVVVTGVPGVGSTTSSQLAMDNLRKEGVNYK   33 (190)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHTTTCCCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEE
T ss_conf             8999899998989999999999987699869

>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=96.64  E-value=0.00064  Score=37.09  Aligned_cols=25  Identities=24%  Similarity=0.218  Sum_probs=21.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             9899928988089999999988706
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      .|.+.|++|.||||+|+.++++...
T Consensus         4 ~Iil~G~~GsGKSTia~~LA~~Lg~   28 (170)
T d1e6ca_           4 PIFMVGARGCGMTTVGRELARALGY   28 (170)
T ss_dssp             CEEEESCTTSSHHHHHHHHHHHHTC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             8899889999889999999999499

>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=0.0068  Score=30.98  Aligned_cols=34  Identities=24%  Similarity=0.194  Sum_probs=24.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.++|+.|+||||.+.+++.....+-..+.++.
T Consensus         8 vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit   41 (207)
T d1okkd2           8 VVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCA   41 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             9999899999889999999999997799079998

>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=96.63  E-value=0.00057  Score=37.40  Aligned_cols=26  Identities=19%  Similarity=0.427  Sum_probs=22.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             98999289880899999999887066
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +|||.|..|.||||+|+++.+.+...
T Consensus         4 iIgI~G~~gSGKSTla~~L~~~l~~~   29 (213)
T d1uj2a_           4 LIGVSGGTASGKSSVCAKIVQLLGQN   29 (213)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCHH
T ss_conf             99998999787999999999996410

>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=96.61  E-value=0.00055  Score=37.48  Aligned_cols=25  Identities=20%  Similarity=0.335  Sum_probs=22.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             9899928988089999999988706
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|.|.|+.|.||||+|+++.++...
T Consensus         5 iI~l~G~~GsGKsTva~~L~~~l~~   29 (178)
T d1qhxa_           5 MIILNGGSSAGKSGIVRCLQSVLPE   29 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHSSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCC
T ss_conf             9999899999989999999997289

>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=96.60  E-value=0.0023  Score=33.79  Aligned_cols=34  Identities=26%  Similarity=0.275  Sum_probs=26.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++-|+|+.|.||||+|.++.......-..++|++
T Consensus        59 itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiD   92 (268)
T d1xp8a1          59 ITEIYGPESGGKTTLALAIVAQAQKAGGTCAFID   92 (268)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEE
T ss_conf             7898058765227999999999970799899998

>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=96.58  E-value=0.0028  Score=33.27  Aligned_cols=23  Identities=22%  Similarity=0.187  Sum_probs=21.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|.|.|++|.||||+|+.++++.
T Consensus         3 iI~i~GppGSGKsT~a~~La~~~   25 (194)
T d1teva_           3 VVFVLGGPGAGKGTQCARIVEKY   25 (194)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             99997999999899999999986

>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=96.58  E-value=0.013  Score=29.35  Aligned_cols=124  Identities=15%  Similarity=0.126  Sum_probs=58.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE---------------------------ECHHHHCC----CC-C---
Q ss_conf             9899928988089999999988706666039998---------------------------44001103----68-9---
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA---------------------------NVREKSEK----EG-S---   45 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~---------------------------~~~~~~~~----~~-~---   45 (1046)
                      +++|.|+.|.|||||.+.+..-.... .+.+++.                           .+.+...-    .+ +   
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~~p~-sG~I~i~g~~i~~~~~~~r~ig~v~Q~~~l~~~ltv~enl~~~~~~~~~~~~~  112 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLEEPT-EGRIYFGDRDVTYLPPKDRNISMVFQSYAVWPHMTVYENIAFPLKIKKFPKDE  112 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCS-EEEEEETTEECTTSCGGGGTEEEEEC------CCCHHHHHHTTCC--CCCHHH
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCCC-CCEEEECCEECCCCCCCCCEEEEEEECHHHCCCCHHHHHHHHHHHHCCCCHHH
T ss_conf             99999999982999999997589998-78799916413547700015899800335342220999999999873999999


Q ss_pred             HHHHHHHHHHHHH--HCCCCCCCCCC---CHHHHHHHHHCCCEEEEEEECCCC------HHHHHHHHHCCCCCCCCCEEE
Q ss_conf             8999999999874--10386434410---009999975259818999935899------688877761669879998799
Q 001603           46 VVSLQKQLLSDLL--KLADISIWNVD---DGINIIGSRLRQKKVLLVIDDVAD------VEQLQNLARKRDWFGPGSKIV  114 (1046)
Q Consensus        46 ~~~l~~~ll~~l~--~~~~~~~~~~~---~~~~~i~~~l~~k~~LlVlDdv~~------~~~l~~l~~~~~~~~~gs~Ii  114 (1046)
                      ......+++..+.  ...+..+....   +.--.+-+.|..++-++++|.--.      ..++..+...+. ...|..||
T Consensus       113 ~~~~~~~~l~~~~l~~~~~~~~~~LSGGq~QRvaiAraL~~~P~iLllDEPts~LD~~~~~~i~~ll~~l~-~~~g~tii  191 (239)
T d1v43a3         113 IDKRVRWAAELLQIEELLNRYPAQLSGGQRQRVAVARAIVVEPDVLLMDEPLSNLDAKLRVAMRAEIKKLQ-QKLKVTTI  191 (239)
T ss_dssp             HHHHHHHHHHHTTCGGGTTSCTTTCCSSCHHHHHHHHHHTTCCSEEEEESTTTTSCHHHHHHHHHHHHHHH-HHHTCEEE
T ss_pred             HHHHHHHHHHHCCCHHHHCCCHHHCCHHHHHHHHHHHHHCCCCCCEEECCCCCCCCHHHHHHHHHHHHHHH-HHCCCEEE
T ss_conf             99999999987598556609954699999889999766404998243068866689899989999999998-73198079


Q ss_pred             EEECCHHHHHHH
Q ss_conf             993883568881
Q 001603          115 ITTRDKQLLVAH  126 (1046)
Q Consensus       115 iTtR~~~~~~~~  126 (1046)
                      ++|-+-..+...
T Consensus       192 ~vTHd~~~a~~~  203 (239)
T d1v43a3         192 YVTHDQVEAMTM  203 (239)
T ss_dssp             EEESCHHHHHHH
T ss_pred             EEECCHHHHHHH
T ss_conf             994899999986

>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=96.57  E-value=0.0031  Score=33.00  Aligned_cols=122  Identities=16%  Similarity=0.259  Sum_probs=59.5

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCE-------------------EEEEEECHHHHCCCC-----------------
Q ss_conf             98999289880899999999887066660-------------------399984400110368-----------------
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDG-------------------STFLANVREKSEKEG-----------------   44 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~-------------------~~~~~~~~~~~~~~~-----------------   44 (1046)
                      ++||.|+-|.|||||.+.+....... .+                   ..++...........                 
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~~p~-~G~i~i~G~~i~~~~~~~~~~i~~vpq~~~~~~~ltv~e~l~~~~~~~~~~~~  108 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLIKPS-SGIVTVFGKNVVEEPHEVRKLISYLPEEAGAYRNMQGIEYLRFVAGFYASSSS  108 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSCCS-EEEEEETTEETTTCHHHHHTTEEEECTTCCCCTTSBHHHHHHHHHHHHCCCHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCC-CCEEEECCEECCCCHHHHHHHEEEEEECCCCCCCCCHHHHHHHHHHHCCCCHH
T ss_conf             99999999999999999996698878-88799986724468398872186750015468786677888989986179989


Q ss_pred             CHHHHHHHHHHHHH--HCCCCCCCCCCCHHH---HHHHHHCCCEEEEEEECCCC------HHHHHHHHHCCCCCCCCCEE
Q ss_conf             98999999999874--103864344100099---99975259818999935899------68887776166987999879
Q 001603           45 SVVSLQKQLLSDLL--KLADISIWNVDDGIN---IIGSRLRQKKVLLVIDDVAD------VEQLQNLARKRDWFGPGSKI  113 (1046)
Q Consensus        45 ~~~~l~~~ll~~l~--~~~~~~~~~~~~~~~---~i~~~l~~k~~LlVlDdv~~------~~~l~~l~~~~~~~~~gs~I  113 (1046)
                      ......+.++..+.  ...+..+.+...+..   .+-+.+..++=++++|..-.      ..++..+.....  ..|-.|
T Consensus       109 ~~~~~~~~~l~~~~l~~~~~~~~~~lSgG~~qrv~iA~al~~~p~illLDEPt~gLD~~~~~~i~~~i~~~~--~~g~ti  186 (238)
T d1vpla_         109 EIEEMVERATEIAGLGEKIKDRVSTYSKGMVRKLLIARALMVNPRLAILDEPTSGLDVLNAREVRKILKQAS--QEGLTI  186 (238)
T ss_dssp             HHHHHHHHHHHHHCCGGGGGSBGGGCCHHHHHHHHHHHHHTTCCSEEEEESTTTTCCHHHHHHHHHHHHHHH--HTTCEE
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHHH--HCCCEE
T ss_conf             999999999986797888850453379989899999999865999887337988979899999999999999--659989


Q ss_pred             EEEECCHHHHHH
Q ss_conf             999388356888
Q 001603          114 VITTRDKQLLVA  125 (1046)
Q Consensus       114 iiTtR~~~~~~~  125 (1046)
                      |+||-+-..+..
T Consensus       187 i~~tH~l~~~~~  198 (238)
T d1vpla_         187 LVSSHNMLEVEF  198 (238)
T ss_dssp             EEEECCHHHHTT
T ss_pred             EEEECCHHHHHH
T ss_conf             999598999999

>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=96.52  E-value=0.0039  Score=32.43  Aligned_cols=90  Identities=17%  Similarity=0.185  Sum_probs=43.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCC-CCCCCCHHHHHHHHHC
Q ss_conf             899928988089999999988706666039998440011036898999999999874103864-3441000999997525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADIS-IWNVDDGINIIGSRLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~-~~~~~~~~~~i~~~l~   80 (1046)
                      +..+|+.|+|||.+|+.+++.+-..-.. ..-.+..+....+. ...+.    .   ...+-. ..........++   +
T Consensus        56 ~lf~Gp~G~GKt~lak~la~~l~~~~~~-~~~~~~~~~~~~~~-~~~L~----g---~~~gyvG~~~~~~l~~~~~---~  123 (315)
T d1qvra3          56 FLFLGPTGVGKTELAKTLAATLFDTEEA-MIRIDMTEYMEKHA-VSRLI----G---APPGYVGYEEGGQLTEAVR---R  123 (315)
T ss_dssp             EEEBSCSSSSHHHHHHHHHHHHHSSGGG-EEEECTTTCCSSGG-GGGC---------------------CHHHHHH---H
T ss_pred             EEEECCCCCHHHHHHHHHHHHHCCCCCC-EEEEECCCCCCCHH-HHHHC----C---CCCCCCCCCCCCHHHHHHH---H
T ss_conf             9997888624899999999983588753-48873155454215-66514----8---9998767466784899998---4


Q ss_pred             CCEEEEEEECCCCH--HHHHHHHHC
Q ss_conf             98189999358996--888777616
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARK  103 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~--~~l~~l~~~  103 (1046)
                      .....++||+++..  +.+..|...
T Consensus       124 ~p~~Vvl~DEieK~~~~v~~~ll~~  148 (315)
T d1qvra3         124 RPYSVILFDEIEKAHPDVFNILLQI  148 (315)
T ss_dssp             CSSEEEEESSGGGSCHHHHHHHHHH
T ss_pred             CCCCEEEEEHHHHCCHHHHHHHHHH
T ss_conf             9983799714754078999899998

>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=96.52  E-value=0.0016  Score=34.75  Aligned_cols=22  Identities=27%  Similarity=0.472  Sum_probs=19.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +++|+|+.|.|||||++.+..-
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCCHHHHHHHHHHCC
T ss_conf             9999999998599999998621

>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=96.51  E-value=0.0068  Score=30.97  Aligned_cols=34  Identities=24%  Similarity=0.269  Sum_probs=25.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.++|+.|+||||.+.+++.+...+-..+.++.
T Consensus        13 vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit   46 (213)
T d1vmaa2          13 VIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAA   46 (213)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             9999899999889999999999997799069996

