Citrus Sinensis ID: 001457

---

Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-------480-------490-------500-------510-------520-------530-------540-------550-------560-------570-------580-------590-------600-------610-------620-------630-------640-------650-------660-------670-------680-------690-------700-------710-------720-------730-------740-------750-------760-------770-------780-------790-------800-------810-------820-------830-------840-------850-------860-------870-------880-------890-------900-------910-------920-------930-------940-------950-------960-------970-------980-------990------1000------1010------1020------1030------1040------1050------1060------1070----
Protein Sequence
MPCGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPLLNENFKDEEMRR
Secondary Structure (PSIPRED)
cccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcHHcHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccHHHHHHHHHHHHHcccccccEEEEEEccccHHHHHHHHHHccccccccEEEEEEcccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHHcccEEEEEEcccccccccccccccccccccccEEEEEEccHHHHHHcccccEEEcccccHHHHHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccccccHHHHHHcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHcccccccccHHHHHHHHHHHHHHHHHcccccccccccEEEEcHHHHHHHHHHHHHcccEEEEccccccccccccccEEEEEEEEcccccccccccccccEEEEEEccccccccccHHHcccccccEEEccccccccccccccccccccEEccccccccccHHHcccccccEEcccccccccccHHHcccccccEEcccccccccccccccccccccccEEEccccccccccccccccccccHHHHcccccccEEEEEEcccccccccccccccccccccccccccccccccccccccccccccHHHHHHHHcccccEEEEccccccccccccccccccccEEEEEEcccccEEcccccccccccccEEEEEccccccEEccccccccccccccccccEEccccccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEEccccccccccccHHHHHHcccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEcccccccEEccccccccccccccccccccEEEccccccccccccccccccccccccEEEEEcccccccccccccccccccEEEEcccccccccccccccccccccccccccccHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHHccHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccEccccHHHHHHHHHHHHcccccccEEEEEEEccccccHHHHHHHHHcccccccEEEEEEEcccccHHHHHHHHHHHHcccccccccHHHHHHHHHHHHcccEEEEEEEccccHccHHHHcccccccccccEEEEEEccHHHHHHHccccccccccccHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccccccHHHHHccHHHccHHHHHHEEEEEEccccccccHHHHHHHHHHHcccccccccccHHHHHHHHHHHHHHcHHHcccccccEEEHHHHHHHHHHHHHcccEEEEEcccccccccccccccEEEEEEccccccccccccccccccEEEEEcccccccccHHHcccccccEEEEEcccccccccccccccccccEEEEcccccccccccccccccEEEEEcccccccccccccccccccEEEEccccccccccccHcccccccEEEEEEccccccccccccccHHccEEcccccccHHEccccccccHHHcHHHHcccccccEccccccccccccccccEEEEcccccccccccccccccccEEEEccccccccccccccccccccEEEEEcccccccccccccccccccccEEEEcccccHHcccccccccccccccccccEEEEcccccHcccccccccccccccccEEEEcccccHccccccccccccccccEEEEcccccccccccHccccHHHHHHccccccccccccccccccEEEEccccccccccccccccccccccEEEEcccccHHHcccccccccccccccccccccEEEEcccccccccccccccccccccccEEEEcccccccccccccccccccEEEcccHHHHccccccccccccccccccccccHHHHHcc
Coil and Loop (DISEMBL)
mpcgwvlstlsntagsGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKsegrchtwhldwrkrhqlsrvATKKTVEIIEHIRlsnfesisfparsadvrsiptpefvplKSALEVIKSVMKLLKdnsisiniigvygsggigkTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLwgkldlavvgipygeehkgckIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKkkaglpegtKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKrkkastpinvegipEEVVLCVALGYDQLETVAKSCLqfsclfppyysvsMEEFVIHGLvdrlfpqvgllgevgnrvHPVVLRLISSslllegdrescfriHDDTRKVVKYIAARegdhfiaepgmkkgwpredlqnceklslmdgnvtalpdqpkcprlttlflqnnpfadipnafFEHTReiknldlsstnisslapslpcleKLRSLHLENTHLNDASLIREFGELEVLILKGsrivelpngigtvsnlklldlsnnlflqvippnviskLSQLEELyvgnsfgdweveetangqnarfsevASLTRLTVLYIHVSNTKvlsvdfdgpwtnlkrfrvcvnddyweiapkrsmhLKNLSNSIASWVKLLLEKTEYLTLTrssnlqdigeidvqgFTGLMCMHLRACSmqrifhsnfyptvQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLklmkvkdcgklRYLFSRTLAeglgnledlsILKCDLMEEIVSVdeaeveqgaaqernvssapqpmffpnLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIitvsdeekaaenknvlpklkilaledlpeldsvyngeiaalrwpsleelkvwdcpklmklpldtrsapkletFKAHSAWFEKLqwnegysklrlqpllnenfkdeemrr
Flexible Loop (DISEMBL)
MPCGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRerardleakktdvlrfvkdaedrgeeikaevrnwqvqTIQYEMDVELLEEKIQKSEGRCHtwhldwrkrhqlsrvatkKTVEIIEHirlsnfesisfparsADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVtqtpdvkrvQDEIARflntelegdvEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIpygeehkgcKIILTSRFKEVCDEMESTNyvqveeltdedRLILFKKkaglpegtKAFDRAAEEVVRQCGKLPNAIVIigtalrhkpvrEWNEAikrkkastpinvegiPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISsslllegdrescfrihddtrKVVKYIAAregdhfiaepgmkkgwpREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTkvlsvdfdgpwtnlKRFRVCVNDDYWEIapkrsmhlknLSNSIASWVKLLLEKTEYLTLtrssnlqdiGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLpkvltiwkgnhSVVYLKTLKLMKVKDCGKLRYLFSRTlaeglgnleDLSILKCDLMEEIVSVDEAEVEQGAaqernvssapqpmFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIItvsdeekaaenknVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQwnegysklrlqpllnenfkdeemrr
Low Complexity Region (SEG)
MPCGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVlrlissslllEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSnlklldlsnnlflQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVklllekteyltltRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPLLNENFKDEEMRR
Disordered region (IsUnstruct)
**CGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVD********************MFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSD******NKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPL************
Disordered Region (DISOPRED)
**CGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQL********************************************SALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLN****************ERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKAS******GIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITV*********KNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPLLNENF*******
Disordered Region (DISEMBL)
MPCGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPLLNENFKDEEMRR
Disordered Region (DISPRO)
*PCGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLS*******************PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPLLNENFKDE**R*
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooohhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooohhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MPCGWVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFxxxxxxxxxxxxxxxxxxxxxTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPLLNENFKDEEMRR
Positional Conservation
no confident homologs detected

---

Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	1074	2.2.26 [Sep-21-2011]
Q9T048	985	Disease resistance protei	yes	no	0.860	0.938	0.275	2e-74
O81825	919	Probable disease resistan	no	no	0.743	0.868	0.278	2e-64
Q42484	909	Disease resistance protei	no	no	0.470	0.555	0.285	3e-52
Q8RXS5	888	Probable disease resistan	no	no	0.538	0.650	0.283	5e-50
O82484	892	Putative disease resistan	no	no	0.544	0.655	0.271	4e-46
P60839	884	Probable disease resistan	no	no	0.543	0.660	0.280	6e-46
O64973	889	Disease resistance protei	no	no	0.517	0.625	0.290	2e-45
Q9C8T9	898	Putative disease resistan	no	no	0.569	0.681	0.277	3e-45
Q940K0	889	Probable disease resistan	no	no	0.430	0.519	0.295	4e-45
Q9FLB4	874	Putative disease resistan	no	no	0.513	0.630	0.271	1e-44

>sp|Q9T048|DRL27_ARATH Disease resistance protein At4g27190 OS=Arabidopsis thaliana GN=At4g27190 PE=2 SV=1

 Score =  281 bits (720), Expect = 2e-74,   Method: Compositional matrix adjust.
 Identities = 297/1078 (27%), Positives = 498/1078 (46%), Gaps = 154/1078 (14%)

Query: 21   ILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRN 80
            IL  ++     ++   +++ SN+ A  E    L   K ++    +    + + ++ ++  
Sbjct: 11   ILRLMYESTFSRVANAIKFKSNVKALNESLERLTELKGNMSEDHETLLTKDKPLRLKLMR 70

Query: 81   WQVQTIQYEMDVEL-LEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNF 139
            WQ +  +      L LEE++        +  +  R R       ++K V+I++ +++   
Sbjct: 71   WQREAEEVISKARLKLEERV--------SCGMSLRPR------MSRKLVKILDEVKMLEK 116

Query: 140  ESISFPARSADVRSI-PTPEFVPLKSALEVIKSVMKL-----LKDNSIS--INIIGVYGS 191
            + I F     D+ S+  TPE V     + V+   M       ++D   S     IGV+G 
Sbjct: 117  DGIEF----VDMLSVESTPERVEHVPGVSVVHQTMASNMLAKIRDGLTSEKAQKIGVWGM 172

Query: 192  GGIGKTTLMKQV---MKQE---IPFDKVIFVRVTQTPDVKRVQDEIARFLN--TELEGDV 243
            GG+GKTTL++ +   +++E    PF  VIFV V++  D + VQ +IA  L+  T++E   
Sbjct: 173  GGVGKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESE 232

Query: 244  EVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEM 303
            E L A  +   L ++++ L+ILDD+W  +DL ++GIP  EE+KG K+ILTSRF EVC  M
Sbjct: 233  EKL-ARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVCRSM 291

Query: 304  ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRH 363
            ++   V+V+ L +ED   LF K AG    +    + A+ V ++CG LP AI+ +GTA+R 
Sbjct: 292  KTDLDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRG 351

Query: 364  KP-VREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSV 422
            K  V+ WN  + +   S P  ++ I E++   + L YD LE  AK C     LFP  YS+
Sbjct: 352  KKNVKLWNHVLSKLSKSVPW-IKSIEEKIFQPLKLSYDFLEDKAKFCFLLCALFPEDYSI 410

Query: 423  SMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVV 482
             + E V + + +    ++G   +  N     V  L    LL +GDR    ++HD  R   
Sbjct: 411  EVTEVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDFA 470

Query: 483  KYIAAREGD--HFIAEPGMKKGWPRED--LQNCEKLSLMDGNVTALPD--QPKCPRLTTL 536
             +I +   D  H +   G      R+D    +  ++SLM+  + +LPD  +  C + + L
Sbjct: 471  IWIMSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVL 530

Query: 537  FLQNN-PFADIPNAFFEHTREIKNLDLSSTNISSL-APSLPCLEKLRSLHLENT-HLNDA 593
             LQ N    ++P  F +    ++ L+LS T I S  + SL  L  L SL L +   L   
Sbjct: 531  LLQGNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKL 590

Query: 594  SLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEEL 653
              +    +LE+L L G+ I+E P G+  +   + LDLS  L L+ IP  V+S+LS LE L
Sbjct: 591  PSLETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETL 650

Query: 654  YVGNSFGDWEVE-ETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFR 712
             + +S   W V+ ET  GQ A   E+  L RL VL I + ++  L    +     LK+F+
Sbjct: 651  DMTSSHYRWSVQGETQKGQ-ATVEEIGCLQRLQVLSIRLHSSPFLLNKRNTWIKRLKKFQ 709

Query: 713  VCVNDDYW--EIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGE---IDV 767
            + V   Y       KR + + +L+ S  S +  LL  T  L L     ++ + +    D 
Sbjct: 710  LVVGSRYILRTRHDKRRLTISHLNVSQVS-IGWLLAYTTSLALNHCQGIEAMMKKLVSDN 768

Query: 768  QGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVF-CLEDIEGEQAGLK 826
            +GF  L  + +       I ++N +  V+++     +    + ++   LE++   +  L+
Sbjct: 769  KGFKNLKSLTIENV----IINTNSW--VEMVSTNTSKQSSDILDLLPNLEELHLRRVDLE 822

Query: 827  RLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSI 886
               EL               H  + L+TLK++++  C KLR L  +     + NLE++ I
Sbjct: 823  TFSEL-------------QTHLGLKLETLKIIEITMCRKLRTLLDKRNFLTIPNLEEIEI 869

Query: 887  LKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAH 946
              CD ++   ++ EA +              QP F PNL            RVL L N  
Sbjct: 870  SYCDSLQ---NLHEALLYH------------QP-FVPNL------------RVLKLRNLP 901

Query: 947  NLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAAL 1006
            NL       V+ CN                                        GE+   
Sbjct: 902  NL-------VSICNW---------------------------------------GEV--- 912

Query: 1007 RWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEGYSKLRLQPLLN 1064
             W  LE+++V  C +L  LP+ + +  +++  K   +W+E+L+W++  +   +QP  N
Sbjct: 913  -WECLEQVEVIHCNQLNCLPISS-TCGRIKKIKGELSWWERLEWDDPSALTTVQPFFN 968

Disease resistance protein.
Arabidopsis thaliana (taxid: 3702)

>sp|O81825|DRL28_ARATH Probable disease resistance protein At4g27220 OS=Arabidopsis thaliana GN=At4g27220 PE=2 SV=1

 Score =  248 bits (634), Expect = 2e-64,   Method: Compositional matrix adjust.
 Identities = 247/888 (27%), Positives = 401/888 (45%), Gaps = 90/888 (10%)

Query: 115 KRHQLSRVATKKTVEIIEHI-RLSN-----FESISFPARSAD-VRSIPTPEFVPLKSALE 167
           KR   +   + K VEI+E + RL        + IS    S + V  +  P F P K+ALE
Sbjct: 61  KRSSCAIWLSDKDVEILEKVKRLEEQGQDLIKKISVNKSSREIVERVLGPSFHPQKTALE 120

Query: 168 VIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIP------FDKVIFVRVTQT 221
           ++  +         ++  IGV+G GG+GKTTL++ +    +       F  VI+V V++ 
Sbjct: 121 MLDKLKD--CLKKKNVQKIGVWGMGGVGKTTLVRTLNNDLLKYAATQQFALVIWVTVSKD 178

Query: 222 PDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPY 281
            D+KRVQ +IA+ L      +        + ERL   K  L+ILDD+W  +DL  +GIP 
Sbjct: 179 FDLKRVQMDIAKRLGKRFTREQMNQLGLTICERLIDLKNFLLILDDVWHPIDLDQLGIPL 238

Query: 282 G-EEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAA 340
             E  K  K++LTSR  EVC +M +   ++V  L +++   LF    G    +      A
Sbjct: 239 ALERSKDSKVVLTSRRLEVCQQMMTNENIKVACLQEKEAWELFCHNVGEVANSDNVKPIA 298

Query: 341 EEVVRQCGKLPNAIVIIGTALRHKP-VREWNEAIKRKKASTP-INVEGIPEEVVLCVALG 398
           ++V  +C  LP AI+ IG  LR KP V  W   +   K S P I+ E   E++   + L 
Sbjct: 299 KDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAPSIDTE---EKIFGTLKLS 355

Query: 399 YDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLI 458
           YD L+   KSC  F  LFP  YS+ + E +++ + + L        ++ N    +V RL 
Sbjct: 356 YDFLQDNMKSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHHYEDMMNEGVTLVERLK 415

Query: 459 SSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIAEPGMKKG---WPRED-LQNCEKL 514
            S LL +GD     ++HD  R    +  + +G+ F +     +G   +P++  + + +++
Sbjct: 416 DSCLLEDGDSCDTVKMHDVVRDFAIWFMSSQGEGFHSLVMAGRGLIEFPQDKFVSSVQRV 475

Query: 515 SLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP 572
           SLM   +  LP+        L  L   N+   ++PN F +    ++ LDLS   I +L  
Sbjct: 476 SLMANKLERLPNNVIEGVETLVLLLQGNSHVKEVPNGFLQAFPNLRILDLSGVRIRTLPD 535

Query: 573 SLPCLEKLRSLHLENTH-LNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLS 631
           S   L  LRSL L N   L +   +    +L+ L L  S I ELP G+  +S+L+ + +S
Sbjct: 536 SFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRELPRGLEALSSLRYICVS 595

Query: 632 NNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHV 691
           N   LQ IP   I +LS LE L +  S   W ++       A   EV  L  L  L I +
Sbjct: 596 NTYQLQSIPAGTILQLSSLEVLDMAGSAYSWGIKGEEREGQATLDEVTCLPHLQFLAIKL 655

Query: 692 SNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLK------------NLSNSIAS 739
            +    S +FD     L +F+       +  +P RS+               N+SN+   
Sbjct: 656 LDVLSFSYEFDSLTKRLTKFQ-------FLFSPIRSVSPPGTGEGCLAISDVNVSNASIG 708

Query: 740 WVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILE 799
           W   LL+    L L     L  +       F  L+     +    +    +++P++ +  
Sbjct: 709 W---LLQHVTSLDLNYCEGLNGM-------FENLVTKSKSSFVAMKALSIHYFPSLSL-- 756

Query: 800 ELHVEYCYSLKEVF-CLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLM 858
                 C S  ++F  LE++  +   L+ + EL                  + L+ LKL+
Sbjct: 757 ---ASGCESQLDLFPNLEELSLDNVNLESIGEL-------------NGFLGMRLQKLKLL 800

Query: 859 KVKDCGKLRYLFS-RTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAP 917
           +V  C +L+ LFS + LA  L NL+++ ++ C  +EE+ +     V+  A       +  
Sbjct: 801 QVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLEELFNFSSVPVDFCAESLLPKLTVI 860

Query: 918 QPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERI 965
           +  + P L+ L    CN   RV+       L+ LE L V SC  ++ +
Sbjct: 861 KLKYLPQLRSL----CN--DRVV-------LESLEHLEVESCESLKNL 895

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q42484|RPS2_ARATH Disease resistance protein RPS2 OS=Arabidopsis thaliana GN=RPS2 PE=1 SV=1

 Score =  207 bits (527), Expect = 3e-52,   Method: Compositional matrix adjust.
 Identities = 164/574 (28%), Positives = 278/574 (48%), Gaps = 69/574 (12%)

Query: 160 VPLKSAL---EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIP----FDK 212
           +P+KS +    +++ V++ L +      IIGVYG GG+GKTTLM+ +  + I     +D 
Sbjct: 150 IPIKSVVGNTTMMEQVLEFLSEEE-ERGIIGVYGPGGVGKTTLMQSINNELITKGHQYDV 208

Query: 213 VIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL 272
           +I+V++++      +Q  +   L    +        A    R  RQKR L++LDD+W ++
Sbjct: 209 LIWVQMSREFGECTIQQAVGARLGLSWDEKETGENRALKIYRALRQKRFLLLLDDVWEEI 268

Query: 273 DLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPE- 331
           DL   G+P  +    CK++ T+R   +C+ M +   ++VE L  +    LF  K    + 
Sbjct: 269 DLEKTGVPRPDRENKCKVMFTTRSIALCNNMGAEYKLRVEFLEKKHAWELFCSKVWRKDL 328

Query: 332 -GTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKAST--PINVEGIP 388
             + +  R AE +V +CG LP A++ +G A+ H+   E  E I   +  T  P  ++G+ 
Sbjct: 329 LESSSIRRLAEIIVSKCGGLPLALITLGGAMAHRETEE--EWIHASEVLTRFPAEMKGM- 385

Query: 389 EEVVLCVALGYDQLET-VAKSCLQFSCLFPPYYSVSMEEFV-----------IHGLVDRL 436
             V   +   YD LE+ + +SC  +  LFP  +S+ +E+ V            HG V+ +
Sbjct: 386 NYVFALLKFSYDNLESDLLRSCFLYCALFPEEHSIEIEQLVEYWVGEGFLTSSHG-VNTI 444

Query: 437 FPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDH---F 493
           +    L+G+           L ++ LL  GD ++  ++H+  R    ++A+ +G +    
Sbjct: 445 YKGYFLIGD-----------LKAACLLETGDEKTQVKMHNVVRSFALWMASEQGTYKELI 493

Query: 494 IAEPGM--KKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFL-QNNPFADIPNAF 550
           + EP M   +    E+ +    +SL+D  +  LP++  CP+LTTL L QN+    IP  F
Sbjct: 494 LVEPSMGHTEAPKAENWRQALVISLLDNRIQTLPEKLICPKLTTLMLQQNSSLKKIPTGF 553

Query: 551 FEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGS 610
           F H   ++ LDLS T+I+ +  S                      I+   EL  L + G+
Sbjct: 554 FMHMPVLRVLDLSFTSITEIPLS----------------------IKYLVELYHLSMSGT 591

Query: 611 RIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETA-- 668
           +I  LP  +G +  LK LDL    FLQ IP + I  LS+LE L +  S+  WE++     
Sbjct: 592 KISVLPQELGNLRKLKHLDLQRTQFLQTIPRDAICWLSKLEVLNLYYSYAGWELQSFGED 651

Query: 669 NGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFD 702
             +   F+++  L  LT L I V + + L   F+
Sbjct: 652 EAEELGFADLEYLENLTTLGITVLSLETLKTLFE 685

Disease resistance (R) protein that specifically recognizes the AvrRpt2 type III effector avirulence protein from Pseudomonas syringae. 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. Acts via its interaction with RIN4, and probably triggers the plant resistance when RIN4 is degraded by AvrRpt2.

Arabidopsis thaliana (taxid: 3702)

>sp|Q8RXS5|DRL40_ARATH Probable disease resistance protein At5g63020 OS=Arabidopsis thaliana GN=At5g63020 PE=2 SV=2

 Score =  200 bits (509), Expect = 5e-50,   Method: Compositional matrix adjust.
 Identities = 177/625 (28%), Positives = 320/625 (51%), Gaps = 47/625 (7%)

Query: 35  YLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW--QVQTIQYEMDV 92
           Y+     N+ A +     +E ++ D+LR +   E RG +  + V+ W  +V+ I   ++ 
Sbjct: 28  YIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRLSVVQGWVSKVEAIVPRVN- 86

Query: 93  ELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRL----SNFESISFPARS 148
           EL+  +  + +  C        K    S    K+ +++IE + +     +F  ++    +
Sbjct: 87  ELVRMRSVQVQRLCLCGFCS--KNLVSSYRYGKRVMKMIEEVEVLRYQGDFAVVAERVDA 144

Query: 149 ADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-- 206
           A V   PT   V +   LE   +  +L++D    I I+G++G GG+GKTTL+  +  +  
Sbjct: 145 ARVEERPTRPMVAMDPMLE--SAWNRLMED---EIGILGLHGMGGVGKTTLLSHINNRFS 199

Query: 207 --EIPFDKVIFVRVTQTPDVKRVQDEI---ARFLNTELEGDVEVLRAAFLSERLKRQKRV 261
                FD VI++ V++   ++R+QDEI    R  N + +   E ++A+ +   LK  KR 
Sbjct: 200 RVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQKTEDIKASNIYNVLK-HKRF 258

Query: 262 LIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLI 321
           +++LDD+W K+DL  VG+P+     GCKI+ T+R KE+C  M   + ++V  L  +D   
Sbjct: 259 VLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICGRMGVDSDMEVRCLAPDDAWD 318

Query: 322 LFKKKAG-LPEGTKA-FDRAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIKRKKA 378
           LF KK G +  G+       A  V ++C  LP A+ +IG  + +K  V+EW  AI    +
Sbjct: 319 LFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGETMAYKRTVQEWRSAIDVLTS 378

Query: 379 STPINVEGIPEEVVLCVALGYDQLETVA-KSCLQFSCLFPPYYSVSMEEFVIH----GLV 433
           S      G+ +E++  +   YD L++   K C Q+  LFP  +++   + V +    G +
Sbjct: 379 SAA-EFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFPEDHNIEKNDLVDYWIGEGFI 437

Query: 434 DRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAA---REG 490
           DR        G+  N+ + ++  L+ S LL+E ++E+  ++HD  R++  +IA+   ++ 
Sbjct: 438 DR------NKGKAENQGYEIIGILVRSCLLMEENQET-VKMHDVVREMALWIASDFGKQK 490

Query: 491 DHFIAEPGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPN 548
           ++FI + G++ +  P  E  +   ++SLM  N+ ++ D P+ P+L TL L+ N    I +
Sbjct: 491 ENFIVQAGLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQLITLLLRKNFLGHISS 550

Query: 549 AFFEHTREIKNLDLS-STNISSLAPSLPCLEKLRSLHLENTHLN--DASLIREFGELEVL 605
           +FF     +  LDLS + ++  L   +     L+ L L  T +    A L+ E  +L  L
Sbjct: 551 SFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIRIWPAGLV-ELRKLLYL 609

Query: 606 ILKGSRIVELPNGIGTVSNLKLLDL 630
            L+ +R+VE   GI  +++LK+L L
Sbjct: 610 NLEYTRMVESICGISGLTSLKVLRL 634

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O82484|DRL23_ARATH Putative disease resistance protein At4g10780 OS=Arabidopsis thaliana GN=At4g10780 PE=2 SV=1

 Score =  187 bits (475), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 174/641 (27%), Positives = 310/641 (48%), Gaps = 56/641 (8%)

Query: 35  YLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW--QVQTIQYEMDV 92
           Y+ +   NI A  +   DL A + DVLR V+  E +G E   +V+ W  +V+ I+ +   
Sbjct: 28  YIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQF-Y 86

Query: 93  ELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSN----FESISFPARS 148
           +LL  +  + +  C  ++ +       S    ++   +I+ +   N    FE ++ PA  
Sbjct: 87  DLLSARNIEIQRLC--FYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVAAPAPK 144

Query: 149 ADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-- 206
            ++R I  P  +  ++  +  ++  +L+ D    +  +G+YG GG+GKTTL+ Q+     
Sbjct: 145 LEMRPIQ-PTIMGRETIFQ--RAWNRLMDD---GVGTMGLYGMGGVGKTTLLTQIHNTLH 198

Query: 207 --EIPFDKVIFVRVTQTPDVKRVQDEIAR---FLNTELEGDVEVLRAAFLSERLKRQKRV 261
             +   D VI+V V+    + ++Q++I     F+  E     E  +A  +   L + KR 
Sbjct: 199 DTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSK-KRF 257

Query: 262 LIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLI 321
           +++LDD+W K+DL  +GIP       CK++ T+R  +VC  M   + ++V+ L+  D   
Sbjct: 258 VLLLDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWE 317

Query: 322 LFKKKAGLPEGTKAFD--RAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIKRKKA 378
           LF++K G        D    A++V  +C  LP A+ +IG  +  K  V+EW+ A+     
Sbjct: 318 LFQEKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVD-VLT 376

Query: 379 STPINVEGIPEEVVLCVALGYDQL-ETVAKSCLQFSCLFPPYYSVS----MEEFVIHGLV 433
           S      G+ + ++L +   YD L +   +SC Q+  L+P  YS+     ++ ++  G +
Sbjct: 377 SYAAEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFI 436

Query: 434 DRLFPQVGLLGEVG-----NRVHPVVLRLISSSLLL-EGDRESCFRIHDDTRKVVKYIAA 487
           D         G +G     N+ + ++  L+ + LL  EG  +   ++HD  R++  +  +
Sbjct: 437 D---------GNIGKERAVNQGYEILGTLVRACLLSEEGKNKLEVKMHDVVREMALWTLS 487

Query: 488 REGDH-----FIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQ-NN 541
             G +       A  G++K    ED     +LSLM+  +  +   P+CP LTTLFLQ N 
Sbjct: 488 DLGKNKERCIVQAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENK 547

Query: 542 PFADIPNAFFEHTREIKNLDLSSTN-ISSLAPSLPCLEKLRSLHLENTHLND-ASLIREF 599
               I   FF H R++  LDLS  + +  L   +  L  LR L L +T++    + +++ 
Sbjct: 548 SLVHISGEFFRHMRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNIEGLPACLQDL 607

Query: 600 GELEVLILKGSRIVELPNGIGTVSNLKLLDLSN-NLFLQVI 639
             L  L L+  R +    GI  +S+L+ L L N N+ L V+
Sbjct: 608 KTLIHLNLECMRRLGSIAGISKLSSLRTLGLRNSNIMLDVM 648

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|P60839|DRL2_ARATH Probable disease resistance protein At1g12290 OS=Arabidopsis thaliana GN=At1g12290 PE=2 SV=1

 Score =  186 bits (473), Expect = 6e-46,   Method: Compositional matrix adjust.
 Identities = 179/639 (28%), Positives = 308/639 (48%), Gaps = 55/639 (8%)

Query: 31  RQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW--QVQTIQY 88
           R++ Y+     N+ +  E   DL+A + D+LR V+ AE+ G +   +++ W  +V+TI+ 
Sbjct: 24  RKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRLHQIKVWLKRVKTIES 83

Query: 89  EMD-------VELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSN-FE 140
           + +       VEL          R      D+ +R  L        + I+E ++    FE
Sbjct: 84  QFNDLDSSRTVELQRLCCCGVGSRNLRLSYDYGRRVFL-------MLNIVEDLKSKGIFE 136

Query: 141 SISFPARSADVRSIP-TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTL 199
            ++ PA  A     P  P  V  ++ LE  K+   L+ D +    I+G+YG GG+GKTTL
Sbjct: 137 EVAHPATRAVGEERPLQPTIVGQETILE--KAWDHLMDDGT---KIMGLYGMGGVGKTTL 191

Query: 200 MKQVMKQEIPFDK----VIFVRVTQTPDVKRVQDEIAR---FLNTELEGDVEVLRAAFLS 252
           + Q+  +    D     VI+V V+    + ++Q EI     F+  E     E  +A  + 
Sbjct: 192 LTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQKSENQKAVDIL 251

Query: 253 ERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVE 312
             L + KR +++LDD+W +++L  +GIP      GCKI  T+R + VC  M   + ++V 
Sbjct: 252 NFLSK-KRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCASMGVHDPMEVR 310

Query: 313 ELTDEDRLILFKKKAGLPEGTKAFD--RAAEEVVRQCGKLPNAIVIIG-TALRHKPVREW 369
            L  +D   LFKKK G    +   D    A +V + C  LP A+ +IG T    K  +EW
Sbjct: 311 CLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGETMACKKTTQEW 370

Query: 370 NEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVA-KSCLQFSCLFPPYYSVSMEE-- 426
           + A+     +   N   + E ++  +   YD LE+ + K+C  +  LFP    +  E   
Sbjct: 371 DRAVD-VSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPEDDLIEKERLI 429

Query: 427 --FVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDR---ESCFRIHDDTRKV 481
             ++  G +D    + G +GE     + ++  L+ +SLL+EG +   +S  ++HD  R++
Sbjct: 430 DYWICEGFIDGDENKKGAVGE----GYEILGTLVCASLLVEGGKFNNKSYVKMHDVVREM 485

Query: 482 VKYIAA---REGDHFIAEPGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTL 536
             +IA+   +  D+ I   G +    P+ +D +   ++SL++  +  +   P+CP+LTTL
Sbjct: 486 ALWIASDLRKHKDNCIVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPECPKLTTL 545

Query: 537 FLQNN-PFADIPNAFFEHTREIKNLDLS-STNISSLAPSLPCLEKLRSLHLENTHLNDAS 594
           FLQ+N    +I   FF     +  LDLS + N+S L   +  L  LR L L  + +    
Sbjct: 546 FLQDNRHLVNISGEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSYSSIGRLP 605

Query: 595 LIREFGELEVLILKGSRI-VELPNGIGTVSNLKLLDLSN 632
           +     +  + +   S + +E  +GI  +SNLK + L N
Sbjct: 606 VGLLKLKKLMHLNLESMLCLESVSGIDHLSNLKTVRLLN 644

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|O64973|RPS5_ARATH Disease resistance protein RPS5 OS=Arabidopsis thaliana GN=RPS5 PE=1 SV=2

 Score =  185 bits (469), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 184/634 (29%), Positives = 304/634 (47%), Gaps = 78/634 (12%)

Query: 35  YLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIK-AEVRNW--QVQTIQYEMD 91
           Y+     N+ + ++  R L+A++ DV+R ++  E  G + + ++V+ W   V  IQ + +
Sbjct: 28  YIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFN 87

Query: 92  VELLEEKIQKSE----GRCHTWHLDWRKRHQLSRVATKKTVEIIEHIR-LSN---FESIS 143
             L   +++       G C        K  +LS    K+ + +++ +  LS+   F+ +S
Sbjct: 88  DLLRSNEVELQRLCLCGFCS-------KDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVS 140

Query: 144 FPARSADVRSIP-TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQ 202
                ADV  IP  P  V  +  LE  K+  +L++D S    I+G+YG GG+GKTTL+ +
Sbjct: 141 EATPFADVDEIPFQPTIVGQEIMLE--KAWNRLMEDGS---GILGLYGMGGVGKTTLLTK 195

Query: 203 V----MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLN---TELEGDVEVLRAAFLSERL 255
           +     K +  FD VI+V V+++  V+++Q +IA  +     E     +   A  +   L
Sbjct: 196 INNKFSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQIAVDIHNVL 255

Query: 256 KRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELT 315
           +R+K VL+ LDD+W K++L  VG+PY  +  GCK+  T+R ++VC  M   + ++V  L 
Sbjct: 256 RRRKFVLL-LDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQ 314

Query: 316 DEDRLILFKKKAGLPEGTKAFD--RAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEA 372
            E+   LF+ K G        D    A +V R+C  LP A+ +IG A+  K  V EW  A
Sbjct: 315 PEESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHA 374

Query: 373 IKRKKASTPINVEGIPEEVVLCVALGYDQLET-VAKSCLQFSCLFPPYYSVSMEEFVIHG 431
           I     S+ I+  G+ +E++  +   YD L   + KSC  +  LFP  Y +  E     G
Sbjct: 375 ID-VLTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKE-----G 428

Query: 432 LVDRLFPQVGLLGEVG------NRVHPVVLRLISSSLLLEGDR-ESCFRIHDDTRKVVKY 484
           LVD    + G + E        N+ + ++  L+ + LLLE +R +S  ++HD  R++  +
Sbjct: 429 LVDYWISE-GFINEKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALW 487

Query: 485 IAAREGDH-----FIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQ 539
           I++  G         A  G+++    +D     K+SLM+  +  + D  +C  LTTLFLQ
Sbjct: 488 ISSDLGKQKEKCIVRAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQ 547

Query: 540 NNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIRE 598
            N    I   FF     +  LDLS                      EN  LN+    I E
Sbjct: 548 KNDVVKISAEFFRCMPHLVVLDLS----------------------ENQSLNELPEEISE 585

Query: 599 FGELEVLILKGSRIVELPNGIGTVSNLKLLDLSN 632
              L    L  + I +LP G+ T+  L  L+L +
Sbjct: 586 LASLRYFNLSYTCIHQLPVGLWTLKKLIHLNLEH 619

Disease resistance (R) protein that specifically recognizes the avrPphB type III effector avirulence protein from Pseudomonas syringae. Also confers resistance against Hyaloperonospora parasitica (downy mildew). 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. Requires PBS1 to trigger the defense reaction against avrPphB. Probably triggers the defense mechanism when PBS1 is cleaved by avrPphB, suggesting that it detects indirectly the protease activity of avrPphB, and possibly binds to the cleaved RPS5.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C8T9|DRL19_ARATH Putative disease resistance protein At1g63350 OS=Arabidopsis thaliana GN=At1g63350 PE=2 SV=1

 Score =  184 bits (468), Expect = 3e-45,   Method: Compositional matrix adjust.
 Identities = 182/657 (27%), Positives = 323/657 (49%), Gaps = 45/657 (6%)

Query: 29  VERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW--QVQTI 86
           ++ ++ Y      N+ A      +L+AK+ D+LR +K  EDRG +   E++ W  +V+TI
Sbjct: 20  LDMKVSYTHNLEKNLVALETTMEELKAKRDDLLRKLKREEDRGLQTLGEIKVWLNRVETI 79

Query: 87  QYEMDVELLEEKIQKSEGRC----HTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESI 142
           +  ++ +LL  +  + +  C     +  L    R+  S     + VE +E      FE I
Sbjct: 80  ESRVN-DLLNARNAELQRLCLCGFCSKSLTTSYRYGKSVFLKLREVEKLER---RVFEVI 135

Query: 143 SFPARSADVRSIP-TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMK 201
           S  A +++V      P  V  ++ L+   +   L++D    + I+G+YG GG+GKTTL+ 
Sbjct: 136 SDQASTSEVEEQQLQPTIVGQETMLD--NAWNHLMED---GVGIMGLYGMGGVGKTTLLT 190

Query: 202 QV----MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE---GDVEVLRAAFLSER 254
           Q+     K    FD VI+V V++  +V+ + DEIA+ ++   E      +  +  +L   
Sbjct: 191 QINNKFSKYMCGFDSVIWVVVSKEVNVENILDEIAQKVHISGEKWDTKYKYQKGVYLYNF 250

Query: 255 LKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEEL 314
           L R+ R ++ LDD+W K++L  +G+P+      CK++ T+R  +VC  M     ++V+ L
Sbjct: 251 L-RKMRFVLFLDDIWEKVNLVEIGVPFPTIKNKCKVVFTTRSLDVCTSMGVEKPMEVQCL 309

Query: 315 TDEDRLILFKKKAG-LPEGTKAFDRAAEEVV-RQCGKLPNAIVIIGTALRHK-PVREWNE 371
            D D   LF+KK G +  G+    R    VV ++C  LP A+ ++   +  K  V+EW  
Sbjct: 310 ADNDAYDLFQKKVGQITLGSDPEIRELSRVVAKKCCGLPLALNVVSETMSCKRTVQEWRH 369

Query: 372 AIKRKKASTPINVEGIPEEVVLCVALGYDQLETV-AKSCLQFSCLFPPYYSVSMEEFVIH 430
           AI     S      G+ ++++  +   YD L+    K CL +  LFP    +  E  + +
Sbjct: 370 AIYVLN-SYAAKFSGMDDKILPLLKYSYDSLKGEDVKMCLLYCALFPEDAKIRKENLIEY 428

Query: 431 GLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEG---DRESCFRIHDDTRKVVKYIAA 487
            + + +      + +  N+ + ++  L+ +SLL+E    D  +   +HD  R++  +IA+
Sbjct: 429 WICEEIIDGSEGIDKAENQGYEIIGSLVRASLLMEEVELDGANIVCLHDVVREMALWIAS 488

Query: 488 ---REGDHFI--AEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNP 542
              ++ + FI  A  G+++    E+     ++SLM  N+  L  +  C  LTTL LQ+  
Sbjct: 489 DLGKQNEAFIVRASVGLREILKVENWNVVRRMSLMKNNIAHLDGRLDCMELTTLLLQSTH 548

Query: 543 FADIPNAFFEHTREIKNLDLSST-NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGE 601
              I + FF    ++  LDLS    +S L   +  L  L+ L+L +T +    L +   E
Sbjct: 549 LEKISSEFFNSMPKLAVLDLSGNYYLSELPNGISELVSLQYLNLSSTGIR--HLPKGLQE 606

Query: 602 LEVLI-LKGSRIVELPN--GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV 655
           L+ LI L   R  +L +  GI  + NLK+L LS + +   +  + + +L  LE L V
Sbjct: 607 LKKLIHLYLERTSQLGSMVGISCLHNLKVLKLSGSSYAWDL--DTVKELEALEHLEV 661

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q940K0|DRL15_ARATH Probable disease resistance protein At1g61180 OS=Arabidopsis thaliana GN=At1g61180 PE=2 SV=2

 Score =  184 bits (466), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 145/490 (29%), Positives = 254/490 (51%), Gaps = 28/490 (5%)

Query: 137 SNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGK 196
            NF+ +S P   ++V   PT   +  +  LE  K+  +L++D    + I+G++G GG+GK
Sbjct: 131 GNFDEVSQPPPRSEVEERPTQPTIGQEDMLE--KAWNRLMED---GVGIMGLHGMGGVGK 185

Query: 197 TTLMKQVMKQ--EI--PFDKVIFVRVTQTPDVKRVQDEIARFLN--TELEGDVEVLRAAF 250
           TTL K++  +  EI   FD VI++ V++   + ++Q++IA  L+   +L  +      A 
Sbjct: 186 TTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKAT 245

Query: 251 LSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQ 310
              R+ + KR +++LDD+W K+DL  +GIPY  E   CK+  T+R +EVC EM     +Q
Sbjct: 246 DIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPMQ 305

Query: 311 VEELTDEDRLILFKKKAGLPEGTKAFD----RAAEEVVRQCGKLPNAIVIIGTALRHKP- 365
           V  L  ED   LFK K G  + T + D      A EV ++C  LP A+ +IG  +  K  
Sbjct: 306 VNCLEPEDAWELFKNKVG--DNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKTM 363

Query: 366 VREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQL-ETVAKSCLQFSCLFPPYYSVSM 424
           V+EW  AI     S       +  +++  +   YD L +   KSC  +  LFP    +  
Sbjct: 364 VQEWEHAIHVFNTSAA-EFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIYN 422

Query: 425 EEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKY 484
           E+ + + + +    +  ++    N+ + ++  L  ++LL +     C  +HD  R++  +
Sbjct: 423 EKLIDYWICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTYYCV-MHDVVREMALW 481

Query: 485 IAA---REGDHFIAEPGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQ 539
           IA+   ++ ++F+ + G+     P+ +D     K+SLMD ++  +  + KC  LTTLFLQ
Sbjct: 482 IASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFLQ 541

Query: 540 NNPFADIPNAFFEHTREIKNLDLS-STNISSLAPSLPCLEKLRSLHLENTHLNDASL-IR 597
           +N   ++P AF  + +++  LDLS + + + L   +  L  L+ L L NT +    + ++
Sbjct: 542 SNKLKNLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGLK 601

Query: 598 EFGELEVLIL 607
           E  +L  L L
Sbjct: 602 ELKKLTFLDL 611

Probable disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FLB4|DRL31_ARATH Putative disease resistance protein At5g05400 OS=Arabidopsis thaliana GN=At5g05400 PE=2 SV=1

 Score =  182 bits (462), Expect = 1e-44,   Method: Compositional matrix adjust.
 Identities = 170/626 (27%), Positives = 291/626 (46%), Gaps = 75/626 (11%)

Query: 42  NIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW--QVQTIQYEMDVELLEEKI 99
           ++ A ++  R LEA++ D+L+ +K  EDRG  +  EV+ W  +V++   E   ++L +  
Sbjct: 35  HVAALKKTVRQLEARRDDLLKRIKVQEDRGLNLLDEVQQWLSEVESRVCEAH-DILSQSD 93

Query: 100 QKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPT--- 156
           ++ +  C   +    KR + S   +K  +  ++ +   N  S       A    IP    
Sbjct: 94  EEIDNLCCGQYCS--KRCKYSYDYSKSVINKLQDVE--NLLSKGVFDEVAQKGPIPKVEE 149

Query: 157 ----PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ----EI 208
                E V  ++ +E   + M       + + ++G+YG GG+GKTTL+ Q+  +      
Sbjct: 150 RLFHQEIVGQEAIVESTWNSMM-----EVGVGLLGIYGMGGVGKTTLLSQINNKFRTVSN 204

Query: 209 PFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLS--ERLKRQKRVLIILD 266
            FD  I+V V++ P VKR+Q++I + L+   EG  +       S  +R    K+ +++LD
Sbjct: 205 DFDIAIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQKTENEIASTIKRSLENKKYMLLLD 264

Query: 267 DLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKK 326
           D+W K+DLA +GIP  + + G KI  TSR  EVC +M     ++V  L  +D   LF + 
Sbjct: 265 DMWTKVDLANIGIPVPKRN-GSKIAFTSRSNEVCGKMGVDKEIEVTCLMWDDAWDLFTRN 323

Query: 327 AG-LPEGTKAFDRAAEEVVRQCGKLPNAIVIIG-TALRHKPVREWNEAIKRKKASTPINV 384
                E        A+ + R+C  LP A+ +IG T  R K + EW++A+           
Sbjct: 324 MKETLESHPKIPEVAKSIARKCNGLPLALNVIGETMARKKSIEEWHDAVGV--------F 375

Query: 385 EGIPEEVVLCVALGYDQLET-VAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLL 443
            GI  +++  +   YD L+    KSC  FS LFP  Y +  ++     L++    Q  +L
Sbjct: 376 SGIEADILSILKFSYDDLKCEKTKSCFLFSALFPEDYEIGKDD-----LIEYWVGQGIIL 430

Query: 444 GEVG--NRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDH-----FIAE 496
           G  G   + + ++  L  + LL E + +   ++HD  R++  +I++  GD       + E
Sbjct: 431 GSKGINYKGYTIIGTLTRAYLLKESETKEKVKMHDVVREMALWISSGCGDQKQKNVLVVE 490

Query: 497 PGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHT 554
              + +  P+ ED +   ++SL+   +    +   CP+L TL L++N    I   F  H 
Sbjct: 491 ANAQLRDIPKIEDQKAVRRMSLIYNQIEEACESLHCPKLETLLLRDNRLRKISREFLSHV 550

Query: 555 REIKNLDLS-STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIV 613
             +  LDLS + N+  L PS   L  LR L+L  T                       I 
Sbjct: 551 PILMVLDLSLNPNLIEL-PSFSPLYSLRFLNLSCTG----------------------IT 587

Query: 614 ELPNGIGTVSNLKLLDLSNNLFLQVI 639
            LP+G+  + NL  L+L +   L+ I
Sbjct: 588 SLPDGLYALRNLLYLNLEHTYMLKRI 613

Potential disease resistance protein.