>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=96.50  E-value=0.0009  Score=36.20  Aligned_cols=23  Identities=30%  Similarity=0.385  Sum_probs=20.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             89992898808999999998870
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.|.|++|.||||+|+.++++..
T Consensus         8 I~i~G~~GsGKTT~~~~La~~l~   30 (174)
T d1y63a_           8 ILITGTPGTGKTSMAEMIAAELD   30 (174)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEEECCCCCHHHHHHHHHHHHC
T ss_conf             99982899988999999999858

>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=96.49  E-value=0.00098  Score=35.99  Aligned_cols=28  Identities=36%  Similarity=0.406  Sum_probs=24.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCC
Q ss_conf             9899928988089999999988706666
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFD   28 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~   28 (1046)
                      +|||.|..|.||||+|+.+...++..+.
T Consensus        82 iIGIaG~sgSGKSTla~~L~~lL~~~~~  109 (308)
T d1sq5a_          82 IISIAGSVAVGKSTTARVLQALLSRWPE  109 (308)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHTTSTT
T ss_pred             EEEEECCCCCCCCHHHHHHHHHHHHHCC
T ss_conf             9999689999876899999999730468

>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=96.49  E-value=0.00078  Score=36.59  Aligned_cols=22  Identities=32%  Similarity=0.300  Sum_probs=19.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +|.|.|++|.||||+|+++..+
T Consensus         4 lIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           4 IILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             9999899999999999999995

>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=96.48  E-value=0.0012  Score=35.40  Aligned_cols=22  Identities=36%  Similarity=0.667  Sum_probs=19.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      .|+|+|+.|.|||||++.+..-
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999999899999999735

>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=96.47  E-value=0.0038  Score=32.48  Aligned_cols=23  Identities=35%  Similarity=0.475  Sum_probs=20.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|+.|.|||||++.+...+
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99999899982999999995797

>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=96.47  E-value=0.0017  Score=34.51  Aligned_cols=91  Identities=18%  Similarity=0.110  Sum_probs=46.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCC-----CCC-C-----C
Q ss_conf             8999289880899999999887066660399984400110368989999999998741038643-----441-0-----0
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISI-----WNV-D-----D   70 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~-----~~~-~-----~   70 (1046)
                      ++|.|..|+|||+|+.........+...++|.. +.+-.   ..+.++.+++...=.......+     ... .     .
T Consensus        70 ~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~~-iGer~---~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~  145 (276)
T d1fx0a3          70 ELIIGDRQTGKTAVATDTILNQQGQNVICVYVA-IGQKA---SSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPY  145 (276)
T ss_dssp             CBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEE-ESCCH---HHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHH
T ss_pred             EEECCCCCCCHHHHHHHHHHHHCCCCCEEEEEE-ECCHH---HHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHH
T ss_conf             760067788857999997765404675355555-22126---77889998511577503310012346765999999999


Q ss_pred             HHHHHHHHH--CCCEEEEEEECCCCHHH
Q ss_conf             099999752--59818999935899688
Q 001603           71 GINIIGSRL--RQKKVLLVIDDVADVEQ   96 (1046)
Q Consensus        71 ~~~~i~~~l--~~k~~LlVlDdv~~~~~   96 (1046)
                      ....+-+++  +++.+|+++||+-...+
T Consensus       146 ~a~tiAEyfrd~G~~Vlll~Dsltr~A~  173 (276)
T d1fx0a3         146 TGAALAEYFMYRERHTLIIYDDLSKQAQ  173 (276)
T ss_dssp             HHHHHHHHHHHTTCEEEEEEECHHHHHH
T ss_pred             HHHHHHHHHHHCCCCEEEEEECCHHHHH
T ss_conf             9998888999759964577505389999

>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=96.45  E-value=0.0042  Score=32.25  Aligned_cols=91  Identities=20%  Similarity=0.221  Sum_probs=44.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-CCEEEEEEECHHHHCCCCCHHHHHHHHHHHHH-HCCCCCCCC---CCCHHHHHH
Q ss_conf             8999289880899999999887066-66039998440011036898999999999874-103864344---100099999
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-FDGSTFLANVREKSEKEGSVVSLQKQLLSDLL-KLADISIWN---VDDGINIIG   76 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~-~~~~~~~~~---~~~~~~~i~   76 (1046)
                      ++|.|..|+|||+|+.++.+....+ -..++++..+.+..+.   +.+........+. ...+.....   .......+-
T Consensus        46 ~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~iger~~e---v~~~~~~~~~~vv~~t~d~~~~~r~~~~~~a~~iA  122 (289)
T d1xpua3          46 GLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERPEE---VTEMQRLVKGEVVASTFDEPASRHVQVAEMVIEKA  122 (289)
T ss_dssp             EEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEEECHHH---HHHHHHHCSSEEEEEETTSCHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECEEHHH---HHHHHHHCCEEEEECCCCCCHHHHHHHHHHHHHHH
T ss_conf             568679998878999999997751589769998761100878---87677540507996058883567899999999999


Q ss_pred             HHH--CCCEEEEEEECCCCHH
Q ss_conf             752--5981899993589968
Q 001603           77 SRL--RQKKVLLVIDDVADVE   95 (1046)
Q Consensus        77 ~~l--~~k~~LlVlDdv~~~~   95 (1046)
                      +++  +++.||+++||+-...
T Consensus       123 Eyfrd~G~dVLli~Dsltr~A  143 (289)
T d1xpua3         123 KRLVEHKKDVIILLDSITRLA  143 (289)
T ss_dssp             HHHHTTTCEEEEEESCHHHHH
T ss_pred             HHHHHHCCCCEEECCCHHHHH
T ss_conf             999982657515517689999

>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=96.45  E-value=0.00087  Score=36.30  Aligned_cols=25  Identities=20%  Similarity=0.353  Sum_probs=21.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             9899928988089999999988706
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      ++.|.|+.|.||||+|+++.++...
T Consensus         8 iivl~G~~GsGKsT~a~~La~~l~~   32 (171)
T d1knqa_           8 IYVLMGVSGSGKSAVASEVAHQLHA   32 (171)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             8999899998989999999998697

>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=96.43  E-value=0.0018  Score=34.45  Aligned_cols=33  Identities=15%  Similarity=0.284  Sum_probs=25.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             989992898808999999998870666603999
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFL   33 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~   33 (1046)
                      +|.|.|+.|.||||+++.+.+...........+
T Consensus         3 iivi~G~~GsGKTT~~~~La~~L~~~~~~~~~~   35 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEILDNQGINNKII   35 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHTTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             999989899898999999999998769988999

>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=96.39  E-value=0.0017  Score=34.63  Aligned_cols=33  Identities=21%  Similarity=0.013  Sum_probs=25.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             989992898808999999998870666603999
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFL   33 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~   33 (1046)
                      +++|+|..|.|||||+.++...++.+-..+..+
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vi   35 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTV   35 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             999980999989999999999998679837999

>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=96.39  E-value=0.014  Score=29.20  Aligned_cols=21  Identities=33%  Similarity=0.445  Sum_probs=19.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +++|.|+.|.|||||.+.+..
T Consensus        28 i~~liGpsGsGKSTLl~~i~G   48 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAG   48 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHT
T ss_pred             EEEEECCCCCHHHHHHHHHHC
T ss_conf             999998999829999999965

>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=96.32  E-value=0.018  Score=28.43  Aligned_cols=22  Identities=27%  Similarity=0.311  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.++++.
T Consensus         9 IiliG~PGSGKtT~a~~La~~~   30 (189)
T d2ak3a1           9 AAIMGAPGSGKGTVSSRITKHF   30 (189)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHB
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9998899998799999999997

>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=96.27  E-value=0.0028  Score=33.29  Aligned_cols=34  Identities=18%  Similarity=0.257  Sum_probs=24.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.+.|-||+||||+|..++...+.+-..+..++
T Consensus        10 ~i~~sGKGGVGKTTvaa~lA~~lA~~G~rVLlvD   43 (296)
T d1ihua1          10 YLFFTGKGGVGKTSISCATAIRLAEQGKRVLLVS   43 (296)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             9999799867499999999999997899789995

>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=96.23  E-value=0.0026  Score=33.47  Aligned_cols=10  Identities=10%  Similarity=-0.044  Sum_probs=3.4

Q ss_pred             HCCCCCEECC
Q ss_conf             0245570113
Q 001603          768 SLFNLGQLDL  777 (1046)
Q Consensus       768 ~l~~L~~L~L  777 (1046)
                      ..++|+.|++
T Consensus       130 ~n~~L~~L~l  139 (166)
T d1io0a_         130 KNTTLLKFGY  139 (166)
T ss_dssp             HCSSCCEEEC
T ss_pred             HCCCCCEEEC
T ss_conf             4998478858

>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=96.23  E-value=0.0013  Score=35.23  Aligned_cols=21  Identities=33%  Similarity=0.450  Sum_probs=18.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      .++|+|+.|.|||||++.+..
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
T ss_conf             999988999809999999971

>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=96.23  E-value=0.004  Score=32.33  Aligned_cols=90  Identities=20%  Similarity=0.155  Sum_probs=44.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC-------CC-EEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCC-CCCC--
Q ss_conf             8999289880899999999887066-------66-03999844001103689899999999987410386434-4100--
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE-------FD-GSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIW-NVDD--   70 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~-------f~-~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~-~~~~--   70 (1046)
                      ++|.|.+|+|||+++..+.......       -. .++|. -+.+-   ...+.++.+.+...-.....+.+. ..++  
T Consensus        71 ~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~-~IGer---~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~  146 (285)
T d2jdia3          71 ELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYV-AIGQK---RSTVAQLVKRLTDADAMKYTIVVSATASDAA  146 (285)
T ss_dssp             CEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEE-EESCC---HHHHHHHHHHHHHTTCGGGEEEEEECTTSCH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEE-EECCC---HHHHHHHHHHHCCCCCCCCEEEEEECCCCCH
T ss_conf             8765688888589999999757764156544563289996-30763---8789999998614561200499997899999


Q ss_pred             H--------HHHHHHHH--CCCEEEEEEECCCCHH
Q ss_conf             0--------99999752--5981899993589968
Q 001603           71 G--------INIIGSRL--RQKKVLLVIDDVADVE   95 (1046)
Q Consensus        71 ~--------~~~i~~~l--~~k~~LlVlDdv~~~~   95 (1046)
                      .        ...+-+++  ++|.||+++||+-...
T Consensus       147 ~~r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~A  181 (285)
T d2jdia3         147 PLQYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQA  181 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCEEEEEEETHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHCCCCEEEEECCHHHHH
T ss_conf             99999999999999999976996799971728999

>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=96.22  E-value=0.0027  Score=33.33  Aligned_cols=34  Identities=21%  Similarity=0.342  Sum_probs=23.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      .|+|+|-||+||||+|..++..+...-..+..++
T Consensus         4 ~IaisgKGGVGKTT~a~NLA~~LA~~G~rVLlID   37 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNLVAALAEMGKKVMIVG   37 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             8999899987799999999999997899789995

>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=96.22  E-value=0.0024  Score=33.65  Aligned_cols=34  Identities=24%  Similarity=0.275  Sum_probs=23.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.++|-||+||||+|..++.....+-..+..++
T Consensus        22 iii~sGKGGVGKTT~a~nLA~~lA~~G~rVllvD   55 (279)
T d1ihua2          22 LIMLMGKGGVGKTTMAAAIAVRLADMGFDVHLTT   55 (279)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             9999799988789999999999997899389993

>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=96.21  E-value=0.0019  Score=34.25  Aligned_cols=27  Identities=19%  Similarity=0.306  Sum_probs=22.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             989992898808999999998870666
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      +|||.|..|.||||+|..+...+...+
T Consensus        29 iIGi~G~qGSGKSTl~~~l~~~L~~~~   55 (286)
T d1odfa_          29 FIFFSGPQGSGKSFTSIQIYNHLMEKY   55 (286)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHH
T ss_conf             998379987889999999999999872

>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=96.20  E-value=0.0014  Score=35.00  Aligned_cols=24  Identities=29%  Similarity=0.444  Sum_probs=21.9

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      ||+|-||+|.||||+|+.+.++..
T Consensus         5 iI~I~GppGSGKgT~ak~La~~~g   28 (225)
T d1ckea_           5 VITIDGPSGAGKGTLCKAMAEALQ   28 (225)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             899779998898999999999969