Arabidopsis thaliana (taxid: 3702)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	1074
359494129	1144	PREDICTED: disease resistance protein At	0.940	0.882	0.323	1e-133
225445915	1063	PREDICTED: disease resistance protein At	0.855	0.864	0.322	1e-121
297735461	1063	unnamed protein product [Vitis vinifera]	0.855	0.864	0.317	1e-119
297735460	1042	unnamed protein product [Vitis vinifera]	0.855	0.881	0.325	1e-117
359488027	1520	PREDICTED: disease resistance protein At	0.894	0.632	0.316	1e-116
359488025	1781	PREDICTED: uncharacterized protein LOC10	0.903	0.544	0.318	1e-115
224117086	1078	cc-nbs-lrr resistance protein [Populus t	0.899	0.896	0.311	1e-114
359488108	1436	PREDICTED: disease resistance protein At	0.889	0.665	0.308	1e-114
147832986	975	hypothetical protein VITISV_010740 [Viti	0.772	0.851	0.327	1e-112
297735454	982	unnamed protein product [Vitis vinifera]	0.819	0.896	0.331	1e-112

>gi|359494129|ref|XP_002278428.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  483 bits (1243), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 363/1123 (32%), Positives = 570/1123 (50%), Gaps = 113/1123 (10%)

Query: 15   GSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEI 74
            G+ +S   + +  P+  QI YLV + S     R++   LE  K  V R +  A+ +GE I
Sbjct: 6    GTVVSIFEKYVVRPIGYQISYLVCFRSKAEGCRKQVEKLELLKDKVQRSLVVAKRKGENI 65

Query: 75   KAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHI 134
            + EV  W     +   DVE LE++++KS    + W  DW  R+ LSR   K T+ I    
Sbjct: 66   EPEVEKWLTVVEKVTGDVEKLEDEVKKSSS--NGWCSDWTSRYWLSRELKKTTLSIARLQ 123

Query: 135  RLSNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGI 194
                F  +S+ A S  + S+PT +  P ++ +  +  +++LLK    S   I VYG GG+
Sbjct: 124  EEGKFSKVSYSAPSPGIESLPTGDCCPFQTTVSAMNQIIELLKGEECST--ICVYGMGGV 181

Query: 195  GKTTLMKQVMKQEIP---FDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFL 251
            GKTTL+K+V K+      FD+V    V+Q PD+ ++QDEIA  L  E   + E+ RA  L
Sbjct: 182  GKTTLVKEVGKKVKKDKLFDEVAIAVVSQAPDLIKIQDEIADALGLEFHEEKEIGRAGRL 241

Query: 252  SERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMES-TNYVQ 310
             ERLK +KRVL+ILDD+W +LDL  +GIP+G +H+GCKI+LT+R +  C+ M S    + 
Sbjct: 242  RERLKTEKRVLVILDDVWERLDLGAIGIPHGVDHRGCKILLTTRREHTCNVMGSQATKIL 301

Query: 311  VEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWN 370
            +  L +++   LF+  AG    + A +  A E+ ++CG LP A+V +G AL  K +  W 
Sbjct: 302  LNILNEQESWALFRSNAGATVDSPAVNVVATEIAKKCGGLPLALVAVGRALSDKDIDGWQ 361

Query: 371  EAIKRKKASTPINVEGIPEEVVLCVALGYDQLET-VAKSCLQFSCLFPPYYSVSMEEFVI 429
            EA K+ K   P+N++ +  +   C+ L +D L+    KS     CLFP   ++ +E    
Sbjct: 362  EAAKQLKECKPMNIQDVDADFFSCLKLSFDYLQGEEIKSIFLLCCLFPEDRNIELEYLTR 421

Query: 430  HGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDR-ESCFRIHDDTRKVVKYIAAR 488
              +   L   V  + E   RV  ++  L +S LL++GD+ +   ++HD  R     I + 
Sbjct: 422  LAMGQGLLEDVETVEEGRRRVRTLIKGLKASCLLMDGDKSKGSLKMHDLVRVFAISITST 481

Query: 489  EGDHFIAEPGMK-KGWPRED-LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADI 546
            E   F+ + G+  K WP++   ++   +SLM  N+++LP   +CP+L TL L  N    I
Sbjct: 482  EKYAFMVKAGVGLKNWPKKGTFEHYALISLMANNISSLPVGLECPKLHTLLLGGNRGLKI 541

Query: 547  -PNAFFEHTREIKNLDLS---------STNISSLAPSLPCLEKLRSLHLENTHLNDASLI 596
             P+AFF   + +K LDL+         S +I+ L  SL  L  LR LHL +  L D S++
Sbjct: 542  FPDAFFVGMKTLKVLDLTAISKKLYRYSLHITPLPASLQLLTDLRMLHLHHRKLGDISIL 601

Query: 597  REFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVG 656
             +  +LE+L    S I ELP  +G + NLKLLDL+    L+ IPPN+IS LS LEELY+ 
Sbjct: 602  GKLKKLEILSFFASHISELPKEMGELKNLKLLDLTYCRSLKKIPPNLISGLSALEELYMR 661

Query: 657  NSFGDWEVEETA-NGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCV 715
             SF  W+V  T     +A  SE+ SL  LT L++ + N K +   F  P  N  RF++ +
Sbjct: 662  GSFQQWDVGGTTIERSSASLSELNSLLNLTTLHVEIINAKCIPNSFLFP--NQLRFQIYI 719

Query: 716  NDDY----------WEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTR----SSNLQD 761
                          ++    +++ LK + + I   VK+L E+TE L+L      S N+  
Sbjct: 720  GSKLSFATFTRKLKYDYPTSKALELKGIDSPIPIGVKMLFERTEDLSLISLLEGSRNI-- 777

Query: 762  IGEIDVQGFTGLMCMHLRAC-------SMQRIFHSNFYPTVQILEELH------------ 802
            +  +  +GF GL  + +R C          +  H   +P ++ +   H            
Sbjct: 778  LPNLGSRGFNGLTSLSVRNCVEFECIIDTTQGVHPVAFPNIETIHLTHLCGMKVLSSGTL 837

Query: 803  ------------VEYCYSLKEVF-----------------CLED------IEGEQAG--- 824
                        VE C  L  +F                 C ++      IEG   G   
Sbjct: 838  PMGSFRKLRVLTVEQCGGLSTLFPADLLQLLQNLEIVQITCCQEMQDVFQIEGILVGEEH 897

Query: 825  ---LKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNL 881
               L  LREL L  LP++  +WKG  + + L  L++++++ C +LR LF  ++A+ L  L
Sbjct: 898  VLPLSSLRELKLDTLPQLEHLWKGFGAHLSLHNLEVIEIERCNRLRNLFQPSIAQSLFKL 957

Query: 882  EDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLS 941
            E L I+ C  +++I++      E G  QE +     + +  P LK L +  C K+K + S
Sbjct: 958  EYLKIVDCMELQQIIA------EDGLEQEVSNVEDKKSLNLPKLKVLEVEDCKKLKSLFS 1011

Query: 942  LTNAHNLKQLEELTVASCNHMERIITV-SDEEKAAENKNVLPKLKILALEDLPELDSVYN 1000
            +++A +  QL++L V+  N ++ II+    E  AA +K VLP+L  L L+ LP L+S   
Sbjct: 1012 VSSAQSFLQLKQLKVSGSNELKAIISCECGEISAAVDKFVLPQLSNLELKALPVLESFCK 1071

Query: 1001 GEIAALRWPSLEELKVWDCPKLMKLPL----DTRSAPKLETFK 1039
            G      WPSLEE+ V  CP++    L      ++ PKL++ +
Sbjct: 1072 GNF-PFEWPSLEEVVVDTCPRMTTFALAAADGVQNMPKLKSLQ 1113

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225445915|ref|XP_002263288.1| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  442 bits (1137), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 331/1026 (32%), Positives = 503/1026 (49%), Gaps = 107/1026 (10%)

Query: 23   ERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQ 82
            ERLW+     +  LV Y  NI    +    LE  ++D       A+  GEEIK EV+ W 
Sbjct: 14   ERLWSSATGPVSNLVNYRKNIKNLNDEVEKLEIIRSDNRLSASAAQMNGEEIKGEVQMWL 73

Query: 83   VQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESI 142
             ++      VE L  ++  +         DW  R++LS+ A K    + E      FE +
Sbjct: 74   NKSDAVLRGVERLNGEVDMNRTCFGGCCPDWISRYKLSKQAKKDAHTVRELQGTGRFERV 133

Query: 143  SFPARS--ADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLM 200
            S P R       ++   +F   +S    +  VM  LK++ +  NIIGVYG GG+GKTT++
Sbjct: 134  SLPGRRQLGIESTLSLGDFQAFESTKRAMDEVMVALKEDRV--NIIGVYGMGGVGKTTMV 191

Query: 201  KQV---MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKR 257
            KQV     ++  F  V    ++Q PD++++Q +IA  LN +LE + E  RAA L ER+ R
Sbjct: 192  KQVGANAHRDGLFQHVAMAVISQNPDLRKIQAQIADMLNLKLEEESEAGRAARLRERIMR 251

Query: 258  QKRVLIILDDLWGKLDLAVVGIP-YGEEHKGCK--IILTSRFKEVCDEMESTNYVQVEEL 314
             K VLIILDD+W ++DL+ +GIP  G +   CK  I+LT+R + VC  MES   V +  L
Sbjct: 252  GKSVLIILDDIWRRIDLSEIGIPSTGSDLDACKSKILLTTRLENVCHVMESQAKVPLNIL 311

Query: 315  TDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIK 374
            +++D   LF +KAG    +  F   A+++V++CG LP A+V++  AL  K + EW EA +
Sbjct: 312  SEQDSWTLFGRKAGRIVDSPDFHNVAQKIVKECGGLPIALVVVARALGDKDLDEWKEAAR 371

Query: 375  RKKASTPINVEGIPEEVVLCVALGYDQLE-TVAKSCLQFSCLFPPYYSVSMEEFVIHGLV 433
            + + S P N++     V  C+ L YD L+    K C    CLFP    +S+E+ V +GL 
Sbjct: 372  QLEMSKPTNLDD-DGGVFKCIKLSYDYLKGNSTKPCFLICCLFPEDTDISIEDLVKYGLG 430

Query: 434  DRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDH- 492
              LF +   + E   R   VV  L + SLLL+   E   ++HD  R +   +A+ E D+ 
Sbjct: 431  QGLFQEANTIEEARGRARSVVKYLKACSLLLDSTEEGGVKMHDVVRDMAILLASSEEDNA 490

Query: 493  FIAEPGMK-KGWPRED-LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQ-NNPFADIPNA 549
            F+ + G   K WP +D  +    +SLM   +  LPD   CP+L TL LQ NN   +IP+ 
Sbjct: 491  FMVQSGSALKEWPTKDSYEAYTAISLMSNEIEELPDGLVCPKLQTLLLQNNNDIQEIPDD 550

Query: 550  FFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH-LNDASLIREFGELEVLILK 608
            FF     ++ LDL+  +I SL PSL  L  LR+L L+    + D S++ +  +LE+L L+
Sbjct: 551  FFGSFHSLRVLDLNGADIPSLPPSLGLLRSLRTLCLDCCQSITDISILGKLEKLEILSLR 610

Query: 609  GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWE--VEE 666
             S I +LP  +  ++NL++LD + +  ++ IPP VIS LS+LEE+Y+  SF DW   +E 
Sbjct: 611  ESYIEDLPEELAQLANLRMLDFTMSNNIKSIPPKVISSLSRLEEMYMQGSFADWGLLLEG 670

Query: 667  TANGQNARFSEVASLTRLTVLYIHVSNTKVL--SVDFDGPWTNLKRFRVCVNDDYWE--- 721
            T++G NA F E+  L RL +L + +S+ + +  +V FD  W N   F +C+N   +    
Sbjct: 671  TSSGANAGFDELTCLHRLNILKVDISDAECMPKTVRFDPNWVN---FDICINRKLFNRFM 727

Query: 722  --------IAPKRSMHLKNLSNSIASWV-KLLLEKTEYLTLTRSSNLQDI-GEIDVQGFT 771
                     A  RS+ L    N++  W  K+  E+TE L   +   L +I  E D     
Sbjct: 728  NVHLSRVTAARSRSLILDVTINTLPDWFNKVATERTEKLYYIKCRGLDNILMEYDQGSLN 787

Query: 772  GLMCMHLRACS-----MQRIFHSNFYPTVQILEELHVEYCYSLKEVFC------------ 814
            GL  + +++C      M  + +    P    LEEL V     LKE+              
Sbjct: 788  GLKILLVQSCHQIVHLMDAVTYIPNRPLFPSLEELRVHNLDYLKEICIGQLPPGSLGNMK 847

Query: 815  -----------------------------------LEDI---EGEQAG---LKRLRELVL 833
                                               LEDI   EG + G   + +LREL  
Sbjct: 848  FLQVEQCNELVNGLLPANLLRRLESLEVLDVSGSYLEDIFRTEGLREGEVVVGKLRELKR 907

Query: 834  VGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLME 893
              LP++  IW G   +     LK++ V  C KLR LF+ ++A+ L +LE+L I  C+ +E
Sbjct: 908  DNLPELKNIWYGPTQLAIFHNLKILTVIKCRKLRILFTYSVAQSLRHLEELWIEYCNGLE 967

Query: 894  EIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEE 953
             ++ + E     G   ER        + F NLK L +     ++             LE+
Sbjct: 968  GVIGIHEG----GDVVER--------IIFQNLKNLSLQNLPVLRSFYEGDARIECPSLEQ 1015

Query: 954  LTVASC 959
            L V  C
Sbjct: 1016 LHVQGC 1021

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735461|emb|CBI17901.3| unnamed protein product [Vitis vinifera]

 Score =  435 bits (1118), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 326/1026 (31%), Positives = 502/1026 (48%), Gaps = 107/1026 (10%)

Query: 23   ERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQ 82
            ERLW+     +  LV Y  NI    +    LE  ++D     + A+  GEEIK EV+ W 
Sbjct: 14   ERLWSSATGPVSNLVNYRKNIKNLNDEVEKLEIIRSDNRLSERAAQMNGEEIKGEVQMWL 73

Query: 83   VQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESI 142
             ++      VE L  ++  +         DW  R++LS+ A K    +        FE +
Sbjct: 74   NKSDAVRRGVERLNGEVDMNRTCFGGCCPDWISRYKLSKQAKKDAHTVRGLQGTGRFERV 133

Query: 143  SFPARS--ADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLM 200
            S P R       ++   +F   +S    +  VM  LK++ +  NIIGVYG GG+GKTT++
Sbjct: 134  SLPGRRQLGIESTLSFGDFQAFESTKRAMDEVMVALKEDRV--NIIGVYGMGGVGKTTMV 191

Query: 201  KQV---MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKR 257
            KQV     ++  F  V    ++Q PD++++Q +IA  LN +LE + E  RAA L ER+ R
Sbjct: 192  KQVGANAHRDGLFQHVAMAVISQNPDLRKIQAQIADMLNLKLEEESEAGRAARLRERIMR 251

Query: 258  QKRVLIILDDLWGKLDLAVVGIP-YGEEHKGCK--IILTSRFKEVCDEMESTNYVQVEEL 314
             K VLIILDD+W ++DL+ +GIP  G +   CK  I+LT+R + VC  MES   V +  L
Sbjct: 252  GKSVLIILDDIWRRIDLSEIGIPSTGSDLDACKSKILLTTRLENVCHVMESQAKVPLNIL 311

Query: 315  TDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIK 374
            +++D   LF +KAG    +  F   A+++V++CG LP A+V++  AL  K + EW EA +
Sbjct: 312  SEQDSWTLFGRKAGRVVDSPDFHNVAQKIVKECGGLPIALVVVARALGDKDLDEWKEAAR 371

Query: 375  RKKASTPINVEGIPEEVVLCVALGYDQLE-TVAKSCLQFSCLFPPYYSVSMEEFVIHGLV 433
            + + S P N++     V  C+ L YD L+    K C    CLFP    +S+E+ V +GL 
Sbjct: 372  QLEMSKPTNLDD-DGGVFKCIKLSYDYLKGNSTKPCFLICCLFPEDTDISIEDLVKYGLG 430

Query: 434  DRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKV-VKYIAAREGDH 492
              LF +   + E   R   VV  L + SLLL+   E   ++HD  R + +  +++ + + 
Sbjct: 431  QGLFQEANTIEEARGRARSVVKYLKACSLLLDSTEEGGVKMHDVVRDMAILLVSSEDNNA 490

Query: 493  FIAEPGMK-KGWPRED-LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQ-NNPFADIPNA 549
            F+ + G   K WP +D  +    +SLM   +  LPD   CP+L TL LQ NN   +IP+ 
Sbjct: 491  FMVQSGSALKVWPTKDSYEAYTAISLMSNEIEELPDGLVCPKLQTLLLQNNNDIQEIPDD 550

Query: 550  FFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH-LNDASLIREFGELEVLILK 608
            FF     ++ LDL+  +I SL PSL  L  LR+L L+    + D S++ +  +LE+L L+
Sbjct: 551  FFGSFHSLRVLDLNGADIPSLPPSLGLLRSLRTLCLDCCQSITDISILGKLEKLEILSLR 610

Query: 609  GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWE--VEE 666
             S I +LP  +  ++NL++LD + +  ++ IPP VIS LS+LEE+Y+  SF DW   +E 
Sbjct: 611  ESYIEDLPEELAQLANLRMLDFTMSNNIKSIPPKVISSLSRLEEMYMQGSFADWGLLLEG 670

Query: 667  TANGQNARFSEVASLTRLTVLYIHVSNTKVL--SVDFDGPWTNLKRFRVCVNDDYW---- 720
            T++G NA F E+  L RL +L + +S+ + +  +V FD  W N   F +C++   +    
Sbjct: 671  TSSGANAGFDELTCLHRLNILKVDISDAECMPKTVRFDPNWVN---FDICISRKLFTRFM 727

Query: 721  -------EIAPKRSMHLKNLSNSIASWV-KLLLEKTEYLTLTRSSNLQDI-GEIDVQGFT 771
                     A  R++ L    N++  W  K+  E+TE L       L +I  E D     
Sbjct: 728  NVHLSRVTAARSRALILDVTINTLPDWFNKVATERTEKLYYIECRGLDNILMEYDQGSLN 787

Query: 772  GLMCMHLRACS-----MQRIFHSNFYPTVQILEELHVEYCYSLKEVFC------------ 814
            GL  + +++C      M  + +    P    LEEL V     LKE+              
Sbjct: 788  GLKILLVQSCHQIVHLMDAVTYVPNRPLFPSLEELRVHNLDYLKEICIGQLPPGSLGNMK 847

Query: 815  -----------------------------------LEDI---EGEQAG---LKRLRELVL 833
                                               LEDI   EG + G   + +LREL L
Sbjct: 848  FLQVEQCNELVNGLLPANLLRRLESLEVLDVSGSYLEDIFRTEGLREGEVVVGKLRELKL 907

Query: 834  VGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLME 893
              LP++  IW G   +     LK++ V  C KLR LF+ ++A+ L  LE+L I  C+ +E
Sbjct: 908  DNLPELKNIWNGPTQLAIFHNLKILTVIKCKKLRNLFTYSVAQSLRYLEELWIEYCNGLE 967

Query: 894  EIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEE 953
             ++ + E     G   ER        + F NLK L +     ++             LE+
Sbjct: 968  GVIGMHEG----GDVVER--------IIFQNLKNLSLQNLPVLRSFYEGDARIECPSLEQ 1015

Query: 954  LTVASC 959
            L V  C
Sbjct: 1016 LHVQGC 1021

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735460|emb|CBI17900.3| unnamed protein product [Vitis vinifera]

 Score =  428 bits (1101), Expect = e-117,   Method: Compositional matrix adjust.
 Identities = 327/1005 (32%), Positives = 500/1005 (49%), Gaps = 86/1005 (8%)

Query: 23   ERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQ 82
            ERLW+     +  LV Y  NI    +    LE  ++D       A+  GEEIK EV+ W 
Sbjct: 14   ERLWSSATGPVSNLVNYRKNIKNLNDEVEKLEIIRSDNRLSASAAQMNGEEIKGEVQMWL 73

Query: 83   VQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNFESI 142
             ++      VE L  ++  +         DW  R++LS+ A K    + E      FE +
Sbjct: 74   NKSDAVLRGVERLNGEVDMNRTCFGGCCPDWISRYKLSKQAKKDAHTVRELQGTGRFERV 133

Query: 143  SFPARS--ADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLM 200
            S P R       ++   +F   +S    +  VM  LK++ +  NIIGVYG GG+GKTT++
Sbjct: 134  SLPGRRQLGIESTLSLGDFQAFESTKRAMDEVMVALKEDRV--NIIGVYGMGGVGKTTMV 191

Query: 201  KQV---MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKR 257
            KQV     ++  F  V    ++Q PD++++Q +IA  LN +LE + E  RAA L ER+ R
Sbjct: 192  KQVGANAHRDGLFQHVAMAVISQNPDLRKIQAQIADMLNLKLEEESEAGRAARLRERIMR 251

Query: 258  QKRVLIILDDLWGKLDLAVVGIP-YGEEHKGCK--IILTSRFKEVCDEMESTNYVQVEEL 314
             K VLIILDD+W ++DL+ +GIP  G +   CK  I+LT+R + VC  MES   V +  L
Sbjct: 252  GKSVLIILDDIWRRIDLSEIGIPSTGSDLDACKSKILLTTRLENVCHVMESQAKVPLNIL 311

Query: 315  TDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIK 374
            +++D   LF +KAG    +  F   A+++V++CG LP A+V++  AL  K + EW EA +
Sbjct: 312  SEQDSWTLFGRKAGRIVDSPDFHNVAQKIVKECGGLPIALVVVARALGDKDLDEWKEAAR 371

Query: 375  RKKASTPINVEGIPEEVVLCVALGYDQLE-TVAKSCLQFSCLFPPYYSVSMEEFVIHGLV 433
            + + S P N++     V  C+ L YD L+    K C    CLFP    +S+E+ V +GL 
Sbjct: 372  QLEMSKPTNLDD-DGGVFKCIKLSYDYLKGNSTKPCFLICCLFPEDTDISIEDLVKYGLG 430

Query: 434  DRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDH- 492
              LF +   + E   R   VV  L + SLLL+   E   ++HD  R +   +A+ E D+ 
Sbjct: 431  QGLFQEANTIEEARGRARSVVKYLKACSLLLDSTEEGGVKMHDVVRDMAILLASSEEDNA 490

Query: 493  FIAEPGMK-KGWPRED-LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQ-NNPFADIPNA 549
            F+ + G   K WP +D  +    +SLM   +  LPD   CP+L TL LQ NN   +IP+ 
Sbjct: 491  FMVQSGSALKEWPTKDSYEAYTAISLMSNEIEELPDGLVCPKLQTLLLQNNNDIQEIPDD 550

Query: 550  FFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH-LNDASLIREFGELEVLILK 608
            FF     ++ LDL+  +I SL PSL  L  LR+L L+    + D S++ +  +LE+L L+
Sbjct: 551  FFGSFHSLRVLDLNGADIPSLPPSLGLLRSLRTLCLDCCQSITDISILGKLEKLEILSLR 610

Query: 609  GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWE--VEE 666
             S I +LP  +  ++NL++LD + +  ++ IPP VIS LS+LEE+Y+  SF DW   +E 
Sbjct: 611  ESYIEDLPEELAQLANLRMLDFTMSNNIKSIPPKVISSLSRLEEMYMQGSFADWGLLLEG 670

Query: 667  TANGQNARFSEVASLTRLTVLYIHVSNTKVL--SVDFDGPWTNLKRFRVCVNDDYWE--- 721
            T++G NA F E+  L RL +L + +S+ + +  +V FD  W N   F +C+N   +    
Sbjct: 671  TSSGANAGFDELTCLHRLNILKVDISDAECMPKTVRFDPNWVN---FDICINRKLFNRFM 727

Query: 722  --------IAPKRSMHLKNLSNSIASWV-KLLLEKTEYLTLTRSSNLQDI-GEIDVQGFT 771
                     A  RS+ L    N++  W  K+  E+TE L   +   L +I  E D     
Sbjct: 728  NVHLSRVTAARSRSLILDVTINTLPDWFNKVATERTEKLYYIKCRGLDNILMEYDQGSLN 787

Query: 772  GLMCMHLRACS-----MQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLK 826
            GL  + +++C      M  + +    P    LEEL V     LKE+   +   G    +K
Sbjct: 788  GLKILLVQSCHQIVHLMDAVTYIPNRPLFPSLEELRVHNLDYLKEICIGQLPPGSLGNMK 847

Query: 827  RLR-----ELVLVGLPKVL------------------------TIWKGNHSVVYLKTLK- 856
             L+     ELV   LP  L                         + +G   V  L+ LK 
Sbjct: 848  FLQVEQCNELVNGLLPANLLRRLESLEVLDVSGSYLEDIFRTEGLREGEVVVGKLRELKR 907

Query: 857  --LMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVS 914
              L ++K+  KLR LF+ ++A+ L +LE+L I  C+ +E ++ + E     G   ER   
Sbjct: 908  DNLPELKNIWKLRILFTYSVAQSLRHLEELWIEYCNGLEGVIGIHEG----GDVVER--- 960

Query: 915  SAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASC 959
                 + F NLK L +     ++             LE+L V  C
Sbjct: 961  -----IIFQNLKNLSLQNLPVLRSFYEGDARIECPSLEQLHVQGC 1000

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488027|ref|XP_002269288.2| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  426 bits (1095), Expect = e-116,   Method: Compositional matrix adjust.
 Identities = 342/1080 (31%), Positives = 533/1080 (49%), Gaps = 119/1080 (11%)

Query: 21   ILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRN 80
            + E L  P+ R   YL  Y SNI   R++   L   +  + R V +A   G+EI+A+V  
Sbjct: 12   VAEYLVAPIGRSFGYLFNYRSNIDDLRQQVEKLGDARARLERSVDEAIRNGDEIEADVDK 71

Query: 81   WQVQTIQYEMDVELLEEKIQKSEGRCHTWHL-DWRKRHQLSRVATKKTVEIIEHIRLSNF 139
            W ++   +  +  +  E  +K+   C      + + ++QLSR A K+   + E      F
Sbjct: 72   WLLRVSGFMEEAGIFFEVEKKANQSCFNGSCPNLKSQYQLSREAKKRARVVAEIQGDGKF 131

Query: 140  ESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTL 199
            E +S+ A    + S P      L+S +  +  +M+ L+D    +NIIGV+G  G+GKTTL
Sbjct: 132  ERVSYRAPLPGIGSAPFKGHEALESRMTTLDEIMEALRD--AHVNIIGVWGMAGVGKTTL 189

Query: 200  MKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLK 256
            MKQV KQ   E  FDKV+   ++ TP++K++Q E+A  L  + E + E+ RAA L ERLK
Sbjct: 190  MKQVAKQAEEEKLFDKVVMAYISSTPELKKIQGELADMLGLKFEEESEMGRAARLCERLK 249

Query: 257  RQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEV-CDEMESTNYVQVEELT 315
            + K++LIILDD+W +LDL  VGIP+G++HKGCK++LTSR K +  +EM +     VE L 
Sbjct: 250  KVKKILIILDDIWTELDLEKVGIPFGDDHKGCKMVLTSRNKHILSNEMGTQKDFPVEHLQ 309

Query: 316  DEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKR 375
            +E+ LILFKK AG           A +V ++C  LP AIV +  AL++K +  W +A+++
Sbjct: 310  EEEALILFKKMAGDSIEEPDLQSIAIDVAKECAGLPIAIVTVAKALKNKGLSIWEDALRQ 369

Query: 376  KKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDR 435
             K S P N++G+   V   + L Y  LE      L   C       + +++ + +G+  R
Sbjct: 370  LKRSIPTNIKGMDAMVYSTLELSYKHLEGDEVKSLFLLCGLMS-NKIYIDDLLKYGMGLR 428

Query: 436  LFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHFIA 495
            LF     L E  NR+  +V  L +S LLL+    S  R+HD  R V   I ++    F  
Sbjct: 429  LFQGTNTLEEAKNRIDTLVDSLKASKLLLDTGHNSFVRMHDVVRDVAIAIVSKVHRVFSL 488

Query: 496  EPGMKKGWPRED-LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQN--NPFADIPNAFFE 552
                   WP+ D LQ C K+SL   ++  LP +  CP L      +  +    IP  FFE
Sbjct: 489  REDELVEWPKMDELQTCTKMSLAYNDICELPIELVCPELELFLFYHTIDYHLKIPETFFE 548

Query: 553  HTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRI 612
              +++K LDLS+ + +SL  SL CL  LR+L L    L D S+I E  +LE     GS I
Sbjct: 549  EMKKLKVLDLSNMHFTSLPSSLRCLTNLRTLSLNWCKLGDISIIVELKKLEFFSFMGSNI 608

Query: 613  VELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQN 672
             +LP  I  +++L+L DL +   L+ IPPNVIS LS+LE L + NSF  WEVE  +   N
Sbjct: 609  EKLPREIAQLTHLRLFDLRDCSKLREIPPNVISSLSKLENLCMENSFTLWEVEGKS---N 665

Query: 673  ARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDY-WE--IAPKRSMH 729
            A  +E   L  LT L I + + ++L  D    +  L R+R+ + D + W+      +++ 
Sbjct: 666  ASIAEFKYLPYLTTLDIQIPDAELLLTDV--LFEKLIRYRIFIGDVWSWDKNCPTTKTLK 723

Query: 730  LKNLSNS--IASWVKLLLEKTEYLTLTRSSNLQDI-GEIDVQGFTGLMCMHL-RACSMQR 785
            L  L  S  +A  + LLL+  + L L   S   ++  ++D +GF  L C+H+ R+  MQ 
Sbjct: 724  LNKLDTSLRLADGISLLLKGAKDLHLRELSGAANVFPKLDREGFLQLKCLHVERSPEMQH 783

Query: 786  IFHSNFYPTVQ-----ILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVL 840
            I +S   P +      +LE L +    +L+EV       G+          +LVG     
Sbjct: 784  IMNS-MDPILSPCAFPVLESLFLNQLINLQEV-----CHGQ----------LLVG----- 822

Query: 841  TIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIV---- 896
                   S  Y   L+++KV+ C  L++LFS ++A GL  LE + I +C  M ++V    
Sbjct: 823  -------SFSY---LRIVKVEYCDGLKFLFSMSMARGLSRLEKIEITRCKNMYKMVAQGK 872

Query: 897  -----SVDE---AEVE---------------QGAAQERNVSSAP---------------- 917
                 +VD    AE+                +G         +P                
Sbjct: 873  EDGDDAVDAILFAELRYLTLQHLPKLRNFCLEGKTMPSTTKRSPTTNVRFNGICSEGELD 932

Query: 918  -QPMFFPNLK----KLLIGKCN----KMKRVLSLTNA---HNLKQLEELTVASCNHMERI 965
             Q   F  L+    +LL+  CN    K+K   SL        L+ L+ L V    + +  
Sbjct: 933  NQTSVFNQLEGWHGQLLLSFCNLQSLKIKNCASLLKVLPPSLLQNLQNLEVLIVENYDIP 992

Query: 966  ITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKL 1025
            + V   EKAA     LP L++L +  L  +  +++ ++    +  L+++KV  C +L+ +
Sbjct: 993  VAVLFNEKAA-----LPSLELLNISGLDNVKKIWHNQLPQDSFTKLKDVKVASCGQLLNI 1047

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488025|ref|XP_003633688.1| PREDICTED: uncharacterized protein LOC100852821 [Vitis vinifera]

 Score =  424 bits (1091), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 346/1087 (31%), Positives = 533/1087 (49%), Gaps = 117/1087 (10%)

Query: 23   ERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQ 82
            E L  PV RQ+ YL  Y +NI    ++   L   +  +   V +A   G +I+ +V  W 
Sbjct: 14   EYLVGPVVRQLGYLFNYRTNIEDLSQKVEKLRGARARLQHSVDEAIRNGHKIEDDVCKWM 73

Query: 83   VQTIQY-EMDVELLE-EKIQKS--EGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSN 138
             +   + + D + LE E+ +KS   G C     + + R+QLSR A KK    +E      
Sbjct: 74   TRADGFIQKDCKFLEDEEARKSCFNGLCP----NLKSRYQLSREARKKAGVAVEIHEAGQ 129

Query: 139  FESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTT 198
            FE  S+ A   ++RS P+     L+S +  +  VMK L+D    IN IGV+G GG+GKTT
Sbjct: 130  FERASYRAPLQEIRSAPSEA---LESRMLTLNEVMKALRD--AKINKIGVWGLGGVGKTT 184

Query: 199  LMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERL 255
            L+KQV +Q   E  FDKV+   V +TPD+K++Q E+A  L  + E + E  RAA L +R+
Sbjct: 185  LVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFEEESEQGRAARLYQRM 244

Query: 256  KRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEV-CDEMESTNYVQVEEL 314
              +K +LIILDD+W KLDL  +GIP  + HKGCK++LTSR + +  +EM++    +V+ L
Sbjct: 245  NEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHILSNEMDTQKDFRVQPL 304

Query: 315  TDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALR-HKPVREWNEAI 373
             +++  ILFK  AG  E  +     A +V ++C  LP A+V + TAL+  K V  W +A 
Sbjct: 305  QEDETWILFKNTAGSIENPE-LQPIAVDVAKECAGLPLAVVTVATALKGEKSVSIWEDAR 363

Query: 374  KRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLV 433
             + K+ T  NV G+   V   + L Y+ L+ V        C       + + + + +G+ 
Sbjct: 364  LQLKSQTSTNVTGLTTNVYSSLKLSYEHLKGVEVKSFFLLCGLISQNDIHIWDLLKYGVG 423

Query: 434  DRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDHF 493
             RLF     L E  NR+  +V  L SS+LLLE    +  R+HD  R   + IA+ +   F
Sbjct: 424  LRLFQGTNTLEEAKNRIDTLVGNLKSSNLLLETGHNAVVRMHDLVRSTARKIASDQHHVF 483

Query: 494  IAEPGMKK--GWPRED-LQNCEKLSLMDGNVTALPDQPKCPRLTTLF----LQNNPFADI 546
              +    +  GWPR D LQ    +SL D ++  LP+   CP+L  LF    +  N    I
Sbjct: 484  TLQNTTVRVEGWPRIDELQKVTWVSLHDCDIHELPEGLVCPKLE-LFGCYDVNTNSAVQI 542

Query: 547  PNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLI 606
            PN FFE  +++K LDLS   + SL  SL CL  LR+L L+   + D  +I +  +LE+L 
Sbjct: 543  PNKFFEEMKQLKVLDLSRMQLPSLPLSLHCLTNLRTLCLDGCKVGDIVIIAKLKKLEILS 602

Query: 607  LKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEE 666
            LK S + +LP  I  +++L+LLDLS +  L+VIP +VIS LSQLE L + NSF  WE E 
Sbjct: 603  LKDSDMEQLPREIAQLTHLRLLDLSGSSKLKVIPSDVISSLSQLENLCMANSFTQWEGEA 662

Query: 667  TANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDY-W--EIA 723
             +   NA  +E+  L+ LT L I + + K+L  D    + NL R+R+ V D + W     
Sbjct: 663  KS---NACLAELKHLSHLTSLDIQIRDAKLLPKDI--VFDNLVRYRIFVGDVWRWRENFE 717

Query: 724  PKRSMHLKNLSNS--IASWVKLLLEKTEYLTLTRSSNLQDI-GEIDVQGFTGLMCMHLRA 780
              +++ L     S  +   +  LL++TE L L       ++  ++D +GF          
Sbjct: 718  TNKTLKLNKFDTSLHLVHGIIKLLKRTEDLHLRELCGGTNVLSKLDGEGFLK-------- 769

Query: 781  CSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVL 840
                             L+ L+VE    ++ +    D+         +  L L  L  + 
Sbjct: 770  -----------------LKHLNVESSPEIQYIVNSMDLTPSHGAFPVMETLSLNQLINLQ 812

Query: 841  TIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDE 900
             + +G         L+ ++VKDC  L+ LFS ++A GL  LE++ + +C+ M E+VS   
Sbjct: 813  EVCRGQFPAGSFGYLRKVEVKDCNGLKCLFSLSVARGLSRLEEIKVTRCESMVEMVSQGR 872

Query: 901  AEVEQGAA------------------------QERNVSSAP---------QPMFFP---- 923
             E+++ A                         +E  V S P          P+  P    
Sbjct: 873  KEIKEAAVNVPLFPELRSLTLEDLPKLSNFCFEENPVLSKPPSTIVGPSTPPLNQPEIRD 932

Query: 924  ---------NLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKA 974
                     NL+ L +  C  +   L L     L+ LEEL V +C  +E +  + +    
Sbjct: 933  GQLLLSLGGNLRSLELKNCMSL---LKLFPPSLLQNLEELRVENCGQLEHVFDLEELNVD 989

Query: 975  AENKNVLPKLKILALEDLPELDSVYNGEIAALRWP-SLEELKVWDC--PKLMKLPLDTRS 1031
              +  +LPKLK L L  LP+L  + N + +   +P S+    V +   PKL  + L+  S
Sbjct: 990  DGHVELLPKLKELMLSGLPKLRHICNCDSSRNHFPSSMASAPVGNIIFPKLSDITLE--S 1047

Query: 1032 APKLETF 1038
             P L +F
Sbjct: 1048 LPNLTSF 1054

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224117086|ref|XP_002331783.1| cc-nbs-lrr resistance protein [Populus trichocarpa] gi|222832242|gb|EEE70719.1| cc-nbs-lrr resistance protein [Populus trichocarpa]

 Score =  419 bits (1076), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 326/1045 (31%), Positives = 532/1045 (50%), Gaps = 79/1045 (7%)

Query: 9    TLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAE 68
             L +  GS +S I E +  PV RQ  Y+  + + +  F+ER  +L      +   V+ AE
Sbjct: 2    ALESAGGSIISKIAELMVEPVGRQFRYMFCFNTFVEEFKERKENLALALDGLQDDVEAAE 61

Query: 69   DRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTV 128
               +EI  +V+ W           + LE +I K+ G+C TW  +  ++ +LS+   KK+ 
Sbjct: 62   RNAKEIYEDVKQWLEDANNEIEGAKPLENEIGKN-GKCFTWCPNCMRQFKLSKALAKKSE 120

Query: 129  EIIEHIRLS-NFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIG 187
               E    S  F++++  A    +  +P+ EF PLKS+ E  + +M+ LKD+ +  N+IG
Sbjct: 121  TFRELGESSEKFKTVAHKAHPQPIEFLPSKEFTPLKSSEEAFEQIMEALKDDKV--NMIG 178

Query: 188  VYGSGGIGKTTLMKQV---MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVE 244
            + G GG+GKTTL K+V    K+   F +V+   V+Q P+V  +QD +A  L  +++    
Sbjct: 179  LCGMGGVGKTTLAKEVGRRAKELQLFPEVLMATVSQNPNVTDIQDRMADKLGLDIKEKSR 238

Query: 245  VLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEME 304
              RA  L   LK  +++LIILDD+W  +DL  +GIP+G++H+GCKI+LT+R + +C  ME
Sbjct: 239  EGRADRLRHILKEVEKMLIILDDVWKYIDLKEIGIPFGDDHRGCKILLTTRLQAICSSME 298

Query: 305  STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHK 364
                V +  LT+++ L+LF+ KAGL +G    +  A EV R+C  LP A+V +G ALR K
Sbjct: 299  CQQKVLLRVLTEDEALVLFRIKAGLRDGDSTLNTVAREVARECQGLPIALVTVGRALRGK 358

Query: 365  PVREWNEAIKRKKASTPINVEGIPEE--VVLCVALGYDQLETV-AKSCLQFSCLFPPYYS 421
               EW  A ++ K S  +++E I E+     C+ L YD L++   K C    CLFP  Y+
Sbjct: 359  SEVEWEVAFRQLKNSQFLDMEHIDEQRTAYACLKLSYDYLKSKETKLCFLICCLFPEDYN 418

Query: 422  VSMEEFVIHGLVDRLFPQVG-LLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRK 480
            + +E+   +         VG L+ +   RV   +  L    +LL  + E   R+HD  R 
Sbjct: 419  IPIEDLTRYA--------VGYLIEDARKRVSVAIENLKDCCMLLGTETEEHVRMHDLVRD 470

Query: 481  VVKYIAAREGDHFIAEPGMK-KGWP--REDLQNCEKLSLMDGNVTALPDQPKCPRLTTLF 537
            V   IA+ +   F+ + G+  K WP   +  + C  +SLM   +  LP+   CP+L  L 
Sbjct: 471  VAIRIASSKEYGFMVKAGIGLKEWPMSNKSFEGCTTISLMGNKLAELPEGLVCPKLEVLL 530

Query: 538  LQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIR 597
            L+ +   ++P  FFE  +EI+ L L    +S    SL    KL+SL L      D   +R
Sbjct: 531  LELDDGLNVPQRFFEGMKEIEVLSLKGGCLS--LQSLELSTKLQSLMLITCGCKDLIWLR 588

Query: 598  EFGELEVLILKGS-RIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVG 656
            +   L++L L     I ELP+ IG +  L+LLD++    L+ IP N+I +L +LEEL +G
Sbjct: 589  KLQRLKILGLMWCLSIEELPDEIGELKELRLLDVTGCRRLRRIPVNLIGRLKKLEELLIG 648

Query: 657  -NSFGDWEVEETA-NGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVC 714
             +SF  W+V  T+  G NA   E+ SL+ L VL + +   + +  DF  P   L+++ + 
Sbjct: 649  KDSFQGWDVVGTSTGGMNASLKELNSLSHLAVLSLRIPKVECIPRDFVFP-VRLRKYDII 707

Query: 715  VNDDYWEIAPK----RSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGF 770
            +   Y  +A +      ++L   S +  ++ +L L K E++       ++D G+I    F
Sbjct: 708  LG--YGFVAGRYPTSTRLNLAGTSLNAKTFGQLFLHKLEFV------KVRDCGDI----F 755

Query: 771  TGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCL-EDIEG-----EQAG 824
            T              +F +     ++ L+E+ V  C S++EVF L E  EG     E   
Sbjct: 756  T--------------LFPAKLLQVLKNLKEVIVHGCKSVEEVFELGEADEGSSEQMELPF 801

Query: 825  LKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDL 884
            L  L  L L  L ++  IWKG    V L+ L  + V    KL ++F+  LA+ L  LE L
Sbjct: 802  LSSLTTLQLSCLSELKCIWKGPTRNVSLQNLNFLAVTFLNKLTFIFTAFLAQSLSKLESL 861

Query: 885  SILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLT- 943
             I  C  ++ I+  ++         ER +   P+  +FP LK ++I +C K++ V S++ 
Sbjct: 862  CITDCRELKHIIREEDG--------ERKI--IPKSPYFPKLKTIIIEECGKLEYVFSVSV 911

Query: 944  --NAHNLKQLEELTVASCNHMERIITVSDEEKA-AENKNVLPKLKILALEDLPELDSVYN 1000
                 +L QL+ L +  C  ++ II   D EK         P+LK L +    +L+  + 
Sbjct: 912  SLTLQSLPQLQTLEIRDCGELKHIIKEEDGEKEIIPESPCFPQLKTLRISYCGKLEYFFP 971

Query: 1001 GEIAALRWPSLEELKVWDCPKLMKL 1025
              + +L  P+LE++ ++D   L ++
Sbjct: 972  VSM-SLTLPNLEQMTIYDGDNLKQI 995

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359488108|ref|XP_003633701.1| PREDICTED: disease resistance protein At4g27190-like [Vitis vinifera]

 Score =  418 bits (1075), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 329/1066 (30%), Positives = 523/1066 (49%), Gaps = 111/1066 (10%)

Query: 15   GSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEI 74
            GS ++ + E L  PV RQ+ YL  Y +NI    ++  +L   +      V +A   G  I
Sbjct: 6    GSVVAKVSEYLVGPVVRQLDYLFNYRTNIEDLSQKVDNLRDARARQQHSVDEAIGNGHII 65

Query: 75   KAEVRNWQ------VQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTV 128
            + +V  W       +Q    +   + LE++ +  +   +    + + R+QLSR A K+  
Sbjct: 66   EDDVCKWMKRADGFIQNGFIQNACKFLEDEKEARKSCFNRLCPNLKSRYQLSREARKRAG 125

Query: 129  EIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGV 188
              +E +    FE +S+ A   ++RS P+     L+S +  +  VM  L+D    IN IGV
Sbjct: 126  VAVEILGAGQFERVSYRAPLQEIRSAPSE---ALESRMLTLNEVMVALRD--AKINKIGV 180

Query: 189  YGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEV 245
            +G GG+GKTTL+KQV +Q   E  FDKV+   V +TPD+K++Q E+A  L  + E + E 
Sbjct: 181  WGLGGVGKTTLVKQVAEQAAQEKLFDKVVTAAVLETPDLKKIQGELADLLGMKFEEESEQ 240

Query: 246  LRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEV-CDEME 304
             RAA L +R+  +K +LIILDD+W KLDL  +GIP  + HKGCK++LTSR + +  +EM+
Sbjct: 241  GRAARLYQRMNEEKTILIILDDIWAKLDLEKIGIPSPDHHKGCKLVLTSRNEHILSNEMD 300

Query: 305  STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHK 364
            +    +V+ L +++  ILFK  AG  E  +     A +V ++C  LP AIV +  AL++K
Sbjct: 301  TQKDFRVQPLQEDETWILFKNTAGSIENPE-LQPIAVDVAKECAGLPLAIVTVAKALKNK 359

Query: 365  PVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSM 424
             V  W +A+++ K+ T  NV G+   V   + L Y+ L+ V        C       +S+
Sbjct: 360  NVSIWKDALQQLKSQTLTNVTGLTTNVYSSLKLSYEHLKGVEVKSFFLLCGLISQNDISI 419

Query: 425  EEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKY 484
             + + +G+  RLF     L E  NR+  +V  L SS+ LLE    +  R+HD  R   + 
Sbjct: 420  RDLLKYGVGLRLFQGTNTLEEAKNRIDALVDNLKSSNFLLETGHNAFVRMHDLVRSTARK 479

Query: 485  IAAREGDHFIAEPGMKK--GWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLF---- 537
            IA+ +   F  +    +  GWPR ++LQ    +SL D ++  LP+   CP+L  LF    
Sbjct: 480  IASDQHHVFTLQNTTVRVEGWPRIDELQKVTWVSLHDCDIRELPEGLACPKLE-LFGCYD 538

Query: 538  LQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIR 597
            +  N    IPN FFE  +++K LDLS   + SL  S  C   LR+L L+  +L +  +I 
Sbjct: 539  VNTNSAVQIPNNFFEEMKQLKVLDLSRMQLPSLPLSCHCRTNLRTLCLDGCNLGEIVIIA 598

Query: 598  EFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            E  +LE+L L  S I +LP  I  +++L+L DL  +  L+VIPP+VIS LSQLE+L + N
Sbjct: 599  ELKKLEILSLTYSDIEKLPREIAQLTHLRLFDLKGSYKLKVIPPDVISSLSQLEDLCMEN 658

Query: 658  SFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVND 717
            SF  WE E  +   NA  +E+  L+ LT L I + + K+L  D    +  L R+R+ V  
Sbjct: 659  SFTQWEGEGKS---NACLAELKHLSHLTSLDIQIPDAKLLPKDI--VFDTLVRYRIFVG- 712

Query: 718  DYWEIA----PKRSMHLKNLSNS--IASWVKLLLEKTEYLTLTRSSNLQDI-GEIDVQGF 770
            D W         +++ L     S  +   +  LL++TE L L       ++  ++D +GF
Sbjct: 713  DVWSWGGISEANKTLQLNKFDTSLHLVDGIIKLLKRTEDLHLRELCGGTNVLSKLDGEGF 772

Query: 771  TGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRE 830
                                       L+ L+VE    ++ +    D+         +  
Sbjct: 773  LK-------------------------LKHLNVESSPEIQYIVNSMDLTPSHGAFPVMET 807

Query: 831  LVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCD 890
            L L  L  +  + +G         L+ ++V+DC  L++LFS ++A GL  LE+  + +C 
Sbjct: 808  LSLNQLINLQEVCRGQFPAGSFGCLRKVEVEDCDGLKFLFSLSVARGLSRLEETKVTRCK 867

Query: 891  LMEEIVSVDEAEVEQGAA------------------------QERNVSSAP--------- 917
             M E+VS    E+++ A                         +E  V S P         
Sbjct: 868  SMVEMVSQGRKEIKEDAVNVPLFPELRSLTLEDLPKLSNFCFEENPVLSKPASTIVGPST 927

Query: 918  ----QP------MFFP---NLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMER 964
                QP      + F    NL+ L + KC  +   L L     L+ L+ELTV +C+ +E+
Sbjct: 928  PPLNQPEIRDGQLLFSLGGNLRSLNLKKCMSL---LKLFPPSLLQNLQELTVENCDKLEQ 984

Query: 965  IITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPS 1010
            +  + +      +  +LPKL  L L DLP+L  + N   +   +PS
Sbjct: 985  VFDLEELNVDDGHVGLLPKLGKLRLIDLPKLRHICNCGSSRNHFPS 1030

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147832986|emb|CAN77367.1| hypothetical protein VITISV_010740 [Vitis vinifera]

 Score =  414 bits (1064), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 307/937 (32%), Positives = 463/937 (49%), Gaps = 107/937 (11%)

Query: 112 DWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARS--ADVRSIPTPEFVPLKSALEVI 169
           DW  R++LS+ A K    +        FE +S P R       ++   +F   +S    +
Sbjct: 12  DWISRYKLSKQAKKDAHTVRXLQGTGRFERVSLPGRRQLGIESTLSXGDFQAFESTKRAM 71

Query: 170 KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQV---MKQEIPFDKVIFVRVTQTPDVKR 226
             VM  LK++ +  NIIGVYG GG+GKTT++KQV     ++  F  V    ++Q PD+++
Sbjct: 72  DEVMVALKEDRV--NIIGVYGMGGVGKTTMVKQVGANAHRDGLFQHVAMAVISQNPDLRK 129

Query: 227 VQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIP-YGEEH 285
           +Q +IA  LN +LE + E  RAA L ER+ R K VLIILDD+W ++DL+ +GIP  G + 
Sbjct: 130 IQAQIADMLNLKLEEESEAGRAARLRERIMRGKSVLIILDDIWRRIDLSEIGIPSTGSDL 189

Query: 286 KGCK--IILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEV 343
             CK  I+LT+R + VC  MES   V +  L+++D   LF +KAG    +  F   A+++
Sbjct: 190 DACKSKILLTTRLENVCHVMESQAKVPLNILSEQDSWTLFGRKAGRIVDSPDFHNVAQKI 249

Query: 344 VRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLE 403
           V++CG LP A+V++  AL  K + EW EA ++ + S P N++     V  C+ L YD L+
Sbjct: 250 VKECGGLPIALVVVARALGDKDLDEWKEAARQLEMSKPTNLDD-DGGVFKCIKLSYDYLK 308

Query: 404 -TVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSL 462
               K C    CLFP    +S+E+ V +GL   LF +   + E   R   VV  L + SL
Sbjct: 309 GNSTKPCFLICCLFPEDTDISIEDLVKYGLGQGLFQEANTIEEARGRARSVVKYLKACSL 368

Query: 463 LLEGDRESCFRIHDDTRKVVKYIAAREGDH-FIAEPGMK-KGWPRED-LQNCEKLSLMDG 519
           LL+   E   ++HD  R +   +A+ E D+ F+ + G   K WP +D  +    +SLM  
Sbjct: 369 LLDSTEEGGVKMHDVVRDMAILLASSEEDNAFMVQSGSALKEWPTKDSYEAYTAISLMSN 428

Query: 520 NVTALPDQPKCPRLTTLFLQ-NNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLE 578
            +  LPD   CP+L TL LQ NN   +IP+ FF     ++ LDL+  +I SL PSL  L 
Sbjct: 429 EIEELPDGLVCPKLQTLLLQNNNDIQEIPDDFFGSFHSLRVLDLNGADIPSLPPSLGLLR 488

Query: 579 KLRSLHLENTH-LNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQ 637
            LR+L L+    + D S++ +  +LE+L L+ S I +LP  +  ++NL++LD + +  ++
Sbjct: 489 SLRTLCLDCCQSITDISILGKLEKLEILSLRESYIEDLPEELAQLANLRMLDFTMSNNIK 548

Query: 638 VIPPNVISKLSQLEELYVGNSFGDWE--VEETANGQNARFSEVASLTRLTVLYIHVSNTK 695
            IPP VIS LS+LEE+Y+  SF DW   +E T++G NA F E+  L RL +L + +S+ +
Sbjct: 549 SIPPKVISSLSRLEEMYMQGSFADWGLLLEGTSSGANAGFDELTCLHRLNILKVDISDAE 608

Query: 696 VL--SVDFDGPWTNLKRFRVCVNDDYWE-----------IAPKRSMHLKNLSNSIASWV- 741
            +  +V FD  W N   F +C+N   +             A  RS+ L    N++  W  
Sbjct: 609 CMPKTVRFDPNWVN---FDICINRKLFNRFMNVHLSRVTAARSRSLILDVTINTLPDWFN 665

Query: 742 KLLLEKTEYLTLTRSSNLQDI-GEIDVQGFTGLMCMHLRACS-----MQRIFHSNFYPTV 795
           K+  E+TE L       L +I  E D     GL  + ++ C      M  + +    P  
Sbjct: 666 KVATERTEKLYYIXCRGLDNILMEYDQGSLNGLKILLVQXCHQIVHLMDAVTYVPNRPLF 725

Query: 796 QILEELHVEYCYSLKEVFC----------------------------------------- 814
             LEEL V     LKE+                                           
Sbjct: 726 PSLEELRVHNLDYLKEICIGQLPPGSLGNMKFLQVEQCNELVNGLXPANLLRRLESLEVL 785

Query: 815 ------LEDI---EGEQAG---LKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKD 862
                 LEDI   EG + G   + +LREL L  LP++  IW G   +     LK++ V  
Sbjct: 786 DVSGSYLEDIFRTEGLREGEVVVGKLRELKLDNLPELKNIWXGPTQLAIFHNLKILTVIK 845

Query: 863 CGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFF 922
           C KLR LF+ ++A+ L  LE+L I  C+ +E ++   E     G   ER        + F
Sbjct: 846 CXKLRXLFTYSVAQSLRYLEELWIEYCNGLEGVIGXHEG----GDVVER--------IIF 893

Query: 923 PNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASC 959
            NLK L +     ++             LE+L V  C
Sbjct: 894 QNLKNLSLQNLPVLRSFYEGDARIECPSLEQLHVQGC 930

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297735454|emb|CBI17894.3| unnamed protein product [Vitis vinifera]

 Score =  412 bits (1059), Expect = e-112,   Method: Compositional matrix adjust.
 Identities = 325/979 (33%), Positives = 490/979 (50%), Gaps = 99/979 (10%)

Query: 24  RLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQV 83
           +LW PV  QI YLV Y  N+   + +   LEA + D    V+ AE  GEEIKA+V+ W  
Sbjct: 13  KLWGPVTHQIGYLVHYKKNLENLKAQVEALEALRKDNQESVRAAEMNGEEIKAQVQIWLK 72

Query: 84  QTIQYEMDVELLEEKIQKSEGRCHTWHL--DWRKRHQLSRVATKKTVEIIEHIRLSNFES 141
                 ++VE + +   K   RC  W    D   R++LSR A K  V I E      F+ 
Sbjct: 73  GADAAIVEVEKVIDDF-KLNKRCF-WGCCPDCTSRYKLSRKAVKDAVTIGELQDKGKFDR 130

Query: 142 ISFPARSA-DVRS-IPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTL 199
           +S   R   ++ S I T +F   +S  + +  VMK L+D+++  N+IGVYG GG+GKTT+
Sbjct: 131 VSLQIRKPLEIESMISTGDFEAFESTQQAMNEVMKALRDDNV--NVIGVYGMGGVGKTTM 188

Query: 200 MKQV---MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLK 256
           ++QV    +++  FD V+   V+Q  ++K +Q +IA  L  +L+ + E  RA  L ER+ 
Sbjct: 189 VEQVSVQARRDELFDHVVKAVVSQNINLKMIQGQIADMLAVKLDDETEAGRAGHLKERIM 248

Query: 257 RQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCK--IILTSRFKEVCDEMESTNYVQVEEL 314
           R +R+LI LDDLWG+++LA +G+P G + + CK  IILT+R + VC  MES   V +  L
Sbjct: 249 RGRRILIFLDDLWGRIELAKIGVPSGRDLEACKSKIILTTRLENVCHAMESQAKVPLHIL 308

Query: 315 TDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIK 374
           +++D   LF+KKAG    +  F   A  VV++CG LP A+V++  AL  K + EW EA +
Sbjct: 309 SEQDSWRLFRKKAGNAVDSPDFHDVAWRVVKECGGLPIALVVVARALGDKDLEEWKEAAR 368

Query: 375 RKKASTPINVEGIPEEVVLCVALGYDQLE-TVAKSCLQFSCLFPPYYSVSMEEFVIHGLV 433
           + + S P   +     V  C+   YD L+   AK C    CLFP   ++++E+ V +G+ 
Sbjct: 369 QLEMSNPTK-DDHDHTVFRCIKFSYDYLKHEDAKRCFLNCCLFPEDTNINIEDLVKYGIG 427

Query: 434 DRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAAREGDH- 492
             LF     + E       ++  L + SLLL  D+E C ++HD  R     IA+  GD  
Sbjct: 428 QGLFQNANTVEEARAAASSLLKHLKACSLLLNSDQEGCVKMHDVVRDTAISIAS-AGDEL 486

Query: 493 -FIAEPGMK-KGWPRED-LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNN-PFADIPN 548
            F+   G   K WPR D  +    +SLM   +  LPD   CP+L TL LQNN    +IP+
Sbjct: 487 AFLVHSGAALKKWPRRDSYEAYTAISLMSNEIQDLPDGLVCPKLQTLLLQNNIDIQEIPD 546

Query: 549 AFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILK 608
            FFE    ++ LD++  +ISSL  SL  L  LR+L L+     D S++ E  +LE+L L+
Sbjct: 547 GFFERMESLRVLDVNGADISSLPSSLGLLLNLRTLCLDGCKSTDISILGELRKLEILSLR 606

Query: 609 GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDW--EVEE 666
            S I ELP  IG + +L++LD + +  L+ I  N++  LSQLEE+Y+  SFGDW   +E 
Sbjct: 607 ESCIEELPEEIGKLVSLRMLDFTMSSDLKRIRSNLLLSLSQLEEIYLQGSFGDWGKPIEG 666

Query: 667 TANGQNARFSEVASLTRLTVLYIHVSNTKVL--SVDFDGPWTNLKRFRVCVNDDYW---- 720
                NA F E+  L  L  L + +++   +  +V  +  W    +F +C+++D +    
Sbjct: 667 MDQETNAGFDELTRLPYLNTLKVDITDAGCIPQTVVSNPNWV---KFNICMSEDLFVRLM 723

Query: 721 -------EIAPKRSMHLKNLSNSIASWVK-LLLEKTEYLTLTRSSNLQD-IGEIDVQGFT 771
                    A  R++ L    N++  W   ++ EKTE L     S L + I E D     
Sbjct: 724 DVHLSKIMAARSRALILNTTINTLPDWFNSVVTEKTEKLFYIHGSGLHNIISEYDQGRLN 783

Query: 772 GLMCMHLRACS-----MQRIFHSNFYPTVQILEEL------------------------- 801
           GL  + +++C      M    H    P    LEEL                         
Sbjct: 784 GLKSLLVQSCYGIVQLMNTDIHVLNRPVFDNLEELRVHNMDYLKVMCVGELPPGSLRKLK 843

Query: 802 --HVEYC--------------------------YSLKEVFCLEDIEGEQAGLKRLRELVL 833
              VE C                           SL+++F  E +  EQ  L++LRE+ L
Sbjct: 844 FFQVEQCDELVGTLLQPNLLKRLENLEVLDVSGNSLEDIFRSEGLGKEQILLRKLREMKL 903

Query: 834 VGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLME 893
             LP++  IW G   +     LK++ V  C KLR LF+ T++  L  LE+L I  C  +E
Sbjct: 904 DKLPQLKNIWNGPAELAIFNKLKILTVIACKKLRNLFAITVSRCLLQLEELWIEDCGGLE 963

Query: 894 EIVSVDEAEVEQGAAQERN 912
            I+  D+ E +   +  RN
Sbjct: 964 VIIGEDKGEKQWRRSSYRN 982

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	1074
TAIR|locus:2136447	985	AT4G27190 [Arabidopsis thalian	0.779	0.849	0.275	3.5e-81
TAIR|locus:2166320	888	AT5G63020 [Arabidopsis thalian	0.638	0.772	0.267	5.4e-64
TAIR|locus:2201996	889	RPS5 "AT1G12220" [Arabidopsis	0.499	0.602	0.292	3.4e-59
TAIR|locus:2034765	884	AT1G12290 [Arabidopsis thalian	0.582	0.708	0.263	7.4e-59
TAIR|locus:2132741	892	AT4G10780 [Arabidopsis thalian	0.504	0.607	0.267	3.2e-58
TAIR|locus:2008440	899	AT1G61180 [Arabidopsis thalian	0.533	0.637	0.273	8.3e-58
TAIR|locus:2153474	874	AT5G05400 [Arabidopsis thalian	0.490	0.602	0.263	8.7e-58
TAIR|locus:2131689	919	AT4G27220 [Arabidopsis thalian	0.738	0.862	0.276	2.6e-57
TAIR|locus:2201986	885	RFL1 "AT1G12210" [Arabidopsis	0.537	0.651	0.266	4.6e-56
TAIR|locus:2034770	894	SUMM2 "AT1G12280" [Arabidopsis	0.564	0.677	0.268	5.5e-56

TAIR|locus:2136447 AT4G27190 [Arabidopsis thaliana (taxid:3702)]

 Score = 700 (251.5 bits), Expect = 3.5e-81, Sum P(2) = 3.5e-81
 Identities = 250/906 (27%), Positives = 427/906 (47%)

Query:    21 ILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRN 80
             IL  ++     ++   +++ SN+ A  E    L   K ++    +    + + ++ ++  
Sbjct:    11 ILRLMYESTFSRVANAIKFKSNVKALNESLERLTELKGNMSEDHETLLTKDKPLRLKLMR 70

Query:    81 WQVQTIQYEMDVEL-LEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSNF 139
             WQ +  +      L LEE++      C    +  R R  +SR    K V+I++ +++   
Sbjct:    71 WQREAEEVISKARLKLEERVS-----CG---MSLRPR--MSR----KLVKILDEVKMLEK 116

Query:   140 ESISFPARSADVRSIPTP-EFVPLKSALE--VIKSVMKLLKDNSISINI--IGVYGSGGI 194
             + I F      V S P   E VP  S +   +  +++  ++D   S     IGV+G GG+
Sbjct:   117 DGIEF-VDMLSVESTPERVEHVPGVSVVHQTMASNMLAKIRDGLTSEKAQKIGVWGMGGV 175

Query:   195 GKTTLMKQV---MKQE---IPFDKVIFVRVTQTPDVKRVQDEIARFLN--TELEGDVEVL 246
             GKTTL++ +   +++E    PF  VIFV V++  D + VQ +IA  L+  T++E   E L
Sbjct:   176 GKTTLVRTLNNKLREEGATQPFGLVIFVIVSKEFDPREVQKQIAERLDIDTQMEESEEKL 235

Query:   247 RAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMEST 306
              A  +   L ++++ L+ILDD+W  +DL ++GIP  EE+KG K+ILTSRF EVC  M++ 
Sbjct:   236 -ARRIYVGLMKERKFLLILDDVWKPIDLDLLGIPRTEENKGSKVILTSRFLEVCRSMKTD 294

Query:   307 NYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKP- 365
               V+V+ L +ED   LF K AG    +    + A+ V ++CG LP AI+ +GTA+R K  
Sbjct:   295 LDVRVDCLLEEDAWELFCKNAGDVVRSDHVRKIAKAVSQECGGLPLAIITVGTAMRGKKN 354

Query:   366 VREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSME 425
             V+ WN  + +   S P  ++ I E++   + L YD LE  AK C     LFP  YS+ + 
Sbjct:   355 VKLWNHVLSKLSKSVPW-IKSIEEKIFQPLKLSYDFLEDKAKFCFLLCALFPEDYSIEVT 413

Query:   426 EFVIHGLVDRLFPQVGLLGEVGNRVHPVVXXXXXXXXXXEGDRESCFRIHDDTRKVVKYI 485
             E V + + +    ++G   +  N     V          +GDR    ++HD  R    +I
Sbjct:   414 EVVRYWMAEGFMEELGSQEDSMNEGITTVESLKDYCLLEDGDRRDTVKMHDVVRDFAIWI 473

Query:   486 --AAREGDHFIAEPGMKKGWPRED--LQNCEKLSLMDGNVTALPD--QPKCPRLTTLFLQ 539
               ++++  H +   G      R+D    +  ++SLM+  + +LPD  +  C + + L LQ
Sbjct:   474 MSSSQDDSHSLVMSGTGLQDIRQDKLAPSLRRVSLMNNKLESLPDLVEEFCVKTSVLLLQ 533

Query:   540 NN-PFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTH-LNDASLI 596
              N    ++P  F +    ++ L+LS T I S    SL  L  L SL L +   L     +
Sbjct:   534 GNFLLKEVPIGFLQAFPTLRILNLSGTRIKSFPSCSLLRLFSLHSLFLRDCFKLVKLPSL 593

Query:   597 REFGELEVLILKGSRIVELPNGIGTVSXXXXXXXXXXXXXQVIPPNVISKLSQLEELYVG 656
                 +LE+L L G+ I+E P G+  +              + IP  V+S+LS LE L + 
Sbjct:   594 ETLAKLELLDLCGTHILEFPRGLEELKRFRHLDLSRTLHLESIPARVVSRLSSLETLDMT 653

Query:   657 NSFGDWEVE-ETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTN-LKRFRVC 714
             +S   W V+ ET  GQ A   E+  L RL VL I + ++  L ++    W   LK+F++ 
Sbjct:   654 SSHYRWSVQGETQKGQ-ATVEEIGCLQRLQVLSIRLHSSPFL-LNKRNTWIKRLKKFQLV 711

Query:   715 VNDDYWEIA--PKRSMHLKNLSNSIAS--WVXXXXXXXXXXXXXRSSNLQDIGEIDVQGF 770
             V   Y       KR + + +L+ S  S  W+                 +      D +GF
Sbjct:   712 VGSRYILRTRHDKRRLTISHLNVSQVSIGWLLAYTTSLALNHCQGIEAMMKKLVSDNKGF 771

Query:   771 TGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFC-LEDIEGEQAGLKRLR 829
               L  + +       I ++N +  V+++     +    + ++   LE++   +  L+   
Sbjct:   772 KNLKSLTIENV----IINTNSW--VEMVSTNTSKQSSDILDLLPNLEELHLRRVDLETFS 825

Query:   830 ELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKC 889
             EL               H  + L+TLK++++  C KLR L  +     + NLE++ I  C
Sbjct:   826 ELQ-------------THLGLKLETLKIIEITMCRKLRTLLDKRNFLTIPNLEEIEISYC 872

Query:   890 DLMEEI 895
             D ++ +
Sbjct:   873 DSLQNL 878

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2166320 AT5G63020 [Arabidopsis thaliana (taxid:3702)]

 Score = 549 (198.3 bits), Expect = 5.4e-64, Sum P(2) = 5.4e-64
 Identities = 198/739 (26%), Positives = 358/739 (48%)

Query:    18 LSC--ILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIK 75
             +SC  + + + + + R   Y+     N+ A +     +E ++ D+LR +   E RG +  
Sbjct:     9 ISCDQLTKNVCSCLNRNGDYIHGLEENLTALQRALEQIEQRREDLLRKILSEERRGLQRL 68

Query:    76 AEVRNW--QVQTIQYEMD--VELLEEKIQKSE--GRCHTWHLDWRKRHQLSRVATKKTVE 129
             + V+ W  +V+ I   ++  V +   ++Q+    G C   +L    R+   RV   K +E
Sbjct:    69 SVVQGWVSKVEAIVPRVNELVRMRSVQVQRLCLCGFCSK-NLVSSYRYG-KRVM--KMIE 124

Query:   130 IIEHIRLS-NFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGV 188
              +E +R   +F  ++    +A V   PT   V +   LE   +  +L++D    I I+G+
Sbjct:   125 EVEVLRYQGDFAVVAERVDAARVEERPTRPMVAMDPMLE--SAWNRLMEDE---IGILGL 179

Query:   189 YGSGGIGKTTLMKQVMKQ--EI--PFDKVIFVRVTQTPDVKRVQDEIARFLNTELEG--- 241
             +G GG+GKTTL+  +  +   +   FD VI++ V++   ++R+QDEI   L ++ E    
Sbjct:   180 HGMGGVGKTTLLSHINNRFSRVGGEFDIVIWIVVSKELQIQRIQDEIWEKLRSDNEKWKQ 239

Query:   242 DVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCD 301
               E ++A+ +   LK  KR +++LDD+W K+DL  VG+P+     GCKI+ T+R KE+C 
Sbjct:   240 KTEDIKASNIYNVLKH-KRFVLLLDDIWSKVDLTEVGVPFPSRENGCKIVFTTRLKEICG 298

Query:   302 EMESTNYVQVEELTDEDRLILFKKKAG-LPEGTKA-FDRAAEEVVRQCGKLPNAIVIIGT 359
              M   + ++V  L  +D   LF KK G +  G+       A  V ++C  LP A+ +IG 
Sbjct:   299 RMGVDSDMEVRCLAPDDAWDLFTKKVGEITLGSHPEIPTVARTVAKKCRGLPLALNVIGE 358

Query:   360 ALRHK-PVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVA-KSCLQFSCLFP 417
              + +K  V+EW  AI     S+     G+ +E++  +   YD L++   K C Q+  LFP
Sbjct:   359 TMAYKRTVQEWRSAID-VLTSSAAEFSGMEDEILPILKYSYDNLKSEQLKLCFQYCALFP 417

Query:   418 PYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVXXXXXXXXXXEGDRESCFRIHDD 477
               +++   + V + + +    +    G+  N+ + ++          E ++E+  ++HD 
Sbjct:   418 EDHNIEKNDLVDYWIGEGFIDRNK--GKAENQGYEIIGILVRSCLLMEENQETV-KMHDV 474

Query:   478 TRKVVKYIAA---REGDHFIAEPGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPR 532
              R++  +IA+   ++ ++FI + G++ +  P  E  +   ++SLM  N+ ++ D P+ P+
Sbjct:   475 VREMALWIASDFGKQKENFIVQAGLQSRNIPEIEKWKVARRVSLMFNNIESIRDAPESPQ 534

Query:   533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLS-STNISSLAPSLPCLEKLRSLHLENTHLN 591
             L TL L+ N    I ++FF     +  LDLS + ++  L   +     L+ L L  T + 
Sbjct:   535 LITLLLRKNFLGHISSSFFRLMPMLVVLDLSMNRDLRHLPNEISECVSLQYLSLSRTRIR 594

Query:   592 --DASLIREFGELEVLILKGSRIVELPNGIGTVSXXXXXXXXXXXXXQVIPPNVISKLSQ 649
                A L+ E  +L  L L+ +R+VE   GI  ++             +   P V+++L  
Sbjct:   595 IWPAGLV-ELRKLLYLNLEYTRMVESICGISGLTSLKVLRLFVSGFPE--DPCVLNELQL 651

Query:   650 LEELYVGN-SFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNL 708
             LE L     + G   + E     N R   +AS TR   L I   N +   + F     +L
Sbjct:   652 LENLQTLTITLGLASILEQFLS-NQR---LASCTR--ALRIENLNPQSSVISFVATMDSL 705

Query:   709 KRFRVCVNDDYWEIAPKRS 727
             +      + D WEI  KR+
Sbjct:   706 QELHFA-DSDIWEIKVKRN 723

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201996 RPS5 "AT1G12220" [Arabidopsis thaliana (taxid:3702)]

 Score = 492 (178.3 bits), Expect = 3.4e-59, Sum P(2) = 3.4e-59
 Identities = 172/588 (29%), Positives = 294/588 (50%)

Query:    35 YLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIK-AEVRNW--QVQTIQYEMD 91
             Y+     N+ + ++  R L+A++ DV+R ++  E  G + + ++V+ W   V  IQ + +
Sbjct:    28 YIHNLSKNLASLQKAMRMLKARQYDVIRRLETEEFTGRQQRLSQVQVWLTSVLIIQNQFN 87

Query:    92 VELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIR-LSN---FESISFPAR 147
              +LL     + +  C        K  +LS    K+ + +++ +  LS+   F+ +S    
Sbjct:    88 -DLLRSNEVELQRLCLCGFCS--KDLKLSYRYGKRVIMMLKEVESLSSQGFFDVVSEATP 144

Query:   148 SADVRSIP-TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQV--- 203
              ADV  IP  P  V  +  LE  K+  +L++D S    I+G+YG GG+GKTTL+ ++   
Sbjct:   145 FADVDEIPFQPTIVGQEIMLE--KAWNRLMEDGS---GILGLYGMGGVGKTTLLTKINNK 199

Query:   204 -MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTE-LE----GDVEVLRAAFLSERLKR 257
               K +  FD VI+V V+++  V+++Q +IA  +    +E     D ++  A  +   L+R
Sbjct:   200 FSKIDDRFDVVIWVVVSRSSTVRKIQRDIAEKVGLGGMEWSEKNDNQI--AVDIHNVLRR 257

Query:   258 QKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDE 317
             +K VL+ LDD+W K++L  VG+PY  +  GCK+  T+R ++VC  M   + ++V  L  E
Sbjct:   258 RKFVLL-LDDIWEKVNLKAVGVPYPSKDNGCKVAFTTRSRDVCGRMGVDDPMEVSCLQPE 316

Query:   318 DRLILFKKKAGLPE-GTKA-FDRAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIK 374
             +   LF+ K G    G+       A +V R+C  LP A+ +IG A+  K  V EW  AI 
Sbjct:   317 ESWDLFQMKVGKNTLGSHPDIPGLARKVARKCRGLPLALNVIGEAMACKRTVHEWCHAID 376

Query:   375 RKKASTPINVEGIPEEVVLCVALGYDQLE-TVAKSCLQFSCLFPPYYSVSMEEFVIHGLV 433
                 S+ I+  G+ +E++  +   YD L   + KSC  +  LFP  Y +  E     GLV
Sbjct:   377 -VLTSSAIDFSGMEDEILHVLKYSYDNLNGELMKSCFLYCSLFPEDYLIDKE-----GLV 430

Query:   434 DRLFPQVGLLGEV-G-----NRVHPVVXXXXXXXXXXEGDR-ESCFRIHDDTRKVVKYIA 486
             D    + G + E  G     N+ + ++          E +R +S  ++HD  R++  +I+
Sbjct:   431 DYWISE-GFINEKEGRERNINQGYEIIGTLVRACLLLEEERNKSNVKMHDVVREMALWIS 489

Query:   487 A---REGDHFIAEPGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNN 541
             +   ++ +  I   G+  +  P+ +D     K+SLM+  +  + D  +C  LTTLFLQ N
Sbjct:   490 SDLGKQKEKCIVRAGVGLREVPKVKDWNTVRKISLMNNEIEEIFDSHECAALTTLFLQKN 549

Query:   542 PFADIPNAFFEHTREIKNLDLSST-NISSLAPSLPCLEKLRSLHLENT 588
                 I   FF     +  LDLS   +++ L   +  L  LR  +L  T
Sbjct:   550 DVVKISAEFFRCMPHLVVLDLSENQSLNELPEEISELASLRYFNLSYT 597

GO:0009626 "plant-type hypersensitive response" evidence=IMP

GO:0006952 "defense response" evidence=IMP;TAS

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

GO:0005886 "plasma membrane" evidence=IDA

GO:0005515 "protein binding" evidence=IPI

GO:0008219 "cell death" evidence=IMP

GO:0038023 "signaling receptor activity" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IMP

GO:0005622 "intracellular" evidence=ISS

TAIR|locus:2034765 AT1G12290 [Arabidopsis thaliana (taxid:3702)]

 Score = 498 (180.4 bits), Expect = 7.4e-59, Sum P(2) = 7.4e-59
 Identities = 176/669 (26%), Positives = 312/669 (46%)

Query:    18 LSC--ILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIK 75
             +SC  +L  L     R++ Y+     N+ +  E   DL+A + D+LR V+ AE+ G +  
Sbjct:     9 VSCDQLLNHLGRCFCRKLYYIQNIKENLTSLEEAMEDLKALRDDLLRKVQTAEEGGLQRL 68

Query:    76 AEVRNW--QVQTIQYEMDVELLEEKIQKSEGRC--HTWHLDWRKRHQLSRVATKKTVEII 131
              +++ W  +V+TI+ + + +L   +  + +  C       + R  +   R      + I+
Sbjct:    69 HQIKVWLKRVKTIESQFN-DLDSSRTVELQRLCCCGVGSRNLRLSYDYGR-RVFLMLNIV 126

Query:   132 EHIRLSN-FESISFPARSADVRSIPT-PEFVPLKSALEVIKSVMKLLKDNSISINIIGVY 189
             E ++    FE ++ PA  A     P  P  V  ++ LE  K+   L+ D +    I+G+Y
Sbjct:   127 EDLKSKGIFEEVAHPATRAVGEERPLQPTIVGQETILE--KAWDHLMDDGT---KIMGLY 181

Query:   190 GSGGIGKTTLMKQVMKQEIPFDK----VIFVRVTQTPDVKRVQDEIAR---FLNTELEGD 242
             G GG+GKTTL+ Q+  +    D     VI+V V+    + ++Q EI     F+  E    
Sbjct:   182 GMGGVGKTTLLTQINNRFCDTDDGVEIVIWVVVSGDLQIHKIQKEIGEKIGFIGVEWNQK 241

Query:   243 VEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDE 302
              E  +A  +   L + KR +++LDD+W +++L  +GIP      GCKI  T+R + VC  
Sbjct:   242 SENQKAVDILNFLSK-KRFVLLLDDIWKRVELTEIGIPNPTSENGCKIAFTTRCQSVCAS 300

Query:   303 MESTNYVQVEELTDEDRLILFKKKAG--LPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTA 360
             M   + ++V  L  +D   LFKKK G             A +V + C  LP A+ +IG  
Sbjct:   301 MGVHDPMEVRCLGADDAWDLFKKKVGDITLSSHPDIPEIARKVAQACCGLPLALNVIGET 360

Query:   361 LR-HKPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVA-KSCLQFSCLFPP 418
             +   K  +EW+ A+     +   N   + E ++  +   YD LE+ + K+C  +  LFP 
Sbjct:   361 MACKKTTQEWDRAVD-VSTTYAANFGAVKERILPILKYSYDNLESESVKTCFLYCSLFPE 419

Query:   419 YYSVSMEE----FVIHGLVDRLFPQVGLLGEVGNRVHPVVXXXXXXXXXXEGDRESCFRI 474
                +  E     ++  G +D    + G +GE G  +   +          + + +S  ++
Sbjct:   420 DDLIEKERLIDYWICEGFIDGDENKKGAVGE-GYEILGTLVCASLLVEGGKFNNKSYVKM 478

Query:   475 HDDTRKVVKYIAA---REGDHFIAEPGMKKGW-PR-EDLQNCEKLSLMDGNVTALPDQPK 529
             HD  R++  +IA+   +  D+ I   G +    P+ +D +   ++SL++  +  +   P+
Sbjct:   479 HDVVREMALWIASDLRKHKDNCIVRAGFRLNEIPKVKDWKVVSRMSLVNNRIKEIHGSPE 538

Query:   530 CPRLTTLFLQNNP-FADIPNAFFEHTREIKNLDLS-STNISSLAPSLPCLEKLRSLHLEN 587
             CP+LTTLFLQ+N    +I   FF     +  LDLS + N+S L   +  L  LR L L  
Sbjct:   539 CPKLTTLFLQDNRHLVNISGEFFRSMPRLVVLDLSWNVNLSGLPDQISELVSLRYLDLSY 598

Query:   588 THLNDASL-IREFGELEVLILKGSRIVELPNGIGTVSXXXXXXXXXXXXXQVIPPNVISK 646
             + +    + + +  +L  L L+    +E  +GI  +S               I  +++ +
Sbjct:   599 SSIGRLPVGLLKLKKLMHLNLESMLCLESVSGIDHLSNLKTVRLLNLRMWLTI--SLLEE 656

Query:   647 LSQLEELYV 655
             L +LE L V
Sbjct:   657 LERLENLEV 665

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2132741 AT4G10780 [Arabidopsis thaliana (taxid:3702)]

 Score = 480 (174.0 bits), Expect = 3.2e-58, Sum P(3) = 3.2e-58
 Identities = 156/584 (26%), Positives = 279/584 (47%)

Query:    35 YLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW--QVQTIQYEMDV 92
             Y+ +   NI A  +   DL A + DVLR V+  E +G E   +V+ W  +V+ I+ +   
Sbjct:    28 YIHKLKDNIVALEKAIEDLTATRDDVLRRVQMEEGKGLERLQQVQVWLKRVEIIRNQF-Y 86

Query:    93 ELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRLSN----FESISFPARS 148
             +LL  +  + +  C  ++ +       S    ++   +I+ +   N    FE ++ PA  
Sbjct:    87 DLLSARNIEIQRLC--FYSNCSTNLSSSYTYGQRVFLMIKEVENLNSNGFFEIVAAPAPK 144

Query:   149 ADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-- 206
              ++R I  P  +  ++  +  ++  +L+ D    +  +G+YG GG+GKTTL+ Q+     
Sbjct:   145 LEMRPIQ-PTIMGRETIFQ--RAWNRLMDDG---VGTMGLYGMGGVGKTTLLTQIHNTLH 198

Query:   207 --EIPFDKVIFVRVTQTPDVKRVQDEIAR---FLNTELEGDVEVLRAAFLSERLKRQKRV 261
               +   D VI+V V+    + ++Q++I     F+  E     E  +A  +   L + KR 
Sbjct:   199 DTKNGVDIVIWVVVSSDLQIHKIQEDIGEKLGFIGKEWNKKQESQKAVDILNCLSK-KRF 257

Query:   262 LIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLI 321
             +++LDD+W K+DL  +GIP       CK++ T+R  +VC  M   + ++V+ L+  D   
Sbjct:   258 VLLLDDIWKKVDLTKIGIPSQTRENKCKVVFTTRSLDVCARMGVHDPMEVQCLSTNDAWE 317

Query:   322 LFKKKAG-LPEGTKA-FDRAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIKRKKA 378
             LF++K G +  G+       A++V  +C  LP A+ +IG  +  K  V+EW+ A+     
Sbjct:   318 LFQEKVGQISLGSHPDILELAKKVAGKCRGLPLALNVIGETMAGKRAVQEWHHAVD-VLT 376

Query:   379 STPINVEGIPEEVVLCVALGYDQL-ETVAKSCLQFSCLFPPYYSVS----MEEFVIHGLV 433
             S      G+ + ++L +   YD L +   +SC Q+  L+P  YS+     ++ ++  G +
Sbjct:   377 SYAAEFSGMDDHILLILKYSYDNLNDKHVRSCFQYCALYPEDYSIKKYRLIDYWICEGFI 436

Query:   434 DRLFPQVGLLGEVGNRVHPVVXXXXXXXXXXEGDRESCFRIHDDTRKVVKYIAAREG--- 490
             D     +G    V      +           EG  +   ++HD  R++  +  +  G   
Sbjct:   437 DG---NIGKERAVNQGYEILGTLVRACLLSEEGKNKLEVKMHDVVREMALWTLSDLGKNK 493

Query:   491 DHFIAEPG--MKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNP-FADIP 547
             +  I + G  ++K    ED     +LSLM+  +  +   P+CP LTTLFLQ N     I 
Sbjct:   494 ERCIVQAGSGLRKVPKVEDWGAVRRLSLMNNGIEEISGSPECPELTTLFLQENKSLVHIS 553

Query:   548 NAFFEHTREIKNLDLSSTN-ISSLAPSLPCLEKLRSLHLENTHL 590
               FF H R++  LDLS  + +  L   +  L  LR L L +T++
Sbjct:   554 GEFFRHMRKLVVLDLSENHQLDGLPEQISELVALRYLDLSHTNI 597

GO:0000166 "nucleotide binding" evidence=IEA

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

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2008440 AT1G61180 [Arabidopsis thaliana (taxid:3702)]

 Score = 506 (183.2 bits), Expect = 8.3e-58, Sum P(2) = 8.3e-58
 Identities = 167/611 (27%), Positives = 295/611 (48%)

Query:    22 LERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW 81
             L R++N +  +  Y+     N+ A +    DL A + +V   V   E R +     V+ W
Sbjct:    14 LNRIFNCLIGKS-YIRTLEKNLRALQREMEDLRAIQHEVQNKVARDEARHQRRLEAVQVW 72

Query:    82 --QVQTIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIRL--- 136
               +V ++  E   +LL     + +  C        K    S    KK   ++E ++    
Sbjct:    73 LDRVNSVDIECK-DLLSVTPVELQKLCLCGLCS--KYVCSSYKYGKKVFLLLEEVKKLNS 129

Query:   137 -SNFESISFPARSADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIG 195
               NF+ +S P   ++V   PT   +  +  LE  K+  +L++D    + I+G++G GG+G
Sbjct:   130 EGNFDEVSQPPPRSEVEERPTQPTIGQEDMLE--KAWNRLMEDG---VGIMGLHGMGGVG 184

Query:   196 KTTLMKQVMKQ--EI--PFDKVIFVRVTQTPDVKRVQDEIARFLNT--ELEGDVEVLRAA 249
             KTTL K++  +  EI   FD VI++ V++   + ++Q++IA  L+   +L  +      A
Sbjct:   185 KTTLFKKIHNKFAEIGGTFDIVIWIVVSKGVMISKLQEDIAEKLHLCDDLWKNKNESDKA 244

Query:   250 FLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYV 309
                 R+ + KR +++LDD+W K+DL  +GIPY  E   CK+  T+R +EVC EM     +
Sbjct:   245 TDIHRVLKGKRFVLMLDDIWEKVDLEAIGIPYPSEVNKCKVAFTTRSREVCGEMGDHKPM 304

Query:   310 QVEELTDEDRLILFKKKAGLPEGTKAFD----RAAEEVVRQCGKLPNAIVIIGTALRHKP 365
             QV  L  ED   LFK K G  + T + D      A EV ++C  LP A+ +IG  +  K 
Sbjct:   305 QVNCLEPEDAWELFKNKVG--DNTLSSDPVIVELAREVAQKCRGLPLALNVIGETMSSKT 362

Query:   366 -VREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQL-ETVAKSCLQFSCLFPPYYSVS 423
              V+EW  AI     S       +  +++  +   YD L +   KSC  +  LFP    + 
Sbjct:   363 MVQEWEHAIHVFNTSAA-EFSDMQNKILPILKYSYDSLGDEHIKSCFLYCALFPEDGEIY 421

Query:   424 MEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVXXXXXXXXXXEGDRESCFRIHDDTRKVVK 483
              E+ + + + +    +  ++    N+ + ++          +     C  +HD  R++  
Sbjct:   422 NEKLIDYWICEGFIGEDQVIKRARNKGYAMLGTLTRANLLTKVGTYYCV-MHDVVREMAL 480

Query:   484 YIAA---REGDHFIAEPGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFL 538
             +IA+   ++ ++F+ + G+     P+ +D     K+SLMD ++  +  + KC  LTTLFL
Sbjct:   481 WIASDFGKQKENFVVQAGVGLHEIPKVKDWGAVRKMSLMDNDIEEITCESKCSELTTLFL 540

Query:   539 QNNPFADIPNAFFEHTREIKNLDLS-STNISSLAPSLPCLEKLRSLHLENTHLNDASL-I 596
             Q+N   ++P AF  + +++  LDLS + + + L   +  L  L+ L L NT +    + +
Sbjct:   541 QSNKLKNLPGAFIRYMQKLVVLDLSYNRDFNKLPEQISGLVSLQFLDLSNTSIEHMPIGL 600

Query:   597 REFGELEVLIL 607
             +E  +L  L L
Sbjct:   601 KELKKLTFLDL 611

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2153474 AT5G05400 [Arabidopsis thaliana (taxid:3702)]

 Score = 492 (178.3 bits), Expect = 8.7e-58, Sum P(2) = 8.7e-58
 Identities = 150/570 (26%), Positives = 274/570 (48%)

Query:    42 NIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNW--QVQTIQYEMDVELLEEKI 99
             ++ A ++  R LEA++ D+L+ +K  EDRG  +  EV+ W  +V++   E   ++L +  
Sbjct:    35 HVAALKKTVRQLEARRDDLLKRIKVQEDRGLNLLDEVQQWLSEVESRVCEAH-DILSQSD 93

Query:   100 QKSEGRCHTWHLDWRKRHQL--SRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTP 157
             ++ +  C   +   R ++    S+    K  ++   +    F+ +   A+   +  +   
Sbjct:    94 EEIDNLCCGQYCSKRCKYSYDYSKSVINKLQDVENLLSKGVFDEV---AQKGPIPKVEER 150