>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=96.18  E-value=0.0017  Score=34.55  Aligned_cols=34  Identities=21%  Similarity=0.164  Sum_probs=24.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCC-EEEEEE
Q ss_conf             9899928988089999999988706666-039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFD-GSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~-~~~~~~   34 (1046)
                      +|.+.|++|.||||+|+++..++..... ...+++
T Consensus        26 vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~ld   60 (208)
T d1m7ga_          26 TIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRLD   60 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEC
T ss_conf             99998999999899999999887774275089975

>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=96.16  E-value=0.002  Score=34.14  Aligned_cols=29  Identities=28%  Similarity=0.277  Sum_probs=23.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCE
Q ss_conf             98999289880899999999887066660
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDG   29 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~   29 (1046)
                      .|.|.|++|+|||||++++.++....|..
T Consensus         2 pIvl~GPsGsGK~tl~~~L~~~~~~~~~~   30 (190)
T d1lvga_           2 PVVLSGPSGAGKSTLLKKLFQEHSSIFGF   30 (190)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHHTTTEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCEEE
T ss_conf             19999999999999999999748876057

>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=96.15  E-value=0.0016  Score=34.78  Aligned_cols=24  Identities=25%  Similarity=0.314  Sum_probs=21.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|.|-|++|.||||+|+.+.++..
T Consensus         5 ~IaIdGp~GsGKgT~ak~La~~lg   28 (223)
T d1q3ta_           5 QIAIDGPASSGKSTVAKIIAKDFG   28 (223)
T ss_dssp             EEEEECSSCSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             999789998798999999999969

>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=96.13  E-value=0.0021  Score=34.06  Aligned_cols=31  Identities=29%  Similarity=0.326  Sum_probs=24.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEE
Q ss_conf             9899928988089999999988706666039
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGST   31 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~   31 (1046)
                      .|.|.|++|+|||||++++.++....|...+
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~~~~~~~~~~   33 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAEYPDSFGFSV   33 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHHCTTTEEECC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCCCCEEEEE
T ss_conf             6999899999989999999974886624777

>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=96.10  E-value=0.0011  Score=35.77  Aligned_cols=23  Identities=30%  Similarity=0.411  Sum_probs=20.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|.|.|+.|.||||+|+++.++.
T Consensus         6 iI~l~G~~GsGKSTia~~La~~l   28 (176)
T d1zp6a1           6 ILLLSGHPGSGKSTIAEALANLP   28 (176)
T ss_dssp             EEEEEECTTSCHHHHHHHHHTCS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             99998899998899999999995

>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=96.00  E-value=0.0037  Score=32.55  Aligned_cols=34  Identities=26%  Similarity=0.263  Sum_probs=25.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|||.|++|.|||||..++..........+..+.
T Consensus        56 ~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavla   89 (327)
T d2p67a1          56 RLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIA   89 (327)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEC
T ss_conf             8974389999899999999999975698332203

>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=96.00  E-value=0.027  Score=27.47  Aligned_cols=22  Identities=32%  Similarity=0.267  Sum_probs=19.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.++++.
T Consensus         5 Ivl~G~pGSGKtT~a~~La~~~   26 (180)
T d1akya1           5 MVLIGPPGAGKGTQAPNLQERF   26 (180)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9998999999899999999996

>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=95.98  E-value=0.027  Score=27.39  Aligned_cols=22  Identities=23%  Similarity=0.264  Sum_probs=19.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +|.++|++|.||||+|+++...
T Consensus        16 liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          16 VVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             EEEEECCTTSSHHHHHHHHTGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             9999899999899999999976

>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=95.97  E-value=0.0041  Score=32.31  Aligned_cols=32  Identities=25%  Similarity=0.373  Sum_probs=23.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC-CCCEEEE
Q ss_conf             9899928988089999999988706-6660399
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH-EFDGSTF   32 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~-~f~~~~~   32 (1046)
                      +|||.|++|.|||||..++...+.. .....+.
T Consensus        53 ~igitG~pGaGKSTli~~l~~~~~~~g~~vaVi   85 (323)
T d2qm8a1          53 RVGITGVPGVGKSTTIDALGSLLTAAGHKVAVL   85 (323)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             986117998889999999999876368751344

>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=95.88  E-value=0.0049  Score=31.83  Aligned_cols=34  Identities=21%  Similarity=0.201  Sum_probs=29.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             9899928988089999999988706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      ++.|+|++|+|||++|.++......+...+.|+.
T Consensus        28 l~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is   61 (242)
T d1tf7a2          28 IILATGATGTGKTLLVSRFVENACANKERAILFA   61 (242)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHCCCCCEEE
T ss_conf             9999918999999999999999987232441121

>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=95.84  E-value=0.012  Score=29.55  Aligned_cols=22  Identities=27%  Similarity=0.333  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.++++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1s3ga1           3 IVLMGLPGAGKGTQADRIVEKY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9998899998799999999987

>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=95.81  E-value=0.0037  Score=32.57  Aligned_cols=24  Identities=21%  Similarity=0.098  Sum_probs=21.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      .|.|.|+.|.||||+|+.+.++..
T Consensus         5 ~I~i~GppGsGKsT~a~~La~~~~   28 (189)
T d1zaka1           5 KVMISGAPASGKGTQCELIKTKYQ   28 (189)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHC
T ss_conf             999988999998999999999879

>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=95.71  E-value=0.0093  Score=30.17  Aligned_cols=33  Identities=18%  Similarity=0.258  Sum_probs=25.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             989992898808999999998870666603999
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFL   33 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~   33 (1046)
                      +|+|.|+-|.||||+++.+.+.+..+.-.+.++
T Consensus         5 lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v~~~   37 (209)
T d1nn5a_           5 LIVLEGVDRAGKSTQSRKLVEALCAAGHRAELL   37 (209)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEE
T ss_conf             999989988899999999999998779968999

>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=95.67  E-value=0.019  Score=28.37  Aligned_cols=10  Identities=20%  Similarity=0.424  Sum_probs=4.5

Q ss_pred             CCCEEEEEEC
Q ss_conf             9987999938
Q 001603          109 PGSKIVITTR  118 (1046)
Q Consensus       109 ~gs~IiiTtR  118 (1046)
                      .|+|+-++-.
T Consensus       105 ~G~Rv~~v~~  114 (323)
T d1g6oa_         105 NGERVQIVLS  114 (323)
T ss_dssp             TSCEEEEECT
T ss_pred             CCEEEEEECC
T ss_conf             8538998246

>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=95.67  E-value=0.0026  Score=33.52  Aligned_cols=30  Identities=13%  Similarity=0.263  Sum_probs=24.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEE
Q ss_conf             989992898808999999998870666603
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGS   30 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~   30 (1046)
                      +|.|.||+|+|||||++++.++....|...
T Consensus         5 ~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~   34 (178)
T d1kgda_           5 TLVLLGAHGVGRRHIKNTLITKHPDRFAYP   34 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHCTTTEECC
T ss_pred             CEEEECCCCCCHHHHHHHHHHHCCCCEEEC
T ss_conf             199999899999999999997097676523

>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=95.62  E-value=0.006  Score=31.31  Aligned_cols=29  Identities=24%  Similarity=0.308  Sum_probs=23.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCE
Q ss_conf             98999289880899999999887066660
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDG   29 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~   29 (1046)
                      ||+|.|+.|.|||||..++.+........
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~~~~~~~~   30 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRYLEDNYKV   30 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHTTTSCE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCEE
T ss_conf             89999189983999999999988438768

>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=95.60  E-value=0.0091  Score=30.24  Aligned_cols=92  Identities=17%  Similarity=0.295  Sum_probs=46.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEE---CHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHH
Q ss_conf             98999289880899999999887066660399984---400110368989999999998741038643441000999997
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEFDGSTFLAN---VREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGS   77 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~---~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~   77 (1046)
                      +|.|.|++|.||||+|+.+.++.  .|   .++..   +|.........    .....+.......  ...+.....+++
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~~--g~---~~is~g~llr~~~~~~~~~----~~~~~~~~~~~~~--~~~~~~~~~~~~   78 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQKY--GY---THLSTGDLLRAEVSSGSAR----GKMLSEIMEKGQL--VPLETVLDMLRD   78 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHT--CC---EEEEHHHHHHHHHHHTCHH----HHHHHHHHTTTCC--CCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH--CC---EEEECCHHHHHHHHHHHHH----HHHHHHHHHHCCC--CCHHEEEEEHHH
T ss_conf             89998999998799999999986--98---4683347899999876765----1456777763137--762224410245


Q ss_pred             HHCC---CEEEEEEECC-CCHHHHHHHHHC
Q ss_conf             5259---8189999358-996888777616
Q 001603           78 RLRQ---KKVLLVIDDV-ADVEQLQNLARK  103 (1046)
Q Consensus        78 ~l~~---k~~LlVlDdv-~~~~~l~~l~~~  103 (1046)
                      ++..   ..--+|+|+. -+..|.+.+...
T Consensus        79 ~l~~~~~~~~g~ildg~pr~~~qa~~~~~~  108 (194)
T d3adka_          79 AMVAKVDTSKGFLIDGYPREVKQGEEFERK  108 (194)
T ss_dssp             HHHTTTTTCSCEEEESCCSSHHHHHHHHHH
T ss_pred             HHHHCCCCCCCCEEEECCCHHHHHHHHHHH
T ss_conf             664032235660243111015789999998

>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=95.59  E-value=0.0034  Score=32.78  Aligned_cols=21  Identities=38%  Similarity=0.528  Sum_probs=18.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +|||+|+.|.||||+|..+-+
T Consensus         5 IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           5 IIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
T ss_conf             999989887789999999998

>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=95.58  E-value=0.005  Score=31.77  Aligned_cols=22  Identities=27%  Similarity=0.321  Sum_probs=20.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.++++.
T Consensus         3 I~i~G~pGSGKsT~a~~La~~~   24 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAAY   24 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9998899999899999999987

>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=95.53  E-value=0.0051  Score=31.71  Aligned_cols=22  Identities=27%  Similarity=0.238  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.++++.
T Consensus         3 I~i~G~pGsGKsT~a~~La~~~   24 (181)
T d2cdna1           3 VLLLGPPGAGKGTQAVKLAEKL   24 (181)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9998899999799999999998

>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=95.52  E-value=0.0041  Score=32.27  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=20.9

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|.|.|++|+|||||++++.++..
T Consensus         4 iivl~GpsG~GK~tl~~~L~~~~~   27 (182)
T d1znwa1           4 VVVLSGPSAVGKSTVVRCLRERIP   27 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHST
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             999989999999999999984589

>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=95.51  E-value=0.005  Score=31.78  Aligned_cols=25  Identities=32%  Similarity=0.203  Sum_probs=20.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             8999289880899999999887066
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      +.++||+|+|||++|.++++.....
T Consensus       157 ~~~~g~~~~gk~~~~~~~~~~~~~~  181 (362)
T d1svma_         157 WLFKGPIDSGKTTLAAALLELCGGK  181 (362)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHCCE
T ss_pred             EEEECCCCCCHHHHHHHHHHHCCCC
T ss_conf             9998999988899999999985997

>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=95.47  E-value=0.0026  Score=33.51  Aligned_cols=26  Identities=19%  Similarity=0.415  Sum_probs=22.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             98999289880899999999887066
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      ||||.|.+|.||||+|+++.+.++..
T Consensus         6 IIgIaG~SGSGKTTva~~l~~i~~~~   31 (288)
T d1a7ja_           6 IISVTGSSGAGTSTVKHTFDQIFRRE   31 (288)
T ss_dssp             EEEEESCC---CCTHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHC
T ss_conf             99998999780999999999997156

>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=95.46  E-value=0.013  Score=29.27  Aligned_cols=22  Identities=27%  Similarity=0.163  Sum_probs=19.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|.|++|.||||+|+.++++.
T Consensus         6 iil~G~pGSGKsT~a~~La~~~   27 (190)
T d1ak2a1           6 AVLLGPPGAGKGTQAPKLAKNF   27 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
T ss_conf             9998999998899999999986

>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=95.23  E-value=0.01  Score=29.94  Aligned_cols=27  Identities=26%  Similarity=0.307  Sum_probs=23.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             989992898808999999998870666
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      +|+|-|+-|.||||+++.+.+.+..+.
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g   28 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAG   28 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             899989987899999999999998789

>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=95.16  E-value=0.011  Score=29.75  Aligned_cols=34  Identities=24%  Similarity=0.248  Sum_probs=25.2