Query:   158 EF-VPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ----EIPFDK 212
              F   +     +++S    + +  + + ++G+YG GG+GKTTL+ Q+  +       FD 
Sbjct:   151 LFHQEIVGQEAIVESTWNSMME--VGVGLLGIYGMGGVGKTTLLSQINNKFRTVSNDFDI 208

Query:   213 VIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLS--ERLKRQKRVLIILDDLWG 270
              I+V V++ P VKR+Q++I + L+   EG  +       S  +R    K+ +++LDD+W 
Sbjct:   209 AIWVVVSKNPTVKRIQEDIGKRLDLYNEGWEQKTENEIASTIKRSLENKKYMLLLDDMWT 268

Query:   271 KLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFKK--KAG 328
             K+DLA +GIP  + + G KI  TSR  EVC +M     ++V  L  +D   LF +  K  
Sbjct:   269 KVDLANIGIPVPKRN-GSKIAFTSRSNEVCGKMGVDKEIEVTCLMWDDAWDLFTRNMKET 327

Query:   329 LPEGTKAFDRAAEEVVRQCGKLPNAIVIIG-TALRHKPVREWNEAIKRKKASTPINVEGI 387
             L    K     A+ + R+C  LP A+ +IG T  R K + EW++A+            GI
Sbjct:   328 LESHPK-IPEVAKSIARKCNGLPLALNVIGETMARKKSIEEWHDAVGV--------FSGI 378

Query:   388 PEEVVLCVALGYDQLETV-AKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEV 446
               +++  +   YD L+    KSC  FS LFP  Y +  ++ + + +   +   +G  G +
Sbjct:   379 EADILSILKFSYDDLKCEKTKSCFLFSALFPEDYEIGKDDLIEYWVGQGII--LGSKG-I 435

Query:   447 GNRVHPVVXXXXXXXXXXEGDRESCFRIHDDTRKVVKYIAAREGDH-----FIAEPGMK- 500
               + + ++          E + +   ++HD  R++  +I++  GD       + E   + 
Sbjct:   436 NYKGYTIIGTLTRAYLLKESETKEKVKMHDVVREMALWISSGCGDQKQKNVLVVEANAQL 495

Query:   501 KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKN 559
             +  P+ ED +   ++SL+   +    +   CP+L TL L++N    I   F  H   +  
Sbjct:   496 RDIPKIEDQKAVRRMSLIYNQIEEACESLHCPKLETLLLRDNRLRKISREFLSHVPILMV 555

Query:   560 LDLS-STNISSLAPSLPCLEKLRSLHLENT 588
             LDLS + N+  L PS   L  LR L+L  T
Sbjct:   556 LDLSLNPNLIEL-PSFSPLYSLRFLNLSCT 584

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

GO:0006826 "iron ion transport" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

TAIR|locus:2131689 AT4G27220 [Arabidopsis thaliana (taxid:3702)]

 Score = 615 (221.5 bits), Expect = 2.6e-57, P = 2.6e-57
 Identities = 239/864 (27%), Positives = 385/864 (44%)

Query:    99 IQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHI-RLSN-----FESISFPARSAD-V 151
             ++K E       L   KR   +   + K VEI+E + RL        + IS    S + V
Sbjct:    45 LRKVEENVPLGELILEKRSSCAIWLSDKDVEILEKVKRLEEQGQDLIKKISVNKSSREIV 104

Query:   152 RSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMK----QVMKQE 207
               +  P F P K+ALE++  +   LK  ++    IGV+G GG+GKTTL++     ++K  
Sbjct:   105 ERVLGPSFHPQKTALEMLDKLKDCLKKKNVQK--IGVWGMGGVGKTTLVRTLNNDLLKYA 162

Query:   208 IP--FDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIIL 265
                 F  VI+V V++  D+KRVQ +IA+ L      +        + ERL   K  L+IL
Sbjct:   163 ATQQFALVIWVTVSKDFDLKRVQMDIAKRLGKRFTREQMNQLGLTICERLIDLKNFLLIL 222

Query:   266 DDLWGKLDLAVVGIPYG-EEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRLILFK 324
             DD+W  +DL  +GIP   E  K  K++LTSR  EVC +M +   ++V  L +++   LF 
Sbjct:   223 DDVWHPIDLDQLGIPLALERSKDSKVVLTSRRLEVCQQMMTNENIKVACLQEKEAWELFC 282

Query:   325 KKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKP-VREWNEAIKRKKASTP-I 382
                G    +      A++V  +C  LP AI+ IG  LR KP V  W   +   K S P I
Sbjct:   283 HNVGEVANSDNVKPIAKDVSHECCGLPLAIITIGRTLRGKPQVEVWKHTLNLLKRSAPSI 342

Query:   383 NVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGL 442
             + E   E++   + L YD L+   KSC  F  LFP  YS+ + E +++ + + L      
Sbjct:   343 DTE---EKIFGTLKLSYDFLQDNMKSCFLFCALFPEDYSIKVSELIMYWVAEGLLDGQHH 399

Query:   443 LGEVGNRVHPVVXXXXXXXXXXEGDRESCFRIHDDTRKVVKYIAAREGDHF----IAEPG 498
               ++ N    +V          +GD     ++HD  R    +  + +G+ F    +A  G
Sbjct:   400 YEDMMNEGVTLVERLKDSCLLEDGDSCDTVKMHDVVRDFAIWFMSSQGEGFHSLVMAGRG 459

Query:   499 MKKGWPRED-LQNCEKLSLMDGNVTALPDQP-KCPRLTTLFLQNNPFA-DIPNAFFEHTR 555
             + + +P++  + + +++SLM   +  LP+   +      L LQ N    ++PN F +   
Sbjct:   460 LIE-FPQDKFVSSVQRVSLMANKLERLPNNVIEGVETLVLLLQGNSHVKEVPNGFLQAFP 518

Query:   556 EIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH-LNDASLIREFGELEVLILKGSRIVE 614
              ++ LDLS   I +L  S   L  LRSL L N   L +   +    +L+ L L  S I E
Sbjct:   519 NLRILDLSGVRIRTLPDSFSNLHSLRSLVLRNCKKLRNLPSLESLVKLQFLDLHESAIRE 578

Query:   615 LPNGIGTVSXXXXXXXXXXXXXQVIPPNVISKLSQLEELYVGNSFGDWEVE-ETANGQNA 673
             LP G+  +S             Q IP   I +LS LE L +  S   W ++ E   GQ A
Sbjct:   579 LPRGLEALSSLRYICVSNTYQLQSIPAGTILQLSSLEVLDMAGSAYSWGIKGEEREGQ-A 637

Query:   674 RFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRS----MH 729
                EV  L  L  L I + +    S +FD     L +F+   +     ++P  +    + 
Sbjct:   638 TLDEVTCLPHLQFLAIKLLDVLSFSYEFDSLTKRLTKFQFLFSP-IRSVSPPGTGEGCLA 696

Query:   730 LK--NLSNSIASWVXXXXXXXXXXXXXRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIF 787
             +   N+SN+   W+                 LQ +  +D+    GL  M     +  +  
Sbjct:   697 ISDVNVSNASIGWL-----------------LQHVTSLDLNYCEGLNGMFENLVTKSK-- 737

Query:   788 HSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVL--VGLPKVLTIWKG 845
              S+F      ++ L + Y  SL         E +      L EL L  V L  +  +   
Sbjct:   738 -SSFVA----MKALSIHYFPSLS---LASGCESQLDLFPNLEELSLDNVNLESIGEL--N 787

Query:   846 NHSVVYLKTLKLMKVKDCGKLRYLFS-RTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVE 904
                 + L+ LKL++V  C +L+ LFS + LA  L NL+++ ++ C  +EE+ +     V+
Sbjct:   788 GFLGMRLQKLKLLQVSGCRQLKRLFSDQILAGTLPNLQEIKVVSCLRLEELFNFSSVPVD 847

Query:   905 QGAAQERNVSSAPQPMFFPNLKKL 928
               A       +  +  + P L+ L
Sbjct:   848 FCAESLLPKLTVIKLKYLPQLRSL 871

GO:0005634 "nucleus" evidence=ISM

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

GO:0043531 "ADP binding" evidence=IEA

TAIR|locus:2201986 RFL1 "AT1G12210" [Arabidopsis thaliana (taxid:3702)]

 Score = 479 (173.7 bits), Expect = 4.6e-56, Sum P(2) = 4.6e-56
 Identities = 165/618 (26%), Positives = 293/618 (47%)

Query:    35 YLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIK-AEVRNW--QVQTIQYEMD 91
             Y+     N+ + ++    L AK+ DV   +   E  G   + A+V+ W  ++QTI+ + +
Sbjct:    28 YIQNLSENLASLQKAMGVLNAKRDDVQGRINREEFTGHRRRLAQVQVWLTRIQTIENQFN 87

Query:    92 VELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIR-LSN---FESISFPAR 147
              +LL     + +  C        K  ++S +  K+ + ++  +  LS+   F+ ++  A 
Sbjct:    88 -DLLSTCNAEIQRLCLCGFCS--KNVKMSYLYGKRVIVLLREVEGLSSQGVFDIVTEAAP 144

Query:   148 SADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQV---- 203
              A+V  +P    +  + ++  +  V   L ++ + I  +G+YG GG+GKTTL+ Q+    
Sbjct:   145 IAEVEELPIQSTIVGQDSM--LDKVWNCLMEDKVWI--VGLYGMGGVGKTTLLTQINNKF 200

Query:   204 MKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNT---ELEGDVEVLRAAFLSERLKRQKR 260
              K    FD VI+V V++   V ++Q  I   L       +   +  RA  +   L+R+K 
Sbjct:   201 SKLGGGFDVVIWVVVSKNATVHKIQKSIGEKLGLVGKNWDEKNKNQRALDIHNVLRRKKF 260

Query:   261 VLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDEDRL 320
             VL+ LDD+W K++L V+G+PY     GCK+  T+  KEVC  M   N +++  L   +  
Sbjct:   261 VLL-LDDIWEKVELKVIGVPYPSGENGCKVAFTTHSKEVCGRMGVDNPMEISCLDTGNAW 319

Query:   321 ILFKKKAGLPEGTKA----FDRAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIKR 375
              L KKK G  E T        + A +V  +C  LP A+ +IG  +  K  ++EW  A + 
Sbjct:   320 DLLKKKVG--ENTLGSHPDIPQLARKVSEKCCGLPLALNVIGETMSFKRTIQEWRHATEV 377

Query:   376 KKASTPINVEGIPEEVVLCVALGYDQLETV-AKSCLQFSCLFPPYYSVSMEEFVIHGLVD 434
               ++T  +  G+ +E++  +   YD L    AKSC  +  LFP  + +  E  + + + +
Sbjct:   378 LTSATDFS--GMEDEILPILKYSYDSLNGEDAKSCFLYCSLFPEDFEIRKEMLIEYWICE 435

Query:   435 RLFPQVGLLGEVGNRVHPVVXXXXXXXXXXEGDRES-CFRIHDDTRKVVKYIAAREGDH- 492
                 +     +  N+ + ++          EG ++     +HD  R++  +I +  G H 
Sbjct:   436 GFIKEKQGREKAFNQGYDILGTLVRSSLLLEGAKDKDVVSMHDMVREMALWIFSDLGKHK 495

Query:   493 --FIAEPGMKKG-WPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNN-PFADIP 547
                I + G+     P  E+ +  +++SLM+ N   +   P+C  L TLFLQNN    DI 
Sbjct:   496 ERCIVQAGIGLDELPEVENWRAVKRMSLMNNNFEKILGSPECVELITLFLQNNYKLVDIS 555

Query:   548 NAFFEHTREIKNLDLSSTN-ISSLAPSLPCLEKLRSLHLENTHLNDASL-IREFGELEVL 605
               FF     +  LDLS  + +S L   +  L  L+ L L  T++      + E  +L  L
Sbjct:   556 MEFFRCMPSLAVLDLSENHSLSELPEEISELVSLQYLDLSGTYIERLPHGLHELRKLVHL 615

Query:   606 ILKGSRIVELPNGIGTVS 623
              L+ +R +E  +GI  +S
Sbjct:   616 KLERTRRLESISGISYLS 633

GO:0005575 "cellular_component" evidence=ND

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

GO:0043531 "ADP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

GO:0006499 "N-terminal protein myristoylation" evidence=RCA

TAIR|locus:2034770 SUMM2 "AT1G12280" [Arabidopsis thaliana (taxid:3702)]

 Score = 487 (176.5 bits), Expect = 5.5e-56, Sum P(2) = 5.5e-56
 Identities = 176/655 (26%), Positives = 316/655 (48%)

Query:    35 YLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAED--RGEEIKAEVRNW--QVQTIQYEM 90
             Y+     N+ A ++    L+ K+ DV R V D E+  R  E  ++V+ W   V T++ + 
Sbjct:    28 YICELSKNVVAMKKDMEVLKKKRDDVKRRV-DIEEFTRRRERLSQVQGWLTNVSTVENKF 86

Query:    91 DVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEHIR-LSN---FESISFPA 146
             + ELL     + +  C        K  ++S +  K+ V +++ I  LS+   F++++   
Sbjct:    87 N-ELLTTNDAELQRLCLFGFCS--KNVKMSYLYGKRVVLMLKEIESLSSQGDFDTVTLAT 143

Query:   147 RSADVRSIPT-PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQV-- 203
               A +  +P  P  V  ++ LE + +  +L +D      I+G+YG GG+GKTTL+ ++  
Sbjct:   144 PIARIEEMPIQPTIVGQETMLERVWT--RLTEDGD---EIVGLYGMGGVGKTTLLTRINN 198

Query:   204 -MKQEIP-FDKVIFVRVTQTPDVKRVQDEIARFLNT---ELEGDVEVLRAAFLSERLKRQ 258
                ++   F  VI+V V+++PD+ R+Q +I + L+    E +   E  RA  +   L +Q
Sbjct:   199 KFSEKCSGFGVVIWVVVSKSPDIHRIQGDIGKRLDLGGEEWDNVNENQRALDIYNVLGKQ 258

Query:   259 KRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDED 318
             K VL+ LDD+W K++L V+G+PY     GCK++ T+R ++VC  M   + ++V  L   +
Sbjct:   259 KFVLL-LDDIWEKVNLEVLGVPYPSRQNGCKVVFTTRSRDVCGRMRVDDPMEVSCLEPNE 317

Query:   319 RLILFKKKAG--LPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKP-VREWNEAIKR 375
                LF+ K G    +G       A +V  +C  LP A+ +IG  +  K  V+EW  AI  
Sbjct:   318 AWELFQMKVGENTLKGHPDIPELARKVAGKCCGLPLALNVIGETMACKRMVQEWRNAID- 376

Query:   376 KKASTPINVEGIPEEVVLCVALGYDQL-ETVAKSCLQFSCLFPPYYSVSMEE----FVIH 430
               +S      G+ E+++  +   YD L +   K C  +  LFP  Y +  E     ++  
Sbjct:   377 VLSSYAAEFPGM-EQILPILKYSYDNLNKEQVKPCFLYCSLFPEDYRMEKERLIDYWICE 435

Query:   431 GLVDRLFPQVGLLGEVGNRVHPVVXXXXXXXXXXEGDRESCFRIHDDTRKVVKYIAAREG 490
             G +D    +   L + G  +  ++          E   +   ++HD  R++  +IA+  G
Sbjct:   436 GFIDENESRERALSQ-GYEIIGILVRACLLLE--EAINKEQVKMHDVVREMALWIASDLG 492

Query:   491 DH---FIAEPGMK-KGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQ-NNPFA 544
             +H    I + G+  +  P+ ++  +  ++SLM+  +  L   P+C  LTTLFLQ N+   
Sbjct:   493 EHKERCIVQVGVGLREVPKVKNWSSVRRMSLMENEIEILSGSPECLELTTLFLQKNDSLL 552

Query:   545 DIPNAFFEHTREIKNLDLS-STNISSLAPSLPCLEKLRSLHLENTHLNDASL-IREFGEL 602
              I + FF     +  LDLS ++++  L   +  L  LR L L  T++    + ++E  +L
Sbjct:   553 HISDEFFRCIPMLVVLDLSGNSSLRKLPNQISKLVSLRYLDLSWTYIKRLPVGLQELKKL 612

Query:   603 EVLILKGSRIVELPNGIGTVSXXXXXXXXXXXXXQVIPPNVISKLSQLEELYVGN 657
               L L   + ++  +GI  +S               +  +++ +L  LE L V N
Sbjct:   613 RYLRLDYMKRLKSISGISNISSLRKLQLLQSKMS--LDMSLVEELQLLEHLEVLN 665

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

GO:0043531 "ADP binding" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

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

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: GSVIVG00006778001 SubName- Full=Chromosome chr11 scaffold_177, whole genome shotgun sequence; (1093 aa) (Vitis vinifera)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	1074
pfam00931	285	pfam00931, NB-ARC, NB-ARC domain	6e-37
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	9e-10
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	2e-09
pfam13401	124	pfam13401, AAA_22, AAA domain	7e-07
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	1e-06
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	4e-06
pfam13855	60	pfam13855, LRR_8, Leucine rich repeat	7e-06
smart00382	148	smart00382, AAA, ATPases associated with a variety	2e-05
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	2e-04
pfam05729	165	pfam05729, NACHT, NACHT domain	2e-04
PLN03210	1153	PLN03210, PLN03210, Resistant to P	2e-04
PLN00113	968	PLN00113, PLN00113, leucine-rich repeat receptor-l	5e-04
COG1474	366	COG1474, CDC6, Cdc6-related protein, AAA superfami	5e-04
COG4886	394	COG4886, COG4886, Leucine-rich repeat (LRR) protei	0.001
pfam00006	213	pfam00006, ATP-synt_ab, ATP synthase alpha/beta fa	0.001
smart00534	185	smart00534, MUTSac, ATPase domain of DNA mismatch	0.001
pfam01637	223	pfam01637, Arch_ATPase, Archaeal ATPase	0.002
cd00009	151	cd00009, AAA, The AAA+ (ATPases Associated with a	0.003
pfam13191	154	pfam13191, AAA_16, AAA ATPase domain	0.003
pfam12799	43	pfam12799, LRR_4, Leucine Rich repeats (2 copies)	0.003

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

 Score =  140 bits (355), Expect = 6e-37
 Identities = 85/275 (30%), Positives = 143/275 (52%), Gaps = 17/275 (6%)

Query: 174 KLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDE 230
           KLL+ +  ++ ++G+ G GG+GKTTL KQ+         FD V +V V++T    R+Q +
Sbjct: 11  KLLEMSD-NLGVVGIVGMGGVGKTTLAKQIYNDDSVGGHFDSVAWVVVSKTYTEFRLQKD 69

Query: 231 IARFL---NTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKG 287
           I + L   +++     E   A  + E L R KR L++LDD+W K D   +G+P+ +   G
Sbjct: 70  ILQELGLDDSDWVEKNESELAVKIKEALLR-KRFLLVLDDVWEKNDWDKIGVPFPDGENG 128

Query: 288 CKIILTSRFKEVCDEMESTNY-VQVEELTDEDRLILFKKKAG---LPEGTKAFDRAAEEV 343
            ++I+T+R + V   M  T+   +VE L  E+   LF  K     LP   +  +  A+E+
Sbjct: 129 SRVIVTTRSESVAGRMGGTSKPHEVESLEPEESWELFSNKVFEKELPPCPE-LEEVAKEI 187

Query: 344 VRQCGKLPNAIVIIGTALRHKP-VREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQL 402
           V +C  LP A+ ++G  L  K  V+EW   +++   +     +G+  EV+  ++L YD L
Sbjct: 188 VEKCKGLPLALKVLGGLLAFKSTVQEWEHVLEQLN-NELAGRDGL-NEVLSILSLSYDNL 245

Query: 403 ETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLF 437
               K C  +  LFP  Y++  E+ +I   +   F
Sbjct: 246 PMHLKRCFLYLALFPEDYNIRKEQ-LIKLWIAEGF 279

Length = 285

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

 Score = 61.9 bits (150), Expect = 9e-10
 Identities = 64/234 (27%), Positives = 98/234 (41%), Gaps = 20/234 (8%)

Query: 533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND 592
           LT+L L NN   DIP         +K LDLS   I SL   L  L  L++L L    L+D
Sbjct: 118 LTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSD 177

Query: 593 AS-LIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLE 651
              L+     L  L L G++I +LP  I  +S L+ LDLSNN  ++++    +S L  L 
Sbjct: 178 LPKLLSNLSNLNNLDLSGNKISDLPPEIELLSALEELDLSNNSIIELLSS--LSNLKNLS 235

Query: 652 ELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVL-YIHVSNTKVLSVDFDGPWTNLKR 710
            L + N              N       S+  L+ L  + +SN ++ S+   G  TNL+ 
Sbjct: 236 GLELSN--------------NKLEDLPESIGNLSNLETLDLSNNQISSISSLGSLTNLRE 281

Query: 711 FRVCVNDDYWEIAPKRSMHL--KNLSNSIASWVKLLLEKTEYLTLTRSSNLQDI 762
             +  N     +     + L  + L N + +   L L+    L      +  + 
Sbjct: 282 LDLSGNSLSNALPLIALLLLLLELLLNLLLTLKALELKLNSILLNNNILSNGET 335

Length = 394

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

 Score = 60.8 bits (147), Expect = 2e-09
 Identities = 51/151 (33%), Positives = 74/151 (49%), Gaps = 7/151 (4%)

Query: 512 EKLSLMDGNVTALPDQPK-CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSL 570
           ++L L D  + +LP   +  P L  L L  N  +D+P      +  + NLDLS   IS L
Sbjct: 143 KELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLS-NLNNLDLSGNKISDL 201

Query: 571 APSLPCLEKLRSLHLENTH-LNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLD 629
            P +  L  L  L L N   +   S +     L  L L  +++ +LP  IG +SNL+ LD
Sbjct: 202 PPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLEDLPESIGNLSNLETLD 261

Query: 630 LSNNLFLQVIPPNVISKLSQLEELYV-GNSF 659
           LSNN   Q+   + +  L+ L EL + GNS 
Sbjct: 262 LSNN---QISSISSLGSLTNLRELDLSGNSL 289

Length = 394

>gnl|CDD|222104 pfam13401, AAA_22, AAA domain

 Score = 48.8 bits (117), Expect = 7e-07
 Identities = 23/80 (28%), Positives = 39/80 (48%), Gaps = 1/80 (1%)

Query: 188 VYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLR 247
           + G  G GKTTL++++ +Q      V++V        K +  +I R L   L G      
Sbjct: 9   LTGESGSGKTTLLRRLARQLPNRR-VVYVEAPSLGTPKDLLRKILRALGLPLSGGTTAEL 67

Query: 248 AAFLSERLKRQKRVLIILDD 267
              + + LKR+ R L+I+D+
Sbjct: 68  LEAILDALKRRGRPLLIIDE 87

Length = 124

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

 Score = 46.0 bits (110), Expect = 1e-06
 Identities = 23/60 (38%), Positives = 33/60 (55%), Gaps = 1/60 (1%)

Query: 532 RLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHL 590
            L +L L NN    IP+  F+    +K LDLS  N++S++P +   L  LRSL L   +L
Sbjct: 1   NLKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNNLTSISPEAFSGLPSLRSLDLSGNNL 60

Length = 60

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

 Score = 50.6 bits (121), Expect = 4e-06
 Identities = 39/126 (30%), Positives = 62/126 (49%), Gaps = 28/126 (22%)

Query: 531 PRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNISSLAP--SLPCLEKLRSLHLEN 587
           P + T+ L NN  +  IP+  F  +  ++ L+LS+ N +   P  S+P LE   +L L N
Sbjct: 93  PYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPRGSIPNLE---TLDLSN 149

Query: 588 THLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKL 647
             L+                      E+PN IG+ S+LK+LDL  N+ +  IP + ++ L
Sbjct: 150 NMLSG---------------------EIPNDIGSFSSLKVLDLGGNVLVGKIPNS-LTNL 187

Query: 648 SQLEEL 653
           + LE L
Sbjct: 188 TSLEFL 193

Length = 968

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

 Score = 44.1 bits (105), Expect = 7e-06
 Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 2/57 (3%)

Query: 602 LEVLILKGSRIVELPNGI-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           L+ L L  +R+  +P+G    + NLK+LDLS N  L  I P   S L  L  L +  
Sbjct: 2   LKSLDLSNNRLTVIPDGAFKGLPNLKVLDLSGNN-LTSISPEAFSGLPSLRSLDLSG 57

Length = 60

>gnl|CDD|214640 smart00382, AAA, ATPases associated with a variety of cellular activities

 Score = 45.4 bits (107), Expect = 2e-05
 Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 2/86 (2%)

Query: 184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD 242
            +I + G  G GKTTL + + ++   P   VI++      +    Q  +      +  G 
Sbjct: 3   EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLLLIIVGGKKASGS 62

Query: 243 VEVLRAAFLSERLKRQKRVLIILDDL 268
            E LR        ++ K  ++ILD++
Sbjct: 63  GE-LRLRLALALARKLKPDVLILDEI 87

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. Length = 148

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

 Score = 44.8 bits (106), Expect = 2e-04
 Identities = 40/117 (34%), Positives = 56/117 (47%), Gaps = 14/117 (11%)

Query: 533 LTTLFLQNNPFAD-IPNAFFEHTREIKNLDLSSTNISSLAPSLPC-LEKLRSLHLENTHL 590
           L  LFL  N  +  IP + F   + I +LDLS  ++S   P L   L+ L  LHL + + 
Sbjct: 262 LQYLFLYQNKLSGPIPPSIFSLQKLI-SLDLSDNSLSGEIPELVIQLQNLEILHLFSNNF 320

Query: 591 ND------ASLIREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIP 640
                    SL R    L+VL L  ++   E+P  +G  +NL +LDLS N     IP
Sbjct: 321 TGKIPVALTSLPR----LQVLQLWSNKFSGEIPKNLGKHNNLTVLDLSTNNLTGEIP 373

Length = 968

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

 Score = 42.7 bits (101), Expect = 2e-04
 Identities = 37/163 (22%), Positives = 62/163 (38%), Gaps = 32/163 (19%)

Query: 188 VYGSGGIGKTTLMKQVM------KQEIPFDKVIFVRVTQTPDVK--RVQDEIARFLNTEL 239
           + G  G GKTTL++++       K    FD V F+   +        + D +      E 
Sbjct: 5   LQGEAGSGKTTLLQKIALLWAQGKLPQDFDFVFFLPCRELSRSGEASLADLLFS-QWPEP 63

Query: 240 EGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEH-------------- 285
              V        +  L+  +R+L+ILD L      + +G   G                 
Sbjct: 64  AAPVS----EVWAVILELPERLLLILDGL--DELASDLGQLDGPCPVLTLLSSLLRKKLL 117

Query: 286 KGCKIILTSRFKEVCD---EMESTNYVQVEELTDEDRLILFKK 325
            G  ++LTSR   + D    +E   Y++V   ++EDR    +K
Sbjct: 118 PGASLLLTSRPDALRDLRRGLEEPRYLEVLGFSEEDRKQYVRK 160

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|215633 PLN03210, PLN03210, Resistant to P

 Score = 45.3 bits (107), Expect = 2e-04
 Identities = 61/244 (25%), Positives = 110/244 (45%), Gaps = 28/244 (11%)

Query: 153 SIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ------ 206
             P+ +F       + I  +  LL   S  + ++G++GS GIGKTT+ + +  +      
Sbjct: 177 LTPSNDFEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQ 236

Query: 207 -EIPFDKVIFVRVTQ-----TPDVKRVQDEIAR-FLNTELEG-DVEVLRAAFLSERLKRQ 258
             +  D+    +  +      PD   ++  + R FL+  L+  D+++     + ERLK +
Sbjct: 237 SSVFIDRAFISKSMEIYSSANPDDYNMKLHLQRAFLSEILDKKDIKIYHLGAMEERLKHR 296

Query: 259 KRVLIILDDLWGKLDLAVVGIPYGEEH---KGCKIILTSRFKEVCDEMESTNYVQVEELT 315
           K VLI +DDL    D  V+    G+      G +II+ ++ K         +  +V   +
Sbjct: 297 K-VLIFIDDL---DDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRAHGIDHIYEVCLPS 352

Query: 316 DEDRLILFK----KKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNE 371
           +E  L +F     KK   P+G   F   A EV  + G LP  + ++G+ LR +   +W +
Sbjct: 353 NELALEMFCRSAFKKNSPPDG---FMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMD 409

Query: 372 AIKR 375
            + R
Sbjct: 410 MLPR 413

syringae 6; Provisional. Length = 1153

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

 Score = 44.1 bits (104), Expect = 5e-04
 Identities = 40/142 (28%), Positives = 64/142 (45%), Gaps = 9/142 (6%)

Query: 507 DLQNCEKLSLMDGNVTA-LPDQPKCPRLTTLFLQNNPFAD-IPNAFFEHTREIKNLDLSS 564
           D+ + + LSL        LPD     RL  L L  N F+  +P      + E+  L LS 
Sbjct: 450 DMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVPRKLGSLS-ELMQLKLSE 508

Query: 565 TNISSLAPS-LPCLEKLRSLHLENTHLNDASLIREFGELEVLI---LKGSRIV-ELPNGI 619
             +S   P  L   +KL SL L +  L+   +   F E+ VL    L  +++  E+P  +
Sbjct: 509 NKLSGEIPDELSSCKKLVSLDLSHNQLS-GQIPASFSEMPVLSQLDLSQNQLSGEIPKNL 567

Query: 620 GTVSNLKLLDLSNNLFLQVIPP 641
           G V +L  +++S+N     +P 
Sbjct: 568 GNVESLVQVNISHNHLHGSLPS 589

Length = 968

>gnl|CDD|224391 COG1474, CDC6, Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

 Score = 43.5 bits (103), Expect = 5e-04
 Identities = 29/127 (22%), Positives = 53/127 (41%), Gaps = 11/127 (8%)

Query: 152 RSIPTPEFVPLKSAL--EVIKSVMKLLK---DNSISINIIGVYGSGGIGKTTLMKQVMKQ 206
           + +   +++P +     E I  +   L          NII +YG  G GKT  +K VM++
Sbjct: 7   KDVLLEDYIPEELPHREEEINQLASFLAPALRGERPSNII-IYGPTGTGKTATVKFVMEE 65

Query: 207 ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRA-AFLSERL-KRQKRV 261
                   +V+++   +     +V  +I   L          L     L + L K+ K V
Sbjct: 66  LEESSANVEVVYINCLELRTPYQVLSKILNKLGKVPLTGDSSLEILKRLYDNLSKKGKTV 125

Query: 262 LIILDDL 268
           ++ILD++
Sbjct: 126 IVILDEV 132

Length = 366

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

 Score = 41.9 bits (98), Expect = 0.001
 Identities = 33/127 (25%), Positives = 52/127 (40%), Gaps = 4/127 (3%)

Query: 529 KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENT 588
               L+ L L NN   D+P     +   ++ LDLS+  ISS+  SL  L  LR L L   
Sbjct: 230 NLKNLSGLELSNNKLEDLPE-SIGNLSNLETLDLSNNQISSI-SSLGSLTNLRELDLSGN 287

Query: 589 HLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLS 648
            L++A  +     L + +L    +      +   S L   ++ +N       P  +S L 
Sbjct: 288 SLSNALPLIALLLLLLELLLNLLLTLKALELKLNSILLNNNILSNGETSS--PEALSILE 345

Query: 649 QLEELYV 655
            L  L+ 
Sbjct: 346 SLNNLWT 352

Length = 394

>gnl|CDD|215651 pfam00006, ATP-synt_ab, ATP synthase alpha/beta family, nucleotide-binding domain

 Score = 40.9 bits (97), Expect = 0.001
 Identities = 25/105 (23%), Positives = 42/105 (40%), Gaps = 29/105 (27%)

Query: 186 IGVYGSGGIGKTTLMKQVMKQEIPFDKV-IFVRVTQTPDVKRVQDEIARFLNTELEGD-- 242
           IG++G  G GKT L+  + +     D V ++V + +         E+A F+   L     
Sbjct: 18  IGIFGGSGTGKTVLLGMIARN-AKADVVEVYVLIGERG------REVAEFIEELLGEGAL 70

Query: 243 --------------VEVLRAAF----LSERLKRQ-KRVLIILDDL 268
                          E   A +    ++E  + Q K VL++LD L
Sbjct: 71  KRTVVVAATSDEPPAERYLAPYTALTIAEYFRDQGKDVLLLLDSL 115

This family includes the ATP synthase alpha and beta subunits, the ATP synthase associated with flagella and the termination factor Rho. Length = 213

>gnl|CDD|197777 smart00534, MUTSac, ATPase domain of DNA mismatch repair MUTS family

 Score = 40.6 bits (96), Expect = 0.001
 Identities = 41/188 (21%), Positives = 78/188 (41%), Gaps = 47/188 (25%)

Query: 195 GKTTLMKQV-----MKQ----------EIP-FDKVIFVRVTQTPDVKRVQDEIARFLNTE 238
           GK+T ++QV     M Q          E+P FD+ IF R+        +   ++ F+  E
Sbjct: 11  GKSTYLRQVALIVIMAQIGSFVPAESAELPVFDR-IFTRIG---ASDSLAQGLSTFMV-E 65

Query: 239 LEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK-------LDLAVVGIPYGEEHKGCKII 291
           ++    +L+ A         K  L++LD+L G+       L +A   + Y  E  G + +
Sbjct: 66  MKETANILKNA--------TKNSLVLLDEL-GRGTSTYDGLAIAAAILEYLLEKIGARTL 116

Query: 292 LTSRFKEVCDEMESTNYV---QVEELTDEDRLI-LFKKKAGLPEGTKAFDRAAEEVVRQC 347
             + + E+    ++   V    +  L + + +  L+K K G+   +        EV +  
Sbjct: 117 FATHYHELTKLADNHPGVRNLHMSALEETENITFLYKLKPGVAGKSYGI-----EVAKLA 171

Query: 348 GKLPNAIV 355
           G LP  ++
Sbjct: 172 G-LPKEVI 178

Length = 185

>gnl|CDD|216619 pfam01637, Arch_ATPase, Archaeal ATPase

 Score = 40.3 bits (95), Expect = 0.002
 Identities = 28/98 (28%), Positives = 43/98 (43%), Gaps = 13/98 (13%)

Query: 184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDK-VIFV----RVTQTP-DVKRVQDEIARFLNT 237
            II VYG    GKT L+++ +++       VI+     R  +   D       +A  L  
Sbjct: 21  PIIVVYGPRRCGKTALLREFLEELRELGYRVIYYDPLRREFEEKLDRFEEAKRLAEALGD 80

Query: 238 ELEGDVEVLRA-AFLS-----ERLKRQ-KRVLIILDDL 268
            L          AFLS     E LKR+ K++ II+D++
Sbjct: 81  ALPKIGIAKSKLAFLSLTLLFELLKRKGKKIAIIIDEV 118

This family contain a conserved P-loop motif that is involved in binding ATP. This family is almost exclusively found in archaebacteria and particularly in Methanococcus jannaschii that encodes sixteen members of this family. Length = 223

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

 Score = 39.4 bits (92), Expect = 0.003
 Identities = 20/139 (14%), Positives = 48/139 (34%), Gaps = 26/139 (18%)

Query: 165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDV 224
           A+E ++  ++L    ++ +     YG  G GKTTL + +   E+      F+ +      
Sbjct: 6   AIEALREALELPPPKNLLL-----YGPPGTGKTTLARAIAN-ELFRPGAPFLYLN----- 54

Query: 225 KRVQDEIARFLN-TELEGDVEVLRAAFLSERLKRQKRVLIILDDL--------WGKLDLA 275
                  +  L    +           L E  ++ K  ++ +D++           L + 
Sbjct: 55  ------ASDLLEGLVVAELFGHFLVRLLFELAEKAKPGVLFIDEIDSLSRGAQNALLRVL 108

Query: 276 VVGIPYGEEHKGCKIILTS 294
                   + +  ++I  +
Sbjct: 109 ETLNDLRIDRENVRVIGAT 127

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

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

 Score = 39.1 bits (91), Expect = 0.003
 Identities = 22/101 (21%), Positives = 43/101 (42%), Gaps = 21/101 (20%)

Query: 188 VYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPD------VKRVQDEIARFLNTELEG 241
           + G  G GKT+L++++++  +        +  + P       ++ +  ++ R L  EL  
Sbjct: 29  LTGPSGTGKTSLLRELLE-GLLVAAGKCDQAERNPPYAFSQALRELLRQLLRELAAELLL 87

Query: 242 DVEVLRAA--------------FLSERLKRQKRVLIILDDL 268
             E L AA               L   L R + ++++LDDL
Sbjct: 88  LREALLAALGAELIEGLQDLVELLERLLARARPLVLVLDDL 128

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

>gnl|CDD|205079 pfam12799, LRR_4, Leucine Rich repeats (2 copies)

 Score = 35.9 bits (84), Expect = 0.003
 Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 557 IKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIRE 598
           ++ LDLS+  I+ L P L  L  L +L L    + D S +  
Sbjct: 3   LETLDLSNNQITDL-PPLSNLPNLETLDLSGNKITDLSPLSN 43

Leucine rich repeats are short sequence motifs present in a number of proteins with diverse functions and cellular locations. These repeats are usually involved in protein-protein interactions. Each Leucine Rich Repeat is composed of a beta-alpha unit. These units form elongated non-globular structures. Leucine Rich Repeats are often flanked by cysteine rich domains. Length = 43

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	1074
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	100.0
PLN03210	1153	Resistant to P. syringae 6; Provisional	100.0
PF00931	287	NB-ARC: NB-ARC domain; InterPro: IPR002182 This is	100.0
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
PLN00113	968	leucine-rich repeat receptor-like protein kinase;	99.97
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.87
PLN03210	1153	Resistant to P. syringae 6; Provisional	99.86
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.85
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.84
KOG4194	873	consensus Membrane glycoprotein LIG-1 [Signal tran	99.83
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.83
KOG0444	1255	consensus Cytoskeletal regulator Flightless-I (con	99.79
KOG0472	565	consensus Leucine-rich repeat protein [Function un	99.75
KOG0618	1081	consensus Serine/threonine phosphatase 2C containi	99.73
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.54
KOG0617	264	consensus Ras suppressor protein (contains leucine	99.42
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.41
PRK15387	788	E3 ubiquitin-protein ligase SspH2; Provisional	99.32
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.32
KOG4658	889	consensus Apoptotic ATPase [Signal transduction me	99.3
PRK04841	903	transcriptional regulator MalT; Provisional	99.27
PRK15370	754	E3 ubiquitin-protein ligase SlrP; Provisional	99.25
TIGR03015	269	pepcterm_ATPase putative secretion ATPase, PEP-CTE	99.16
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.15
KOG4237	498	consensus Extracellular matrix protein slit, conta	99.12
KOG4341	483	consensus F-box protein containing LRR [General fu	99.11
PRK00411	394	cdc6 cell division control protein 6; Reviewed	99.11
PF05729	166	NACHT: NACHT domain	99.06
KOG4341	483	consensus F-box protein containing LRR [General fu	98.99
TIGR02928	365	orc1/cdc6 family replication initiation protein. M	98.98
PF01637	234	Arch_ATPase: Archaeal ATPase; InterPro: IPR011579	98.97
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.93
TIGR00635	305	ruvB Holliday junction DNA helicase, RuvB subunit.	98.9
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	98.89
PRK00080	328	ruvB Holliday junction DNA helicase RuvB; Reviewed	98.88
PF14580	175	LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQ	98.84
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.82
cd00116	319	LRR_RI Leucine-rich repeats (LRRs), ribonuclease i	98.71
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.7
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.69
KOG0532	722	consensus Leucine-rich repeat (LRR) protein, conta	98.66
COG2256	436	MGS1 ATPase related to the helicase subunit of the	98.66
PRK06893	229	DNA replication initiation factor; Validated	98.65
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.61
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.54
KOG1259	490	consensus Nischarin, modulator of integrin alpha5	98.54
PRK13342	413	recombination factor protein RarA; Reviewed	98.51
KOG3207	505	consensus Beta-tubulin folding cofactor E [Posttra	98.48
COG4886	394	Leucine-rich repeat (LRR) protein [Function unknow	98.43
PTZ00112	1164	origin recognition complex 1 protein; Provisional	98.43
cd01128	249	rho_factor Transcription termination factor rho is	98.43
TIGR03420	226	DnaA_homol_Hda DnaA regulatory inactivator Hda. Me	98.42
PF13173	128	AAA_14: AAA domain	98.41
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	98.34
PRK07003	830	DNA polymerase III subunits gamma and tau; Validat	98.33
PRK09376	416	rho transcription termination factor Rho; Provisio	98.33
PRK05564	313	DNA polymerase III subunit delta'; Validated	98.32
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.31
PF05496	233	RuvB_N: Holliday junction DNA helicase ruvB N-term	98.3
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.29
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	98.28
KOG2028	554	consensus ATPase related to the helicase subunit o	98.26
PLN03150	623	hypothetical protein; Provisional	98.25
PLN03150	623	hypothetical protein; Provisional	98.24
PF13855	61	LRR_8: Leucine rich repeat; PDB: 2O6S_A 3A79_B 3RF	98.21
TIGR02903	615	spore_lon_C ATP-dependent protease, Lon family. Me	98.21
PRK06645	507	DNA polymerase III subunits gamma and tau; Validat	98.19
PRK14949	944	DNA polymerase III subunits gamma and tau; Provisi	98.18
PRK04195	482	replication factor C large subunit; Provisional	98.18
PRK12323	700	DNA polymerase III subunits gamma and tau; Provisi	98.17
PRK14963	504	DNA polymerase III subunits gamma and tau; Provisi	98.16
PLN03025	319	replication factor C subunit; Provisional	98.16
COG1474	366	CDC6 Cdc6-related protein, AAA superfamily ATPase	98.16
PRK14961	363	DNA polymerase III subunits gamma and tau; Provisi	98.15
PRK08084	235	DNA replication initiation factor; Provisional	98.15
PRK08727	233	hypothetical protein; Validated	98.14
PRK13341	725	recombination factor protein RarA/unknown domain f	98.13
COG3903	414	Predicted ATPase [General function prediction only	98.13
PRK14960	702	DNA polymerase III subunits gamma and tau; Provisi	98.13
PTZ00202	550	tuzin; Provisional	98.13
TIGR00767	415	rho transcription termination factor Rho. Members	98.12
PRK12402	337	replication factor C small subunit 2; Reviewed	98.11
PRK14962	472	DNA polymerase III subunits gamma and tau; Provisi	98.09
PRK14956	484	DNA polymerase III subunits gamma and tau; Provisi	98.09
KOG2120	419	consensus SCF ubiquitin ligase, Skp2 component [Po	98.06
KOG2982	418	consensus Uncharacterized conserved protein [Funct	98.04
TIGR01242	364	26Sp45 26S proteasome subunit P45 family. Many pro	98.03
PRK14957	546	DNA polymerase III subunits gamma and tau; Provisi	98.02
PRK00440	319	rfc replication factor C small subunit; Reviewed	98.02
TIGR00678	188	holB DNA polymerase III, delta' subunit. At positi	98.01
PRK15386	426	type III secretion protein GogB; Provisional	97.99
COG3899	849	Predicted ATPase [General function prediction only	97.97
PRK09112	351	DNA polymerase III subunit delta'; Validated	97.97
PRK09087	226	hypothetical protein; Validated	97.95
PRK07994	647	DNA polymerase III subunits gamma and tau; Validat	97.94
PRK14951	618	DNA polymerase III subunits gamma and tau; Provisi	97.94
PRK15386	426	type III secretion protein GogB; Provisional	97.93
PRK14964	491	DNA polymerase III subunits gamma and tau; Provisi	97.92
PRK14958	509	DNA polymerase III subunits gamma and tau; Provisi	97.91
PRK08691	709	DNA polymerase III subunits gamma and tau; Validat	97.9
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.89
PRK07940	394	DNA polymerase III subunit delta'; Validated	97.88
PF00308	219	Bac_DnaA: Bacterial dnaA protein; InterPro: IPR013	97.88
PRK14087	450	dnaA chromosomal replication initiation protein; P	97.87
TIGR02397	355	dnaX_nterm DNA polymerase III, subunit gamma and t	97.86
PRK07471	365	DNA polymerase III subunit delta'; Validated	97.85
PRK08903	227	DnaA regulatory inactivator Hda; Validated	97.84
PF13191	185	AAA_16: AAA ATPase domain; PDB: 2V1U_A.	97.83
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.83
PRK14955	397	DNA polymerase III subunits gamma and tau; Provisi	97.83
PRK05642	234	DNA replication initiation factor; Validated	97.82
PRK05896	605	DNA polymerase III subunits gamma and tau; Validat	97.82
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.82
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.75
PRK14959	624	DNA polymerase III subunits gamma and tau; Provisi	97.75
TIGR02881	261	spore_V_K stage V sporulation protein K. Members o	97.74
TIGR02880	284	cbbX_cfxQ probable Rubsico expression protein CbbX	97.72
PRK14969	527	DNA polymerase III subunits gamma and tau; Provisi	97.71
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.71
KOG3665	699	consensus ZYG-1-like serine/threonine protein kina	97.7
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.68
TIGR00362	405	DnaA chromosomal replication initiator protein Dna	97.66
KOG0989	346	consensus Replication factor C, subunit RFC4 [Repl	97.66
PRK08451	535	DNA polymerase III subunits gamma and tau; Validat	97.66
KOG0531	414	consensus Protein phosphatase 1, regulatory subuni	97.66
PRK14970	367	DNA polymerase III subunits gamma and tau; Provisi	97.66
PRK03992	389	proteasome-activating nucleotidase; Provisional	97.65
CHL00181	287	cbbX CbbX; Provisional	97.65
PRK07764	824	DNA polymerase III subunits gamma and tau; Validat	97.65
PRK14952	584	DNA polymerase III subunits gamma and tau; Provisi	97.63
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.62
PRK11331	459	5-methylcytosine-specific restriction enzyme subun	97.62
PRK09111	598	DNA polymerase III subunits gamma and tau; Validat	97.62
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.61
PF12799	44	LRR_4: Leucine Rich repeats (2 copies); PDB: 2OMT_	97.61
PHA02544	316	44 clamp loader, small subunit; Provisional	97.61
PRK06620	214	hypothetical protein; Validated	97.61
PRK00149	450	dnaA chromosomal replication initiation protein; R	97.59
PRK14954	620	DNA polymerase III subunits gamma and tau; Provisi	97.59
PF14516	331	AAA_35: AAA-like domain	97.59
PRK07133	725	DNA polymerase III subunits gamma and tau; Validat	97.58
KOG2227	529	consensus Pre-initiation complex, subunit CDC6, AA	97.58
PRK14971	614	DNA polymerase III subunits gamma and tau; Provisi	97.57
PRK14950	585	DNA polymerase III subunits gamma and tau; Provisi	97.53
KOG1644	233	consensus U2-associated snRNP A' protein [RNA proc	97.52
KOG1947	482	consensus Leucine rich repeat proteins, some prote	97.51
KOG1859	1096	consensus Leucine-rich repeat proteins [General fu	97.51
PRK14953	486	DNA polymerase III subunits gamma and tau; Provisi	97.5
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	97.5
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	97.49
TIGR03689	512	pup_AAA proteasome ATPase. In the Actinobacteria,	97.49
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.49
COG1373	398	Predicted ATPase (AAA+ superfamily) [General funct	97.46
PRK10536	262	hypothetical protein; Provisional	97.46
PRK06305	451	DNA polymerase III subunits gamma and tau; Validat	97.46
KOG2543	438	consensus Origin recognition complex, subunit 5 [R	97.45
PRK14088	440	dnaA chromosomal replication initiation protein; P	97.44
PTZ00361	438	26 proteosome regulatory subunit 4-like protein; P	97.43
smart00382	148	AAA ATPases associated with a variety of cellular	97.43
PRK14086	617	dnaA chromosomal replication initiation protein; P	97.43
CHL00095	821	clpC Clp protease ATP binding subunit	97.42
PRK14948	620	DNA polymerase III subunits gamma and tau; Provisi	97.41
PRK12422	445	chromosomal replication initiation protein; Provis	97.38
PRK06647	563	DNA polymerase III subunits gamma and tau; Validat	97.37
COG2255	332	RuvB Holliday junction resolvasome, helicase subun	97.34
PF00004	132	AAA: ATPase family associated with various cellula	97.32
PRK05707	328	DNA polymerase III subunit delta'; Validated	97.3
KOG4579	177	consensus Leucine-rich repeat (LRR) protein associ	97.29
PTZ00454	398	26S protease regulatory subunit 6B-like protein; P	97.28
PRK05563	559	DNA polymerase III subunits gamma and tau; Validat	97.25
PRK08181	269	transposase; Validated	97.25
CHL00176	638	ftsH cell division protein; Validated	97.21
PRK08118	167	topology modulation protein; Reviewed	97.19
PRK14965	576	DNA polymerase III subunits gamma and tau; Provisi	97.15
PRK07399	314	DNA polymerase III subunit delta'; Validated	97.14
COG1222	406	RPT1 ATP-dependent 26S proteasome regulatory subun	97.13
TIGR00763	775	lon ATP-dependent protease La. This protein is ind	97.11
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	97.08
TIGR01241	495	FtsH_fam ATP-dependent metalloprotease FtsH. HflB(	97.05
COG3267	269	ExeA Type II secretory pathway, component ExeA (pr	97.04
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	97.03
COG0593	408	DnaA ATPase involved in DNA replication initiation	97.03
KOG0731	774	consensus AAA+-type ATPase containing the peptidas	97.02
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	97.0
KOG1909	382	consensus Ran GTPase-activating protein [RNA proce	97.0
PRK12608	380	transcription termination factor Rho; Provisional	97.0
PRK08116	268	hypothetical protein; Validated	96.93
PRK10865	857	protein disaggregation chaperone; Provisional	96.89
TIGR00602	637	rad24 checkpoint protein rad24. This family is bas	96.88
COG0466	782	Lon ATP-dependent Lon protease, bacterial type [Po	96.85
KOG0730	693	consensus AAA+-type ATPase [Posttranslational modi	96.85
PF05673	249	DUF815: Protein of unknown function (DUF815); Inte	96.79
TIGR02237	209	recomb_radB DNA repair and recombination protein R	96.79
PRK08769	319	DNA polymerase III subunit delta'; Validated	96.78
PRK07261	171	topology modulation protein; Provisional	96.75
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	96.74
PHA00729	226	NTP-binding motif containing protein	96.74
KOG2004	906	consensus Mitochondrial ATP-dependent protease PIM	96.7
PF13177	162	DNA_pol3_delta2: DNA polymerase III, delta subunit	96.68
PRK10787	784	DNA-binding ATP-dependent protease La; Provisional	96.67
PRK08058	329	DNA polymerase III subunit delta'; Validated	96.66
KOG2982	418	consensus Uncharacterized conserved protein [Funct	96.6
KOG2123	388	consensus Uncharacterized conserved protein [Funct	96.58
PRK06090	319	DNA polymerase III subunit delta'; Validated	96.56
PRK06871	325	DNA polymerase III subunit delta'; Validated	96.52
PRK09183	259	transposase/IS protein; Provisional	96.49
CHL00195	489	ycf46 Ycf46; Provisional	96.49
cd01123	235	Rad51_DMC1_radA Rad51_DMC1_radA,B. This group of r	96.48
PRK10865	857	protein disaggregation chaperone; Provisional	96.44
TIGR02640	262	gas_vesic_GvpN gas vesicle protein GvpN. Members o	96.43
PF10443	431	RNA12: RNA12 protein; InterPro: IPR018850 Mitochon	96.43
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	96.42
PRK06526	254	transposase; Provisional	96.4
PRK12377	248	putative replication protein; Provisional	96.39
PRK07952	244	DNA replication protein DnaC; Validated	96.32
KOG0991	333	consensus Replication factor C, subunit RFC2 [Repl	96.31
TIGR02012	321	tigrfam_recA protein RecA. This model describes or	96.31
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	96.29
PRK08939	306	primosomal protein DnaI; Reviewed	96.28
TIGR02639	731	ClpA ATP-dependent Clp protease ATP-binding subuni	96.25
KOG0741	744	consensus AAA+-type ATPase [Posttranslational modi	96.23
cd00983	325	recA RecA is a bacterial enzyme which has roles in	96.2
PRK09354	349	recA recombinase A; Provisional	96.17
cd01393	226	recA_like RecA is a bacterial enzyme which has rol	96.16
PRK05541	176	adenylylsulfate kinase; Provisional	96.14
TIGR03345	852	VI_ClpV1 type VI secretion ATPase, ClpV1 family. M	96.13
COG1223	368	Predicted ATPase (AAA+ superfamily) [General funct	96.07
PRK06696	223	uridine kinase; Validated	96.06
KOG0734	752	consensus AAA+-type ATPase containing the peptidas	96.05
KOG2035	351	consensus Replication factor C, subunit RFC3 [Cell	96.04
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	96.01
PRK09361	225	radB DNA repair and recombination protein RadB; Pr	96.01
cd01133	274	F1-ATPase_beta F1 ATP synthase beta subunit, nucle	96.0
TIGR03346	852	chaperone_ClpB ATP-dependent chaperone ClpB. Membe	96.0
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	95.97
PRK04132	846	replication factor C small subunit; Provisional	95.96
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	95.94
TIGR01243	733	CDC48 AAA family ATPase, CDC48 subfamily. This sub	95.94
COG2812	515	DnaX DNA polymerase III, gamma/tau subunits [DNA r	95.92
KOG2739	260	consensus Leucine-rich acidic nuclear protein [Cel	95.92
PF07693	325	KAP_NTPase: KAP family P-loop domain; InterPro: IP	95.9
TIGR02858	270	spore_III_AA stage III sporulation protein AA. Mem	95.88
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	95.87
PRK07667	193	uridine kinase; Provisional	95.87
PRK06835	329	DNA replication protein DnaC; Validated	95.86
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	95.85
KOG0735	952	consensus AAA+-type ATPase [Posttranslational modi	95.82
CHL00095	821	clpC Clp protease ATP binding subunit	95.82
PRK06921	266	hypothetical protein; Provisional	95.75
KOG0744	423	consensus AAA+-type ATPase [Posttranslational modi	95.74
TIGR02238	313	recomb_DMC1 meiotic recombinase Dmc1. This model d	95.73
COG2884	223	FtsE Predicted ATPase involved in cell division [C	95.72
PRK07993	334	DNA polymerase III subunit delta'; Validated	95.71
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	95.66
PF01695	178	IstB_IS21: IstB-like ATP binding protein; InterPro	95.63
COG0470	325	HolB ATPase involved in DNA replication [DNA repli	95.63
PRK06964	342	DNA polymerase III subunit delta'; Validated	95.61
PF08423	256	Rad51: Rad51; InterPro: IPR013632 This domain is f	95.59
PLN00020	413	ribulose bisphosphate carboxylase/oxygenase activa	95.59
COG0464	494	SpoVK ATPases of the AAA+ class [Posttranslational	95.59
KOG1969	877	consensus DNA replication checkpoint protein CHL12	95.58
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	95.53
cd01394	218	radB RadB. The archaeal protein radB shares simila	95.52
KOG2123	388	consensus Uncharacterized conserved protein [Funct	95.51
smart00763	361	AAA_PrkA PrkA AAA domain. This is a family of PrkA	95.5
PF05659	147	RPW8: Arabidopsis broad-spectrum mildew resistance	95.46
PRK10733	644	hflB ATP-dependent metalloprotease; Reviewed	95.46
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	95.45
KOG0739	439	consensus AAA+-type ATPase [Posttranslational modi	95.42
PF00154	322	RecA: recA bacterial DNA recombination protein; In	95.4
PLN03187	344	meiotic recombination protein DMC1 homolog; Provis	95.34
COG1484	254	DnaC DNA replication protein [DNA replication, rec	95.33
PRK06547	172	hypothetical protein; Provisional	95.33
TIGR01359	183	UMP_CMP_kin_fam UMP-CMP kinase family. This subfam	95.33
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	95.3
TIGR03877	237	thermo_KaiC_1 KaiC domain protein, Ph0284 family.	95.28
PRK11034	758	clpA ATP-dependent Clp protease ATP-binding subuni	95.27
PTZ00301	210	uridine kinase; Provisional	95.27
KOG2228	408	consensus Origin recognition complex, subunit 4 [R	95.27
KOG0743	457	consensus AAA+-type ATPase [Posttranslational modi	95.25
PRK04301	317	radA DNA repair and recombination protein RadA; Va	95.22
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	95.19
PRK08533	230	flagellar accessory protein FlaH; Reviewed	95.18
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	95.15
PF00485	194	PRK: Phosphoribulokinase / Uridine kinase family;	95.15
PF01583	156	APS_kinase: Adenylylsulphate kinase; InterPro: IPR	95.14
KOG0728	404	consensus 26S proteasome regulatory complex, ATPas	95.12
PRK00771	437	signal recognition particle protein Srp54; Provisi	95.11
COG1102	179	Cmk Cytidylate kinase [Nucleotide transport and me	95.1
COG0468	279	RecA RecA/RadA recombinase [DNA replication, recom	95.1
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	95.05
KOG3864	221	consensus Uncharacterized conserved protein [Funct	95.05
PTZ00035	337	Rad51 protein; Provisional	95.05
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	95.03
PRK13949	169	shikimate kinase; Provisional	95.03
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	95.0
TIGR02236	310	recomb_radA DNA repair and recombination protein R	94.96
KOG0736	953	consensus Peroxisome assembly factor 2 containing	94.96
cd01121	372	Sms Sms (bacterial radA) DNA repair protein. This	94.95
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	94.95
TIGR03499	282	FlhF flagellar biosynthetic protein FlhF.	94.95
TIGR02239	316	recomb_RAD51 DNA repair protein RAD51. This eukary	94.93
PRK04328	249	hypothetical protein; Provisional	94.92
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	94.91
PRK06067	234	flagellar accessory protein FlaH; Validated	94.91
PLN03186	342	DNA repair protein RAD51 homolog; Provisional	94.91
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	94.88
COG2607	287	Predicted ATPase (AAA+ superfamily) [General funct	94.87
PRK04296	190	thymidine kinase; Provisional	94.87
cd01124	187	KaiC KaiC is a circadian clock protein primarily f	94.86
cd03115	173	SRP The signal recognition particle (SRP) mediates	94.86
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	94.85
PRK13531	498	regulatory ATPase RavA; Provisional	94.84
KOG0733	802	consensus Nuclear AAA ATPase (VCP subfamily) [Post	94.84
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	94.84
COG0488	530	Uup ATPase components of ABC transporters with dup	94.81
KOG0729	435	consensus 26S proteasome regulatory complex, ATPas	94.81
COG0572	218	Udk Uridine kinase [Nucleotide transport and metab	94.77
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	94.77
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.75
TIGR00235	207	udk uridine kinase. Model contains a number of lon	94.72
PRK05480	209	uridine/cytidine kinase; Provisional	94.7
cd02027	149	APSK Adenosine 5'-phosphosulfate kinase (APSK) cat	94.69
PRK08233	182	hypothetical protein; Provisional	94.69
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	94.68
cd03216	163	ABC_Carb_Monos_I This family represents the domain	94.65
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	94.65
TIGR03574	249	selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal. Mem	94.63
PF13306	129	LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_	94.62
KOG0652	424	consensus 26S proteasome regulatory complex, ATPas	94.62
KOG1514	767	consensus Origin recognition complex, subunit 1, a	94.6
TIGR00064	272	ftsY signal recognition particle-docking protein F	94.58
PRK06762	166	hypothetical protein; Provisional	94.57
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	94.57
PRK14974	336	cell division protein FtsY; Provisional	94.56
KOG0924	1042	consensus mRNA splicing factor ATP-dependent RNA h	94.51
PRK09270	229	nucleoside triphosphate hydrolase domain-containin	94.48
PRK08699	325	DNA polymerase III subunit delta'; Validated	94.46
TIGR03878	259	thermo_KaiC_2 KaiC domain protein, AF_0795 family.	94.44
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	94.41
TIGR00554	290	panK_bact pantothenate kinase, bacterial type. Sho	94.37
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	94.36
PRK15455	644	PrkA family serine protein kinase; Provisional	94.33
PRK03839	180	putative kinase; Provisional	94.32
COG1428	216	Deoxynucleoside kinases [Nucleotide transport and	94.32
PF00006	215	ATP-synt_ab: ATP synthase alpha/beta family, nucle	94.3
cd00561	159	CobA_CobO_BtuR ATP:corrinoid adenosyltransferase B	94.29
PRK09519	790	recA DNA recombination protein RecA; Reviewed	94.29
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	94.28
PF08433	270	KTI12: Chromatin associated protein KTI12 ; InterP	94.26
PRK00625	173	shikimate kinase; Provisional	94.23
PRK06002	450	fliI flagellum-specific ATP synthase; Validated	94.21
PF14532	138	Sigma54_activ_2: Sigma-54 interaction domain; PDB:	94.19
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	94.18
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	94.18
COG1066	456	Sms Predicted ATP-dependent serine protease [Postt	94.14
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	94.14
PRK04040	188	adenylate kinase; Provisional	94.12
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	94.1
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	94.09
PTZ00088	229	adenylate kinase 1; Provisional	94.08
COG0542	786	clpA ATP-binding subunits of Clp protease and DnaK	94.05
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	94.02
PF12775	272	AAA_7: P-loop containing dynein motor region D3; P	93.96
PRK05439	311	pantothenate kinase; Provisional	93.96
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	93.93
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	93.92
cd00544	169	CobU Adenosylcobinamide kinase / adenosylcobinamid	93.92
COG4608	268	AppF ABC-type oligopeptide transport system, ATPas	93.91
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	93.9
PRK12597	461	F0F1 ATP synthase subunit beta; Provisional	93.88
cd02024	187	NRK1 Nicotinamide riboside kinase (NRK) is an enzy	93.87
PF13481	193	AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C.	93.83
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	93.81
PTZ00494	664	tuzin-like protein; Provisional	93.8
cd02028	179	UMPK_like Uridine monophosphate kinase_like (UMPK_	93.79
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	93.75
PF07726	131	AAA_3: ATPase family associated with various cellu	93.71
PRK06851	367	hypothetical protein; Provisional	93.7
PF00625	183	Guanylate_kin: Guanylate kinase; InterPro: IPR0081	93.68
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	93.66
PF06745	226	KaiC: KaiC; InterPro: IPR014774 This entry represe	93.66
PRK06217	183	hypothetical protein; Validated	93.64
PRK05022	509	anaerobic nitric oxide reductase transcription reg	93.62
cd01135	276	V_A-ATPase_B V/A-type ATP synthase (non-catalytic)	93.55
PF00910	107	RNA_helicase: RNA helicase; InterPro: IPR000605 He	93.55
PF00560	22	LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Le	93.55
TIGR02655	484	circ_KaiC circadian clock protein KaiC. Members of	93.51
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	93.51
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	93.5
PRK11823	446	DNA repair protein RadA; Provisional	93.48
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	93.45
TIGR01069	771	mutS2 MutS2 family protein. Function of MutS2 is u	93.44
cd00227	175	CPT Chloramphenicol (Cm) phosphotransferase (CPT).	93.44
PRK13765	637	ATP-dependent protease Lon; Provisional	93.42
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	93.4
cd01125	239	repA Hexameric Replicative Helicase RepA. RepA is	93.39
TIGR03305	449	alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit	93.35
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	93.35
cd01122	271	GP4d_helicase GP4d_helicase is a homohexameric 5'-	93.35
PRK10416	318	signal recognition particle-docking protein FtsY;	93.34
PF07724	171	AAA_2: AAA domain (Cdc48 subfamily); InterPro: IPR	93.33
PRK10867	433	signal recognition particle protein; Provisional	93.33
PLN02318	656	phosphoribulokinase/uridine kinase	93.32
PRK00131	175	aroK shikimate kinase; Reviewed	93.32
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	93.31
PRK08149	428	ATP synthase SpaL; Validated	93.3
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	93.29
cd02021	150	GntK Gluconate kinase (GntK) catalyzes the phospho	93.26
PRK14529	223	adenylate kinase; Provisional	93.25
cd02020	147	CMPK Cytidine monophosphate kinase (CMPK) catalyze	93.2
PRK08927	442	fliI flagellum-specific ATP synthase; Validated	93.2
PRK08972	444	fliI flagellum-specific ATP synthase; Validated	93.16
TIGR00176	155	mobB molybdopterin-guanine dinucleotide biosynthes	93.16
COG0467	260	RAD55 RecA-superfamily ATPases implicated in signa	93.15
cd01136	326	ATPase_flagellum-secretory_path_III Flagellum-spec	93.15
TIGR00416	454	sms DNA repair protein RadA. The gene protuct code	93.14
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	93.14
TIGR01040	466	V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit. Th	93.12
PRK13947	171	shikimate kinase; Provisional	93.12
TIGR03881	229	KaiC_arch_4 KaiC domain protein, PAE1156 family. M	93.07
PRK00889	175	adenylylsulfate kinase; Provisional	93.07
PRK05922	434	type III secretion system ATPase; Validated	93.05
PTZ00185	574	ATPase alpha subunit; Provisional	93.03
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	93.02
COG0465	596	HflB ATP-dependent Zn proteases [Posttranslational	93.02
TIGR03498	418	FliI_clade3 flagellar protein export ATPase FliI.	93.02
PF12061	402	DUF3542: Protein of unknown function (DUF3542); In	92.98
TIGR00390	441	hslU ATP-dependent protease HslVU, ATPase subunit.	92.98
COG1936	180	Predicted nucleotide kinase (related to CMP and AM	92.98
cd03287	222	ABC_MSH3_euk MutS3 homolog in eukaryotes. The MutS	92.98
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	92.97
PRK13768	253	GTPase; Provisional	92.96
PF02562	205	PhoH: PhoH-like protein; InterPro: IPR003714 PhoH	92.96
PRK12678	672	transcription termination factor Rho; Provisional	92.95
COG5238	388	RNA1 Ran GTPase-activating protein (RanGAP) involv	92.89
PRK14738	206	gmk guanylate kinase; Provisional	92.87
PRK06761	282	hypothetical protein; Provisional	92.86
COG3854	308	SpoIIIAA ncharacterized protein conserved in bacte	92.82
COG2019	189	AdkA Archaeal adenylate kinase [Nucleotide transpo	92.81
PRK09435	332	membrane ATPase/protein kinase; Provisional	92.8
PRK15429	686	formate hydrogenlyase transcriptional activator Fh	92.78
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	92.74
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	92.71
cd01132	274	F1_ATPase_alpha F1 ATP synthase alpha, central dom	92.71
PRK07196	434	fliI flagellum-specific ATP synthase; Validated	92.7
COG4240	300	Predicted kinase [General function prediction only	92.69
PRK05342	412	clpX ATP-dependent protease ATP-binding subunit Cl	92.68
PRK03846	198	adenylylsulfate kinase; Provisional	92.66
PRK00300	205	gmk guanylate kinase; Provisional	92.65
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	92.65
KOG3864	221	consensus Uncharacterized conserved protein [Funct	92.65
PLN02348	395	phosphoribulokinase	92.64
TIGR00959	428	ffh signal recognition particle protein. This mode	92.62
PRK11608	326	pspF phage shock protein operon transcriptional ac	92.61
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	92.6
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	92.58
PRK00279	215	adk adenylate kinase; Reviewed	92.58
PF13504	17	LRR_7: Leucine rich repeat; PDB: 3OJA_B 3G06_A 1OO	92.55
PRK14530	215	adenylate kinase; Provisional	92.51
PRK13948	182	shikimate kinase; Provisional	92.49
cd00464	154	SK Shikimate kinase (SK) is the fifth enzyme in th	92.48
cd03282	204	ABC_MSH4_euk MutS4 homolog in eukaryotes. The MutS	92.47
PRK05057	172	aroK shikimate kinase I; Reviewed	92.4
COG0703	172	AroK Shikimate kinase [Amino acid transport and me	92.38
smart00534	185	MUTSac ATPase domain of DNA mismatch repair MUTS f	92.37
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	92.34
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	92.33
cd01672	200	TMPK Thymidine monophosphate kinase (TMPK), also k	92.33
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	92.28
PRK13975	196	thymidylate kinase; Provisional	92.28
PRK12339	197	2-phosphoglycerate kinase; Provisional	92.26
PRK09280	463	F0F1 ATP synthase subunit beta; Validated	92.24
TIGR01039	461	atpD ATP synthase, F1 beta subunit. The sequences	92.24
TIGR00455	184	apsK adenylylsulfate kinase (apsK). Important resi	92.24
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	92.23
KOG3354	191	consensus Gluconate kinase [Carbohydrate transport	92.21
TIGR01313	163	therm_gnt_kin carbohydrate kinase, thermoresistant	92.18
COG0003	322	ArsA Predicted ATPase involved in chromosome parti	92.18
cd00984	242	DnaB_C DnaB helicase C terminal domain. The hexame	92.15
PRK13946	184	shikimate kinase; Provisional	92.11
PRK13695	174	putative NTPase; Provisional	92.11
PRK09099	441	type III secretion system ATPase; Provisional	92.07
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	92.05
PRK05201	443	hslU ATP-dependent protease ATP-binding subunit Hs	92.01
PF00005	137	ABC_tran: ABC transporter This structure is on hol	92.0
PRK00698	205	tmk thymidylate kinase; Validated	91.99
TIGR03496	411	FliI_clade1 flagellar protein export ATPase FliI.	91.98
PRK06936	439	type III secretion system ATPase; Provisional	91.97
PRK14737	186	gmk guanylate kinase; Provisional	91.96
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	91.95
PF10236	309	DAP3: Mitochondrial ribosomal death-associated pro	91.9
TIGR00764	608	lon_rel lon-related putative ATP-dependent proteas	91.9
PRK05688	451	fliI flagellum-specific ATP synthase; Validated	91.88
KOG0738	491	consensus AAA+-type ATPase [Posttranslational modi	91.87
PLN03046	460	D-glycerate 3-kinase; Provisional	91.81
PF00158	168	Sigma54_activat: Sigma-54 interaction domain; Inte	91.81
TIGR01287	275	nifH nitrogenase iron protein. This model describe	91.8
PLN02796	347	D-glycerate 3-kinase	91.77
TIGR03880	224	KaiC_arch_3 KaiC domain protein, AF_0351 family. T	91.76

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=100.00  E-value=2.8e-89  Score=821.22  Aligned_cols=628  Identities=26%  Similarity=0.396  Sum_probs=492.7

Q ss_pred             HHHhhhhhhhhHHHhhchhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcchHHHHHHHHHHHHHHHHHHHHHHH
Q 001457           18 LSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEE   97 (1074)
Q Consensus        18 ~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~i~~~l~~a~~~~~~~~~~~~~Wl~~~~~~~~d~ed~~d   97 (1074)
                      ++..++++++.+.+++..+.+.++.+..+++++..       ++.+++||+.++. ....++.|...+++++|++||.++
T Consensus         5 ~s~~~~~~~~~l~~~~~~~~~~~~~i~~Lk~~L~~-------l~~~l~d~~a~~~-~~~~~~~~~e~~~~~~~~~e~~~~   76 (889)
T KOG4658|consen    5 VSFGVEKLDQLLNRESECLDGKDNYILELKENLKA-------LQSALEDLDAKRD-DLERRVNWEEDVGDLVYLAEDIIW   76 (889)
T ss_pred             EEEehhhHHHHHHHHHHHHhchHHHHHHHHHHHHH-------HHHHHHHHHhhcc-hHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34445666777777888887776655555555544       5556788888875 578889999999999999999877


Q ss_pred             Hhhccc------------------Ccccccc-CChhhhhhhcHHHHHHHHHHHHHhhcCCCCcccc-CCCCCCcccCCCC
Q 001457           98 KIQKSE------------------GRCHTWH-LDWRKRHQLSRVATKKTVEIIEHIRLSNFESISF-PARSADVRSIPTP  157 (1074)
Q Consensus        98 ~~~~~~------------------~~~~~~~-~~~~~~~~~~~~i~~~~~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~  157 (1074)
                      .+....                  -|+.+.+ ......+.+++++-++...++.+..+..|..+.. ..+.......|..
T Consensus        77 ~~~v~~~~~~~~~~l~~~~~~~~~~c~~~~~~~~~~~~~~~~~rv~~~l~~ve~l~~~~~~~~~~~~~~~~~~~e~~~~~  156 (889)
T KOG4658|consen   77 LFLVEEIERKANDLLSTRSVERQRLCLCGFCSKNVSDSYKYGKRVSKVLREVESLGSKGVFEVVGESLDPREKVETRPIQ  156 (889)
T ss_pred             HHHHHHHHHHHhHHhhhhHHHHHHHhhhhhHhHhhhhhHhHHHHHHHHHHHHHHhccccceecccccccchhhcccCCCC
Confidence            653210                  1221211 1233445566677777666666654555555443 2211222233333


Q ss_pred             CcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh----cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          158 EFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ----EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       158 ~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~----~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      .... +|.++.++++.+.|.+++  ..+++|+||||+||||||++++|+    +.+||.++||+||+.++...++.+|++
T Consensus       157 ~~~~-VG~e~~~~kl~~~L~~d~--~~iv~i~GMGGvGKTTL~~qi~N~~~~v~~~Fd~~iWV~VSk~f~~~~iq~~Il~  233 (889)
T KOG4658|consen  157 SESD-VGLETMLEKLWNRLMEDD--VGIVGIYGMGGVGKTTLARQIFNKFDEVGNHFDGVIWVVVSKEFTTRKIQQTILE  233 (889)
T ss_pred             cccc-ccHHHHHHHHHHHhccCC--CCEEEEECCCcccHHHHHHHHhcccchhcccCceEEEEEEcccccHHhHHHHHHH
Confidence            3322 788999999999999888  599999999999999999999999    789999999999999999999999999


Q ss_pred             HhccCCCcch---HHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHhh-ccCCCeE
Q 001457          234 FLNTELEGDV---EVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDE-MESTNYV  309 (1074)
Q Consensus       234 ~l~~~~~~~~---~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~-~~~~~~~  309 (1074)
                      .++.......   ....+..+.+.|+ +|||+|||||||+..+|+.++.|+|...+||||++|||+++||.. |++...+
T Consensus       234 ~l~~~~~~~~~~~~~~~~~~i~~~L~-~krfllvLDDIW~~~dw~~I~~~~p~~~~g~KvvlTTRs~~V~~~~m~~~~~~  312 (889)
T KOG4658|consen  234 RLGLLDEEWEDKEEDELASKLLNLLE-GKRFLLVLDDIWEEVDWDKIGVPFPSRENGSKVVLTTRSEEVCGRAMGVDYPI  312 (889)
T ss_pred             HhccCCcccchhhHHHHHHHHHHHhc-cCceEEEEecccccccHHhcCCCCCCccCCeEEEEEeccHhhhhccccCCccc
Confidence            9887444333   3567778888886 899999999999999999999999999899999999999999988 8888999


Q ss_pred             eCCCCCHHHHHHHHHHhcCCC--CCCchhHHHHHHHHHHhCCChHHHHHHHHHHcCC-ChhHHHHHHHHHhhCCCCCCCC
Q 001457          310 QVEELTDEDRLILFKKKAGLP--EGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIKRKKASTPINVEG  386 (1074)
Q Consensus       310 ~l~~L~~~~~~~lf~~~a~~~--~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~-~~~~w~~~~~~l~~~~~~~~~~  386 (1074)
                      ++++|+++|||.||+++|+..  ..++.++++|++++++|+|+|||++++|+.|+.| +.++|+++++.+.+....+.++
T Consensus       313 ~v~~L~~~eaW~LF~~~v~~~~~~~~~~i~~lak~v~~kC~GLPLAl~viG~~ma~K~t~~eW~~~~~~l~s~~~~~~~~  392 (889)
T KOG4658|consen  313 EVECLTPEEAWDLFQKKVGPNTLGSHPDIEELAKEVAEKCGGLPLALNVLGGLLACKKTVQEWRRALNVLKSSLAADFSG  392 (889)
T ss_pred             cccccCccccHHHHHHhhccccccccccHHHHHHHHHHHhCChHHHHHHHHHHhcCCCcHHHHHHHHccccccccCCCCc
Confidence            999999999999999999833  4456699999999999999999999999999998 6789999999998886666667


Q ss_pred             chHHHHHHHHHhhcCChhhHHHHHHhhcCCCCCCccchHHHHHHHhhhcccccccchhhhhhcHHHHHHHHHhccccccC
Q 001457          387 IPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEG  466 (1074)
Q Consensus       387 ~~~~~~~~l~~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~~~~~~~l~~L~~~~ll~~~  466 (1074)
                      +.+.+++++++||++||+++|.||+|||+||+||.|+++.||.+||||||+.+....+.+.+.|+.|+.+|++++|++..
T Consensus       393 ~~~~i~~iLklSyd~L~~~lK~CFLycalFPED~~I~~e~Li~yWiaEGfi~~~~~~~~~~d~G~~~i~~LV~~~Ll~~~  472 (889)
T KOG4658|consen  393 MEESILPILKLSYDNLPEELKSCFLYCALFPEDYEIKKEKLIEYWIAEGFIDPLDGGETAEDVGYDYIEELVRASLLIEE  472 (889)
T ss_pred             hhhhhHHhhhccHhhhhHHHHHHHHhhccCCcccccchHHHHHHHHhccCcCccccccchhcchHHHHHHHHHHHHHhhc
Confidence            77999999999999999999999999999999999999999999999999988666677788888999999999999876


Q ss_pred             C---CCcceeechhHHHHHHHHHh-----hcCCeeeecCC-cCCCCCc-cccCCCcEEeeccCCcccCCCCCCCCCccEE
Q 001457          467 D---RESCFRIHDDTRKVVKYIAA-----REGDHFIAEPG-MKKGWPR-EDLQNCEKLSLMDGNVTALPDQPKCPRLTTL  536 (1074)
Q Consensus       467 ~---~~~~~~mhdlv~~~~~~~~~-----~~~~~~~~~~~-~~~~~~~-~~~~~~~~L~l~~~~~~~l~~~~~~~~Lr~L  536 (1074)
                      .   ...+|+|||+|||+|.++|+     +++  .++..+ .....|. .++..+|++++.++.+..++....+++|++|
T Consensus       473 ~~~~~~~~~kmHDvvRe~al~ias~~~~~~e~--~iv~~~~~~~~~~~~~~~~~~rr~s~~~~~~~~~~~~~~~~~L~tL  550 (889)
T KOG4658|consen  473 RDEGRKETVKMHDVVREMALWIASDFGKQEEN--QIVSDGVGLSEIPQVKSWNSVRRMSLMNNKIEHIAGSSENPKLRTL  550 (889)
T ss_pred             ccccceeEEEeeHHHHHHHHHHhccccccccc--eEEECCcCccccccccchhheeEEEEeccchhhccCCCCCCccceE
Confidence            5   34689999999999999998     555  333332 2222332 3367889999999999999988889999999


Q ss_pred             EccCCC--CCCCChhHHhcCCCccEEEecCC-ccCCCCCCccCCccCCeeeccCCCCCCCccccCCCCccEEEeeCCCCc
Q 001457          537 FLQNNP--FADIPNAFFEHTREIKNLDLSST-NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIV  613 (1074)
Q Consensus       537 ~l~~~~--~~~~~~~~~~~l~~L~~L~l~~~-~~~~lp~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~  613 (1074)
                      .+.+|.  +..++..+|..++.|++|||++| .+.++|.+|+.|.|||||+++++                      .+.
T Consensus       551 ll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL~L~~t----------------------~I~  608 (889)
T KOG4658|consen  551 LLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYLDLSDT----------------------GIS  608 (889)
T ss_pred             EEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcccccCC----------------------Ccc
Confidence            999996  77888888999999999999975 34567777666666666666555                      566


Q ss_pred             ccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCccccccCcCCCEEEEe
Q 001457          614 ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIH  690 (1074)
Q Consensus       614 ~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  690 (1074)
                      .+|.++++|++|.+|++..+.....+| ++...|++|++|.+....        .........++.++.+|+.+.+.
T Consensus       609 ~LP~~l~~Lk~L~~Lnl~~~~~l~~~~-~i~~~L~~Lr~L~l~~s~--------~~~~~~~l~el~~Le~L~~ls~~  676 (889)
T KOG4658|consen  609 HLPSGLGNLKKLIYLNLEVTGRLESIP-GILLELQSLRVLRLPRSA--------LSNDKLLLKELENLEHLENLSIT  676 (889)
T ss_pred             ccchHHHHHHhhheecccccccccccc-chhhhcccccEEEeeccc--------cccchhhHHhhhcccchhhheee
Confidence            777778888888888877776555553 445668888888775532        11223334455566666666554

>PLN03210 Resistant to P

Probab=100.00  E-value=2.7e-65  Score=651.92  Aligned_cols=691  Identities=20%  Similarity=0.273  Sum_probs=411.1

Q ss_pred             cccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEe---cCC-----------cC
Q 001457          159 FVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRV---TQT-----------PD  223 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~v---s~~-----------~~  223 (1074)
                      +.+++|+++.++++..++..+...+++|+||||||+||||||+.+|+. ..+|+..+|+.-   +..           ++
T Consensus       183 ~~~~vG~~~~l~~l~~lL~l~~~~~~vvgI~G~gGiGKTTLA~~l~~~l~~~F~g~vfv~~~~v~~~~~~~~~~~~~~~~  262 (1153)
T PLN03210        183 FEDFVGIEDHIAKMSSLLHLESEEVRMVGIWGSSGIGKTTIARALFSRLSRQFQSSVFIDRAFISKSMEIYSSANPDDYN  262 (1153)
T ss_pred             cccccchHHHHHHHHHHHccccCceEEEEEEcCCCCchHHHHHHHHHHHhhcCCeEEEeeccccccchhhcccccccccc
Confidence            344566777788877777655556999999999999999999999999 889999888742   111           01


Q ss_pred             -HHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHhh
Q 001457          224 -VKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDE  302 (1074)
Q Consensus       224 -~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~  302 (1074)
                       ...++++++.++........  .....+++.+. +||+||||||||+..+|+.+.....+.++||+||||||+++++..
T Consensus       263 ~~~~l~~~~l~~il~~~~~~~--~~~~~~~~~L~-~krvLLVLDdv~~~~~l~~L~~~~~~~~~GsrIIiTTrd~~vl~~  339 (1153)
T PLN03210        263 MKLHLQRAFLSEILDKKDIKI--YHLGAMEERLK-HRKVLIFIDDLDDQDVLDALAGQTQWFGSGSRIIVITKDKHFLRA  339 (1153)
T ss_pred             hhHHHHHHHHHHHhCCCCccc--CCHHHHHHHHh-CCeEEEEEeCCCCHHHHHHHHhhCccCCCCcEEEEEeCcHHHHHh
Confidence             12344444444322211110  11234666775 799999999999999999887766666789999999999999988


Q ss_pred             ccCCCeEeCCCCCHHHHHHHHHHhcCCCC-CCchhHHHHHHHHHHhCCChHHHHHHHHHHcCCChhHHHHHHHHHhhCCC
Q 001457          303 MESTNYVQVEELTDEDRLILFKKKAGLPE-GTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTP  381 (1074)
Q Consensus       303 ~~~~~~~~l~~L~~~~~~~lf~~~a~~~~-~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~~~~l~~~~~  381 (1074)
                      ++..++|+++.+++++||+||+++||... .++.+.+++++|+++|+|+|||++++|++|++++..+|+.++++++... 
T Consensus       340 ~~~~~~~~v~~l~~~ea~~LF~~~Af~~~~~~~~~~~l~~~iv~~c~GLPLAl~vlgs~L~~k~~~~W~~~l~~L~~~~-  418 (1153)
T PLN03210        340 HGIDHIYEVCLPSNELALEMFCRSAFKKNSPPDGFMELASEVALRAGNLPLGLNVLGSYLRGRDKEDWMDMLPRLRNGL-  418 (1153)
T ss_pred             cCCCeEEEecCCCHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHhCCCcHHHHHHHHHHcCCCHHHHHHHHHHHHhCc-
Confidence            88888999999999999999999999433 4456889999999999999999999999999999999999999987632 


Q ss_pred             CCCCCchHHHHHHHHHhhcCChh-hHHHHHHhhcCCCCCCccchHHHHHHHhhhcccccccchhhhhhcHHHHHHHHHhc
Q 001457          382 INVEGIPEEVVLCVALGYDQLET-VAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISS  460 (1074)
Q Consensus       382 ~~~~~~~~~~~~~l~~sy~~L~~-~~k~cf~~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~~~~~~~l~~L~~~  460 (1074)
                            +.+|.++|++||++|++ ..|.||+++|.|+.+..++   .+..|+|.+....           +..++.|+++
T Consensus       419 ------~~~I~~~L~~SYd~L~~~~~k~~Fl~ia~ff~~~~~~---~v~~~l~~~~~~~-----------~~~l~~L~~k  478 (1153)
T PLN03210        419 ------DGKIEKTLRVSYDGLNNKKDKAIFRHIACLFNGEKVN---DIKLLLANSDLDV-----------NIGLKNLVDK  478 (1153)
T ss_pred             ------cHHHHHHHHHhhhccCccchhhhhheehhhcCCCCHH---HHHHHHHhcCCCc-----------hhChHHHHhc
Confidence                  36899999999999987 5999999999999876553   4677887764421           1248899999


Q ss_pred             cccccCCCCcceeechhHHHHHHHHHhhcCC-----eeeecCCcCCCC--CccccCCCcEEeeccCCcccCCCCCCCCCc
Q 001457          461 SLLLEGDRESCFRIHDDTRKVVKYIAAREGD-----HFIAEPGMKKGW--PREDLQNCEKLSLMDGNVTALPDQPKCPRL  533 (1074)
Q Consensus       461 ~ll~~~~~~~~~~mhdlv~~~~~~~~~~~~~-----~~~~~~~~~~~~--~~~~~~~~~~L~l~~~~~~~l~~~~~~~~L  533 (1074)
                      ||++..  .++++|||++|++|++++.++..     .+.+........  ......+++.+++....+..          
T Consensus       479 sLi~~~--~~~~~MHdLl~~~~r~i~~~~~~~~~~r~~l~~~~di~~vl~~~~g~~~v~~i~l~~~~~~~----------  546 (1153)
T PLN03210        479 SLIHVR--EDIVEMHSLLQEMGKEIVRAQSNEPGEREFLVDAKDICDVLEDNTGTKKVLGITLDIDEIDE----------  546 (1153)
T ss_pred             CCEEEc--CCeEEhhhHHHHHHHHHHHhhcCCCCcceeEeCHHHHHHHHHhCcccceeeEEEeccCccce----------
Confidence            999764  35799999999999999976531     011111000000  00001233333332222211          


Q ss_pred             cEEEccCCCCCCCChhHHhcCCCccEEEecCCccC-------CCCCCccCCc-cCCeeeccCCCCCC-CccccCCCCccE
Q 001457          534 TTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS-------SLAPSLPCLE-KLRSLHLENTHLND-ASLIREFGELEV  604 (1074)
Q Consensus       534 r~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-------~lp~~i~~l~-~Lr~L~L~~~~l~~-~~~i~~l~~L~~  604 (1074)
                                ..+....|.++++|+.|.+..+...       .+|..+..++ +||+|++.++.++. |..+ ...+|+.
T Consensus       547 ----------~~i~~~aF~~m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f-~~~~L~~  615 (1153)
T PLN03210        547 ----------LHIHENAFKGMRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNF-RPENLVK  615 (1153)
T ss_pred             ----------eeecHHHHhcCccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcC-CccCCcE
Confidence                      1223344555555555555433211       2344444433 35555555555555 3333 3455556


Q ss_pred             EEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCccccccCcCC
Q 001457          605 LILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRL  684 (1074)
Q Consensus       605 L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L  684 (1074)
                      |+++++.+..+|.++..+++|+.|++++|..+..+|.  ++.+++|++|++++|....          .....++++++|
T Consensus       616 L~L~~s~l~~L~~~~~~l~~Lk~L~Ls~~~~l~~ip~--ls~l~~Le~L~L~~c~~L~----------~lp~si~~L~~L  683 (1153)
T PLN03210        616 LQMQGSKLEKLWDGVHSLTGLRNIDLRGSKNLKEIPD--LSMATNLETLKLSDCSSLV----------ELPSSIQYLNKL  683 (1153)
T ss_pred             EECcCccccccccccccCCCCCEEECCCCCCcCcCCc--cccCCcccEEEecCCCCcc----------ccchhhhccCCC
Confidence            6665555555555555555666666655544445443  4555556666555542211          112234455555


Q ss_pred             CEEEEeecC-ccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhhhHHHHHHHHhccceeeeccCCCccccc
Q 001457          685 TVLYIHVSN-TKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIG  763 (1074)
Q Consensus       685 ~~L~l~~~~-~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~~L~~L~L~~~~~l~~~~  763 (1074)
                      +.|++++|. ...++...  .+                                        ++|+.|++++|..+..+|
T Consensus       684 ~~L~L~~c~~L~~Lp~~i--~l----------------------------------------~sL~~L~Lsgc~~L~~~p  721 (1153)
T PLN03210        684 EDLDMSRCENLEILPTGI--NL----------------------------------------KSLYRLNLSGCSRLKSFP  721 (1153)
T ss_pred             CEEeCCCCCCcCccCCcC--CC----------------------------------------CCCCEEeCCCCCCccccc
Confidence            555555432 11111111  12                                        333333444443333332