Q ss_pred             CEEEE-CCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             98999-28988089999999988706666039998
Q 001603            1 MMGIW-GMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~-G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.|+ |-||+||||+|..++..++..-..+..++
T Consensus         3 vIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD   37 (232)
T d1hyqa_           3 TITVASGKGGTGKTTITANLGVALAQLGHDVTIVD   37 (232)
T ss_dssp             EEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             99997999998099999999999996899899995

>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=95.13  E-value=0.0065  Score=31.10  Aligned_cols=24  Identities=17%  Similarity=0.223  Sum_probs=21.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      ++.|.||+|+|||||.+.+.++..
T Consensus         4 livi~GPSG~GK~tl~~~L~~~~p   27 (205)
T d1s96a_           4 LYIVSAPSGAGKSSLIQALLKTQP   27 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             999999999999999999986398

>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=95.13  E-value=0.011  Score=29.65  Aligned_cols=34  Identities=24%  Similarity=0.251  Sum_probs=25.7

Q ss_pred             CEEEE-CCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             98999-28988089999999988706666039998
Q 001603            1 MMGIW-GMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~-G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +|.|+ +-||+||||+|..++...+..-..+..++
T Consensus         4 vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD   38 (237)
T d1g3qa_           4 IISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVD   38 (237)
T ss_dssp             EEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             EEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             99998999988199999999999996899899994

>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=95.11  E-value=0.0031  Score=32.98  Aligned_cols=23  Identities=30%  Similarity=0.089  Sum_probs=20.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|+|.|.-|+||||+++.+.+..
T Consensus        11 ~I~ieG~~GsGKTTl~~~L~~~l   33 (197)
T d2vp4a1          11 TVLIEGNIGSGKTTYLNHFEKYK   33 (197)
T ss_dssp             EEEEECSTTSCHHHHHHTTGGGT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             99988999988899999999870

>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=95.04  E-value=0.033  Score=26.90  Aligned_cols=24  Identities=21%  Similarity=0.176  Sum_probs=20.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      ++.|+|++|.|||++|.++.....
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~~~   62 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVTAQ   62 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             999988998878899999999997

>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=95.00  E-value=0.0097  Score=30.08  Aligned_cols=23  Identities=22%  Similarity=0.187  Sum_probs=20.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             89992898808999999998870
Q 001603            2 MGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      |.|.|++|.||||+|+.++++..
T Consensus         3 I~i~G~pGSGKsT~~~~La~~~~   25 (179)
T d1e4va1           3 IILLGAPVAGKGTQAQFIMEKYG   25 (179)
T ss_dssp             EEEEESTTSSHHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHC
T ss_conf             99987999998999999999869

>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=94.87  E-value=0.0075  Score=30.75  Aligned_cols=125  Identities=15%  Similarity=0.166  Sum_probs=59.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCC-----C------------------CEEEEEE-EC--------HHHHC----CCC
Q ss_conf             98999289880899999999887066-----6------------------6039998-44--------00110----368
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE-----F------------------DGSTFLA-NV--------REKSE----KEG   44 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~-----f------------------~~~~~~~-~~--------~~~~~----~~~   44 (1046)
                      +++|.|+.|.||||+++.++.-....     +                  ....++. +.        .+...    -.+
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~~p~sG~I~~~g~~i~~~~~~~~~~~~~r~ig~v~Q~~~L~~~ltV~eni~~~~~~~~  110 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLEEPSRGQIYIGDKLVADPEKGIFVPPKDRDIAMVFQSYALYPHMTVYDNIAFPLKLRK  110 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSSCCSEEEEEETTEEEEEGGGTEECCGGGSSEEEECSCCCCCTTSCHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCHHHHHHHHHHCCCCCCCCEEEECCEEECCCCHHHHCCCCCCCCEECCCCHHHCCHHHHHHHHHHHHHHCC
T ss_conf             99999999980999999996487889898999999803566444245322551200221222310116676330687729


Q ss_pred             -C---HHHHHHHHHHHHH--HCCCCCCCCCCCH---HHHHHHHHCCCEEEEEEECCC----CH--HHHHHHHHCCCCCCC
Q ss_conf             -9---8999999999874--1038643441000---999997525981899993589----96--888777616698799
Q 001603           45 -S---VVSLQKQLLSDLL--KLADISIWNVDDG---INIIGSRLRQKKVLLVIDDVA----DV--EQLQNLARKRDWFGP  109 (1046)
Q Consensus        45 -~---~~~l~~~ll~~l~--~~~~~~~~~~~~~---~~~i~~~l~~k~~LlVlDdv~----~~--~~l~~l~~~~~~~~~  109 (1046)
                       +   ......+++..+.  ...+..+....-|   --.|-+.|..++-++++|.--    -.  .++..+...+. ...
T Consensus       111 ~~~~e~~~~v~~~l~~~~l~~~~~~~p~~LSGGqkQRv~IAraL~~~P~iLllDEPt~~LD~~~~~~i~~~l~~l~-~~~  189 (240)
T d1g2912         111 VPRQEIDQRVREVAELLGLTELLNRKPRELSGGQRQRVALGRAIVRKPQVFLMDEPLSNLDAKLRVRMRAELKKLQ-RQL  189 (240)
T ss_dssp             CCHHHHHHHHHHHHHHHTCGGGTTCCGGGSCHHHHHHHHHHHHHHTCCSEEEEECTTTTSCHHHHHHHHHHHHHHH-HHH
T ss_pred             CCHHHHHHHHHHHHHHCCCHHHHCCCHHHCCHHHHHHHHHHHHHHCCCCEEEECCCCCCCCHHHHHHHHHHHHHHH-HCC
T ss_conf             9989999999999987599667629933499999999999999826998898258876569899989999999998-636


Q ss_pred             CCEEEEEECCHHHHHHH
Q ss_conf             98799993883568881
Q 001603          110 GSKIVITTRDKQLLVAH  126 (1046)
Q Consensus       110 gs~IiiTtR~~~~~~~~  126 (1046)
                      |..||++|-+-..+...
T Consensus       190 g~tvi~vTHd~~~~~~~  206 (240)
T d1g2912         190 GVTTIYVTHDQVEAMTM  206 (240)
T ss_dssp             TCEEEEEESCHHHHHHH
T ss_pred             CCEEEEECCCHHHHHHH
T ss_conf             98899995999999996

>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=94.66  E-value=0.021  Score=28.05  Aligned_cols=34  Identities=21%  Similarity=0.299  Sum_probs=24.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCC------CCEEEEEE
Q ss_conf             98999289880899999999887066------66039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE------FDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~------f~~~~~~~   34 (1046)
                      ++.|+|++|.||||+|.++......+      .....|+.
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~   77 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWID   77 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHCHHHHCCCCCEEEEEE
T ss_conf             9999858989889999999998634487638896289983

>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=94.64  E-value=0.0094  Score=30.16  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=20.5

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|+.|.|||||.+.+...+
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99999999971999999996620

>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=94.60  E-value=0.0087  Score=30.34  Aligned_cols=23  Identities=35%  Similarity=0.446  Sum_probs=20.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|+.|.|||||++.+..-.
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl~   52 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFLE   52 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99999899982999999997476

>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=94.58  E-value=0.0077  Score=30.67  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=18.9

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +++|.|+.|.|||||.+.+..
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~g   53 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGC   53 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCCCHHHHHCCC
T ss_conf             999988999982165575068

>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=94.57  E-value=0.0076  Score=30.71  Aligned_cols=23  Identities=39%  Similarity=0.575  Sum_probs=20.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|+.|.|||||++.++.-.
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl~   55 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLLE   55 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHCCCC
T ss_conf             99998999898889999875886

>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=94.51  E-value=0.014  Score=29.11  Aligned_cols=52  Identities=23%  Similarity=0.240  Sum_probs=33.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCC---CCCHHHHHHHHHHHH
Q ss_conf             89992898808999999998870666603999844001103---689899999999987
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEK---EGSVVSLQKQLLSDL   57 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~---~~~~~~l~~~ll~~l   57 (1046)
                      |.+.||.|+|||-||+.++..+.-.    ++..+.....+.   ..++..+.++++...
T Consensus        52 ILliGPTGvGKTlLAr~LAk~l~VP----Fv~~daT~fTeaGYvG~DVesii~~L~~~a  106 (443)
T d1g41a_          52 ILMIGPTGVGKTEIARRLAKLANAP----FIKVEATKFTEVGYVGKEVDSIIRDLTDSA  106 (443)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHTTCC----EEEEEGGGGC----CCCCTHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCC----EEEEECCEEEECCEEECCHHHHHHHHHHHH
T ss_conf             7998999988999999999873898----898625511411111044457899999987

>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=94.49  E-value=0.011  Score=29.70  Aligned_cols=20  Identities=30%  Similarity=0.350  Sum_probs=17.7

Q ss_pred             CEEEECCCCCCHHHHHHHHH
Q ss_conf             98999289880899999999
Q 001603            1 MMGIWGMGGLGKTTLARVAY   20 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~   20 (1046)
                      +|||+|+.|.||||+|+.+-
T Consensus         5 iIgitG~igSGKStv~~~l~   24 (208)
T d1vhta_           5 IVALTGGIGSGKSTVANAFA   24 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             99978988688999999999

>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=94.47  E-value=0.021  Score=28.10  Aligned_cols=31  Identities=29%  Similarity=0.268  Sum_probs=24.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEE
Q ss_conf             8999289880899999999887066660399
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTF   32 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~   32 (1046)
                      |.|-|+-|+||||+++.+.+....+.....+
T Consensus         9 I~iEG~iGsGKSTl~~~L~~~l~~~~~v~~~   39 (333)
T d1p6xa_           9 IYLDGVYGIGKSTTGRVMASAASGGSPTLYF   39 (333)
T ss_dssp             EEEECSTTSSHHHHHHHHHSGGGCSSCEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEE
T ss_conf             9998886678999999999986569976998

>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=94.44  E-value=0.084  Score=24.49  Aligned_cols=20  Identities=25%  Similarity=0.253  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||+|++++.+
T Consensus         3 v~vvG~~~vGKTsLi~r~~~   22 (164)
T d1yzqa1           3 LVFLGEQSVGKTSLITRFMY   22 (164)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899098999999984

>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=94.28  E-value=0.013  Score=29.28  Aligned_cols=27  Identities=26%  Similarity=0.395  Sum_probs=23.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCCC
Q ss_conf             989992898808999999998870666
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHEF   27 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~f   27 (1046)
                      +|+|-|+-|.||||+++.+.+.+..++
T Consensus         5 ~I~iEG~DGsGKST~~~~L~~~L~~~~   31 (214)
T d1tmka_           5 LILIEGLDRTGKTTQCNILYKKLQPNC   31 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTTSE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCC
T ss_conf             999989988869999999999997197

>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=94.26  E-value=0.092  Score=24.26  Aligned_cols=84  Identities=13%  Similarity=0.055  Sum_probs=41.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC-CCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCC-----C-CCHHH
Q ss_conf             989992898808999999998870-6666039998440011036898999999999874103864344-----1-00099
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS-HEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWN-----V-DDGIN   73 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~-~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~-----~-~~~~~   73 (1046)
                      ++.|.|.+|+||||++.++...+. .+-..+.|+. ..     . +...+...++.............     . .....
T Consensus        37 l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s-~E-----~-~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (277)
T d1cr2a_          37 VIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAM-LE-----E-SVEETAEDLIGLHNRVRLRQSDSLKREIIENGKFD  109 (277)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEE-SS-----S-CHHHHHHHHHHHHTTCCGGGCHHHHHHHHHTSHHH
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEE-EC-----C-CHHHHHHHHHHHHHCCCCHHHCCCCCCHHHHHHHH
T ss_conf             89999479997999999999726553366345764-01-----1-11357769999864587101012222214567788


Q ss_pred             HHHHHHCCCEEEEEEECC
Q ss_conf             999752598189999358
Q 001603           74 IIGSRLRQKKVLLVIDDV   91 (1046)
Q Consensus        74 ~i~~~l~~k~~LlVlDdv   91 (1046)
                      .+.+.+..+..+.+.|..
T Consensus       110 ~~~~~~~~~~~~~~~~~~  127 (277)
T d1cr2a_         110 QWFDELFGNDTFHLYDSF  127 (277)
T ss_dssp             HHHHHHHSSSCEEEECCC
T ss_pred             HHHHHHHCCCEEEEECCC
T ss_conf             898874035214662143