Q ss_pred             ccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccceeeccccccc-ccccCCCcceeecCCccCccee
Q 001457          764 EIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEG-EQAGLKRLRELVLVGLPKVLTI  842 (1074)
Q Consensus       764 ~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~-~~~~~~~L~~L~L~~~~~L~~~  842 (1074)
                      ..    ..+|+.|+|+++.+.. +|...  .+++|.+|.+.++....-+.....+.. ....+++|+.|+|++|+.+..+
T Consensus       722 ~~----~~nL~~L~L~~n~i~~-lP~~~--~l~~L~~L~l~~~~~~~l~~~~~~l~~~~~~~~~sL~~L~Ls~n~~l~~l  794 (1153)
T PLN03210        722 DI----STNISWLDLDETAIEE-FPSNL--RLENLDELILCEMKSEKLWERVQPLTPLMTMLSPSLTRLFLSDIPSLVEL  794 (1153)
T ss_pred             cc----cCCcCeeecCCCcccc-ccccc--cccccccccccccchhhccccccccchhhhhccccchheeCCCCCCcccc
Confidence            21    2344555555443322 12111  244444444444321111000000000 0011456666666666655554


Q ss_pred             eccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccccceeeccchhhHhhhhhhccccccCC-CCcc
Q 001457          843 WKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAP-QPMF  921 (1074)
Q Consensus       843 ~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~l~~l~l~~~~-~~~~  921 (1074)
                      +   ..++++++|+.|++++|+++..++..   .++++|+.|++++|..+..++..... ...-.+....+..+| .+..
T Consensus       795 P---~si~~L~~L~~L~Ls~C~~L~~LP~~---~~L~sL~~L~Ls~c~~L~~~p~~~~n-L~~L~Ls~n~i~~iP~si~~  867 (1153)
T PLN03210        795 P---SSIQNLHKLEHLEIENCINLETLPTG---INLESLESLDLSGCSRLRTFPDISTN-ISDLNLSRTGIEEVPWWIEK  867 (1153)
T ss_pred             C---hhhhCCCCCCEEECCCCCCcCeeCCC---CCccccCEEECCCCCccccccccccc-cCEeECCCCCCccChHHHhc
Confidence            4   23455666666666666666655322   14566666666666655544321100 000000111122222 2455


Q ss_pred             cCCceEEEecccccccccccccccccccCccEEEEeeccCcceee
Q 001457          922 FPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERII  966 (1074)
Q Consensus       922 ~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~  966 (1074)
                      +++|+.|+|.+|++++.++..  ...+++|+.|++++|++++.+.
T Consensus       868 l~~L~~L~L~~C~~L~~l~~~--~~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        868 FSNLSFLDMNGCNNLQRVSLN--ISKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             CCCCCEEECCCCCCcCccCcc--cccccCCCeeecCCCccccccc
Confidence            677777777777777776443  5667777777777777776543

syringae 6; Provisional

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

Probab=100.00  E-value=2.1e-43  Score=387.70  Aligned_cols=274  Identities=30%  Similarity=0.506  Sum_probs=224.6

Q ss_pred             hHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC-
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE-  240 (1074)
Q Consensus       165 r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-  240 (1074)
                      |+.++++|.+.|.+...+.++|+|+||||+||||||++++++   +.+|+.++|+++++..+...++.+|+.+++.... 
T Consensus         1 re~~~~~l~~~L~~~~~~~~~v~I~G~~G~GKT~LA~~~~~~~~~~~~f~~v~wv~~~~~~~~~~~~~~i~~~l~~~~~~   80 (287)
T PF00931_consen    1 REKEIEKLKDWLLDNSNEVRVVAIVGMGGIGKTTLARQVARDLRIKNRFDGVIWVSLSKNPSLEQLLEQILRQLGEPDSS   80 (287)
T ss_dssp             -HHHHHHHHHHHHTTTTSSEEEEEEESTTSSHHHHHHHHHCHHHHCCCCTEEEEEEEES-SCCHHHHHHHHHHHTCC-ST
T ss_pred             CHHHHHHHHHHhhCCCCCeEEEEEEcCCcCCcceeeeecccccccccccccccccccccccccccccccccccccccccc
Confidence            678999999999885556999999999999999999999988   8999999999999999999999999999987732 


Q ss_pred             ---cchHHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHhhccC-CCeEeCCCCCH
Q 001457          241 ---GDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMES-TNYVQVEELTD  316 (1074)
Q Consensus       241 ---~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~~-~~~~~l~~L~~  316 (1074)
                         ..........+.+.+. ++++||||||||+...|+.+...++....||+||||||+..++..++. ..+|++++|++
T Consensus        81 ~~~~~~~~~~~~~l~~~L~-~~~~LlVlDdv~~~~~~~~l~~~~~~~~~~~kilvTTR~~~v~~~~~~~~~~~~l~~L~~  159 (287)
T PF00931_consen   81 ISDPKDIEELQDQLRELLK-DKRCLLVLDDVWDEEDLEELREPLPSFSSGSKILVTTRDRSVAGSLGGTDKVIELEPLSE  159 (287)
T ss_dssp             SSCCSSHHHHHHHHHHHHC-CTSEEEEEEEE-SHHHH-------HCHHSS-EEEEEESCGGGGTTHHSCEEEEECSS--H
T ss_pred             cccccccccccccchhhhc-cccceeeeeeeccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence               3344567888888886 689999999999999999998888777789999999999999877665 57899999999


Q ss_pred             HHHHHHHHHhcCCCC--CCchhHHHHHHHHHHhCCChHHHHHHHHHHcCC-ChhHHHHHHHHHhhCCCCCCCCchHHHHH
Q 001457          317 EDRLILFKKKAGLPE--GTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIKRKKASTPINVEGIPEEVVL  393 (1074)
Q Consensus       317 ~~~~~lf~~~a~~~~--~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~-~~~~w~~~~~~l~~~~~~~~~~~~~~~~~  393 (1074)
                      +||++||++.++...  ..+.+++.+++|+++|+|+||||+++|++|+.+ +..+|+.+++.+...... ..+....+..
T Consensus       160 ~ea~~L~~~~~~~~~~~~~~~~~~~~~~i~~~c~glPLal~~~a~~l~~~~~~~~w~~~~~~l~~~~~~-~~~~~~~~~~  238 (287)
T PF00931_consen  160 EEALELFKKRAGRKESESPEDLEDLAKEIVEKCGGLPLALKLIASYLRSKSTVDEWEEALEELENSLRE-SRDYDRSVFS  238 (287)
T ss_dssp             HHHHHHHHHHHTSHS----TTSCTHHHHHHHHTTT-HHHHHHHHHHHHHHHSSSSHHHHHHHHHHCHTC-SSGSCHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccc
Confidence            999999999998433  345667899999999999999999999999655 688999999988776532 2223589999


Q ss_pred             HHHHhhcCChhhHHHHHHhhcCCCCCCccchHHHHHHHhhhcccccc
Q 001457          394 CVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQV  440 (1074)
Q Consensus       394 ~l~~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~wia~g~i~~~  440 (1074)
                      ++.+||+.||+++|.||+|||+||+++.|+++.|+++|+|||||...
T Consensus       239 ~l~~s~~~L~~~~~~~f~~L~~f~~~~~i~~~~li~lW~~e~~i~~~  285 (287)
T PF00931_consen  239 ALELSYDSLPDELRRCFLYLSIFPEGVPIPRERLIRLWVAEGFISSK  285 (287)
T ss_dssp             HHHHHHHSSHTCCHHHHHHGGGSGTTS-EEHHHHHHHHTT-HHTC--
T ss_pred             cceechhcCCccHHHHHhhCcCCCCCceECHHHHHHHHHHCCCCccc
Confidence            99999999999999999999999999999999999999999999753

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

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

Probab=99.97  E-value=2.8e-30  Score=332.12  Aligned_cols=361  Identities=17%  Similarity=0.187  Sum_probs=192.8

Q ss_pred             cCCCcEEeeccCCcc-cCCCC--CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccC-CCCCCccCCccCCee
Q 001457          508 LQNCEKLSLMDGNVT-ALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS-SLAPSLPCLEKLRSL  583 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~-~l~~~--~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~lp~~i~~l~~Lr~L  583 (1074)
                      +++++.|++++|.+. .+|..  ..+++|+.|++++|.+....+.  ..+++|++|++++|.+. .+|..++.+++|++|
T Consensus        92 l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p~--~~l~~L~~L~Ls~n~~~~~~p~~~~~l~~L~~L  169 (968)
T PLN00113         92 LPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIPR--GSIPNLETLDLSNNMLSGEIPNDIGSFSSLKVL  169 (968)
T ss_pred             CCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccCc--cccCCCCEEECcCCcccccCChHHhcCCCCCEE
Confidence            456666666666654 34432  2556666666666665433221  34566666666666665 445566666666666


Q ss_pred             eccCCCCCC--CccccCCCCccEEEeeCCCCc-ccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcC
Q 001457          584 HLENTHLND--ASLIREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFG  660 (1074)
Q Consensus       584 ~L~~~~l~~--~~~i~~l~~L~~L~L~~~~i~-~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~  660 (1074)
                      ++++|.+..  |..++++++|++|++++|.+. .+|..++++++|++|++++|.+...+|.. ++++++|++|++++|..
T Consensus       170 ~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l  248 (968)
T PLN00113        170 DLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRELGQMKSLKWIYLGYNNLSGEIPYE-IGGLTSLNHLDLVYNNL  248 (968)
T ss_pred             ECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChHHcCcCCccEEECcCCccCCcCChh-HhcCCCCCEEECcCcee
Confidence            666666543  556666666666666666654 45666666666666666666655555554 66666666666665521


Q ss_pred             CccccccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccC-------CCccceeEeccc
Q 001457          661 DWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWE-------IAPKRSMHLKNL  733 (1074)
Q Consensus       661 ~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-------~~~l~~l~l~~~  733 (1074)
                      .          ......++++++|+.|+++.|......+..+..+++|+.|++..|.....       .+.++.+.+.++
T Consensus       249 ~----------~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l~~~~p~~~~~l~~L~~L~l~~n  318 (968)
T PLN00113        249 T----------GPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSLSGEIPELVIQLQNLEILHLFSN  318 (968)
T ss_pred             c----------cccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCeeccCCChhHcCCCCCcEEECCCC
Confidence            1          11223455566666666665554333333334455666666655432211       122333333332


Q ss_pred             h--hhhHHHHHHHHhccceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccce
Q 001457          734 S--NSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKE  811 (1074)
Q Consensus       734 ~--~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~  811 (1074)
                      .  ...|.++.. +++|+.|++.++.-...+|. .+..+++|+.|++++|.+....|.. +..+++|+.|+++++.....
T Consensus       319 ~~~~~~~~~~~~-l~~L~~L~L~~n~l~~~~p~-~l~~~~~L~~L~Ls~n~l~~~~p~~-~~~~~~L~~L~l~~n~l~~~  395 (968)
T PLN00113        319 NFTGKIPVALTS-LPRLQVLQLWSNKFSGEIPK-NLGKHNNLTVLDLSTNNLTGEIPEG-LCSSGNLFKLILFSNSLEGE  395 (968)
T ss_pred             ccCCcCChhHhc-CCCCCEEECcCCCCcCcCCh-HHhCCCCCcEEECCCCeeEeeCChh-HhCcCCCCEEECcCCEeccc
Confidence            2  122333322 36666666666544333332 2344666677777666555444432 33456666666665542211


Q ss_pred             eecccccccccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccc
Q 001457          812 VFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDL  891 (1074)
Q Consensus       812 ~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~  891 (1074)
                      .+      .....+++|+.|.+.+|.--..+   +..+..+++|+.|+++++ .+.... +.....+++|+.|++++|..
T Consensus       396 ~p------~~~~~~~~L~~L~L~~n~l~~~~---p~~~~~l~~L~~L~Ls~N-~l~~~~-~~~~~~l~~L~~L~L~~n~~  464 (968)
T PLN00113        396 IP------KSLGACRSLRRVRLQDNSFSGEL---PSEFTKLPLVYFLDISNN-NLQGRI-NSRKWDMPSLQMLSLARNKF  464 (968)
T ss_pred             CC------HHHhCCCCCCEEECcCCEeeeEC---ChhHhcCCCCCEEECcCC-cccCcc-ChhhccCCCCcEEECcCcee
Confidence            11      11123667777777776322222   133456677777777764 344332 22334567777777777665


Q ss_pred             ccee
Q 001457          892 MEEI  895 (1074)
Q Consensus       892 l~~i  895 (1074)
                      ...+
T Consensus       465 ~~~~  468 (968)
T PLN00113        465 FGGL  468 (968)
T ss_pred             eeec
Confidence            4433

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

Probab=99.97  E-value=9.9e-30  Score=327.06  Aligned_cols=496  Identities=19%  Similarity=0.192  Sum_probs=338.1

Q ss_pred             CCCcEEeeccCCcccCCC--CCCCCCccEEEccCCCCC-CCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeec
Q 001457          509 QNCEKLSLMDGNVTALPD--QPKCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHL  585 (1074)
Q Consensus       509 ~~~~~L~l~~~~~~~l~~--~~~~~~Lr~L~l~~~~~~-~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L  585 (1074)
                      .+++.|++.++.+.....  ...+++|++|++++|.+. .+|...|.++++|++|++++|.+....+ .+.+++|++|+|
T Consensus        69 ~~v~~L~L~~~~i~~~~~~~~~~l~~L~~L~Ls~n~~~~~ip~~~~~~l~~L~~L~Ls~n~l~~~~p-~~~l~~L~~L~L  147 (968)
T PLN00113         69 SRVVSIDLSGKNISGKISSAIFRLPYIQTINLSNNQLSGPIPDDIFTTSSSLRYLNLSNNNFTGSIP-RGSIPNLETLDL  147 (968)
T ss_pred             CcEEEEEecCCCccccCChHHhCCCCCCEEECCCCccCCcCChHHhccCCCCCEEECcCCccccccC-ccccCCCCEEEC
Confidence            468889999887754332  367899999999999986 6888888899999999999999874332 256899999999


Q ss_pred             cCCCCCC--CccccCCCCccEEEeeCCCCc-ccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCc
Q 001457          586 ENTHLND--ASLIREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDW  662 (1074)
Q Consensus       586 ~~~~l~~--~~~i~~l~~L~~L~L~~~~i~-~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~  662 (1074)
                      ++|.++.  |..++++++|++|++++|.+. .+|..++++++|++|++++|.+...+|.. ++++++|++|++++|... 
T Consensus       148 s~n~~~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~~~~l~~L~~L~L~~n~l~~~~p~~-l~~l~~L~~L~L~~n~l~-  225 (968)
T PLN00113        148 SNNMLSGEIPNDIGSFSSLKVLDLGGNVLVGKIPNSLTNLTSLEFLTLASNQLVGQIPRE-LGQMKSLKWIYLGYNNLS-  225 (968)
T ss_pred             cCCcccccCChHHhcCCCCCEEECccCcccccCChhhhhCcCCCeeeccCCCCcCcCChH-HcCcCCccEEECcCCccC-
Confidence            9999975  888999999999999999876 78999999999999999999988788876 999999999999887432 


Q ss_pred             cccccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccC-------CCccceeEeccch-
Q 001457          663 EVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWE-------IAPKRSMHLKNLS-  734 (1074)
Q Consensus       663 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~-------~~~l~~l~l~~~~-  734 (1074)
                               ......++++++|+.|+++.|......+..++.+++|+.|++..|.....       ...++.+.+.++. 
T Consensus       226 ---------~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~L~~n~l~~~~p~~l~~l~~L~~L~Ls~n~l  296 (968)
T PLN00113        226 ---------GEIPYEIGGLTSLNHLDLVYNNLTGPIPSSLGNLKNLQYLFLYQNKLSGPIPPSIFSLQKLISLDLSDNSL  296 (968)
T ss_pred             ---------CcCChhHhcCCCCCEEECcCceeccccChhHhCCCCCCEEECcCCeeeccCchhHhhccCcCEEECcCCee
Confidence                     23345678999999999999887655556677889999999987753321       1344555554443 


Q ss_pred             -hhhHHHHHHHHhccceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccceee
Q 001457          735 -NSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVF  813 (1074)
Q Consensus       735 -~~~~~~~~~~~~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~  813 (1074)
                       ...|.++.. +++|+.|++.++......+. .+..+++|+.|++++|.+....|. .++.+++|+.|+++++......+
T Consensus       297 ~~~~p~~~~~-l~~L~~L~l~~n~~~~~~~~-~~~~l~~L~~L~L~~n~l~~~~p~-~l~~~~~L~~L~Ls~n~l~~~~p  373 (968)
T PLN00113        297 SGEIPELVIQ-LQNLEILHLFSNNFTGKIPV-ALTSLPRLQVLQLWSNKFSGEIPK-NLGKHNNLTVLDLSTNNLTGEIP  373 (968)
T ss_pred             ccCCChhHcC-CCCCcEEECCCCccCCcCCh-hHhcCCCCCEEECcCCCCcCcCCh-HHhCCCCCcEEECCCCeeEeeCC
Confidence             233444332 35666666655443332222 234566666666666655544433 24556666666666653221111


Q ss_pred             cccccccccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccccc
Q 001457          814 CLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLME  893 (1074)
Q Consensus       814 ~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~  893 (1074)
                            .....+++|+.|.+.++.-...++   ..+..+++|+.|++.+|+ +.... +..+..+++|+.|++++|....
T Consensus       374 ------~~~~~~~~L~~L~l~~n~l~~~~p---~~~~~~~~L~~L~L~~n~-l~~~~-p~~~~~l~~L~~L~Ls~N~l~~  442 (968)
T PLN00113        374 ------EGLCSSGNLFKLILFSNSLEGEIP---KSLGACRSLRRVRLQDNS-FSGEL-PSEFTKLPLVYFLDISNNNLQG  442 (968)
T ss_pred             ------hhHhCcCCCCEEECcCCEecccCC---HHHhCCCCCCEEECcCCE-eeeEC-ChhHhcCCCCCEEECcCCcccC
Confidence                  111225667777776663222221   334567788888887754 33322 3445677888888888765443


Q ss_pred             eeeccchhhHhhhhhhcccccc------CCCCcccCCceEEEecccccccccccccccccccCccEEEEeeccCcceeec
Q 001457          894 EIVSVDEAEVEQGAAQERNVSS------APQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIIT  967 (1074)
Q Consensus       894 ~i~~~~~~~~~~~~l~~l~l~~------~~~~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~  967 (1074)
                      .++...   ...+.++.+.+.+      +|.....++|+.|++++|.....++  ..+.++++|+.|++++|.....+| 
T Consensus       443 ~~~~~~---~~l~~L~~L~L~~n~~~~~~p~~~~~~~L~~L~ls~n~l~~~~~--~~~~~l~~L~~L~Ls~N~l~~~~p-  516 (968)
T PLN00113        443 RINSRK---WDMPSLQMLSLARNKFFGGLPDSFGSKRLENLDLSRNQFSGAVP--RKLGSLSELMQLKLSENKLSGEIP-  516 (968)
T ss_pred             ccChhh---ccCCCCcEEECcCceeeeecCcccccccceEEECcCCccCCccC--hhhhhhhccCEEECcCCcceeeCC-
Confidence            322111   1123344444432      2333345678888888776543332  236778888888888886544443 


Q ss_pred             ccchhhcccCcccccccccccccccccccccccCccccccCCCccEEEEeCCCCCCCCCCCCCCCcccccccccchhhhh
Q 001457          968 VSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAHSAWFEK 1047 (1074)
Q Consensus       968 ~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~i~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~L~~l~~~~~~~~~ 1047 (1074)
                              .....+++|+.|+|++|.-...+|..-.   .+++|++|++++|.-...+|..+..+++|+.++++.+-+.+
T Consensus       517 --------~~~~~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        517 --------DELSSCKKLVSLDLSHNQLSGQIPASFS---EMPVLSQLDLSQNQLSGEIPKNLGNVESLVQVNISHNHLHG  585 (968)
T ss_pred             --------hHHcCccCCCEEECCCCcccccCChhHh---CcccCCEEECCCCcccccCChhHhcCcccCEEeccCCccee
Confidence                    2456789999999999765445544322   45999999999998777899999999999999886554443

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

Probab=99.87  E-value=4.8e-22  Score=214.09  Aligned_cols=176  Identities=19%  Similarity=0.236  Sum_probs=133.6

Q ss_pred             CCcEEeeccCCcccCCCC----CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeec
Q 001457          510 NCEKLSLMDGNVTALPDQ----PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHL  585 (1074)
Q Consensus       510 ~~~~L~l~~~~~~~l~~~----~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L  585 (1074)
                      ..+.|+.+++.+..+...    .-.+..++|++++|.+..+....|.++++|+.+++..|.++.+|.......||+.|+|
T Consensus        53 ~~~lldcs~~~lea~~~~~l~g~lp~~t~~LdlsnNkl~~id~~~f~nl~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L  132 (873)
T KOG4194|consen   53 NTRLLDCSDRELEAIDKSRLKGFLPSQTQTLDLSNNKLSHIDFEFFYNLPNLQEVNLNKNELTRIPRFGHESGHLEKLDL  132 (873)
T ss_pred             CceeeecCccccccccccccCCcCccceeeeeccccccccCcHHHHhcCCcceeeeeccchhhhcccccccccceeEEee
Confidence            344556666665554221    2235678899999999999999999999999999999999999988888889999999


Q ss_pred             cCCCCCC--CccccCCCCccEEEeeCCCCcccCcc-ccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCc
Q 001457          586 ENTHLND--ASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDW  662 (1074)
Q Consensus       586 ~~~~l~~--~~~i~~l~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~  662 (1074)
                      .+|.|+.  .+.+.-++.|++|||+.|.|.++|.. +..-.++++|+|++|.+ ..+..+.|..+.+|-+|.+++|... 
T Consensus       133 ~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~La~N~I-t~l~~~~F~~lnsL~tlkLsrNrit-  210 (873)
T KOG4194|consen  133 RHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNLASNRI-TTLETGHFDSLNSLLTLKLSRNRIT-  210 (873)
T ss_pred             eccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEeeccccc-cccccccccccchheeeecccCccc-
Confidence            9999988  67788899999999999999988754 55667999999999975 4444455777888888888776321 


Q ss_pred             cccccccCCCCCccccccCcCCCEEEEeecCccc
Q 001457          663 EVEETANGQNARFSEVASLTRLTVLYIHVSNTKV  696 (1074)
Q Consensus       663 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~  696 (1074)
                               .-....+++|++|+.|++..|.+..
T Consensus       211 ---------tLp~r~Fk~L~~L~~LdLnrN~iri  235 (873)
T KOG4194|consen  211 ---------TLPQRSFKRLPKLESLDLNRNRIRI  235 (873)
T ss_pred             ---------ccCHHHhhhcchhhhhhccccceee
Confidence                     1222445667777777776655443

>PLN03210 Resistant to P

Probab=99.86  E-value=7e-21  Score=244.42  Aligned_cols=379  Identities=18%  Similarity=0.265  Sum_probs=271.6

Q ss_pred             cCCCcEEeeccCCcc-------cCCCC-CCC-CCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCc
Q 001457          508 LQNCEKLSLMDGNVT-------ALPDQ-PKC-PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLE  578 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~-------~l~~~-~~~-~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~  578 (1074)
                      +++++.|.+..+...       .+|.. ..+ ++||.|.+.++++..+|..+  .+.+|+.|+++++.+..+|..+..++
T Consensus       557 m~~L~~L~~~~~~~~~~~~~~~~lp~~~~~lp~~Lr~L~~~~~~l~~lP~~f--~~~~L~~L~L~~s~l~~L~~~~~~l~  634 (1153)
T PLN03210        557 MRNLLFLKFYTKKWDQKKEVRWHLPEGFDYLPPKLRLLRWDKYPLRCMPSNF--RPENLVKLQMQGSKLEKLWDGVHSLT  634 (1153)
T ss_pred             CccccEEEEecccccccccceeecCcchhhcCcccEEEEecCCCCCCCCCcC--CccCCcEEECcCccccccccccccCC
Confidence            677788877544321       23322 222 56999999999999998864  57899999999999999999999999


Q ss_pred             cCCeeeccCCC-CCCCccccCCCCccEEEeeCCC-CcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEcc
Q 001457          579 KLRSLHLENTH-LNDASLIREFGELEVLILKGSR-IVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVG  656 (1074)
Q Consensus       579 ~Lr~L~L~~~~-l~~~~~i~~l~~L~~L~L~~~~-i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~  656 (1074)
                      +|++|+|++|. ++..+.++.+++|++|+|++|. +..+|.+++++++|++|++++|..+..+|.. + ++++|++|+++
T Consensus       635 ~Lk~L~Ls~~~~l~~ip~ls~l~~Le~L~L~~c~~L~~lp~si~~L~~L~~L~L~~c~~L~~Lp~~-i-~l~sL~~L~Ls  712 (1153)
T PLN03210        635 GLRNIDLRGSKNLKEIPDLSMATNLETLKLSDCSSLVELPSSIQYLNKLEDLDMSRCENLEILPTG-I-NLKSLYRLNLS  712 (1153)
T ss_pred             CCCEEECCCCCCcCcCCccccCCcccEEEecCCCCccccchhhhccCCCCEEeCCCCCCcCccCCc-C-CCCCCCEEeCC
Confidence            99999999876 5555678999999999999985 7899999999999999999999888999875 3 89999999999


Q ss_pred             CCcCCccccccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhh
Q 001457          657 NSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNS  736 (1074)
Q Consensus       657 ~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~  736 (1074)
                      +|.....++             ...++|+.|+++.+....+|...  .+++|+.|.+..+....         +.+....
T Consensus       713 gc~~L~~~p-------------~~~~nL~~L~L~~n~i~~lP~~~--~l~~L~~L~l~~~~~~~---------l~~~~~~  768 (1153)
T PLN03210        713 GCSRLKSFP-------------DISTNISWLDLDETAIEEFPSNL--RLENLDELILCEMKSEK---------LWERVQP  768 (1153)
T ss_pred             CCCCccccc-------------cccCCcCeeecCCCccccccccc--cccccccccccccchhh---------ccccccc
Confidence            874321111             12467889999988876666543  36778877765432100         0000011


Q ss_pred             hHHHHHHHHhccceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccceeeccc
Q 001457          737 IASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLE  816 (1074)
Q Consensus       737 ~~~~~~~~~~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~  816 (1074)
                      .+......+++|+.|++++|..+..+|. .+.++++|+.|++++|......|...  .+++|+.|++++|..+..++.. 
T Consensus       769 l~~~~~~~~~sL~~L~Ls~n~~l~~lP~-si~~L~~L~~L~Ls~C~~L~~LP~~~--~L~sL~~L~Ls~c~~L~~~p~~-  844 (1153)
T PLN03210        769 LTPLMTMLSPSLTRLFLSDIPSLVELPS-SIQNLHKLEHLEIENCINLETLPTGI--NLESLESLDLSGCSRLRTFPDI-  844 (1153)
T ss_pred             cchhhhhccccchheeCCCCCCccccCh-hhhCCCCCCEEECCCCCCcCeeCCCC--CccccCEEECCCCCcccccccc-
Confidence            1122223457899999999888777765 46679999999999986555555543  6889999999999877655432 


Q ss_pred             ccccccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccccceee
Q 001457          817 DIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIV  896 (1074)
Q Consensus       817 ~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~i~  896 (1074)
                              .++|+.|+|.++ .++.++   ..+..+++|+.|++.+|++|+.++.  ....+++|+.+++++|..+..++
T Consensus       845 --------~~nL~~L~Ls~n-~i~~iP---~si~~l~~L~~L~L~~C~~L~~l~~--~~~~L~~L~~L~l~~C~~L~~~~  910 (1153)
T PLN03210        845 --------STNISDLNLSRT-GIEEVP---WWIEKFSNLSFLDMNGCNNLQRVSL--NISKLKHLETVDFSDCGALTEAS  910 (1153)
T ss_pred             --------ccccCEeECCCC-CCccCh---HHHhcCCCCCEEECCCCCCcCccCc--ccccccCCCeeecCCCccccccc
Confidence                    568999999886 556554   3456789999999999999998743  34678899999999999887653


Q ss_pred             ccchhhHhhhhhhccccccCCCCcccCCceEEEeccccccccc
Q 001457          897 SVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRV  939 (1074)
Q Consensus       897 ~~~~~~~~~~~l~~l~l~~~~~~~~~~~L~~L~l~~C~~L~~~  939 (1074)
                      ...... .     ...+. -.....+|+...+.+.+|.++...
T Consensus       911 l~~~~~-~-----~~~~~-~n~~~~~p~~~~l~f~nC~~L~~~  946 (1153)
T PLN03210        911 WNGSPS-E-----VAMAT-DNIHSKLPSTVCINFINCFNLDQE  946 (1153)
T ss_pred             CCCCch-h-----hhhhc-ccccccCCchhccccccccCCCch
Confidence            221100 0     00000 001124566677788888887654

syringae 6; Provisional

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

Probab=99.85  E-value=3.7e-24  Score=220.59  Aligned_cols=468  Identities=19%  Similarity=0.198  Sum_probs=296.5

Q ss_pred             CcEEeeccCCcccCCC-CCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCC
Q 001457          511 CEKLSLMDGNVTALPD-QPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH  589 (1074)
Q Consensus       511 ~~~L~l~~~~~~~l~~-~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~  589 (1074)
                      +..+.+..|.+..+.. ...+..+.+|.+.+|.+..+|+.+ +.+..+..|+.++|++..+|+.++.+.+|+.|+.++|.
T Consensus        47 l~~lils~N~l~~l~~dl~nL~~l~vl~~~~n~l~~lp~ai-g~l~~l~~l~vs~n~ls~lp~~i~s~~~l~~l~~s~n~  125 (565)
T KOG0472|consen   47 LQKLILSHNDLEVLREDLKNLACLTVLNVHDNKLSQLPAAI-GELEALKSLNVSHNKLSELPEQIGSLISLVKLDCSSNE  125 (565)
T ss_pred             hhhhhhccCchhhccHhhhcccceeEEEeccchhhhCCHHH-HHHHHHHHhhcccchHhhccHHHhhhhhhhhhhccccc
Confidence            4456677777766543 467788999999999988888875 67888888999999999999999999999999999999


Q ss_pred             CCC-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccc
Q 001457          590 LND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETA  668 (1074)
Q Consensus       590 l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~  668 (1074)
                      +.+ +++++.+..|+.|+..+|++..+|.+++++.+|..|++.+|. ...+|++.+. ++.|++|++..|.         
T Consensus       126 ~~el~~~i~~~~~l~dl~~~~N~i~slp~~~~~~~~l~~l~~~~n~-l~~l~~~~i~-m~~L~~ld~~~N~---------  194 (565)
T KOG0472|consen  126 LKELPDSIGRLLDLEDLDATNNQISSLPEDMVNLSKLSKLDLEGNK-LKALPENHIA-MKRLKHLDCNSNL---------  194 (565)
T ss_pred             eeecCchHHHHhhhhhhhccccccccCchHHHHHHHHHHhhccccc-hhhCCHHHHH-HHHHHhcccchhh---------
Confidence            888 899999999999999999999999999999999999999887 4667777444 8999999876653         


Q ss_pred             cCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhhhHHHHHHHHhcc
Q 001457          669 NGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKT  748 (1074)
Q Consensus       669 ~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~~L  748 (1074)
                        ......+++.+.+|..|++..|.....|  .+.+|..|++|++..|..                ..+|..+...++++
T Consensus       195 --L~tlP~~lg~l~~L~~LyL~~Nki~~lP--ef~gcs~L~Elh~g~N~i----------------~~lpae~~~~L~~l  254 (565)
T KOG0472|consen  195 --LETLPPELGGLESLELLYLRRNKIRFLP--EFPGCSLLKELHVGENQI----------------EMLPAEHLKHLNSL  254 (565)
T ss_pred             --hhcCChhhcchhhhHHHHhhhcccccCC--CCCccHHHHHHHhcccHH----------------HhhHHHHhcccccc
Confidence              2344567888888888888888877776  456678888887755432                22344444455667


Q ss_pred             ceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccceeecccccccccccCCCc
Q 001457          749 EYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRL  828 (1074)
Q Consensus       749 ~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~L  828 (1074)
                      ..|++.. +.++..|. .+..+.+|.+|++++|.++...+.  ++++ +|+.|.+.+++--+--...  +..+.  -.-|
T Consensus       255 ~vLDLRd-Nklke~Pd-e~clLrsL~rLDlSNN~is~Lp~s--Lgnl-hL~~L~leGNPlrTiRr~i--i~~gT--~~vL  325 (565)
T KOG0472|consen  255 LVLDLRD-NKLKEVPD-EICLLRSLERLDLSNNDISSLPYS--LGNL-HLKFLALEGNPLRTIRREI--ISKGT--QEVL  325 (565)
T ss_pred             eeeeccc-cccccCch-HHHHhhhhhhhcccCCccccCCcc--cccc-eeeehhhcCCchHHHHHHH--HcccH--HHHH
Confidence            7777766 34555544 333477888888888877665443  6667 7888888776521100000  00000  0011


Q ss_pred             ceeec-CCccCcce-----------eeccccccccccccceEEEecCCCccccccchhHhhh--cCCCceecccccccce
Q 001457          829 RELVL-VGLPKVLT-----------IWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGL--GNLEDLSILKCDLMEE  894 (1074)
Q Consensus       829 ~~L~L-~~~~~L~~-----------~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l--~~L~~L~l~~c~~l~~  894 (1074)
                      ++|.= ..|..+..           ....+.....+.+.+.|++++ .+++.++. .++..-  .-....++++. .+.+
T Consensus       326 KyLrs~~~~dglS~se~~~e~~~t~~~~~~~~~~~~i~tkiL~~s~-~qlt~VPd-EVfea~~~~~Vt~VnfskN-qL~e  402 (565)
T KOG0472|consen  326 KYLRSKIKDDGLSQSEGGTETAMTLPSESFPDIYAIITTKILDVSD-KQLTLVPD-EVFEAAKSEIVTSVNFSKN-QLCE  402 (565)
T ss_pred             HHHHHhhccCCCCCCcccccccCCCCCCcccchhhhhhhhhhcccc-cccccCCH-HHHHHhhhcceEEEecccc-hHhh
Confidence            11110 00000000           001112223456677777777 56666632 222211  12334445442 2333


Q ss_pred             eeccchhhHhhhhhhc----cccccC-C-CCcccCCceEEEecccccccccccccccccccCccEEEEeeccCcceeecc
Q 001457          895 IVSVDEAEVEQGAAQE----RNVSSA-P-QPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITV  968 (1074)
Q Consensus       895 i~~~~~~~~~~~~l~~----l~l~~~-~-~~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~~  968 (1074)
                      +|.--.  ......+.    .+..+. + .+..+++|..|++++. -+.+++..  +..+..|+.|+|+.. ....+|. 
T Consensus       403 lPk~L~--~lkelvT~l~lsnn~isfv~~~l~~l~kLt~L~L~NN-~Ln~LP~e--~~~lv~Lq~LnlS~N-rFr~lP~-  475 (565)
T KOG0472|consen  403 LPKRLV--ELKELVTDLVLSNNKISFVPLELSQLQKLTFLDLSNN-LLNDLPEE--MGSLVRLQTLNLSFN-RFRMLPE-  475 (565)
T ss_pred             hhhhhH--HHHHHHHHHHhhcCccccchHHHHhhhcceeeecccc-hhhhcchh--hhhhhhhheeccccc-ccccchH-
Confidence            322110  00001111    112222 2 2567899999999764 35666443  678888999999976 3333332 


Q ss_pred             cchhhcccCcccccccccccccccccccccccCccccccCCCccEEEEeCCCCCCCCCCCCCCCccccccccc
Q 001457          969 SDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPLDTRSAPKLETFKAH 1041 (1074)
Q Consensus       969 ~~~~~~~~~~~~l~~L~~L~l~~c~~L~~i~~~~~~~~~~~~L~~L~i~~C~~L~~lp~~~~~l~~L~~l~~~ 1041 (1074)
                              ....+..|+.+..++ .++.+++..++.  .+.+|.+|++.+ ..+..+|.+++++++|++++++
T Consensus       476 --------~~y~lq~lEtllas~-nqi~~vd~~~l~--nm~nL~tLDL~n-Ndlq~IPp~LgnmtnL~hLeL~  536 (565)
T KOG0472|consen  476 --------CLYELQTLETLLASN-NQIGSVDPSGLK--NMRNLTTLDLQN-NDLQQIPPILGNMTNLRHLELD  536 (565)
T ss_pred             --------HHhhHHHHHHHHhcc-ccccccChHHhh--hhhhcceeccCC-CchhhCChhhccccceeEEEec
Confidence                    122222334444443 677777776433  457888888866 5688888888888888888764

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

Probab=99.84  E-value=1.8e-22  Score=218.13  Aligned_cols=148  Identities=23%  Similarity=0.395  Sum_probs=77.8

Q ss_pred             cCCCcEEeeccCCcccCCCC-CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccC--CCCCCccCCccCCeee
Q 001457          508 LQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS--SLAPSLPCLEKLRSLH  584 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~--~lp~~i~~l~~Lr~L~  584 (1074)
                      +.+++.|.+....+..+|+. ..+.+|.+|.+.+|.+..+... ++.++.||.+++.+|++.  .+|+.|..+..|..|+
T Consensus        31 Mt~~~WLkLnrt~L~~vPeEL~~lqkLEHLs~~HN~L~~vhGE-Ls~Lp~LRsv~~R~N~LKnsGiP~diF~l~dLt~lD  109 (1255)
T KOG0444|consen   31 MTQMTWLKLNRTKLEQVPEELSRLQKLEHLSMAHNQLISVHGE-LSDLPRLRSVIVRDNNLKNSGIPTDIFRLKDLTILD  109 (1255)
T ss_pred             hhheeEEEechhhhhhChHHHHHHhhhhhhhhhhhhhHhhhhh-hccchhhHHHhhhccccccCCCCchhcccccceeee
Confidence            44455555555555555432 3445555555555554444333 244555555555555443  4555555555555555


Q ss_pred             ccCCCCCC-CccccCCCCccEEEeeCCCCcccCcc-ccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCC
Q 001457          585 LENTHLND-ASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       585 L~~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~  658 (1074)
                      |++|++++ |..+..-+++-+|+|++|+|..+|.+ +-+|+-|-+||+++|. +..+||. +..|..|++|.+++|
T Consensus       110 LShNqL~EvP~~LE~AKn~iVLNLS~N~IetIPn~lfinLtDLLfLDLS~Nr-Le~LPPQ-~RRL~~LqtL~Ls~N  183 (1255)
T KOG0444|consen  110 LSHNQLREVPTNLEYAKNSIVLNLSYNNIETIPNSLFINLTDLLFLDLSNNR-LEMLPPQ-IRRLSMLQTLKLSNN  183 (1255)
T ss_pred             cchhhhhhcchhhhhhcCcEEEEcccCccccCCchHHHhhHhHhhhccccch-hhhcCHH-HHHHhhhhhhhcCCC
Confidence            55555555 55555555555555555555555544 3355555555555554 4455554 555555555555554

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

Probab=99.83  E-value=1.6e-21  Score=210.11  Aligned_cols=321  Identities=19%  Similarity=0.242  Sum_probs=160.6

Q ss_pred             cCCCcEEeeccCCcccCCCCCCC-CCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCC-CccCCccCCeeec
Q 001457          508 LQNCEKLSLMDGNVTALPDQPKC-PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHL  585 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~~~~-~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~-~i~~l~~Lr~L~L  585 (1074)
                      +++++.+++..|.+..+|.+... .+|..|+|.+|.+..+....++-++.||+||||.|.|+.+|. ++..=.++++|+|
T Consensus       101 l~nLq~v~l~~N~Lt~IP~f~~~sghl~~L~L~~N~I~sv~se~L~~l~alrslDLSrN~is~i~~~sfp~~~ni~~L~L  180 (873)
T KOG4194|consen  101 LPNLQEVNLNKNELTRIPRFGHESGHLEKLDLRHNLISSVTSEELSALPALRSLDLSRNLISEIPKPSFPAKVNIKKLNL  180 (873)
T ss_pred             CCcceeeeeccchhhhcccccccccceeEEeeeccccccccHHHHHhHhhhhhhhhhhchhhcccCCCCCCCCCceEEee
Confidence            45555555555555555554332 346666666666555555555555666666666666665553 4444455666666


Q ss_pred             cCCCCCC--CccccCCCCccEEEeeCCCCcccCcc-ccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCc
Q 001457          586 ENTHLND--ASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDW  662 (1074)
Q Consensus       586 ~~~~l~~--~~~i~~l~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~  662 (1074)
                      ++|.|+.  ...+..+.+|-+|.|++|+++.+|.- +.+|++|+.|+|..|.+ +..-.-.|..|++|+.|.+..|... 
T Consensus       181 a~N~It~l~~~~F~~lnsL~tlkLsrNrittLp~r~Fk~L~~L~~LdLnrN~i-rive~ltFqgL~Sl~nlklqrN~I~-  258 (873)
T KOG4194|consen  181 ASNRITTLETGHFDSLNSLLTLKLSRNRITTLPQRSFKRLPKLESLDLNRNRI-RIVEGLTFQGLPSLQNLKLQRNDIS-  258 (873)
T ss_pred             ccccccccccccccccchheeeecccCcccccCHHHhhhcchhhhhhccccce-eeehhhhhcCchhhhhhhhhhcCcc-
Confidence            6666655  44555555666666666666666543 33466666666655542 2221112455555555555443111 


Q ss_pred             cccccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhhhHHHHH
Q 001457          663 EVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVK  742 (1074)
Q Consensus       663 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~~~~~~~  742 (1074)
                               .-.-..+-.+.++++|++..|.........+-+++.|+.|+++.|.                         
T Consensus       259 ---------kL~DG~Fy~l~kme~l~L~~N~l~~vn~g~lfgLt~L~~L~lS~Na-------------------------  304 (873)
T KOG4194|consen  259 ---------KLDDGAFYGLEKMEHLNLETNRLQAVNEGWLFGLTSLEQLDLSYNA-------------------------  304 (873)
T ss_pred             ---------cccCcceeeecccceeecccchhhhhhcccccccchhhhhccchhh-------------------------
Confidence                     0111223445555555555555554444444445555555544432                         


Q ss_pred             HHHhccceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccceeeccccccccc
Q 001457          743 LLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQ  822 (1074)
Q Consensus       743 ~~~~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~  822 (1074)
                                      +..+..-+....+.|+.|+|++|.++.. +...+..+..|+.|.++++. ++.+...     .-
T Consensus       305 ----------------I~rih~d~WsftqkL~~LdLs~N~i~~l-~~~sf~~L~~Le~LnLs~Ns-i~~l~e~-----af  361 (873)
T KOG4194|consen  305 ----------------IQRIHIDSWSFTQKLKELDLSSNRITRL-DEGSFRVLSQLEELNLSHNS-IDHLAEG-----AF  361 (873)
T ss_pred             ----------------hheeecchhhhcccceeEeccccccccC-ChhHHHHHHHhhhhcccccc-hHHHHhh-----HH
Confidence                            1222111222355566666666544443 23334455556666665542 2222100     01


Q ss_pred             ccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccc
Q 001457          823 AGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKC  889 (1074)
Q Consensus       823 ~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c  889 (1074)
                      .++.+|++|+|+++.---.+..+...+..+++|++|.+.+ ++|+.++ ..-+.++++||+|++.+.
T Consensus       362 ~~lssL~~LdLr~N~ls~~IEDaa~~f~gl~~LrkL~l~g-Nqlk~I~-krAfsgl~~LE~LdL~~N  426 (873)
T KOG4194|consen  362 VGLSSLHKLDLRSNELSWCIEDAAVAFNGLPSLRKLRLTG-NQLKSIP-KRAFSGLEALEHLDLGDN  426 (873)
T ss_pred             HHhhhhhhhcCcCCeEEEEEecchhhhccchhhhheeecC-ceeeecc-hhhhccCcccceecCCCC
Confidence            1256666666665521112222334445566666666666 5666652 233455666666666654

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

Probab=99.83  E-value=1e-22  Score=231.42  Aligned_cols=460  Identities=22%  Similarity=0.246  Sum_probs=269.6

Q ss_pred             eeccCCcccCCCC-CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCC-
Q 001457          515 SLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-  592 (1074)
Q Consensus       515 ~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~-  592 (1074)
                      +++.+.++.+|.. .....+..|++..|.+...|-.+..+.-+|++||+++|.+..+|..+..+.+|+.|+++.|.|.. 
T Consensus         4 d~s~~~l~~ip~~i~~~~~~~~ln~~~N~~l~~pl~~~~~~v~L~~l~lsnn~~~~fp~~it~l~~L~~ln~s~n~i~~v   83 (1081)
T KOG0618|consen    4 DASDEQLELIPEQILNNEALQILNLRRNSLLSRPLEFVEKRVKLKSLDLSNNQISSFPIQITLLSHLRQLNLSRNYIRSV   83 (1081)
T ss_pred             ccccccCcccchhhccHHHHHhhhccccccccCchHHhhheeeeEEeeccccccccCCchhhhHHHHhhcccchhhHhhC
Confidence            3444455555543 12223777777777777766666666667888888888888888888888888888888888887 