>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=94.21  E-value=0.012  Score=29.48  Aligned_cols=20  Identities=40%  Similarity=0.517  Sum_probs=17.8

Q ss_pred             CEEEECCCCCCHHHHHHHHH
Q ss_conf             98999289880899999999
Q 001603            1 MMGIWGMGGLGKTTLARVAY   20 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~   20 (1046)
                      +|||+|..|.||||+|+.+-
T Consensus         4 iIgITG~igSGKStv~~~l~   23 (205)
T d1jjva_           4 IVGLTGGIGSGKTTIANLFT   23 (205)
T ss_dssp             EEEEECSTTSCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH
T ss_conf             99988888788999999999

>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=94.17  E-value=0.026  Score=27.57  Aligned_cols=33  Identities=12%  Similarity=-0.039  Sum_probs=24.5

Q ss_pred             EEEECCC-CCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             8999289-88089999999988706666039998
Q 001603            2 MGIWGMG-GLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 i~I~G~g-GiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      +.|.|.| |+||||++..++..++.+-..+.+++
T Consensus         4 ~~i~gt~~GVGKTtvs~~La~aLa~~G~rVl~id   37 (224)
T d1byia_           4 YFVTGTDTEVGKTVASCALLQAAKAAGYRTAGYK   37 (224)
T ss_dssp             EEEEESSTTSCHHHHHHHHHHHHHHTTCCEEEEC
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEC
T ss_conf             9999899994299999999999997799399988

>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=94.16  E-value=0.015  Score=28.96  Aligned_cols=25  Identities=20%  Similarity=0.268  Sum_probs=21.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             9899928988089999999988706
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +|+|-|+-|+||||+++.+.+....
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~l~~   28 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKTYPE   28 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHCTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             9999899888599999999998730

>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=94.09  E-value=0.017  Score=28.66  Aligned_cols=87  Identities=17%  Similarity=0.265  Sum_probs=42.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHH-HHC
Q ss_conf             8999289880899999999887066660399984400110368989999999998741038643441000999997-525
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINIIGS-RLR   80 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~i~~-~l~   80 (1046)
                      +...|+.|+|||.||+.+++-+..    .....+..+.++.+. .        ..+......- .....+ ..+.+ ..+
T Consensus        55 ~lf~Gp~GvGKT~lak~la~~l~~----~~i~~d~s~~~~~~~-~--------~~l~g~~~gy-~g~~~~-~~l~~~~~~  119 (315)
T d1r6bx3          55 FLFAGPTGVGKTEVTVQLSKALGI----ELLRFDMSEYMERHT-V--------SRLIGAPPGY-VGFDQG-GLLTDAVIK  119 (315)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHTC----EEEEEEGGGCSSSSC-C--------SSSCCCCSCS-HHHHHT-THHHHHHHH
T ss_pred             EEEECCCCCHHHHHHHHHHHHCCC----CEEEECCCCCCCHHH-H--------HHHCCCCCCC-CCCCCC-CHHHHHHHH
T ss_conf             999778750069999999863367----706741544455446-6--------6521467875-011468-703377773


Q ss_pred             CCEEEEEEECCCCH--HHHHHHHHC
Q ss_conf             98189999358996--888777616
Q 001603           81 QKKVLLVIDDVADV--EQLQNLARK  103 (1046)
Q Consensus        81 ~k~~LlVlDdv~~~--~~l~~l~~~  103 (1046)
                      .....++||+++..  +.+..+...
T Consensus       120 ~~~~vvl~DeieKa~~~V~~~lLqi  144 (315)
T d1r6bx3         120 HPHAVLLLDEIEKAHPDVFNILLQV  144 (315)
T ss_dssp             CSSEEEEEETGGGSCHHHHHHHHHH
T ss_pred             CCCCHHHHCCCCCCCCHHHHHHHHH
T ss_conf             8543022122230163376656776

>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=94.08  E-value=0.014  Score=29.06  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|+.|.|||||++.++.-.
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCHHHHHHHHHHCCC
T ss_conf             99999799980999999997399

>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=94.05  E-value=0.093  Score=24.24  Aligned_cols=22  Identities=27%  Similarity=0.400  Sum_probs=19.5

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      .|+|.|..|+|||||..++...
T Consensus         7 ~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           7 FVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999999999999999688

>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=94.00  E-value=0.011  Score=29.69  Aligned_cols=22  Identities=27%  Similarity=0.350  Sum_probs=20.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +++|.|+.|.||||+.+.+..-
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl   49 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGF   49 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999989998299999999647

>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=93.98  E-value=0.014  Score=29.09  Aligned_cols=21  Identities=24%  Similarity=0.341  Sum_probs=19.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +++|+|+.|.|||||++.+..
T Consensus        30 ~vaivG~sGsGKSTLl~ll~g   50 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLER   50 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHH
T ss_conf             999999999979999999999

>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=93.86  E-value=0.086  Score=24.42  Aligned_cols=20  Identities=25%  Similarity=0.353  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||+.++..
T Consensus         8 I~lvG~~~vGKTsll~~~~~   27 (174)
T d2bmea1           8 FLVIGNAGTGKSCLLHQFIE   27 (174)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999099999999970

>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=93.77  E-value=0.023  Score=27.88  Aligned_cols=26  Identities=15%  Similarity=0.125  Sum_probs=21.0

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCC
Q ss_conf             98999289880899999999887066
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE   26 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~   26 (1046)
                      ++.|.|++|.|||++|.++.......
T Consensus        25 v~~i~G~~GsGKT~l~l~la~~~~~~   50 (242)
T d1n0wa_          25 ITEMFGEFRTGKTQICHTLAVTCQLP   50 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHTTSC
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHH
T ss_conf             99999589999999999999999886

>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=93.59  E-value=0.0079  Score=30.61  Aligned_cols=24  Identities=25%  Similarity=0.285  Sum_probs=20.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|+|-|+-|+||||+|+.+.+...
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~l~   27 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQLCE   27 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGGCT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHH
T ss_conf             899987888779999999999973

>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=93.55  E-value=0.012  Score=29.58  Aligned_cols=125  Identities=17%  Similarity=0.180  Sum_probs=60.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCC-----C-----------------CEEEEEEE---------CHHHH----CCCCC
Q ss_conf             98999289880899999999887066-----6-----------------60399984---------40011----03689
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE-----F-----------------DGSTFLAN---------VREKS----EKEGS   45 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~-----f-----------------~~~~~~~~---------~~~~~----~~~~~   45 (1046)
                      +++|.|+.|.||||+++.+..-....     |                 ....++..         +.+.-    ...+.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~~p~~G~I~~~g~~i~~~~~~~~~~~rr~ig~vfQ~~~L~p~ltv~eni~~~l~~~~~  112 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLDVPSTGELYFDDRLVASNGKLIVPPEDRKIGMVFQTWALYPNLTAFENIAFPLTNMKM  112 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSSCCSEEEEEETTEEEEETTEESSCGGGSCEEEEETTSCCCTTSCHHHHHHGGGTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCCCCEEEECCEEEECCCHHHCCHHHCCCEEEECCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf             99999899980999999997586888745999999951373111531204514773043346666577776655676137


Q ss_pred             ----HHHHHHHHHHHHH--HCCCCCCCCCCCH---HHHHHHHHCCCEEEEEEECCC------CHHHHHHHHHCCCCCCCC
Q ss_conf             ----8999999999874--1038643441000---999997525981899993589------968887776166987999
Q 001603           46 ----VVSLQKQLLSDLL--KLADISIWNVDDG---INIIGSRLRQKKVLLVIDDVA------DVEQLQNLARKRDWFGPG  110 (1046)
Q Consensus        46 ----~~~l~~~ll~~l~--~~~~~~~~~~~~~---~~~i~~~l~~k~~LlVlDdv~------~~~~l~~l~~~~~~~~~g  110 (1046)
                          ...-..+++..+.  ...+..+.....+   --.+-+.|..++-++++|.--      ...++..+...+.. ..|
T Consensus       113 ~~~~~~~~v~~~l~~~gL~~~~~~~p~~LSGGqkQRvaiARaL~~~P~llllDEPt~~LD~~~~~~i~~~i~~l~~-~~g  191 (242)
T d1oxxk2         113 SKEEIRKRVEEVAKILDIHHVLNHFPRELSGAQQQRVALARALVKDPSLLLLDEPFSNLDARMRDSARALVKEVQS-RLG  191 (242)
T ss_dssp             CHHHHHHHHHHHHHHTTCGGGTTSCGGGSCHHHHHHHHHHHHHTTCCSEEEEESTTTTSCGGGHHHHHHHHHHHHH-HHC
T ss_pred             CHHHHHHHHHHHHHHCCHHHHHHCCHHHCCHHHHHHHHHHHHHHHCCCCEEECCCCCCCCHHHHHHHHHHHHHHHH-CCC
T ss_conf             9999999999998665917666489545999998589987577604661454478667998998899899999986-359


Q ss_pred             CEEEEEECCHHHHHHH
Q ss_conf             8799993883568881
Q 001603          111 SKIVITTRDKQLLVAH  126 (1046)
Q Consensus       111 s~IiiTtR~~~~~~~~  126 (1046)
                      ..||++|-+-..+...
T Consensus       192 ~tvi~vTHd~~~~~~~  207 (242)
T d1oxxk2         192 VTLLVVSHDPADIFAI  207 (242)
T ss_dssp             CEEEEEESCHHHHHHH
T ss_pred             CEEEEEECCHHHHHHH
T ss_conf             8799997999999996

>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=93.55  E-value=0.13  Score=23.46  Aligned_cols=22  Identities=36%  Similarity=0.474  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      |.|+|..|.|||++|+.+.+.-
T Consensus        26 vlI~Ge~GtGK~~~A~~ih~~s   47 (247)
T d1ny5a2          26 VLITGESGVGKEVVARLIHKLS   47 (247)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
T ss_conf             8998999817999999999965

>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=93.54  E-value=0.024  Score=27.77  Aligned_cols=23  Identities=22%  Similarity=0.184  Sum_probs=20.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +|||+|..|.||||+|+.+.++.
T Consensus         3 iIgiTG~igSGKsTva~~l~e~~   25 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMSNY   25 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHHC
T ss_conf             99997999988999999999868

>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=93.41  E-value=0.031  Score=27.10  Aligned_cols=22  Identities=27%  Similarity=0.341  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHH
Q ss_conf             8999289880899999999887
Q 001603            2 MGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +-..||.|+|||-||++++...
T Consensus        71 iLfiGPTGvGKTElAk~LA~~~   92 (364)
T d1um8a_          71 ILLIGPTGSGKTLMAQTLAKHL   92 (364)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHC
T ss_conf             2441899863789999998644

>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=93.40  E-value=0.04  Score=26.38  Aligned_cols=33  Identities=27%  Similarity=0.368  Sum_probs=25.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCCC-CCEEEEE
Q ss_conf             98999289880899999999887066-6603999
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISHE-FDGSTFL   33 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~~-f~~~~~~   33 (1046)
                      +|+|-|+-|.||||+++.+.+.+... +....+.
T Consensus         4 fIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~   37 (210)
T d4tmka_           4 YIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFT   37 (210)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             8999899888799999999999996799739983

>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=93.36  E-value=0.014  Score=29.04  Aligned_cols=21  Identities=33%  Similarity=0.471  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |-+.|++|+||||+|+.+..-
T Consensus        31 vLl~G~pG~GKT~lar~~~~i   51 (333)
T d1g8pa_          31 VLVFGDRGTGKSTAVRALAAL   51 (333)
T ss_dssp             EEEECCGGGCTTHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             899889985299999999873

>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=93.25  E-value=0.033  Score=26.88  Aligned_cols=21  Identities=24%  Similarity=0.129  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|.+|+|||||..++...
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

>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=93.24  E-value=0.032  Score=26.99  Aligned_cols=33  Identities=21%  Similarity=0.179  Sum_probs=25.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             899928988089999999988706666039998
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~   34 (1046)
                      |.|-|.-|+||||+++.+.+....+-....++.
T Consensus         8 I~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~~~   40 (331)
T d1osna_           8 IYLDGAYGIGKTTAAEEFLHHFAITPNRILLIG   40 (331)
T ss_dssp             EEEEESSSSCTTHHHHHHHHTTTTSGGGEEEEC
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEE
T ss_conf             999888778899999999998734688569971

>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=93.13  E-value=0.024  Score=27.69  Aligned_cols=22  Identities=32%  Similarity=0.441  Sum_probs=19.8