Q ss_pred             CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccc----
Q 001457          593 ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETA----  668 (1074)
Q Consensus       593 ~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~----  668 (1074)
                      |.+++++.+|++|+|.+|.+..+|.++..+++|++|++++|.+ ..+|.- +..+..+..+..++|.....++...    
T Consensus        84 p~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~N~f-~~~Pl~-i~~lt~~~~~~~s~N~~~~~lg~~~ik~~  161 (1081)
T KOG0618|consen   84 PSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSFNHF-GPIPLV-IEVLTAEEELAASNNEKIQRLGQTSIKKL  161 (1081)
T ss_pred             chhhhhhhcchhheeccchhhcCchhHHhhhcccccccchhcc-CCCchh-HHhhhHHHHHhhhcchhhhhhccccchhh
Confidence            8888888888888888888888888888888888888888875 455543 6777777777766652111111000    


Q ss_pred             -----cCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhhhHHHHHH
Q 001457          669 -----NGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKL  743 (1074)
Q Consensus       669 -----~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~  743 (1074)
                           ........++..+++  .|++..|.....   .+..+.+|+.+....+..       ..+.+             
T Consensus       162 ~l~~n~l~~~~~~~i~~l~~--~ldLr~N~~~~~---dls~~~~l~~l~c~rn~l-------s~l~~-------------  216 (1081)
T KOG0618|consen  162 DLRLNVLGGSFLIDIYNLTH--QLDLRYNEMEVL---DLSNLANLEVLHCERNQL-------SELEI-------------  216 (1081)
T ss_pred             hhhhhhcccchhcchhhhhe--eeecccchhhhh---hhhhccchhhhhhhhccc-------ceEEe-------------
Confidence                 011112223333333  355555543311   112233333333222210       00000             


Q ss_pred             HHhccceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccceeecccccccccc
Q 001457          744 LLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQA  823 (1074)
Q Consensus       744 ~~~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~~  823 (1074)
                      .-++++.|....+...+....   ..-.+|++++++.+.+....  .+...+.+|+.+.+.++.- .      .+.....
T Consensus       217 ~g~~l~~L~a~~n~l~~~~~~---p~p~nl~~~dis~n~l~~lp--~wi~~~~nle~l~~n~N~l-~------~lp~ri~  284 (1081)
T KOG0618|consen  217 SGPSLTALYADHNPLTTLDVH---PVPLNLQYLDISHNNLSNLP--EWIGACANLEALNANHNRL-V------ALPLRIS  284 (1081)
T ss_pred             cCcchheeeeccCcceeeccc---cccccceeeecchhhhhcch--HHHHhcccceEecccchhH-H------hhHHHHh
Confidence            114555555555443322211   12457888888888666543  6788888888888877642 1      1122222


Q ss_pred             cCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhc-CCCceecccccccceeeccchhh
Q 001457          824 GLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLG-NLEDLSILKCDLMEEIVSVDEAE  902 (1074)
Q Consensus       824 ~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~-~L~~L~l~~c~~l~~i~~~~~~~  902 (1074)
                      ...+|+.|.+..| .++.++   .....+++|++|++.. ++|.+++. .++.-+. +|+.|+.+. ..+...+....  
T Consensus       285 ~~~~L~~l~~~~n-el~yip---~~le~~~sL~tLdL~~-N~L~~lp~-~~l~v~~~~l~~ln~s~-n~l~~lp~~~e--  355 (1081)
T KOG0618|consen  285 RITSLVSLSAAYN-ELEYIP---PFLEGLKSLRTLDLQS-NNLPSLPD-NFLAVLNASLNTLNVSS-NKLSTLPSYEE--  355 (1081)
T ss_pred             hhhhHHHHHhhhh-hhhhCC---Ccccccceeeeeeehh-ccccccch-HHHhhhhHHHHHHhhhh-ccccccccccc--
Confidence            3677888877776 555554   2334578899999988 77877743 2222222 355555544 33443332221  


Q ss_pred             Hhhhhhhccccc-------cCCCCcccCCceEEEecccccccccccccccccccCccEEEEeeccCcceeecccchhhcc
Q 001457          903 VEQGAAQERNVS-------SAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAA  975 (1074)
Q Consensus       903 ~~~~~l~~l~l~-------~~~~~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~~~~~~~~~  975 (1074)
                      .....++.+.+.       .+|-+.++.+|+.|+|+++. |..+ +.+.+.+++.|++|+++|. +|+.++.        
T Consensus       356 ~~~~~Lq~LylanN~Ltd~c~p~l~~~~hLKVLhLsyNr-L~~f-pas~~~kle~LeeL~LSGN-kL~~Lp~--------  424 (1081)
T KOG0618|consen  356 NNHAALQELYLANNHLTDSCFPVLVNFKHLKVLHLSYNR-LNSF-PASKLRKLEELEELNLSGN-KLTTLPD--------  424 (1081)
T ss_pred             hhhHHHHHHHHhcCcccccchhhhccccceeeeeecccc-cccC-CHHHHhchHHhHHHhcccc-hhhhhhH--------
Confidence            122334444332       34677899999999998753 4444 5566899999999999995 5666653        


Q ss_pred             cCcccccccccccccccccccccccCccccccCCCccEEEEeCCCCCCC--CCCCCCCCccccccccc
Q 001457          976 ENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMK--LPLDTRSAPKLETFKAH 1041 (1074)
Q Consensus       976 ~~~~~l~~L~~L~l~~c~~L~~i~~~~~~~~~~~~L~~L~i~~C~~L~~--lp~~~~~l~~L~~l~~~ 1041 (1074)
                       ....++.|++|...+ +.|.++|. ...   ++.|+.+++ .|.+|..  +|....+ ++|+.++.+
T Consensus       425 -tva~~~~L~tL~ahs-N~l~~fPe-~~~---l~qL~~lDl-S~N~L~~~~l~~~~p~-p~LkyLdlS  484 (1081)
T KOG0618|consen  425 -TVANLGRLHTLRAHS-NQLLSFPE-LAQ---LPQLKVLDL-SCNNLSEVTLPEALPS-PNLKYLDLS  484 (1081)
T ss_pred             -HHHhhhhhHHHhhcC-Cceeechh-hhh---cCcceEEec-ccchhhhhhhhhhCCC-cccceeecc
Confidence             334455555555554 44555552 222   255555555 3555543  3332222 455555544

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

Probab=99.79  E-value=1.1e-21  Score=212.03  Aligned_cols=323  Identities=20%  Similarity=0.249  Sum_probs=239.2

Q ss_pred             cCCCcEEeeccCCcccCCC-CCCCCCccEEEccCCCC--CCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeee
Q 001457          508 LQNCEKLSLMDGNVTALPD-QPKCPRLTTLFLQNNPF--ADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLH  584 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~-~~~~~~Lr~L~l~~~~~--~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~  584 (1074)
                      +++++||++..|.+..+.. ...++.||++++..|.+  +++|+.+| ++.-|.+||||+|++.++|..+..-+++-+|+
T Consensus        54 lqkLEHLs~~HN~L~~vhGELs~Lp~LRsv~~R~N~LKnsGiP~diF-~l~dLt~lDLShNqL~EvP~~LE~AKn~iVLN  132 (1255)
T KOG0444|consen   54 LQKLEHLSMAHNQLISVHGELSDLPRLRSVIVRDNNLKNSGIPTDIF-RLKDLTILDLSHNQLREVPTNLEYAKNSIVLN  132 (1255)
T ss_pred             HhhhhhhhhhhhhhHhhhhhhccchhhHHHhhhccccccCCCCchhc-ccccceeeecchhhhhhcchhhhhhcCcEEEE
Confidence            7889999999998876653 47789999999999985  46888887 69999999999999999999999999999999


Q ss_pred             ccCCCCCC-Cccc-cCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCc
Q 001457          585 LENTHLND-ASLI-REFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDW  662 (1074)
Q Consensus       585 L~~~~l~~-~~~i-~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~  662 (1074)
                      |++|+|.. |..+ -+|+.|-+|||++|++..+|..+.+|.+|++|++++|+....--.. +..|++|++|.+++..   
T Consensus       133 LS~N~IetIPn~lfinLtDLLfLDLS~NrLe~LPPQ~RRL~~LqtL~Ls~NPL~hfQLrQ-LPsmtsL~vLhms~Tq---  208 (1255)
T KOG0444|consen  133 LSYNNIETIPNSLFINLTDLLFLDLSNNRLEMLPPQIRRLSMLQTLKLSNNPLNHFQLRQ-LPSMTSLSVLHMSNTQ---  208 (1255)
T ss_pred             cccCccccCCchHHHhhHhHhhhccccchhhhcCHHHHHHhhhhhhhcCCChhhHHHHhc-Cccchhhhhhhccccc---
Confidence            99999988 6554 4899999999999999999999999999999999999753221112 4556778888877642   


Q ss_pred             cccccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhhhHHHHH
Q 001457          663 EVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVK  742 (1074)
Q Consensus       663 ~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~~~~~~~  742 (1074)
                            .........+..+.+|+.++++.|+....|.-. -.+++|++|+++.|...            .+......   
T Consensus       209 ------RTl~N~Ptsld~l~NL~dvDlS~N~Lp~vPecl-y~l~~LrrLNLS~N~it------------eL~~~~~~---  266 (1255)
T KOG0444|consen  209 ------RTLDNIPTSLDDLHNLRDVDLSENNLPIVPECL-YKLRNLRRLNLSGNKIT------------ELNMTEGE---  266 (1255)
T ss_pred             ------chhhcCCCchhhhhhhhhccccccCCCcchHHH-hhhhhhheeccCcCcee------------eeeccHHH---
Confidence                  223345567888999999999998877665433 35788888888766321            11111112   


Q ss_pred             HHHhccceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccceeeccccccccc
Q 001457          743 LLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQ  822 (1074)
Q Consensus       743 ~~~~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~~~~  822 (1074)
                        -.+|+.|+++. +.++.+|. .+..++.|++|.+.+|.+.-.-.+.-++.+.+|+.+...++. ++-      ++++.
T Consensus       267 --W~~lEtLNlSr-NQLt~LP~-avcKL~kL~kLy~n~NkL~FeGiPSGIGKL~~Levf~aanN~-LEl------VPEgl  335 (1255)
T KOG0444|consen  267 --WENLETLNLSR-NQLTVLPD-AVCKLTKLTKLYANNNKLTFEGIPSGIGKLIQLEVFHAANNK-LEL------VPEGL  335 (1255)
T ss_pred             --Hhhhhhhcccc-chhccchH-HHhhhHHHHHHHhccCcccccCCccchhhhhhhHHHHhhccc-ccc------Cchhh
Confidence              26788888876 34555555 445688888888888855433333336778888887776652 222      23344


Q ss_pred             ccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccc
Q 001457          823 AGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSR  872 (1074)
Q Consensus       823 ~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~  872 (1074)
                      +.+++|+.|.|..+ .|-.+|   ..+..++.|+.|++..-|+|...+-|
T Consensus       336 cRC~kL~kL~L~~N-rLiTLP---eaIHlL~~l~vLDlreNpnLVMPPKP  381 (1255)
T KOG0444|consen  336 CRCVKLQKLKLDHN-RLITLP---EAIHLLPDLKVLDLRENPNLVMPPKP  381 (1255)
T ss_pred             hhhHHHHHhccccc-ceeech---hhhhhcCCcceeeccCCcCccCCCCc
Confidence            55888888888765 555554   45567888889998888888765444

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

Probab=99.75  E-value=2.5e-21  Score=199.91  Aligned_cols=442  Identities=18%  Similarity=0.214  Sum_probs=284.7

Q ss_pred             cCCCcEEeeccCCcccCCCC-CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeecc
Q 001457          508 LQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLE  586 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~  586 (1074)
                      +..+..+.++.|....+|.. ..+..+..|++++|.+..+|+.. ..+..|+.|++++|.+..+|++++.+..|..|+..
T Consensus        67 L~~l~vl~~~~n~l~~lp~aig~l~~l~~l~vs~n~ls~lp~~i-~s~~~l~~l~~s~n~~~el~~~i~~~~~l~dl~~~  145 (565)
T KOG0472|consen   67 LACLTVLNVHDNKLSQLPAAIGELEALKSLNVSHNKLSELPEQI-GSLISLVKLDCSSNELKELPDSIGRLLDLEDLDAT  145 (565)
T ss_pred             ccceeEEEeccchhhhCCHHHHHHHHHHHhhcccchHhhccHHH-hhhhhhhhhhccccceeecCchHHHHhhhhhhhcc
Confidence            45566778888888777653 56778888899999988888875 56888899999999999999999999999999999


Q ss_pred             CCCCCC-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCcccc
Q 001457          587 NTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVE  665 (1074)
Q Consensus       587 ~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~  665 (1074)
                      +|++.. |+.++++..|..|++.++++..+|+..-+++.|++||...|- ++.+|++ ++.|.+|..|++..|..     
T Consensus       146 ~N~i~slp~~~~~~~~l~~l~~~~n~l~~l~~~~i~m~~L~~ld~~~N~-L~tlP~~-lg~l~~L~~LyL~~Nki-----  218 (565)
T KOG0472|consen  146 NNQISSLPEDMVNLSKLSKLDLEGNKLKALPENHIAMKRLKHLDCNSNL-LETLPPE-LGGLESLELLYLRRNKI-----  218 (565)
T ss_pred             ccccccCchHHHHHHHHHHhhccccchhhCCHHHHHHHHHHhcccchhh-hhcCChh-hcchhhhHHHHhhhccc-----
Confidence            999888 999999999999999999999998887779999999987774 7888888 89999999998877632     


Q ss_pred             ccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhhhHHHHHHHH
Q 001457          666 ETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLL  745 (1074)
Q Consensus       666 ~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~  745 (1074)
                             ..+.++.++..|..|++..|..+.++.+..+.++++..|+++.|..                ...|..+.. +
T Consensus       219 -------~~lPef~gcs~L~Elh~g~N~i~~lpae~~~~L~~l~vLDLRdNkl----------------ke~Pde~cl-L  274 (565)
T KOG0472|consen  219 -------RFLPEFPGCSLLKELHVGENQIEMLPAEHLKHLNSLLVLDLRDNKL----------------KEVPDEICL-L  274 (565)
T ss_pred             -------ccCCCCCccHHHHHHHhcccHHHhhHHHHhcccccceeeecccccc----------------ccCchHHHH-h
Confidence                   2334678888888888888888888888877888888888876532                233444433 4


Q ss_pred             hccceeeeccCCCcccccccccccCCCccEEEEeccccccccc----cCcccccccceeEEEeeecccceee--cccccc
Q 001457          746 EKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFH----SNFYPTVQILEELHVEYCYSLKEVF--CLEDIE  819 (1074)
Q Consensus       746 ~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~l~~~~--~~~~~~  819 (1074)
                      .+|+.|++++. .++.+|. +++++ .|+.|.+.||.+.++-.    .+...-++.|+.=  ..|..+..-.  .....+
T Consensus       275 rsL~rLDlSNN-~is~Lp~-sLgnl-hL~~L~leGNPlrTiRr~ii~~gT~~vLKyLrs~--~~~dglS~se~~~e~~~t  349 (565)
T KOG0472|consen  275 RSLERLDLSNN-DISSLPY-SLGNL-HLKFLALEGNPLRTIRREIISKGTQEVLKYLRSK--IKDDGLSQSEGGTETAMT  349 (565)
T ss_pred             hhhhhhcccCC-ccccCCc-ccccc-eeeehhhcCCchHHHHHHHHcccHHHHHHHHHHh--hccCCCCCCcccccccCC
Confidence            78999999874 3444432 45567 89999999995543211    1111112223220  0111111000  000011


Q ss_pred             ccccc------CCCcceeecCCccCcceeeccccccccccccceEEEecCCCcccc----------------------cc
Q 001457          820 GEQAG------LKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYL----------------------FS  871 (1074)
Q Consensus       820 ~~~~~------~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l----------------------~~  871 (1074)
                      .....      .-+.+.|.+++- .++.+|...+..+.-.-....++++ +++..+                      ++
T Consensus       350 ~~~~~~~~~~~~i~tkiL~~s~~-qlt~VPdEVfea~~~~~Vt~Vnfsk-NqL~elPk~L~~lkelvT~l~lsnn~isfv  427 (565)
T KOG0472|consen  350 LPSESFPDIYAIITTKILDVSDK-QLTLVPDEVFEAAKSEIVTSVNFSK-NQLCELPKRLVELKELVTDLVLSNNKISFV  427 (565)
T ss_pred             CCCCcccchhhhhhhhhhccccc-ccccCCHHHHHHhhhcceEEEeccc-chHhhhhhhhHHHHHHHHHHHhhcCccccc
Confidence            11112      335566666554 4444443322221111122333333 223222                      12


Q ss_pred             chhHhhhcCCCceecccccccceeeccchhhHhhhhhhccccccCCCCcccCCceEEEecccccccccccccccccccCc
Q 001457          872 RTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQL  951 (1074)
Q Consensus       872 ~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~l~~l~l~~~~~~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L  951 (1074)
                      +..+..+++|..|++++. -+.++|.                    ..+.+..|+.|+|+.. ....++..  +..+.-|
T Consensus       428 ~~~l~~l~kLt~L~L~NN-~Ln~LP~--------------------e~~~lv~Lq~LnlS~N-rFr~lP~~--~y~lq~l  483 (565)
T KOG0472|consen  428 PLELSQLQKLTFLDLSNN-LLNDLPE--------------------EMGSLVRLQTLNLSFN-RFRMLPEC--LYELQTL  483 (565)
T ss_pred             hHHHHhhhcceeeecccc-hhhhcch--------------------hhhhhhhhheeccccc-ccccchHH--HhhHHHH
Confidence            344555666666666652 2333332                    2345667999999876 33333211  2222233


Q ss_pred             cEEEEeeccCcceeecccchhhcccCcccccccccccccccccccccccCccccccCCCccEEEEeCCCCCCCCCC
Q 001457          952 EELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLPL 1027 (1074)
Q Consensus       952 ~~L~i~~C~~l~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~i~~~~~~~~~~~~L~~L~i~~C~~L~~lp~ 1027 (1074)
                      + +.+....++.++..        .+++.+..|.+|++.+ +.++.+|....   ++++|++|.+.|.| .+ .|.
T Consensus       484 E-tllas~nqi~~vd~--------~~l~nm~nL~tLDL~n-Ndlq~IPp~Lg---nmtnL~hLeL~gNp-fr-~Pr  544 (565)
T KOG0472|consen  484 E-TLLASNNQIGSVDP--------SGLKNMRNLTTLDLQN-NDLQQIPPILG---NMTNLRHLELDGNP-FR-QPR  544 (565)
T ss_pred             H-HHHhccccccccCh--------HHhhhhhhcceeccCC-CchhhCChhhc---cccceeEEEecCCc-cC-CCH
Confidence            3 33344445555542        3577889999999997 78999998655   55999999999976 43 664

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

Probab=99.73  E-value=3.4e-19  Score=203.10  Aligned_cols=389  Identities=19%  Similarity=0.219  Sum_probs=199.7

Q ss_pred             CCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCC-CccccCCCCccEEEeeC
Q 001457          531 PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVLILKG  609 (1074)
Q Consensus       531 ~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~-~~~i~~l~~L~~L~L~~  609 (1074)
                      -+|.+|++++|.+..+|..+ ..+.+|+.|+++.|.|.++|.++.++.+|++|+|.+|.+.. |.++..+++|++|++++
T Consensus        45 v~L~~l~lsnn~~~~fp~~i-t~l~~L~~ln~s~n~i~~vp~s~~~~~~l~~lnL~~n~l~~lP~~~~~lknl~~LdlS~  123 (1081)
T KOG0618|consen   45 VKLKSLDLSNNQISSFPIQI-TLLSHLRQLNLSRNYIRSVPSSCSNMRNLQYLNLKNNRLQSLPASISELKNLQYLDLSF  123 (1081)
T ss_pred             eeeEEeeccccccccCCchh-hhHHHHhhcccchhhHhhCchhhhhhhcchhheeccchhhcCchhHHhhhcccccccch
Confidence            33555666655555555443 34555566666666665555555556666666666555555 55566666666666666


Q ss_pred             CCCcccCccccCCCCCCEEeCCCC-------------------cCCCCcChhhhcCCCCcCEEEccCCcCCccccccccC
Q 001457          610 SRIVELPNGIGTVSNLKLLDLSNN-------------------LFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANG  670 (1074)
Q Consensus       610 ~~i~~lp~~i~~L~~L~~L~l~~~-------------------~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~  670 (1074)
                      |.+..+|.-+..+..+..++.++|                   .....++.+ +..++.  .|++..|..          
T Consensus       124 N~f~~~Pl~i~~lt~~~~~~~s~N~~~~~lg~~~ik~~~l~~n~l~~~~~~~-i~~l~~--~ldLr~N~~----------  190 (1081)
T KOG0618|consen  124 NHFGPIPLVIEVLTAEEELAASNNEKIQRLGQTSIKKLDLRLNVLGGSFLID-IYNLTH--QLDLRYNEM----------  190 (1081)
T ss_pred             hccCCCchhHHhhhHHHHHhhhcchhhhhhccccchhhhhhhhhcccchhcc-hhhhhe--eeecccchh----------
Confidence            655555554444444444444444                   333333332 333333  355544321          


Q ss_pred             CCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCC-----CccceeEeccch-hhhHHHHHHH
Q 001457          671 QNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEI-----APKRSMHLKNLS-NSIASWVKLL  744 (1074)
Q Consensus       671 ~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~-----~~l~~l~l~~~~-~~~~~~~~~~  744 (1074)
                         ....+..+.+|+.+....+....+..    .-++|+.|+...|......     ..++.+.+.... ..+|+|+..+
T Consensus       191 ---~~~dls~~~~l~~l~c~rn~ls~l~~----~g~~l~~L~a~~n~l~~~~~~p~p~nl~~~dis~n~l~~lp~wi~~~  263 (1081)
T KOG0618|consen  191 ---EVLDLSNLANLEVLHCERNQLSELEI----SGPSLTALYADHNPLTTLDVHPVPLNLQYLDISHNNLSNLPEWIGAC  263 (1081)
T ss_pred             ---hhhhhhhccchhhhhhhhcccceEEe----cCcchheeeeccCcceeeccccccccceeeecchhhhhcchHHHHhc
Confidence               12345556666666655544322211    1245555555555332111     123333333332 4567787764


Q ss_pred             HhccceeeeccCCCcccccccccccCCCccEEEEeccccccccccCcccccccceeEEEeeec-----------------
Q 001457          745 LEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCY-----------------  807 (1074)
Q Consensus       745 ~~~L~~L~L~~~~~l~~~~~l~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~-----------------  807 (1074)
                       .+|+.+......- ..+|. .+....+|+.|.+..|.+....+.  ...+.+|++|++..+.                 
T Consensus       264 -~nle~l~~n~N~l-~~lp~-ri~~~~~L~~l~~~~nel~yip~~--le~~~sL~tLdL~~N~L~~lp~~~l~v~~~~l~  338 (1081)
T KOG0618|consen  264 -ANLEALNANHNRL-VALPL-RISRITSLVSLSAAYNELEYIPPF--LEGLKSLRTLDLQSNNLPSLPDNFLAVLNASLN  338 (1081)
T ss_pred             -ccceEecccchhH-HhhHH-HHhhhhhHHHHHhhhhhhhhCCCc--ccccceeeeeeehhccccccchHHHhhhhHHHH
Confidence             7777777654322 22211 111233344444444333322221  2233344444443321                 


Q ss_pred             -------ccceeecccccccccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcC
Q 001457          808 -------SLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGN  880 (1074)
Q Consensus       808 -------~l~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~  880 (1074)
                             .++..+..+     ...++.|+.|++.++ .|.+-  .+..+.++++|+.|++++ +.|..+ +...+.++..
T Consensus       339 ~ln~s~n~l~~lp~~~-----e~~~~~Lq~LylanN-~Ltd~--c~p~l~~~~hLKVLhLsy-NrL~~f-pas~~~kle~  408 (1081)
T KOG0618|consen  339 TLNVSSNKLSTLPSYE-----ENNHAALQELYLANN-HLTDS--CFPVLVNFKHLKVLHLSY-NRLNSF-PASKLRKLEE  408 (1081)
T ss_pred             HHhhhhcccccccccc-----chhhHHHHHHHHhcC-ccccc--chhhhccccceeeeeecc-cccccC-CHHHHhchHH
Confidence                   111111111     123778888888887 34331  224456889999999999 778876 4567789999


Q ss_pred             CCceecccccccceeeccchhhHhhhhhhcc-----ccccCCCCcccCCceEEEecccccccccccccccccccCccEEE
Q 001457          881 LEDLSILKCDLMEEIVSVDEAEVEQGAAQER-----NVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELT  955 (1074)
Q Consensus       881 L~~L~l~~c~~l~~i~~~~~~~~~~~~l~~l-----~l~~~~~~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~  955 (1074)
                      |++|.++| ++++.++.   ..+..+.++.+     .+.+.|.+..++.|+.++++ |++|+.+........ |+|++|+
T Consensus       409 LeeL~LSG-NkL~~Lp~---tva~~~~L~tL~ahsN~l~~fPe~~~l~qL~~lDlS-~N~L~~~~l~~~~p~-p~LkyLd  482 (1081)
T KOG0618|consen  409 LEELNLSG-NKLTTLPD---TVANLGRLHTLRAHSNQLLSFPELAQLPQLKVLDLS-CNNLSEVTLPEALPS-PNLKYLD  482 (1081)
T ss_pred             hHHHhccc-chhhhhhH---HHHhhhhhHHHhhcCCceeechhhhhcCcceEEecc-cchhhhhhhhhhCCC-cccceee
Confidence            99999999 45655542   12222322222     34455666667777777774 556655533222221 5677777


Q ss_pred             EeeccC
Q 001457          956 VASCNH  961 (1074)
Q Consensus       956 i~~C~~  961 (1074)
                      ++|...
T Consensus       483 lSGN~~  488 (1081)
T KOG0618|consen  483 LSGNTR  488 (1081)
T ss_pred             ccCCcc
Confidence            776553

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

Probab=99.54  E-value=1.9e-16  Score=145.00  Aligned_cols=165  Identities=29%  Similarity=0.398  Sum_probs=135.4

Q ss_pred             ccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCC-CccccCCC
Q 001457          522 TALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFG  600 (1074)
Q Consensus       522 ~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~-~~~i~~l~  600 (1074)
                      ..++....+++++.|.+++|.++.+|+.+ ..+.+|++|++++|++.++|.+++.++.||.|++.-|++.. |..++.++
T Consensus        24 ~~~~gLf~~s~ITrLtLSHNKl~~vppni-a~l~nlevln~~nnqie~lp~~issl~klr~lnvgmnrl~~lprgfgs~p  102 (264)
T KOG0617|consen   24 EELPGLFNMSNITRLTLSHNKLTVVPPNI-AELKNLEVLNLSNNQIEELPTSISSLPKLRILNVGMNRLNILPRGFGSFP  102 (264)
T ss_pred             hhcccccchhhhhhhhcccCceeecCCcH-HHhhhhhhhhcccchhhhcChhhhhchhhhheecchhhhhcCccccCCCc
Confidence            34444556778888889999888888875 78899999999999999999999999999999999998887 88999999


Q ss_pred             CccEEEeeCCCCc--ccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCcccc
Q 001457          601 ELEVLILKGSRIV--ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEV  678 (1074)
Q Consensus       601 ~L~~L~L~~~~i~--~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l  678 (1074)
                      .|++|||.+|++.  .+|..+..+..|+.|++++|.+ +.+|++ ++++++||.|.+..|..           -....++
T Consensus       103 ~levldltynnl~e~~lpgnff~m~tlralyl~dndf-e~lp~d-vg~lt~lqil~lrdndl-----------l~lpkei  169 (264)
T KOG0617|consen  103 ALEVLDLTYNNLNENSLPGNFFYMTTLRALYLGDNDF-EILPPD-VGKLTNLQILSLRDNDL-----------LSLPKEI  169 (264)
T ss_pred             hhhhhhccccccccccCCcchhHHHHHHHHHhcCCCc-ccCChh-hhhhcceeEEeeccCch-----------hhCcHHH
Confidence            9999999998776  7888888899999999998874 677877 89999999998877622           2344678


Q ss_pred             ccCcCCCEEEEeecCccccccC
Q 001457          679 ASLTRLTVLYIHVSNTKVLSVD  700 (1074)
Q Consensus       679 ~~l~~L~~L~l~~~~~~~~~~~  700 (1074)
                      +.+++|+.|++.+|....+|++
T Consensus       170 g~lt~lrelhiqgnrl~vlppe  191 (264)
T KOG0617|consen  170 GDLTRLRELHIQGNRLTVLPPE  191 (264)
T ss_pred             HHHHHHHHHhcccceeeecChh
Confidence            8888899998888876666554

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

Probab=99.42  E-value=4.3e-15  Score=136.18  Aligned_cols=149  Identities=24%  Similarity=0.415  Sum_probs=130.2

Q ss_pred             cCCCcEEeeccCCcccCCCC-CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeecc
Q 001457          508 LQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLE  586 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~  586 (1074)
                      +.++++|.++.|.+..+|.. ..+.+|++|.+++|.+..+|.++ +.++.||.|++.-|++..+|..|+.++-|++|||+
T Consensus        32 ~s~ITrLtLSHNKl~~vppnia~l~nlevln~~nnqie~lp~~i-ssl~klr~lnvgmnrl~~lprgfgs~p~levldlt  110 (264)
T KOG0617|consen   32 MSNITRLTLSHNKLTVVPPNIAELKNLEVLNLSNNQIEELPTSI-SSLPKLRILNVGMNRLNILPRGFGSFPALEVLDLT  110 (264)
T ss_pred             hhhhhhhhcccCceeecCCcHHHhhhhhhhhcccchhhhcChhh-hhchhhhheecchhhhhcCccccCCCchhhhhhcc
Confidence            56778888888988877654 67889999999999999998874 78999999999999999999999999999999999


Q ss_pred             CCCCCC---CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCc
Q 001457          587 NTHLND---ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSF  659 (1074)
Q Consensus       587 ~~~l~~---~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~  659 (1074)
                      +|++.+   |..+..++.|+.|+|+.|.+..+|..+++|++||.|.++.|. +-.+|.+ ++.++.|++|++.+|.
T Consensus       111 ynnl~e~~lpgnff~m~tlralyl~dndfe~lp~dvg~lt~lqil~lrdnd-ll~lpke-ig~lt~lrelhiqgnr  184 (264)
T KOG0617|consen  111 YNNLNENSLPGNFFYMTTLRALYLGDNDFEILPPDVGKLTNLQILSLRDND-LLSLPKE-IGDLTRLRELHIQGNR  184 (264)
T ss_pred             ccccccccCCcchhHHHHHHHHHhcCCCcccCChhhhhhcceeEEeeccCc-hhhCcHH-HHHHHHHHHHhcccce
Confidence            999877   888888899999999999999999999999999999999987 4567877 8999999999988874

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.41  E-value=3.3e-12  Score=152.14  Aligned_cols=128  Identities=26%  Similarity=0.364  Sum_probs=83.9

Q ss_pred             cEEeeccCCcccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCC
Q 001457          512 EKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLN  591 (1074)
Q Consensus       512 ~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~  591 (1074)
                      ..|+++++.+..+|... .++|+.|.+.+|.++.+|.    ..++|++|++++|.++.+|..   .++|+.|++++|.++
T Consensus       204 ~~LdLs~~~LtsLP~~l-~~~L~~L~L~~N~Lt~LP~----lp~~Lk~LdLs~N~LtsLP~l---p~sL~~L~Ls~N~L~  275 (788)
T PRK15387        204 AVLNVGESGLTTLPDCL-PAHITTLVIPDNNLTSLPA----LPPELRTLEVSGNQLTSLPVL---PPGLLELSIFSNPLT  275 (788)
T ss_pred             cEEEcCCCCCCcCCcch-hcCCCEEEccCCcCCCCCC----CCCCCcEEEecCCccCcccCc---ccccceeeccCCchh
Confidence            35667777776666532 2467778888777777764    256778888888877777653   356777788877776


Q ss_pred             C-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCC
Q 001457          592 D-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       592 ~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~  658 (1074)
                      . |..   ..+|+.|++++|+++.+|..   +++|+.|++++|.+ ..+|..    ..+|+.|++++|
T Consensus       276 ~Lp~l---p~~L~~L~Ls~N~Lt~LP~~---p~~L~~LdLS~N~L-~~Lp~l----p~~L~~L~Ls~N  332 (788)
T PRK15387        276 HLPAL---PSGLCKLWIFGNQLTSLPVL---PPGLQELSVSDNQL-ASLPAL----PSELCKLWAYNN  332 (788)
T ss_pred             hhhhc---hhhcCEEECcCCcccccccc---ccccceeECCCCcc-ccCCCC----cccccccccccC
Confidence            6 332   24577778888877777763   46778888877764 344431    234556666655

>PRK15387 E3 ubiquitin-protein ligase SspH2; Provisional

Probab=99.32  E-value=2.5e-11  Score=144.72  Aligned_cols=178  Identities=23%  Similarity=0.215  Sum_probs=125.1

Q ss_pred             CCCCccccCCCcEEeeccCCcccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccC
Q 001457          501 KGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKL  580 (1074)
Q Consensus       501 ~~~~~~~~~~~~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~L  580 (1074)
                      ..+|..-..+++.|++.+|.+..+|.  .+++|++|++++|.++.+|..    .++|+.|++++|.+..+|...   .+|
T Consensus       214 tsLP~~l~~~L~~L~L~~N~Lt~LP~--lp~~Lk~LdLs~N~LtsLP~l----p~sL~~L~Ls~N~L~~Lp~lp---~~L  284 (788)
T PRK15387        214 TTLPDCLPAHITTLVIPDNNLTSLPA--LPPELRTLEVSGNQLTSLPVL----PPGLLELSIFSNPLTHLPALP---SGL  284 (788)
T ss_pred             CcCCcchhcCCCEEEccCCcCCCCCC--CCCCCcEEEecCCccCcccCc----ccccceeeccCCchhhhhhch---hhc
Confidence            34443334678999999999988886  368999999999999888752    468899999999998887643   568


Q ss_pred             CeeeccCCCCCC-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCc
Q 001457          581 RSLHLENTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSF  659 (1074)
Q Consensus       581 r~L~L~~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~  659 (1074)
                      +.|++++|.++. |.   .+++|+.|++++|.+..+|...   .+|+.|++++|.+ ..+|.  +  ..+|++|++++|.
T Consensus       285 ~~L~Ls~N~Lt~LP~---~p~~L~~LdLS~N~L~~Lp~lp---~~L~~L~Ls~N~L-~~LP~--l--p~~Lq~LdLS~N~  353 (788)
T PRK15387        285 CKLWIFGNQLTSLPV---LPPGLQELSVSDNQLASLPALP---SELCKLWAYNNQL-TSLPT--L--PSGLQELSVSDNQ  353 (788)
T ss_pred             CEEECcCCccccccc---cccccceeECCCCccccCCCCc---ccccccccccCcc-ccccc--c--ccccceEecCCCc
Confidence            889999999888 54   2468999999999998888633   4577888888874 45664  1  2578899988873


Q ss_pred             CCccccccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEec
Q 001457          660 GDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVN  716 (1074)
Q Consensus       660 ~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~  716 (1074)
                      ... ++           .  ...+|+.|.++.|....++..    ..+|+.|++..|
T Consensus       354 Ls~-LP-----------~--lp~~L~~L~Ls~N~L~~LP~l----~~~L~~LdLs~N  392 (788)
T PRK15387        354 LAS-LP-----------T--LPSELYKLWAYNNRLTSLPAL----PSGLKELIVSGN  392 (788)
T ss_pred             cCC-CC-----------C--CCcccceehhhccccccCccc----ccccceEEecCC
Confidence            321 11           0  123566677776665544321    245666666554

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.32  E-value=4.4e-12  Score=152.29  Aligned_cols=134  Identities=24%  Similarity=0.409  Sum_probs=81.9

Q ss_pred             CcEEeeccCCcccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCC
Q 001457          511 CEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHL  590 (1074)
Q Consensus       511 ~~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l  590 (1074)
                      ...|.+.++.+..+|.. -.++++.|++++|.++.+|...+   .+|+.|++++|.++.+|..+.  .+|+.|+|++|.+
T Consensus       180 ~~~L~L~~~~LtsLP~~-Ip~~L~~L~Ls~N~LtsLP~~l~---~nL~~L~Ls~N~LtsLP~~l~--~~L~~L~Ls~N~L  253 (754)
T PRK15370        180 KTELRLKILGLTTIPAC-IPEQITTLILDNNELKSLPENLQ---GNIKTLYANSNQLTSIPATLP--DTIQEMELSINRI  253 (754)
T ss_pred             ceEEEeCCCCcCcCCcc-cccCCcEEEecCCCCCcCChhhc---cCCCEEECCCCccccCChhhh--ccccEEECcCCcc
Confidence            34566666666666542 12467777777777776666543   367777777777776666543  3577777777776


Q ss_pred             CC-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCC
Q 001457          591 ND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       591 ~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~  658 (1074)
                      .. |..+.  .+|++|++++|+++.+|..+.  .+|++|++++|.+ ..+|.. +.  ++|+.|++++|
T Consensus       254 ~~LP~~l~--s~L~~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~L-t~LP~~-lp--~sL~~L~Ls~N  314 (754)
T PRK15370        254 TELPERLP--SALQSLDLFHNKISCLPENLP--EELRYLSVYDNSI-RTLPAH-LP--SGITHLNVQSN  314 (754)
T ss_pred             CcCChhHh--CCCCEEECcCCccCccccccC--CCCcEEECCCCcc-ccCccc-ch--hhHHHHHhcCC
Confidence            66 54443  367777777777777766553  4677777777653 345543 21  35666666554

>KOG4658 consensus Apoptotic ATPase [Signal transduction mechanisms]

Probab=99.30  E-value=1.5e-12  Score=158.78  Aligned_cols=125  Identities=26%  Similarity=0.359  Sum_probs=84.8

Q ss_pred             CCCccEEEecCCccCCCCCCccCCccCCeeeccCCC--CCC--CccccCCCCccEEEeeCC-CCcccCccccCCCCCCEE
Q 001457          554 TREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH--LND--ASLIREFGELEVLILKGS-RIVELPNGIGTVSNLKLL  628 (1074)
Q Consensus       554 l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~--l~~--~~~i~~l~~L~~L~L~~~-~i~~lp~~i~~L~~L~~L  628 (1074)
                      ....|...+.++.+..++.+.. ++.|++|-+.+|.  +..  ...+..++.|++|||++| .+.+||.+|+.|-+||+|
T Consensus       522 ~~~~rr~s~~~~~~~~~~~~~~-~~~L~tLll~~n~~~l~~is~~ff~~m~~LrVLDLs~~~~l~~LP~~I~~Li~LryL  600 (889)
T KOG4658|consen  522 WNSVRRMSLMNNKIEHIAGSSE-NPKLRTLLLQRNSDWLLEISGEFFRSLPLLRVLDLSGNSSLSKLPSSIGELVHLRYL  600 (889)
T ss_pred             hhheeEEEEeccchhhccCCCC-CCccceEEEeecchhhhhcCHHHHhhCcceEEEECCCCCccCcCChHHhhhhhhhcc
Confidence            3445555555555555544432 2356666666664  333  333666788888888877 488999999999999999


Q ss_pred             eCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCccccccCcCCCEEEEee
Q 001457          629 DLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHV  691 (1074)
Q Consensus       629 ~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~  691 (1074)
                      +++++. ...+|.+ +++|+.|.+|++..+.....+          ...+..+.+|++|.+..
T Consensus       601 ~L~~t~-I~~LP~~-l~~Lk~L~~Lnl~~~~~l~~~----------~~i~~~L~~Lr~L~l~~  651 (889)
T KOG4658|consen  601 DLSDTG-ISHLPSG-LGNLKKLIYLNLEVTGRLESI----------PGILLELQSLRVLRLPR  651 (889)
T ss_pred             cccCCC-ccccchH-HHHHHhhheeccccccccccc----------cchhhhcccccEEEeec
Confidence            999998 5688988 999999999998765321111          12233477777777654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.27  E-value=5.6e-10  Score=143.62  Aligned_cols=273  Identities=13%  Similarity=0.180  Sum_probs=169.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecC-CcCHHHHHHHHHHHhccCCCc--------------chHHH
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTELEG--------------DVEVL  246 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~~~~--------------~~~~~  246 (1074)
                      ..+++.|+|++|.||||++......   ++.++|+++.. ..+...+...++..++.....              .....
T Consensus        31 ~~~~~~v~apaG~GKTtl~~~~~~~---~~~~~w~~l~~~d~~~~~f~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~  107 (903)
T PRK04841         31 NYRLVLVTSPAGYGKTTLISQWAAG---KNNLGWYSLDESDNQPERFASYLIAALQQATNGHCSKSEALAQKRQYASLSS  107 (903)
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHh---CCCeEEEecCcccCCHHHHHHHHHHHHHHhcCcccchhhhhhccCCcCCHHH
Confidence            3789999999999999999998764   23689999964 445566666666666421111              01112


Q ss_pred             HHHHHHHHHHc-cCeEEEEEcCcccccc--c-cccccCCCCCCCCeEEEEecCChhHH--hhc-cCCCeEeCC----CCC
Q 001457          247 RAAFLSERLKR-QKRVLIILDDLWGKLD--L-AVVGIPYGEEHKGCKIILTSRFKEVC--DEM-ESTNYVQVE----ELT  315 (1074)
Q Consensus       247 ~~~~l~~~l~~-~k~~LlVlDdv~~~~~--~-~~~~~~~~~~~~gs~iivTTR~~~v~--~~~-~~~~~~~l~----~L~  315 (1074)
                      ....+...+.. +.+++|||||+...++  . +.+..-+.....+.++|||||...-.  ... ......++.    +|+
T Consensus       108 ~~~~~~~~l~~~~~~~~lvlDD~h~~~~~~~~~~l~~l~~~~~~~~~lv~~sR~~~~~~~~~l~~~~~~~~l~~~~l~f~  187 (903)
T PRK04841        108 LFAQLFIELADWHQPLYLVIDDYHLITNPEIHEAMRFFLRHQPENLTLVVLSRNLPPLGIANLRVRDQLLEIGSQQLAFD  187 (903)
T ss_pred             HHHHHHHHHhcCCCCEEEEEeCcCcCCChHHHHHHHHHHHhCCCCeEEEEEeCCCCCCchHhHHhcCcceecCHHhCCCC
Confidence            22333333332 6899999999865421  1 12211112233467899999974211  111 112345555    999


Q ss_pred             HHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHHcCCChhHHHHHHHHHhhCCCCCCCCc-hHHHHHH
Q 001457          316 DEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGI-PEEVVLC  394 (1074)
Q Consensus       316 ~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~~~~-~~~~~~~  394 (1074)
                      .+|+.++|....+..    --.+...+|.+.|+|.|+++..++..++..+.. -......+        .+. ...+...
T Consensus       188 ~~e~~~ll~~~~~~~----~~~~~~~~l~~~t~Gwp~~l~l~~~~~~~~~~~-~~~~~~~~--------~~~~~~~~~~~  254 (903)
T PRK04841        188 HQEAQQFFDQRLSSP----IEAAESSRLCDDVEGWATALQLIALSARQNNSS-LHDSARRL--------AGINASHLSDY  254 (903)
T ss_pred             HHHHHHHHHhccCCC----CCHHHHHHHHHHhCChHHHHHHHHHHHhhCCCc-hhhhhHhh--------cCCCchhHHHH
Confidence            999999998876522    234557789999999999999998877543210 01111111        010 1334444


Q ss_pred             HH-HhhcCChhhHHHHHHhhcCCCCCCccchHHHHHHHhhhcccccccchhhhhhcHHHHHHHHHhccccc-cCC-CCcc
Q 001457          395 VA-LGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLL-EGD-RESC  471 (1074)
Q Consensus       395 l~-~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~~~~~~~l~~L~~~~ll~-~~~-~~~~  471 (1074)
                      +. -.|+.||++.+..+...|+++.   ++.+ +..     .+...        ..+...+++|.+.+++. ..+ ....
T Consensus       255 l~~~v~~~l~~~~~~~l~~~a~~~~---~~~~-l~~-----~l~~~--------~~~~~~L~~l~~~~l~~~~~~~~~~~  317 (903)
T PRK04841        255 LVEEVLDNVDLETRHFLLRCSVLRS---MNDA-LIV-----RVTGE--------ENGQMRLEELERQGLFIQRMDDSGEW  317 (903)
T ss_pred             HHHHHHhcCCHHHHHHHHHhccccc---CCHH-HHH-----HHcCC--------CcHHHHHHHHHHCCCeeEeecCCCCE
Confidence            33 3478999999999999999973   3322 221     11111        12246799999999864 333 3347