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +++|.|+.|.|||||.+.+..-
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl   55 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998599999999678

>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=93.08  E-value=0.025  Score=27.62  Aligned_cols=23  Identities=35%  Similarity=0.447  Sum_probs=20.3

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      +++|.|+.|.|||||++.+..-.
T Consensus        32 i~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          32 VTLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHCCC
T ss_conf             99999999984999999997797

>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=93.01  E-value=0.035  Score=26.73  Aligned_cols=20  Identities=35%  Similarity=0.315  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||+|+.++.+
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (173)
T d2a5ja1           6 YIIIGDTGVGKSCLLLQFTD   25 (173)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999399999999962

>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=93.00  E-value=0.034  Score=26.82  Aligned_cols=25  Identities=28%  Similarity=0.276  Sum_probs=20.4

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             9899928988089999999988706
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      +..|+|.+|+||||+|.+++..+..
T Consensus        31 ~~~i~G~~G~GKS~l~l~la~~ia~   55 (274)
T d1nlfa_          31 VGALVSPGGAGKSMLALQLAAQIAG   55 (274)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHT
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHC
T ss_conf             8999928999899999999999976

>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=92.98  E-value=0.036  Score=26.68  Aligned_cols=21  Identities=33%  Similarity=0.298  Sum_probs=18.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |+|+|.+|+|||||.+++...
T Consensus         8 I~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           8 ILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999998999999999679

>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=92.97  E-value=0.036  Score=26.67  Aligned_cols=21  Identities=29%  Similarity=0.241  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|.+|+|||+|+.++.+.
T Consensus         7 ivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           7 YIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999994989999999729

>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=92.96  E-value=0.036  Score=26.68  Aligned_cols=20  Identities=25%  Similarity=0.252  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||+.++..
T Consensus         5 v~liG~~~vGKTsLl~~~~~   24 (165)
T d1z06a1           5 IIVIGDSNVGKTCLTYRFCA   24 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999298999999973

>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=92.88  E-value=0.043  Score=26.20  Aligned_cols=34  Identities=21%  Similarity=0.123  Sum_probs=22.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH-HCCCCCEEEEEE
Q ss_conf             9899928988089999999988-706666039998
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL-ISHEFDGSTFLA   34 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~-~~~~f~~~~~~~   34 (1046)
                      ++.|+|.+|.|||++|.++... ....-....|+.
T Consensus        28 ~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s   62 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVT   62 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf             99999479999999999999999985688742012

>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=92.87  E-value=0.035  Score=26.73  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=20.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      ++.|+|.+|+|||++|.+++....
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHH
T ss_conf             999991799998999999999998

>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=92.83  E-value=0.039  Score=26.48  Aligned_cols=20  Identities=25%  Similarity=0.449  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||+.++.+
T Consensus         5 v~liG~~~vGKSsLi~rl~~   24 (164)
T d1z2aa1           5 MVVVGNGAVGKSSMIQRYCK   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899598999999982

>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=92.66  E-value=0.043  Score=26.25  Aligned_cols=20  Identities=30%  Similarity=0.285  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++..
T Consensus         8 i~vvG~~~vGKTsLi~~l~~   27 (169)
T d3raba_           8 ILIIGNSSVGKTSFLFRYAD   27 (169)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999198999999973

>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=92.59  E-value=0.038  Score=26.56  Aligned_cols=20  Identities=30%  Similarity=0.659  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++..
T Consensus         5 i~viG~~~vGKTsLi~r~~~   24 (171)
T d2erxa1           5 VAVFGAGGVGKSSLVLRFVK   24 (171)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899798999999970

>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=92.57  E-value=0.044  Score=26.17  Aligned_cols=20  Identities=30%  Similarity=0.420  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||+|+.++..
T Consensus         6 ivlvG~~~vGKTsLi~r~~~   25 (167)
T d1z08a1           6 VVLLGEGCVGKTSLVLRYCE   25 (167)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999398999999982

>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=92.48  E-value=0.045  Score=26.10  Aligned_cols=21  Identities=33%  Similarity=0.389  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|.+|+|||||.+++.+.
T Consensus         8 i~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           8 IVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999991989999999729

>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=92.46  E-value=0.033  Score=26.91  Aligned_cols=20  Identities=35%  Similarity=0.496  Sum_probs=17.6

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+++|.+|+|||||..++..
T Consensus        16 I~lvG~~~vGKTsLl~~l~~   35 (186)
T d1f6ba_          16 LVFLGLDNAGKTTLLHMLKD   35 (186)
T ss_dssp             EEEEEETTSSHHHHHHHHSC
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999898999999967

>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=92.44  E-value=0.047  Score=25.98  Aligned_cols=20  Identities=20%  Similarity=0.313  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|..|+|||+|+.++..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (170)
T d1r2qa_           9 LVLLGESAVGKSSLVLRFVK   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999498999999985

>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=92.43  E-value=0.046  Score=26.03  Aligned_cols=21  Identities=38%  Similarity=0.319  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|.+|+|||+|+.++.+.
T Consensus         5 ivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           5 LVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998993889999999719

>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=92.40  E-value=0.034  Score=26.80  Aligned_cols=23  Identities=17%  Similarity=0.180  Sum_probs=19.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHH
Q ss_conf             98999289880899999999887
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLI   23 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~   23 (1046)
                      ++-|+|++|.||||+|.++....
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
T ss_conf             99998389998899999999986

>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=92.39  E-value=0.047  Score=25.99  Aligned_cols=20  Identities=30%  Similarity=0.376  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||||+.++..
T Consensus         9 ivvvG~~~vGKTsli~~l~~   28 (194)
T d2bcgy1           9 LLLIGNSGVGKSCLLLRFSD   28 (194)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999098999999961

>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=92.38  E-value=0.048  Score=25.95  Aligned_cols=20  Identities=20%  Similarity=0.388  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||||.+++.+
T Consensus         7 i~lvG~~~vGKTsli~rl~~   26 (167)
T d1z0ja1           7 VCLLGDTGVGKSSIMWRFVE   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899499999999973

>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=92.36  E-value=0.048  Score=25.92  Aligned_cols=21  Identities=29%  Similarity=0.514  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|.+|+|||+|..++...
T Consensus         5 i~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           5 LAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998997899999999739

>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=92.35  E-value=0.047  Score=25.97  Aligned_cols=20  Identities=30%  Similarity=0.478  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||+|+.++.+
T Consensus         9 v~lvG~~~vGKTsLi~r~~~   28 (173)
T d2fn4a1           9 LVVVGGGGVGKSALTIQFIQ   28 (173)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999799698999999973

>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=92.30  E-value=0.15  Score=22.93  Aligned_cols=20  Identities=25%  Similarity=0.240  Sum_probs=17.7

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++.+
T Consensus        15 IvlvG~~~vGKTSli~rl~~   34 (173)
T d1e0sa_          15 ILMLGLDAAGKTTILYKLKL   34 (173)
T ss_dssp             EEEEEETTSSHHHHHHHTTC
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999878999999844

>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=92.29  E-value=0.039  Score=26.45  Aligned_cols=20  Identities=35%  Similarity=0.363  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||||+.++.+
T Consensus         8 i~ivG~~~vGKTsLi~~l~~   27 (186)
T d2f7sa1           8 LLALGDSGVGKTTFLYRYTD   27 (186)
T ss_dssp             EEEESCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999198999999961

>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=92.28  E-value=0.05  Score=25.83  Aligned_cols=21  Identities=29%  Similarity=0.416  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|.+|+|||+|+.++.+.
T Consensus         6 i~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           6 VVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998993999999999719

>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=92.26  E-value=0.051  Score=25.80  Aligned_cols=20  Identities=35%  Similarity=0.458  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.++|.+|+|||||..++..
T Consensus         5 i~~vG~~~vGKSsLi~~~~~   24 (175)
T d1ky3a_           5 VIILGDSGVGKTSLMHRYVN   24 (175)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999698999999970

>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=92.24  E-value=0.052  Score=25.74  Aligned_cols=21  Identities=29%  Similarity=0.207  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|.+|+|||+|..++...
T Consensus         8 ivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           8 CVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999997999999999749

>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=92.18  E-value=0.046  Score=26.06  Aligned_cols=21  Identities=24%  Similarity=0.385  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|.+|+|||+|.+++-..
T Consensus         5 ivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           5 LLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999998889999988408

>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=92.14  E-value=0.047  Score=26.02  Aligned_cols=20  Identities=25%  Similarity=0.380  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||||..++..
T Consensus         5 i~ivG~~~~GKTsLi~~l~~   24 (165)
T d1ksha_           5 LLMLGLDNAGKTTILKKFNG   24 (165)
T ss_dssp             EEEECSTTSSHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHCC
T ss_conf             99999999899999999808

>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=92.14  E-value=0.046  Score=26.04  Aligned_cols=20  Identities=35%  Similarity=0.532  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|..|+|||+|++++..
T Consensus         4 i~lvG~~~vGKTsLi~~~~~   23 (168)
T d2gjsa1           4 VLLLGAPGVGKSALARIFGG   23 (168)
T ss_dssp             EEEECCTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99989899399999999818

>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=92.13  E-value=0.026  Score=27.49  Aligned_cols=22  Identities=27%  Similarity=0.427  Sum_probs=19.6

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      +++|.|+.|.|||||.+.+..-
T Consensus        27 i~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          27 ILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EEECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999989998099999999488

>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=92.05  E-value=0.048  Score=25.92  Aligned_cols=18  Identities=28%  Similarity=0.462  Sum_probs=16.7

Q ss_pred             EEEECCCCCCHHHHHHHH
Q ss_conf             899928988089999999
Q 001603            2 MGIWGMGGLGKTTLARVA   19 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~   19 (1046)
                      |.+.|.+|+|||||..++
T Consensus         5 ivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           5 ILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
T ss_conf             999989999989999988

>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=92.05  E-value=0.047  Score=25.98  Aligned_cols=20  Identities=30%  Similarity=0.415  Sum_probs=17.8

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++..
T Consensus        19 I~vvG~~~vGKSsLi~~l~~   38 (176)
T d1fzqa_          19 ILLLGLDNAGKTTLLKQLAS   38 (176)
T ss_dssp             EEEEESTTSSHHHHHHHHCC
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999899999999964

>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=92.04  E-value=0.055  Score=25.58  Aligned_cols=20  Identities=25%  Similarity=0.341  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||+.++..
T Consensus         5 i~vvG~~~vGKTSli~~l~~   24 (166)
T d1g16a_           5 ILLIGDSGVGKSCLLVRFVE   24 (166)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999678999999986

>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=92.02  E-value=0.055  Score=25.60  Aligned_cols=21  Identities=29%  Similarity=0.422  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|.+|+|||+|..++...
T Consensus         8 i~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           8 LVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999997999999999739

>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=91.92  E-value=0.058  Score=25.46  Aligned_cols=20  Identities=25%  Similarity=0.446  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|..|+|||||..++..
T Consensus         7 v~liG~~~vGKTsLl~~~~~   26 (167)
T d1xtqa1           7 IAILGYRSVGKSSLTIQFVE   26 (167)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899298999999971

>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=91.88  E-value=0.058  Score=25.44  Aligned_cols=20  Identities=30%  Similarity=0.310  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||+|..++.+
T Consensus        12 i~lvG~~~vGKTsLi~r~~~   31 (185)
T d2atxa1          12 CVVVGDGAVGKTCLLMSYAN   31 (185)
T ss_dssp             EEEEECTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999899999999964

>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=91.86  E-value=0.061  Score=25.32  Aligned_cols=20  Identities=30%  Similarity=0.544  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|..|+|||+|..++..
T Consensus         6 ivvvG~~~vGKTsli~r~~~   25 (167)
T d1c1ya_           6 LVVLGSGGVGKSALTVQFVQ   25 (167)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999899899999999970

>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=91.83  E-value=0.057  Score=25.51  Aligned_cols=21  Identities=29%  Similarity=0.252  Sum_probs=18.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      .|+|.|..|+|||||.+++..
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~   22 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVK   22 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHC
T ss_conf             899999999989999999967

>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=91.78  E-value=0.063  Score=25.25  Aligned_cols=20  Identities=25%  Similarity=0.144  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||||..++..
T Consensus         3 V~ivG~~~~GKTsLl~~l~~   22 (207)
T d2fh5b1           3 VLFVGLCDSGKTLLFVRLLT   22 (207)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999898999999980

>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=91.74  E-value=0.062  Score=25.26  Aligned_cols=21  Identities=29%  Similarity=0.207  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|.+|+|||+|+.++.+.
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

>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=91.72  E-value=0.063  Score=25.23  Aligned_cols=24  Identities=42%  Similarity=0.372  Sum_probs=20.7

Q ss_pred             CEEEECCCCCCHHHHHHHHHHHHC
Q ss_conf             989992898808999999998870
Q 001603            1 MMGIWGMGGLGKTTLARVAYDLIS   24 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~~~   24 (1046)
                      +|.+.|.=|.||||+++.+.+.+.
T Consensus        35 ii~L~G~LGaGKTtfvr~~~~~lg   58 (158)
T d1htwa_          35 MVYLNGDLGAGKTTLTRGMLQGIG   58 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             EEEEECCCCCCHHHHHHHHHHHCC
T ss_conf             999966877658899999876422

>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=91.71  E-value=0.065  Score=25.18  Aligned_cols=20  Identities=35%  Similarity=0.361  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||+|+.++..
T Consensus         9 i~vvG~~~vGKTsli~~~~~   28 (170)
T d2g6ba1           9 VMLVGDSGVGKTCLLVRFKD   28 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999299999999971

>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=91.68  E-value=0.065  Score=25.15  Aligned_cols=20  Identities=25%  Similarity=0.328  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|..|+|||||+.++..
T Consensus         7 i~vvG~~~vGKTsLi~~~~~   26 (175)
T d2f9la1           7 VVLIGDSGVGKSNLLSRFTR   26 (175)
T ss_dssp             EEEESSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999098999999982

>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=91.64  E-value=0.066  Score=25.10  Aligned_cols=21  Identities=14%  Similarity=0.234  Sum_probs=18.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|..|+|||+|..++...
T Consensus         6 i~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           6 LVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999999991989999999729

>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=91.58  E-value=0.066  Score=25.11  Aligned_cols=21  Identities=29%  Similarity=0.207  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|..|+|||+|+.++.+.
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

>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=91.55  E-value=0.043  Score=26.23  Aligned_cols=20  Identities=25%  Similarity=0.411  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|.+|+|||||..++..
T Consensus         4 VaivG~~nvGKSTLin~L~~   23 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTR   23 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCS
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99989999989999999968

>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=91.43  E-value=0.062  Score=25.27  Aligned_cols=20  Identities=25%  Similarity=0.363  Sum_probs=17.5

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||.+++..
T Consensus         9 illlG~~~vGKTsll~~~~~   28 (221)
T d1azta2           9 LLLLGAGESGKSTIVKQMRI   28 (221)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99998999988999998950

>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=91.39  E-value=0.071  Score=24.91  Aligned_cols=21  Identities=24%  Similarity=0.365  Sum_probs=18.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|.+|+|||+|..++...
T Consensus         5 iv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           5 LLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999999889999999679

>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=91.39  E-value=0.071  Score=24.91  Aligned_cols=21  Identities=29%  Similarity=0.469  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|.+|+|||+|..++.+.
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

>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=91.28  E-value=0.076  Score=24.75  Aligned_cols=22  Identities=27%  Similarity=0.147  Sum_probs=19.2

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      .|.|.|.+|+|||||..++...
T Consensus         5 ~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           5 SIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998899999999679

>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=91.24  E-value=0.071  Score=24.92  Aligned_cols=20  Identities=35%  Similarity=0.509  Sum_probs=17.8

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||+|+..+..
T Consensus         6 v~lvG~~~vGKTsLi~~~~~   25 (172)
T d2g3ya1           6 VVLIGEQGVGKSTLANIFAG   25 (172)
T ss_dssp             EEEECCTTSSHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899299999999972

>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=91.18  E-value=0.05  Score=25.85  Aligned_cols=20  Identities=35%  Similarity=0.596  Sum_probs=18.2

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|.+++|||||..++..
T Consensus         4 VaiiG~~nvGKSSLin~L~~   23 (185)
T d1lnza2           4 VGLVGFPSVGKSTLLSVVSS   23 (185)
T ss_dssp             EEEESSTTSSHHHHHHHSEE
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99989999879999999968

>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=91.16  E-value=0.079  Score=24.67  Aligned_cols=20  Identities=35%  Similarity=0.461  Sum_probs=18.1

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|..|+|||||+.++.+
T Consensus         5 v~vvG~~~vGKSSLi~~l~~   24 (184)
T d1vg8a_           5 VIILGDSGVGKTSLMNQYVN   24 (184)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999198999999971

>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=91.07  E-value=0.082  Score=24.55  Aligned_cols=20  Identities=30%  Similarity=0.413  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|.|.+|+|||||+.++..
T Consensus         7 ivlvG~~~vGKTsli~~~~~   26 (168)
T d1u8za_           7 VIMVGSGGVGKSALTLQFMY   26 (168)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899588999999972

>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=91.04  E-value=0.083  Score=24.53  Aligned_cols=20  Identities=35%  Similarity=0.428  Sum_probs=18.0

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++..
T Consensus        10 i~vvG~~~vGKTsli~~l~~   29 (177)
T d1x3sa1          10 ILIIGESGVGKSSLLLRFTD   29 (177)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999899088999999971

>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=90.99  E-value=0.084  Score=24.51  Aligned_cols=21  Identities=24%  Similarity=0.330  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |++.|.+|+|||||..++...
T Consensus         8 i~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           8 LGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998997899999999719

>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=90.95  E-value=0.086  Score=24.44  Aligned_cols=20  Identities=30%  Similarity=0.373  Sum_probs=17.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++..
T Consensus         5 i~i~G~~~~GKTsLl~~l~~   24 (164)
T d1zd9a1           5 LTLVGLQYSGKTTFVNVIAS   24 (164)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999898999999971

>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=90.88  E-value=0.074  Score=24.82  Aligned_cols=20  Identities=30%  Similarity=0.220  Sum_probs=17.8

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.|+|.+|+|||||..++..
T Consensus        18 I~vvG~~~~GKSsLi~rl~~   37 (177)
T d1zj6a1          18 VIIVGLDNAGKTTILYQFSM   37 (177)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999898999999966

>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=90.84  E-value=0.089  Score=24.35  Aligned_cols=21  Identities=29%  Similarity=0.352  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |++.|.+|+|||||+.++...
T Consensus         3 I~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           3 LLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999999999999999589

>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=90.82  E-value=0.089  Score=24.36  Aligned_cols=20  Identities=30%  Similarity=0.483  Sum_probs=17.8

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||+.++..
T Consensus         9 I~vvG~~~vGKSSli~~~~~   28 (174)
T d1wmsa_           9 VILLGDGGVGKSSLMNRYVT   28 (174)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999799999999984

>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=90.78  E-value=0.084  Score=24.50  Aligned_cols=21  Identities=29%  Similarity=0.235  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|.+|+||||+|.++..+
T Consensus        17 vl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          17 VLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCCCHHHHHHHHHHC
T ss_conf             999808999989999999985

>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=90.61  E-value=0.078  Score=24.70  Aligned_cols=20  Identities=15%  Similarity=0.390  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|..|+|||||..++..
T Consensus        26 I~lvG~~n~GKSTLin~L~g   45 (195)
T d1svia_          26 IALAGRSNVGKSSFINSLIN   45 (195)
T ss_dssp             EEEEEBTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHCC
T ss_conf             99989999879999998529

>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=90.57  E-value=0.096  Score=24.14  Aligned_cols=21  Identities=29%  Similarity=0.521  Sum_probs=18.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|..|+|||+|+.++.+.
T Consensus         7 i~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           7 LVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999998995989999999709

>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=90.45  E-value=0.077  Score=24.73  Aligned_cols=20  Identities=25%  Similarity=0.220  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|+|.+|+|||||..++..
T Consensus         3 I~lvG~~nvGKSsLin~l~~   22 (184)
T d2cxxa1           3 IIFAGRSNVGKSTLIYRLTG   22 (184)
T ss_dssp             EEEEEBTTSSHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999889999999968

>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=90.29  E-value=0.092  Score=24.26  Aligned_cols=21  Identities=29%  Similarity=0.408  Sum_probs=19.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHH
Q ss_conf             989992898808999999998
Q 001603            1 MMGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~   21 (1046)
                      .|+|.|..|+|||||..++.+
T Consensus         7 ~I~iiG~~nvGKSSLin~L~~   27 (179)
T d1egaa1           7 FIAIVGRPNVGKSTLLNKLLG   27 (179)
T ss_dssp             EEEEECSSSSSHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHC
T ss_conf             999997999989999999958

>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=90.13  E-value=0.088  Score=24.39  Aligned_cols=21  Identities=24%  Similarity=0.262  Sum_probs=18.3

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.|.|++|+||||+|.++..+
T Consensus        18 vli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          18 VLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHC
T ss_conf             999818999989999999985

>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=90.04  E-value=0.057  Score=25.48  Aligned_cols=24  Identities=38%  Similarity=0.358  Sum_probs=20.2

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
Q ss_conf             899928988089999999988706
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISH   25 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~   25 (1046)
                      |.|-|.-|+||||+++.+.+....
T Consensus         7 I~IEG~iGsGKTTl~~~La~~l~~   30 (329)
T d1e2ka_           7 VYIDGPHGMGKTTTTQLLVALGSR   30 (329)
T ss_dssp             EEECSCTTSSHHHHHHHHTC----
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCC
T ss_conf             999898677899999999998177

>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=89.96  E-value=0.1  Score=24.00  Aligned_cols=20  Identities=30%  Similarity=0.439  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|..|+|||||..++..
T Consensus        11 V~iiG~~~~GKSTLin~l~~   30 (186)
T d1mkya2          11 VAIVGRPNVGKSTLFNAILN   30 (186)
T ss_dssp             EEEECSTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999999999999977

>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=89.85  E-value=0.1  Score=23.99  Aligned_cols=20  Identities=25%  Similarity=0.233  Sum_probs=18.3

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |++.|.+|+|||||..++..
T Consensus         4 I~lvG~~nvGKSsLin~l~~   23 (161)
T d2gj8a1           4 VVIAGRPNAGKSSLLNALAG   23 (161)
T ss_dssp             EEEEESTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99989999989999999968

>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=89.85  E-value=0.11  Score=23.79  Aligned_cols=33  Identities=24%  Similarity=0.299  Sum_probs=23.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCC--CEEEEEEE
Q ss_conf             89992898808999999998870666--60399984
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEF--DGSTFLAN   35 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f--~~~~~~~~   35 (1046)
                      |.|.|.+|+||||+|.++..+ ...+  |..+++..
T Consensus        18 vli~G~sg~GKS~la~~l~~~-g~~li~DD~~~~~~   52 (169)
T d1ko7a2          18 VLITGDSGIGKSETALELIKR-GHRLVADDNVEIRE   52 (169)
T ss_dssp             EEEEESTTSSHHHHHHHHHHT-TCEEEESSEEEEEE
T ss_pred             EEEEECCCCCHHHHHHHHHHC-CCEEEECCEEEEEE
T ss_conf             999808999999999999984-99388178689999

>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=89.84  E-value=0.068  Score=25.04  Aligned_cols=20  Identities=35%  Similarity=0.371  Sum_probs=17.3

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++..
T Consensus        20 I~lvG~~~vGKTsLi~~l~~   39 (182)
T d1moza_          20 ILILGLDGAGKTTILYRLQI   39 (182)
T ss_dssp             EEEEEETTSSHHHHHHHTCC
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99999999988999988733

>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=89.74  E-value=0.066  Score=25.13  Aligned_cols=20  Identities=35%  Similarity=0.534  Sum_probs=17.5

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|..|+|||+|..++.+
T Consensus         6 i~vvG~~~vGKTsli~~~~~   25 (170)
T d1i2ma_           6 LVLVGDGGTGKTTFVKRHLT   25 (170)
T ss_dssp             EEEEECTTSSHHHHHHTTC-
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999088999999984

>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=88.97  E-value=0.1  Score=24.02  Aligned_cols=22  Identities=36%  Similarity=0.365  Sum_probs=19.1

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9899928988089999999988
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |..|.|.-|.||||+.+.+...
T Consensus         5 v~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           5 VTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHS
T ss_pred             EEEEEECCCCCHHHHHHHHHHC
T ss_conf             8998648889999999999856

>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=87.78  E-value=0.094  Score=24.20  Aligned_cols=20  Identities=25%  Similarity=0.293  Sum_probs=17.5

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |.+.|.+|+|||||..++..
T Consensus         9 i~vvG~~~vGKTsLi~~l~~   28 (173)
T d2fu5c1           9 LLLIGDSGVGKTCVLFRFSE   28 (173)
T ss_dssp             EEEECCCCC-----------
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99999999499999999970

>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=87.07  E-value=0.099  Score=24.08  Aligned_cols=20  Identities=15%  Similarity=0.232  Sum_probs=17.7

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|.+++|||||.+++..
T Consensus        19 I~lvG~~NvGKSSL~n~L~~   38 (188)
T d1puia_          19 VAFAGRSNAGKSSALNTLTN   38 (188)
T ss_dssp             EEEEECTTSSHHHHHTTTCC
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99988999989999999858

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {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: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=86.89  E-value=0.47  Score=20.07  Aligned_cols=33  Identities=18%  Similarity=0.143  Sum_probs=21.7

Q ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEEE
Q ss_conf             8999289880899999999887066660399984
Q 001603            2 MGIWGMGGLGKTTLARVAYDLISHEFDGSTFLAN   35 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~~~~~f~~~~~~~~   35 (1046)
                      +.|.|..|.|||+++..+....... ...+++.+
T Consensus        53 ~~I~G~tGsGKT~~l~~li~~~~~~-g~~~iiiD   85 (433)
T d1e9ra_          53 LLVNGATGTGKSVLLRELAYTGLLR-GDRMVIVD   85 (433)
T ss_dssp             EEEEECTTSSHHHHHHHHHHHHHHT-TCEEEEEE
T ss_pred             EEEEECCCCCHHHHHHHHHHHHHHC-CCCEEEEE
T ss_conf             8999079996899999999999847-99889996

>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=86.39  E-value=0.27  Score=21.53  Aligned_cols=20  Identities=30%  Similarity=0.202  Sum_probs=17.8

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|-+|.|||||+.++..
T Consensus         9 i~i~gh~~~GKTtL~e~ll~   28 (276)
T d2bv3a2           9 IGIAAHIDAGKTTTTERILY   28 (276)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCHHHHHHHHHH
T ss_conf             99995898998999999999

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=86.10  E-value=0.57  Score=19.53  Aligned_cols=20  Identities=35%  Similarity=0.245  Sum_probs=14.9

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      +.|+++.|.|||.+|..+..
T Consensus        26 ~lv~~pTGsGKT~i~~~~~~   45 (200)
T d1wp9a1          26 CLIVLPTGLGKTLIAMMIAE   45 (200)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCHHHHHHHHHH
T ss_conf             69991899728899999999

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase 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: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=85.06  E-value=0.093  Score=24.24  Aligned_cols=21  Identities=33%  Similarity=0.340  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |++.|.+|+|||||..++..+
T Consensus         3 I~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           3 MVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999999999999999999589

>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=85.03  E-value=0.3  Score=21.25  Aligned_cols=21  Identities=24%  Similarity=0.431  Sum_probs=19.0

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |.+.|..|+||||+...+..+
T Consensus        35 I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          35 ILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             EEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999899998699999998589

>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=84.81  E-value=0.35  Score=20.78  Aligned_cols=20  Identities=35%  Similarity=0.476  Sum_probs=17.6

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|-.|.|||||+.++..
T Consensus         5 v~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           5 VALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
T ss_conf             99994889809999999999

>d2p6ra3 c.37.1.19 (A:1-202) Hel308 helicase {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: Tandem AAA-ATPase domain
domain: Hel308 helicase
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=84.62  E-value=0.68  Score=19.11  Aligned_cols=32  Identities=19%  Similarity=0.091  Sum_probs=19.6

Q ss_pred             EEEECCCCCCHHHHHHH-HHHHHCCCCCEEEEEE
Q ss_conf             89992898808999999-9988706666039998
Q 001603            2 MGIWGMGGLGKTTLARV-AYDLISHEFDGSTFLA   34 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~-~~~~~~~~f~~~~~~~   34 (1046)
                      +.|.++.|.|||+.|.. +....... ...+++.
T Consensus        43 ~il~apTGsGKT~~a~l~i~~~~~~~-~~vl~l~   75 (202)
T d2p6ra3          43 LLLAMPTAAGKTLLAEMAMVREAIKG-GKSLYVV   75 (202)
T ss_dssp             EEEECSSHHHHHHHHHHHHHHHHHTT-CCEEEEE
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCC-CCCEEEC
T ss_conf             89986899851178999999876225-7603316

>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=84.45  E-value=0.35  Score=20.84  Aligned_cols=20  Identities=20%  Similarity=0.353  Sum_probs=18.5

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |+|.|..|+|||||..++..
T Consensus        59 Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          59 VAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             EEEEECTTSSHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             99989999978999999958

>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=84.34  E-value=0.33  Score=20.93  Aligned_cols=20  Identities=35%  Similarity=0.507  Sum_probs=18.6

Q ss_pred             EEEECCCCCCHHHHHHHHHH
Q ss_conf             89992898808999999998
Q 001603            2 MGIWGMGGLGKTTLARVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~   21 (1046)
                      |||+|.+-+||||+-.++-.
T Consensus         5 ~GivG~Pn~GKSTlf~~lt~   24 (278)
T d1jala1           5 CGIVGLPNVGKSTLFNALTK   24 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHC
T ss_conf             88889999988999999977

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

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: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=83.09  E-value=0.39  Score=20.51  Aligned_cols=21  Identities=38%  Similarity=0.523  Sum_probs=19.1

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             899928988089999999988
Q 001603            2 MGIWGMGGLGKTTLARVAYDL   22 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa~~~~~~   22 (1046)
                      |||+|.+.+|||||-.++-..
T Consensus        13 iGivG~Pn~GKSTlfnalT~~   33 (296)
T d1ni3a1          13 TGIVGMPNVGKSTFFRAITKS   33 (296)
T ss_dssp             EEEEECSSSSHHHHHHHHHHS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999789999899999999778

>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=83.01  E-value=0.42  Score=20.35  Aligned_cols=20  Identities=20%  Similarity=0.139  Sum_probs=14.6

Q ss_pred             EEEECCCCCCHHHHH-HHHHH
Q ss_conf             899928988089999-99998
Q 001603            2 MGIWGMGGLGKTTLA-RVAYD   21 (1046)
Q Consensus         2 i~I~G~gGiGKTtLa-~~~~~   21 (1046)
                      +.|.|.+|.||||.+ ..+..
T Consensus        17 ~lI~g~aGTGKTt~l~~rv~~   37 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNKIAH   37 (306)
T ss_dssp             EEECCCTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCHHHHHHHHHHH
T ss_conf             899962884389999999999

>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=82.01  E-value=0.19  Score=22.38  Aligned_cols=10  Identities=20%  Similarity=0.149  Sum_probs=3.3

Q ss_pred             HHHHHHCCCE
Q ss_conf             9997525981
Q 001603           74 IIGSRLRQKK   83 (1046)
Q Consensus        74 ~i~~~l~~k~   83 (1046)
                      .+++.++++.
T Consensus        90 ~L~~~l~~~~   99 (231)
T d1t9ha2          90 DIIPHFQDKT   99 (231)
T ss_dssp             TTGGGGTTSE
T ss_pred             HHHHHHCCCE
T ss_conf             9998643564

>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=81.81  E-value=0.57  Score=19.57  Aligned_cols=13  Identities=8%  Similarity=0.164  Sum_probs=5.5

Q ss_pred             HHHEECCCEEEEE
Q ss_conf             2110013107983
Q 001603          259 IEVLIEKSLLTVD  271 (1046)
Q Consensus       259 i~~L~~~~Li~~~  271 (1046)
                      +..|.++-++-.+
T Consensus       143 l~~l~~k~~~~~~  155 (267)
T d1u0ja_         143 FNDCVDKMVIWWE  155 (267)
T ss_dssp             TGGGSSCSEEEEC
T ss_pred             CCCCCCCEEEEEE
T ss_conf             2003798799983

>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=81.25  E-value=0.92  Score=18.31  Aligned_cols=165  Identities=15%  Similarity=0.109  Sum_probs=67.9

Q ss_pred             CEEEECCCCCCHHHHHHHHHHH-HCCC---C-CE-EEEEEECHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf             9899928988089999999988-7066---6-60-399984400110368989999999998741038643441000999
Q 001603            1 MMGIWGMGGLGKTTLARVAYDL-ISHE---F-DG-STFLANVREKSEKEGSVVSLQKQLLSDLLKLADISIWNVDDGINI   74 (1046)
Q Consensus         1 vi~I~G~gGiGKTtLa~~~~~~-~~~~---f-~~-~~~~~~~~~~~~~~~~~~~l~~~ll~~l~~~~~~~~~~~~~~~~~   74 (1046)
                      ++.|+|+-+-||||+.+++.-- +-.|   | +. .+.+.-.......-+.-.++.+ -.           .....-...
T Consensus        43 ~~iiTGpN~~GKSt~lk~i~l~~~laq~G~~VpA~~a~~~~~d~I~~~~~~~d~~~~-~~-----------S~F~~E~~~  110 (234)
T d1wb9a2          43 MLIITGPNMGGKSTYMRQTALIALMAYIGSYVPAQKVEIGPIDRIFTRVGAADDLAS-GR-----------STFMVEMTE  110 (234)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHHHHTTTCCBSSSEEEECCCCEEEEEEC-----------------------CHHHHHH
T ss_pred             EEEEECCCCHHHHHHHHHHHHHHHHHHCCCEEECCCEECCCCHHHEEEECCCCCCCC-CH-----------HHHHHHHHH
T ss_conf             999954673136899998799999987297674176661344202348746753436-53-----------189999999


Q ss_pred             HHHHH--CCCEEEEEEECCCC----HHHH---HHHHHCCCCCCCCCEEEEEECCHHHHHHHC-CCCCCEEECCCCCHHHH
Q ss_conf             99752--59818999935899----6888---777616698799987999938835688815-89833486589996789
Q 001603           75 IGSRL--RQKKVLLVIDDVAD----VEQL---QNLARKRDWFGPGSKIVITTRDKQLLVAHE-VDEEHIYNLEVLSNDEA  144 (1046)
Q Consensus        75 i~~~l--~~k~~LlVlDdv~~----~~~l---~~l~~~~~~~~~gs~IiiTtR~~~~~~~~~-~~~~~~~~v~~L~~~ea  144 (1046)
                      +++.+  ..++.|+++|.+-.    .+..   .+++..+. ...++.+|+||-...+..... ......|.++...+++.
T Consensus       111 ~~~il~~~~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~-~~~~~~~i~tTH~~~l~~~~~~~~~v~~~~~~~~~~~~~  189 (234)
T d1wb9a2         111 TANILHNATEYSLVLMDEIGRGTSTYDGLSLAWACAENLA-NKIKALTLFATHYFELTQLPEKMEGVANVHLDALEHGDT  189 (234)
T ss_dssp             HHHHHHHCCTTEEEEEESCCCCSSSSHHHHHHHHHHHHHH-HTTCCEEEEECSCGGGGGHHHHSTTEEEEEEEEEEETTE
T ss_pred             HHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHHHHHHH-CCCCCEEEEECCHHHHHHHHHCCCCEEEEEEEEEECCCC
T ss_conf             9999974546608853222358774566678987645432-045442898524687764331245547899887603684


Q ss_pred             HHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf             9999782027999991399999999987189934899996
Q 001603          145 LQLFSMKAFKTRQPMGEYVELSKRVLKYAGGLPLALTVLG  184 (1046)
Q Consensus       145 ~~Lf~~~a~~~~~~~~~~~~~~~~i~~~~~g~PLal~~~~  184 (1046)
                      .. |..+..... +..   ..+-++++.+| +|-.+..-|
T Consensus       190 i~-f~YkL~~G~-~~~---s~ai~iA~~~G-lp~~ii~~A  223 (234)
T d1wb9a2         190 IA-FMHSVQDGA-ASK---SYGLAVAALAG-VPKEVIKRA  223 (234)
T ss_dssp             EE-EEEEEEESC-CSS---CCHHHHHHHTT-CCHHHHHHH
T ss_pred             CE-EEEEECCCC-CCC---CHHHHHHHHHC-CCHHHHHHH
T ss_conf             01-787746799-997---29999999919-699999999