Q ss_pred             eeechhHHHHHHHHHh
Q 001457          472 FRIHDDTRKVVKYIAA  487 (1074)
Q Consensus       472 ~~mhdlv~~~~~~~~~  487 (1074)
                      |+.|++++++++....
T Consensus       318 yr~H~L~r~~l~~~l~  333 (903)
T PRK04841        318 FRYHPLFASFLRHRCQ  333 (903)
T ss_pred             EehhHHHHHHHHHHHH
Confidence            9999999999988753

>PRK15370 E3 ubiquitin-protein ligase SlrP; Provisional

Probab=99.25  E-value=4e-11  Score=144.14  Aligned_cols=186  Identities=22%  Similarity=0.321  Sum_probs=139.7

Q ss_pred             CCCccccCCCcEEeeccCCcccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCC
Q 001457          502 GWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLR  581 (1074)
Q Consensus       502 ~~~~~~~~~~~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr  581 (1074)
                      .+|..-.++++.|++.+|.+..+|.. ..++|+.|++++|.++.+|..+.   ..|+.|++++|.+..+|..+.  .+|+
T Consensus       192 sLP~~Ip~~L~~L~Ls~N~LtsLP~~-l~~nL~~L~Ls~N~LtsLP~~l~---~~L~~L~Ls~N~L~~LP~~l~--s~L~  265 (754)
T PRK15370        192 TIPACIPEQITTLILDNNELKSLPEN-LQGNIKTLYANSNQLTSIPATLP---DTIQEMELSINRITELPERLP--SALQ  265 (754)
T ss_pred             cCCcccccCCcEEEecCCCCCcCChh-hccCCCEEECCCCccccCChhhh---ccccEEECcCCccCcCChhHh--CCCC
Confidence            34432246789999999999988864 34699999999999999887543   479999999999999998765  5899


Q ss_pred             eeeccCCCCCC-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcC
Q 001457          582 SLHLENTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFG  660 (1074)
Q Consensus       582 ~L~L~~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~  660 (1074)
                      +|++++|.++. |..+.  .+|++|++++|+++.+|..+.  .+|++|++++|.+ ..+|.. +  .++|++|++++|..
T Consensus       266 ~L~Ls~N~L~~LP~~l~--~sL~~L~Ls~N~Lt~LP~~lp--~sL~~L~Ls~N~L-t~LP~~-l--~~sL~~L~Ls~N~L  337 (754)
T PRK15370        266 SLDLFHNKISCLPENLP--EELRYLSVYDNSIRTLPAHLP--SGITHLNVQSNSL-TALPET-L--PPGLKTLEAGENAL  337 (754)
T ss_pred             EEECcCCccCccccccC--CCCcEEECCCCccccCcccch--hhHHHHHhcCCcc-ccCCcc-c--cccceeccccCCcc
Confidence            99999999988 66554  589999999999999997654  4899999999975 456654 2  36889999888732


Q ss_pred             CccccccccCCCCCccccccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecC
Q 001457          661 DWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVND  717 (1074)
Q Consensus       661 ~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~  717 (1074)
                      .. ++          ..+  .++|+.|+++.|....++..+   .++|+.|++.+|.
T Consensus       338 t~-LP----------~~l--~~sL~~L~Ls~N~L~~LP~~l---p~~L~~LdLs~N~  378 (754)
T PRK15370        338 TS-LP----------ASL--PPELQVLDVSKNQITVLPETL---PPTITTLDVSRNA  378 (754)
T ss_pred             cc-CC----------hhh--cCcccEEECCCCCCCcCChhh---cCCcCEEECCCCc
Confidence            11 11          112  257888999888766555432   2467777766553

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

Probab=99.16  E-value=5.7e-09  Score=113.30  Aligned_cols=176  Identities=19%  Similarity=0.212  Sum_probs=114.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-c-CCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHH----HHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-E-IPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLS----ERLK  256 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~-~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~----~~l~  256 (1074)
                      .+++.|+|++|+||||+++.+++. . ..+ ..+|+ +....+..+++..|+..++..............+.    ....
T Consensus        43 ~~~~~l~G~~G~GKTtl~~~l~~~l~~~~~-~~~~~-~~~~~~~~~~l~~i~~~lG~~~~~~~~~~~~~~l~~~l~~~~~  120 (269)
T TIGR03015        43 EGFILITGEVGAGKTTLIRNLLKRLDQERV-VAAKL-VNTRVDAEDLLRMVAADFGLETEGRDKAALLRELEDFLIEQFA  120 (269)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHhcCCCCe-EEeee-eCCCCCHHHHHHHHHHHcCCCCCCCCHHHHHHHHHHHHHHHHh
Confidence            468999999999999999999988 3 221 22333 33445778889999998877654433333333333    3333


Q ss_pred             ccCeEEEEEcCccccc--cccccccCC---CCCCCCeEEEEecCChhHHhhcc----------CCCeEeCCCCCHHHHHH
Q 001457          257 RQKRVLIILDDLWGKL--DLAVVGIPY---GEEHKGCKIILTSRFKEVCDEME----------STNYVQVEELTDEDRLI  321 (1074)
Q Consensus       257 ~~k~~LlVlDdv~~~~--~~~~~~~~~---~~~~~gs~iivTTR~~~v~~~~~----------~~~~~~l~~L~~~~~~~  321 (1074)
                      .+++.+||+||++...  .++.+....   ........|++|.... ....+.          ....+++++++.+|..+
T Consensus       121 ~~~~~vliiDe~~~l~~~~~~~l~~l~~~~~~~~~~~~vvl~g~~~-~~~~l~~~~~~~l~~r~~~~~~l~~l~~~e~~~  199 (269)
T TIGR03015       121 AGKRALLVVDEAQNLTPELLEELRMLSNFQTDNAKLLQIFLVGQPE-FRETLQSPQLQQLRQRIIASCHLGPLDREETRE  199 (269)
T ss_pred             CCCCeEEEEECcccCCHHHHHHHHHHhCcccCCCCeEEEEEcCCHH-HHHHHcCchhHHHHhheeeeeeCCCCCHHHHHH
Confidence            5788999999998753  344432111   1222233556665433 211111          12467899999999999


Q ss_pred             HHHHhcCC---CCCCchhHHHHHHHHHHhCCChHHHHHHHHHH
Q 001457          322 LFKKKAGL---PEGTKAFDRAAEEVVRQCGKLPNAIVIIGTAL  361 (1074)
Q Consensus       322 lf~~~a~~---~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  361 (1074)
                      ++...+..   .....-..+..+.|++.++|.|..|..++..+
T Consensus       200 ~l~~~l~~~g~~~~~~~~~~~~~~i~~~s~G~p~~i~~l~~~~  242 (269)
T TIGR03015       200 YIEHRLERAGNRDAPVFSEGAFDAIHRFSRGIPRLINILCDRL  242 (269)
T ss_pred             HHHHHHHHcCCCCCCCcCHHHHHHHHHHcCCcccHHHHHHHHH
Confidence            98776641   11122345889999999999999999988876

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.

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

Probab=99.15  E-value=2.5e-12  Score=133.94  Aligned_cols=135  Identities=21%  Similarity=0.291  Sum_probs=100.0

Q ss_pred             CCCCCccccCCCcEEeeccCCcccCCCC--CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecC-CccCCCCC-Ccc
Q 001457          500 KKGWPREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS-TNISSLAP-SLP  575 (1074)
Q Consensus       500 ~~~~~~~~~~~~~~L~l~~~~~~~l~~~--~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~-~~~~~lp~-~i~  575 (1074)
                      ...+|.+-......+.+..|.|..+|..  ..+++||.|+|+.|.++.+.+..|.+++.|..|-+.+ |+|+.+|. .|+
T Consensus        58 L~eVP~~LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~F~  137 (498)
T KOG4237|consen   58 LTEVPANLPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGAFG  137 (498)
T ss_pred             cccCcccCCCcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhHhh
Confidence            3444443345667777878888887763  6678888888888888888888888888776666555 77888876 677


Q ss_pred             CCccCCeeeccCCCCCC--CccccCCCCccEEEeeCCCCcccCc-cccCCCCCCEEeCCCCc
Q 001457          576 CLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPN-GIGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       576 ~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~l~~~~  634 (1074)
                      +|..|+.|.+.-|++..  ...+..+++|..|.+..|.+..++. .+..+..++++.+..|.
T Consensus       138 gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~~q~i~~~tf~~l~~i~tlhlA~np  199 (498)
T KOG4237|consen  138 GLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNKIQSICKGTFQGLAAIKTLHLAQNP  199 (498)
T ss_pred             hHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchhhhhhccccccchhccchHhhhcCc
Confidence            78888888888887776  5667778888888888887777776 57777788887777665

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

Probab=99.12  E-value=3.5e-12  Score=132.94  Aligned_cols=137  Identities=25%  Similarity=0.389  Sum_probs=101.7

Q ss_pred             CcccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCC-CCCccCCccCCeeeccC-CCCCC--Ccc
Q 001457          520 NVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSL-APSLPCLEKLRSLHLEN-THLND--ASL  595 (1074)
Q Consensus       520 ~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~l-p~~i~~l~~Lr~L~L~~-~~l~~--~~~  595 (1074)
                      .+.++|.. -.+....+.|..|.++.+|+..|+.+++||.||||+|.|+.+ |..|..++.|-.|-+.+ |+|++  -..
T Consensus        57 GL~eVP~~-LP~~tveirLdqN~I~~iP~~aF~~l~~LRrLdLS~N~Is~I~p~AF~GL~~l~~Lvlyg~NkI~~l~k~~  135 (498)
T KOG4237|consen   57 GLTEVPAN-LPPETVEIRLDQNQISSIPPGAFKTLHRLRRLDLSKNNISFIAPDAFKGLASLLSLVLYGNNKITDLPKGA  135 (498)
T ss_pred             CcccCccc-CCCcceEEEeccCCcccCChhhccchhhhceecccccchhhcChHhhhhhHhhhHHHhhcCCchhhhhhhH
Confidence            34455541 124566788888999999999999999999999999998866 45788888876666555 77888  345


Q ss_pred             ccCCCCccEEEeeCCCCcccCc-cccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCC
Q 001457          596 IREFGELEVLILKGSRIVELPN-GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       596 i~~l~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~  658 (1074)
                      +++|..|+-|.+.-|++..++. .+..|++|..|.+.+|. ...++.+.+..+.+++++.+..|
T Consensus       136 F~gL~slqrLllNan~i~Cir~~al~dL~~l~lLslyDn~-~q~i~~~tf~~l~~i~tlhlA~n  198 (498)
T KOG4237|consen  136 FGGLSSLQRLLLNANHINCIRQDALRDLPSLSLLSLYDNK-IQSICKGTFQGLAAIKTLHLAQN  198 (498)
T ss_pred             hhhHHHHHHHhcChhhhcchhHHHHHHhhhcchhcccchh-hhhhccccccchhccchHhhhcC
Confidence            7788888888888888876654 47788888888888876 45566655777788888776554

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=99.11  E-value=1.8e-12  Score=136.23  Aligned_cols=269  Identities=18%  Similarity=0.204  Sum_probs=166.1

Q ss_pred             HHHHHHHhccceeeeccCCCccccccccc-ccCCCccEEEEecc-ccccccccCcccccccceeEEEeeecccceeeccc
Q 001457          739 SWVKLLLEKTEYLTLTRSSNLQDIGEIDV-QGFTGLMCMHLRAC-SMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLE  816 (1074)
Q Consensus       739 ~~~~~~~~~L~~L~L~~~~~l~~~~~l~~-~~l~~L~~L~L~~~-~~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~~  816 (1074)
                      ..+...++|+++|.+.+|..+++.....+ ..+++|++|.+..| .+++.........+++|++|++++|+.+..    .
T Consensus       157 rt~~~~CpnIehL~l~gc~~iTd~s~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~----~  232 (483)
T KOG4341|consen  157 RTFASNCPNIEHLALYGCKKITDSSLLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISG----N  232 (483)
T ss_pred             hHHhhhCCchhhhhhhcceeccHHHHHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhc----C
Confidence            34455789999999999998877643332 45889999999998 444444334567799999999999987654    2


Q ss_pred             ccccccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccccceee
Q 001457          817 DIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIV  896 (1074)
Q Consensus       817 ~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~i~  896 (1074)
                      ++.....+...|+.+.+.+|..++.-. -......++-+.++++..|..+++.........+..|+.|..++|..+.+.+
T Consensus       233 gv~~~~rG~~~l~~~~~kGC~e~~le~-l~~~~~~~~~i~~lnl~~c~~lTD~~~~~i~~~c~~lq~l~~s~~t~~~d~~  311 (483)
T KOG4341|consen  233 GVQALQRGCKELEKLSLKGCLELELEA-LLKAAAYCLEILKLNLQHCNQLTDEDLWLIACGCHALQVLCYSSCTDITDEV  311 (483)
T ss_pred             cchHHhccchhhhhhhhcccccccHHH-HHHHhccChHhhccchhhhccccchHHHHHhhhhhHhhhhcccCCCCCchHH
Confidence            233333446667778777876543210 0011245666777777788888776434445667888888888887765532


Q ss_pred             ccchhhHhhhhhhccccccCCCCcccCCceEEEecccccccccccccccccccCccEEEEeeccCcceeecccchhhccc
Q 001457          897 SVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAE  976 (1074)
Q Consensus       897 ~~~~~~~~~~~l~~l~l~~~~~~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~~~~~~~~~~  976 (1074)
                      -..-                  ..+.++|+.|-+.+|..+.+........+++.|+.+++.+|..+.+--       ...
T Consensus       312 l~aL------------------g~~~~~L~~l~l~~c~~fsd~~ft~l~rn~~~Le~l~~e~~~~~~d~t-------L~s  366 (483)
T KOG4341|consen  312 LWAL------------------GQHCHNLQVLELSGCQQFSDRGFTMLGRNCPHLERLDLEECGLITDGT-------LAS  366 (483)
T ss_pred             HHHH------------------hcCCCceEEEeccccchhhhhhhhhhhcCChhhhhhcccccceehhhh-------Hhh
Confidence            1100                  124577777777777777776655556677777777777776543320       112


Q ss_pred             CcccccccccccccccccccccccC---ccccccCCCccEEEEeCCCCCCCC-CCCCCCCcccccc
Q 001457          977 NKNVLPKLKILALEDLPELDSVYNG---EIAALRWPSLEELKVWDCPKLMKL-PLDTRSAPKLETF 1038 (1074)
Q Consensus       977 ~~~~l~~L~~L~l~~c~~L~~i~~~---~~~~~~~~~L~~L~i~~C~~L~~l-p~~~~~l~~L~~l 1038 (1074)
                      ...++|.|+.|.++.|..+++-...   .... +...|+.+.+.+||.++.- -.-+...+.|+.+
T Consensus       367 ls~~C~~lr~lslshce~itD~gi~~l~~~~c-~~~~l~~lEL~n~p~i~d~~Le~l~~c~~Leri  431 (483)
T KOG4341|consen  367 LSRNCPRLRVLSLSHCELITDEGIRHLSSSSC-SLEGLEVLELDNCPLITDATLEHLSICRNLERI  431 (483)
T ss_pred             hccCCchhccCChhhhhhhhhhhhhhhhhccc-cccccceeeecCCCCchHHHHHHHhhCccccee
Confidence            3446777777777777665554111   1111 2356777777777766431 1123344455544

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=99.11  E-value=2.6e-08  Score=114.55  Aligned_cols=285  Identities=18%  Similarity=0.126  Sum_probs=167.3

Q ss_pred             CcchHHHHHHHHHHHhcC--CCceeEEEEEcCCCCcHHHHHHHHHhh-cCC--CCeEEEEEecCCcCHHHHHHHHHHHhc
Q 001457          162 LKSALEVIKSVMKLLKDN--SISINIIGVYGSGGIGKTTLMKQVMKQ-EIP--FDKVIFVRVTQTPDVKRVQDEIARFLN  236 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~--~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~--F~~~~wv~vs~~~~~~~~~~~i~~~l~  236 (1074)
                      +.+|+++++++...+.+.  +.....+.|+|++|+|||++++.++++ ...  .-..+++++....+...++..|++++.
T Consensus        32 l~~Re~e~~~l~~~l~~~~~~~~~~~~lI~G~~GtGKT~l~~~v~~~l~~~~~~~~~v~in~~~~~~~~~~~~~i~~~l~  111 (394)
T PRK00411         32 LPHREEQIEELAFALRPALRGSRPLNVLIYGPPGTGKTTTVKKVFEELEEIAVKVVYVYINCQIDRTRYAIFSEIARQLF  111 (394)
T ss_pred             CCCHHHHHHHHHHHHHHHhCCCCCCeEEEECCCCCCHHHHHHHHHHHHHHhcCCcEEEEEECCcCCCHHHHHHHHHHHhc
Confidence            567999999888887432  222456789999999999999999998 332  234567777777778889999999886


Q ss_pred             cC-C--CcchHHHHHHHHHHHHH-ccCeEEEEEcCccccc------cccccccCCCCCCCCeE--EEEecCChhHHhhcc
Q 001457          237 TE-L--EGDVEVLRAAFLSERLK-RQKRVLIILDDLWGKL------DLAVVGIPYGEEHKGCK--IILTSRFKEVCDEME  304 (1074)
Q Consensus       237 ~~-~--~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~------~~~~~~~~~~~~~~gs~--iivTTR~~~v~~~~~  304 (1074)
                      .. .  .+.........+.+.+. .++..+||+|+++...      .+..+.... ....+++  ||.++....+.....
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~viviDE~d~l~~~~~~~~l~~l~~~~-~~~~~~~v~vI~i~~~~~~~~~l~  190 (394)
T PRK00411        112 GHPPPSSGLSFDELFDKIAEYLDERDRVLIVALDDINYLFEKEGNDVLYSLLRAH-EEYPGARIGVIGISSDLTFLYILD  190 (394)
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCHhHhhccCCchHHHHHHHhh-hccCCCeEEEEEEECCcchhhhcC
Confidence            52 1  12233455566666665 3466899999998632      222222111 1122333  566666554422211


Q ss_pred             -------CCCeEeCCCCCHHHHHHHHHHhcCC-----CCCCchhHHHHHHHHHHhCCChHHHHHHHHHH--c---CC---
Q 001457          305 -------STNYVQVEELTDEDRLILFKKKAGL-----PEGTKAFDRAAEEVVRQCGKLPNAIVIIGTAL--R---HK---  364 (1074)
Q Consensus       305 -------~~~~~~l~~L~~~~~~~lf~~~a~~-----~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l--~---~~---  364 (1074)
                             ....+.+++++.++..+++..++..     ......++.+++......|..+.|+.++-.+.  .   +.   
T Consensus       191 ~~~~s~~~~~~i~f~py~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~r~a~~ll~~a~~~a~~~~~~~I  270 (394)
T PRK00411        191 PRVKSVFRPEEIYFPPYTADEIFDILKDRVEEGFYPGVVDDEVLDLIADLTAREHGDARVAIDLLRRAGLIAEREGSRKV  270 (394)
T ss_pred             HHHHhcCCcceeecCCCCHHHHHHHHHHHHHhhcccCCCCHhHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHcCCCCc
Confidence                   1246789999999999999877631     11122233334434333566777877764432  1   11   


Q ss_pred             ChhHHHHHHHHHhhCCCCCCCCchHHHHHHHHHhhcCChhhHHHHHHhhc-CCC-CCCccchHHHHHH--Hhhhcccccc
Q 001457          365 PVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSC-LFP-PYYSVSMEEFVIH--GLVDRLFPQV  440 (1074)
Q Consensus       365 ~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cf~~~s-~fp-~~~~i~~~~li~~--wia~g~i~~~  440 (1074)
                      +.++...+.+...              .....-.+..||.+.|..+..++ ... ....+...++...  .+++.+-...
T Consensus       271 ~~~~v~~a~~~~~--------------~~~~~~~~~~L~~~~k~~L~ai~~~~~~~~~~~~~~~i~~~y~~l~~~~~~~~  336 (394)
T PRK00411        271 TEEDVRKAYEKSE--------------IVHLSEVLRTLPLHEKLLLRAIVRLLKKGGDEVTTGEVYEEYKELCEELGYEP  336 (394)
T ss_pred             CHHHHHHHHHHHH--------------HHHHHHHHhcCCHHHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHHHHcCCCc
Confidence            3455655555331              12234567899998887665443 222 1134555555533  2222211111


Q ss_pred             cchhhhhhcHHHHHHHHHhcccccc
Q 001457          441 GLLGEVGNRVHPVVLRLISSSLLLE  465 (1074)
Q Consensus       441 ~~~~~~~~~~~~~l~~L~~~~ll~~  465 (1074)
                      -+.    .....|+++|...|+|..
T Consensus       337 ~~~----~~~~~~l~~L~~~glI~~  357 (394)
T PRK00411        337 RTH----TRFYEYINKLDMLGIINT  357 (394)
T ss_pred             CcH----HHHHHHHHHHHhcCCeEE
Confidence            111    234569999999999853

>PF05729 NACHT: NACHT domain

Probab=99.06  E-value=1e-09  Score=109.52  Aligned_cols=139  Identities=26%  Similarity=0.345  Sum_probs=89.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCC-----CCeEEEEEecCCcCHH---HHHHHHHHHhccCCCcchHHHHHHHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIP-----FDKVIFVRVTQTPDVK---RVQDEIARFLNTELEGDVEVLRAAFLSE  253 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~-----F~~~~wv~vs~~~~~~---~~~~~i~~~l~~~~~~~~~~~~~~~l~~  253 (1074)
                      |++.|+|.+|+||||+++.++.+  ..+     +...+|+..+......   .+...|..+.........+     .+..
T Consensus         1 r~l~I~G~~G~GKStll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~-----~~~~   75 (166)
T PF05729_consen    1 RVLWISGEPGSGKSTLLRKLAQQLAEEEPPPSKFPYPFFFSLRDISDSNNSRSLADLLFDQLPESIAPIEE-----LLQE   75 (166)
T ss_pred             CEEEEECCCCCChHHHHHHHHHHHHhcCcccccceEEEEEeehhhhhccccchHHHHHHHhhccchhhhHH-----HHHH
Confidence            58999999999999999999988  222     4566777766544332   3444444443322111111     2233


Q ss_pred             HHHccCeEEEEEcCcccccc---------ccccccCCCC--CCCCeEEEEecCChhH---HhhccCCCeEeCCCCCHHHH
Q 001457          254 RLKRQKRVLIILDDLWGKLD---------LAVVGIPYGE--EHKGCKIILTSRFKEV---CDEMESTNYVQVEELTDEDR  319 (1074)
Q Consensus       254 ~l~~~k~~LlVlDdv~~~~~---------~~~~~~~~~~--~~~gs~iivTTR~~~v---~~~~~~~~~~~l~~L~~~~~  319 (1074)
                      .....++++||+|++++...         +..+...+..  ..++++||||+|....   .........+++.+|++++.
T Consensus        76 ~~~~~~~~llilDglDE~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~liit~r~~~~~~~~~~~~~~~~~~l~~~~~~~~  155 (166)
T PF05729_consen   76 LLEKNKRVLLILDGLDELEEQDQSQERQRLLDLLSQLLPQALPPGVKLIITSRPRAFPDLRRRLKQAQILELEPFSEEDI  155 (166)
T ss_pred             HHHcCCceEEEEechHhcccchhhhHHHHHHHHHHHHhhhccCCCCeEEEEEcCChHHHHHHhcCCCcEEEECCCCHHHH
Confidence            33457999999999886422         1121111111  2468999999998877   33344446899999999999


Q ss_pred             HHHHHHhc
Q 001457          320 LILFKKKA  327 (1074)
Q Consensus       320 ~~lf~~~a  327 (1074)
                      .+++.++.
T Consensus       156 ~~~~~~~f  163 (166)
T PF05729_consen  156 KQYLRKYF  163 (166)
T ss_pred             HHHHHHHh
Confidence            99998775

>KOG4341 consensus F-box protein containing LRR [General function prediction only]

Probab=98.99  E-value=9.9e-12  Score=130.83  Aligned_cols=260  Identities=17%  Similarity=0.188  Sum_probs=147.6

Q ss_pred             HHHHHHHHhccceeeeccCCCccccccc-ccccCCCccEEEEeccc-cccccccCcccccccceeEEEeeecccceeecc
Q 001457          738 ASWVKLLLEKTEYLTLTRSSNLQDIGEI-DVQGFTGLMCMHLRACS-MQRIFHSNFYPTVQILEELHVEYCYSLKEVFCL  815 (1074)
Q Consensus       738 ~~~~~~~~~~L~~L~L~~~~~l~~~~~l-~~~~l~~L~~L~L~~~~-~~~~~~~~~~~~l~~L~~L~l~~~~~l~~~~~~  815 (1074)
                      ...+...|+++++|++..|..+++..-. -..++++|++|.++.|. +...-.......+..|+.+..++|...+    +
T Consensus       182 ~~sla~~C~~l~~l~L~~c~~iT~~~Lk~la~gC~kL~~lNlSwc~qi~~~gv~~~~rG~~~l~~~~~kGC~e~~----l  257 (483)
T KOG4341|consen  182 LLSLARYCRKLRHLNLHSCSSITDVSLKYLAEGCRKLKYLNLSWCPQISGNGVQALQRGCKELEKLSLKGCLELE----L  257 (483)
T ss_pred             HHHHHHhcchhhhhhhcccchhHHHHHHHHHHhhhhHHHhhhccCchhhcCcchHHhccchhhhhhhhccccccc----H
Confidence            3344456667777777766666655221 23456777777777662 2221111123445556666555654331    1


Q ss_pred             cccccccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceeccccccccee
Q 001457          816 EDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEI  895 (1074)
Q Consensus       816 ~~~~~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~i  895 (1074)
                      +.+....+..+-+.++++..|..+++.. ...-...+..|+.|..++|..+.+.....+.++.++|+.|.+++|...++.
T Consensus       258 e~l~~~~~~~~~i~~lnl~~c~~lTD~~-~~~i~~~c~~lq~l~~s~~t~~~d~~l~aLg~~~~~L~~l~l~~c~~fsd~  336 (483)
T KOG4341|consen  258 EALLKAAAYCLEILKLNLQHCNQLTDED-LWLIACGCHALQVLCYSSCTDITDEVLWALGQHCHNLQVLELSGCQQFSDR  336 (483)
T ss_pred             HHHHHHhccChHhhccchhhhccccchH-HHHHhhhhhHhhhhcccCCCCCchHHHHHHhcCCCceEEEeccccchhhhh
Confidence            1112222335555666666665555421 111223566777777777777766654455567777888888777765543


Q ss_pred             eccchhhHhhhhhhccccccCCCCcccCCceEEEecccccccccccccccccccCccEEEEeeccCcceeecccchhhcc
Q 001457          896 VSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAA  975 (1074)
Q Consensus       896 ~~~~~~~~~~~~l~~l~l~~~~~~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~~~~~~~~~  975 (1074)
                      -...                  --.+++.|+.+++.+|....+....+...++|.|+.|.+++|..+++-..    ....
T Consensus       337 ~ft~------------------l~rn~~~Le~l~~e~~~~~~d~tL~sls~~C~~lr~lslshce~itD~gi----~~l~  394 (483)
T KOG4341|consen  337 GFTM------------------LGRNCPHLERLDLEECGLITDGTLASLSRNCPRLRVLSLSHCELITDEGI----RHLS  394 (483)
T ss_pred             hhhh------------------hhcCChhhhhhcccccceehhhhHhhhccCCchhccCChhhhhhhhhhhh----hhhh
Confidence            1100                  01256777777777777766654444566777888888887776654310    0011


Q ss_pred             cCcccccccccccccccccccccccCccccccCCCccEEEEeCCCCCCCCC
Q 001457          976 ENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCPKLMKLP 1026 (1074)
Q Consensus       976 ~~~~~l~~L~~L~l~~c~~L~~i~~~~~~~~~~~~L~~L~i~~C~~L~~lp 1026 (1074)
                      ....+...|..|.+.+||.+++-....+.  .|++||.+++.+|...++-|
T Consensus       395 ~~~c~~~~l~~lEL~n~p~i~d~~Le~l~--~c~~Leri~l~~~q~vtk~~  443 (483)
T KOG4341|consen  395 SSSCSLEGLEVLELDNCPLITDATLEHLS--ICRNLERIELIDCQDVTKEA  443 (483)
T ss_pred             hccccccccceeeecCCCCchHHHHHHHh--hCcccceeeeechhhhhhhh
Confidence            22344556777778888777665544333  46788888888887776644

>TIGR02928 orc1/cdc6 family replication initiation protein

Probab=98.98  E-value=3.2e-07  Score=104.46  Aligned_cols=286  Identities=16%  Similarity=0.077  Sum_probs=164.9

Q ss_pred             CcchHHHHHHHHHHHhcC--CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCC------CeEEEEEecCCcCHHHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKDN--SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF------DKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~--~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F------~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +.||+++++++...+.+.  +.....+.|+|++|+|||++++.++++ ....      -..+|+++....+...++..|+
T Consensus        17 l~gRe~e~~~l~~~l~~~~~~~~~~~i~I~G~~GtGKT~l~~~~~~~l~~~~~~~~~~~~~v~in~~~~~~~~~~~~~i~   96 (365)
T TIGR02928        17 IVHRDEQIEELAKALRPILRGSRPSNVFIYGKTGTGKTAVTKYVMKELEEAAEDRDVRVVTVYVNCQILDTLYQVLVELA   96 (365)
T ss_pred             CCCcHHHHHHHHHHHHHHHcCCCCCcEEEECCCCCCHHHHHHHHHHHHHHHhhccCCceEEEEEECCCCCCHHHHHHHHH
Confidence            568999999999887641  122467899999999999999999987 2111      1356788777777788999999


Q ss_pred             HHhc---cCCC--cchHHHHHHHHHHHHH-ccCeEEEEEcCccccc-c----ccccccCC-CCCC--CCeEEEEecCChh
Q 001457          233 RFLN---TELE--GDVEVLRAAFLSERLK-RQKRVLIILDDLWGKL-D----LAVVGIPY-GEEH--KGCKIILTSRFKE  298 (1074)
Q Consensus       233 ~~l~---~~~~--~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~-~----~~~~~~~~-~~~~--~gs~iivTTR~~~  298 (1074)
                      .++.   ....  +.+.......+.+.+. .+++++||+|+++... .    +..+.... ....  ....+|.+|....
T Consensus        97 ~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~vlvIDE~d~L~~~~~~~L~~l~~~~~~~~~~~~~v~lI~i~n~~~  176 (365)
T TIGR02928        97 NQLRGSGEEVPTTGLSTSEVFRRLYKELNERGDSLIIVLDEIDYLVGDDDDLLYQLSRARSNGDLDNAKVGVIGISNDLK  176 (365)
T ss_pred             HHHhhcCCCCCCCCCCHHHHHHHHHHHHHhcCCeEEEEECchhhhccCCcHHHHhHhccccccCCCCCeEEEEEEECCcc
Confidence            9883   3221  1223344455555553 3578899999998651 1    12221110 1111  2334555554443


Q ss_pred             HHhhcc-------CCCeEeCCCCCHHHHHHHHHHhcC---C-CCCCchhHHHHHHHHHHhCCChHH-HHHHHHHH----c
Q 001457          299 VCDEME-------STNYVQVEELTDEDRLILFKKKAG---L-PEGTKAFDRAAEEVVRQCGKLPNA-IVIIGTAL----R  362 (1074)
Q Consensus       299 v~~~~~-------~~~~~~l~~L~~~~~~~lf~~~a~---~-~~~~~~~~~~~~~i~~~c~glPLa-i~~~~~~l----~  362 (1074)
                      ....+.       ....+.+++.+.++-.+++..++.   . ..-.++..+...+++....|-|-. +.++-...    .
T Consensus       177 ~~~~l~~~~~s~~~~~~i~f~p~~~~e~~~il~~r~~~~~~~~~~~~~~l~~i~~~~~~~~Gd~R~al~~l~~a~~~a~~  256 (365)
T TIGR02928       177 FRENLDPRVKSSLCEEEIIFPPYDAEELRDILENRAEKAFYDGVLDDGVIPLCAALAAQEHGDARKAIDLLRVAGEIAER  256 (365)
T ss_pred             hHhhcCHHHhccCCcceeeeCCCCHHHHHHHHHHHHHhhccCCCCChhHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHH
Confidence            211111       124688999999999999987763   1 112233334555677777788843 33322211    1


Q ss_pred             -CC---ChhHHHHHHHHHhhCCCCCCCCchHHHHHHHHHhhcCChhhHHHHHHhhcCC--CCCCccchHHHHHHHh--hh
Q 001457          363 -HK---PVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLF--PPYYSVSMEEFVIHGL--VD  434 (1074)
Q Consensus       363 -~~---~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cf~~~s~f--p~~~~i~~~~li~~wi--a~  434 (1074)
                       +.   +.+....+.+.+.              .....-++..||.+.|..+..+...  .++..+...++...+-  ++
T Consensus       257 ~~~~~it~~~v~~a~~~~~--------------~~~~~~~i~~l~~~~~~~l~ai~~~~~~~~~~~~~~~~~~~y~~~~~  322 (365)
T TIGR02928       257 EGAERVTEDHVEKAQEKIE--------------KDRLLELIRGLPTHSKLVLLAIANLAANDEDPFRTGEVYEVYKEVCE  322 (365)
T ss_pred             cCCCCCCHHHHHHHHHHHH--------------HHHHHHHHHcCCHHHHHHHHHHHHHHhcCCCCccHHHHHHHHHHHHH
Confidence             11   3444444444321              1223445678998888665544311  1445567777766332  22


Q ss_pred             cccccccchhhhhhcHHHHHHHHHhcccccc
Q 001457          435 RLFPQVGLLGEVGNRVHPVVLRLISSSLLLE  465 (1074)
Q Consensus       435 g~i~~~~~~~~~~~~~~~~l~~L~~~~ll~~  465 (1074)
                      .+-....+    ......+++.|...|++..
T Consensus       323 ~~~~~~~~----~~~~~~~l~~l~~~gli~~  349 (365)
T TIGR02928       323 DIGVDPLT----QRRISDLLNELDMLGLVEA  349 (365)
T ss_pred             hcCCCCCc----HHHHHHHHHHHHhcCCeEE
Confidence            11111111    2344578999999999853

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.

>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=98.97  E-value=2.9e-09  Score=113.16  Aligned_cols=192  Identities=17%  Similarity=0.228  Sum_probs=102.8

Q ss_pred             CcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHH---------H
Q 001457          162 LKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDE---------I  231 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~---------i  231 (1074)
                      +.||++++++|.+.+..+.  .+.+.|+|+.|+|||+|++.+.+. +..-..++|+...+......+...         +
T Consensus         1 F~gR~~el~~l~~~l~~~~--~~~~~l~G~rg~GKTsLl~~~~~~~~~~~~~~~y~~~~~~~~~~~~~~~~~~~~~~~~l   78 (234)
T PF01637_consen    1 FFGREKELEKLKELLESGP--SQHILLYGPRGSGKTSLLKEFINELKEKGYKVVYIDFLEESNESSLRSFIEETSLADEL   78 (234)
T ss_dssp             S-S-HHHHHHHHHCHHH----SSEEEEEESTTSSHHHHHHHHHHHCT--EECCCHHCCTTBSHHHHHHHHHHHHHHHCHC
T ss_pred             CCCHHHHHHHHHHHHHhhc--CcEEEEEcCCcCCHHHHHHHHHHHhhhcCCcEEEEecccchhhhHHHHHHHHHHHHHHH
Confidence            4689999999999888765  678999999999999999999998 222124455544443322221111         1


Q ss_pred             HHHhccCCC-----------cchHHHHHHHHHHHHH-ccCeEEEEEcCccccc-ccc-------cc---ccCCCCCCCCe
Q 001457          232 ARFLNTELE-----------GDVEVLRAAFLSERLK-RQKRVLIILDDLWGKL-DLA-------VV---GIPYGEEHKGC  288 (1074)
Q Consensus       232 ~~~l~~~~~-----------~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~-~~~-------~~---~~~~~~~~~gs  288 (1074)
                      ...+.....           ..........+.+.+. .+++.+||+||+.... ...       .+   ...... ...-
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~l~~~~~~~iiviDe~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~~  157 (234)
T PF01637_consen   79 SEALGISIPSITLEKISKDLSEDSFSALERLLEKLKKKGKKVIIVIDEFQYLAIASEEDKDFLKSLRSLLDSLLS-QQNV  157 (234)
T ss_dssp             HHHHHHHCCTSTTEEEECTS-GG-G--HHHHHHHHHHCHCCEEEEEETGGGGGBCTTTTHHHHHHHHHHHHH-----TTE
T ss_pred             HHHHhhhcccccchhhhhcchhhHHHHHHHHHHHHHhcCCcEEEEEecHHHHhhcccchHHHHHHHHHHHhhccc-cCCc
Confidence            122221110           1111233334444443 3566999999987654 111       11   111112 2334


Q ss_pred             EEEEecCChhHHhh--------ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHH
Q 001457          289 KIILTSRFKEVCDE--------MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVI  356 (1074)
Q Consensus       289 ~iivTTR~~~v~~~--------~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~  356 (1074)
                      .+|+++....+...        .+....+.+++|+.+++++++...+.....-+.-.+..++|...+||.|..|..
T Consensus       158 ~~v~~~S~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~e~~~~~~~~~~~~~~~~~~~~~~~~i~~~~gG~P~~l~~  233 (234)
T PF01637_consen  158 SIVITGSSDSLMEEFLDDKSPLFGRFSHIELKPLSKEEAREFLKELFKELIKLPFSDEDIEEIYSLTGGNPRYLQE  233 (234)
T ss_dssp             EEEEEESSHHHHHHTT-TTSTTTT---EEEE----HHHHHHHHHHHHHCC------HHHHHHHHHHHTT-HHHHHH
T ss_pred             eEEEECCchHHHHHhhcccCccccccceEEEeeCCHHHHHHHHHHHHHHhhcccCCHHHHHHHHHHhCCCHHHHhc
Confidence            45555554544332        223346999999999999999987653311122456679999999999987753

; GO: 0005524 ATP binding; PDB: 2FNA_A 2QEN_A.

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.93  E-value=7e-10  Score=108.33  Aligned_cols=133  Identities=26%  Similarity=0.383  Sum_probs=43.6

Q ss_pred             cccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCC-Cccc-cC
Q 001457          521 VTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLI-RE  598 (1074)
Q Consensus       521 ~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~-~~~i-~~  598 (1074)
                      +...+...++.+++.|++.+|.++.+.. .-..+.+|++|++++|.++.+. .+..+++|+.|++++|.|+. .+.+ ..
T Consensus         9 i~~~~~~~n~~~~~~L~L~~n~I~~Ie~-L~~~l~~L~~L~Ls~N~I~~l~-~l~~L~~L~~L~L~~N~I~~i~~~l~~~   86 (175)
T PF14580_consen    9 IEQIAQYNNPVKLRELNLRGNQISTIEN-LGATLDKLEVLDLSNNQITKLE-GLPGLPRLKTLDLSNNRISSISEGLDKN   86 (175)
T ss_dssp             ---------------------------S---TT-TT--EEE-TTS--S--T-T----TT--EEE--SS---S-CHHHHHH
T ss_pred             cccccccccccccccccccccccccccc-hhhhhcCCCEEECCCCCCcccc-CccChhhhhhcccCCCCCCccccchHHh
Confidence            3444444455566777777776665543 1124567777777777777664 46667777777777777776 3334 35


Q ss_pred             CCCccEEEeeCCCCcccCc--cccCCCCCCEEeCCCCcCCCCc--ChhhhcCCCCcCEEEc
Q 001457          599 FGELEVLILKGSRIVELPN--GIGTVSNLKLLDLSNNLFLQVI--PPNVISKLSQLEELYV  655 (1074)
Q Consensus       599 l~~L~~L~L~~~~i~~lp~--~i~~L~~L~~L~l~~~~~~~~~--p~~~i~~L~~L~~L~l  655 (1074)
                      +++|++|++++|+|..+..  .+..+++|++|++.+|++...-  -..++..+++|+.|+-
T Consensus        87 lp~L~~L~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~~~~~YR~~vi~~lP~Lk~LD~  147 (175)
T PF14580_consen   87 LPNLQELYLSNNKISDLNELEPLSSLPKLRVLSLEGNPVCEKKNYRLFVIYKLPSLKVLDG  147 (175)
T ss_dssp             -TT--EEE-TTS---SCCCCGGGGG-TT--EEE-TT-GGGGSTTHHHHHHHH-TT-SEETT
T ss_pred             CCcCCEEECcCCcCCChHHhHHHHcCCCcceeeccCCcccchhhHHHHHHHHcChhheeCC
Confidence            7777777777777665432  3567778888888877754321  1234677888888873

>TIGR00635 ruvB Holliday junction DNA helicase, RuvB subunit

Probab=98.90  E-value=6.6e-08  Score=106.88  Aligned_cols=272  Identities=14%  Similarity=0.127  Sum_probs=150.2

Q ss_pred             cccCcchHHHHHHHHHHHhcC---CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHH
Q 001457          159 FVPLKSALEVIKSVMKLLKDN---SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l~~~---~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~  234 (1074)
                      +..+.|+++.++.+..++...   ......+.++|++|+|||+||+.+.+. ...|.   .+..+....... +...+..
T Consensus         3 ~~~~iG~~~~~~~l~~~l~~~~~~~~~~~~~ll~Gp~G~GKT~la~~ia~~~~~~~~---~~~~~~~~~~~~-l~~~l~~   78 (305)
T TIGR00635         3 LAEFIGQEKVKEQLQLFIEAAKMRQEALDHLLLYGPPGLGKTTLAHIIANEMGVNLK---ITSGPALEKPGD-LAAILTN   78 (305)
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHhCCCEE---EeccchhcCchh-HHHHHHh
Confidence            345678888888877776531   223567889999999999999999988 43321   222111111222 2222233


Q ss_pred             hccCC----Cc--chHHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHhhcc--CC
Q 001457          235 LNTEL----EG--DVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEME--ST  306 (1074)
Q Consensus       235 l~~~~----~~--~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~--~~  306 (1074)
                      ++...    ++  .-.......+...+. +.+..+|+|+..+...+..   +++   +.+-|.+||+...+.....  ..
T Consensus        79 ~~~~~vl~iDEi~~l~~~~~e~l~~~~~-~~~~~~v~~~~~~~~~~~~---~~~---~~~li~~t~~~~~l~~~l~sR~~  151 (305)
T TIGR00635        79 LEEGDVLFIDEIHRLSPAVEELLYPAME-DFRLDIVIGKGPSARSVRL---DLP---PFTLVGATTRAGMLTSPLRDRFG  151 (305)
T ss_pred             cccCCEEEEehHhhhCHHHHHHhhHHHh-hhheeeeeccCccccceee---cCC---CeEEEEecCCccccCHHHHhhcc
Confidence            32111    00  001122233444453 4566677777666555432   222   2566777888765533221  13


Q ss_pred             CeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHHcCCChhHHHHHHHHHhhCCCCCCCC
Q 001457          307 NYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEG  386 (1074)
Q Consensus       307 ~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~~~  386 (1074)
                      ..+++++++.++..+++.+.+... ...-..+....|++.|+|.|-.+..++..+       |..+.. .. ..... .+
T Consensus       152 ~~~~l~~l~~~e~~~il~~~~~~~-~~~~~~~al~~ia~~~~G~pR~~~~ll~~~-------~~~a~~-~~-~~~it-~~  220 (305)
T TIGR00635       152 IILRLEFYTVEELAEIVSRSAGLL-NVEIEPEAALEIARRSRGTPRIANRLLRRV-------RDFAQV-RG-QKIIN-RD  220 (305)
T ss_pred             eEEEeCCCCHHHHHHHHHHHHHHh-CCCcCHHHHHHHHHHhCCCcchHHHHHHHH-------HHHHHH-cC-CCCcC-HH
Confidence            468999999999999999887621 122235677889999999996655444422       211110 00 00000 00


Q ss_pred             chHHHHHHHHHhhcCChhhHHHHHH-hhcCCCCCCccchHHHHHHHhhhcccccccchhhhhhcHHHHHH-HHHhccccc
Q 001457          387 IPEEVVLCVALGYDQLETVAKSCLQ-FSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVL-RLISSSLLL  464 (1074)
Q Consensus       387 ~~~~~~~~l~~sy~~L~~~~k~cf~-~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~~~~~~~l~-~L~~~~ll~  464 (1074)
                      .-......+...|..++++.+..+. ....++.+ .+..+.+....   |  .+       ...+...++ .|++++|++
T Consensus       221 ~v~~~l~~l~~~~~~l~~~~~~~L~al~~~~~~~-~~~~~~ia~~l---g--~~-------~~~~~~~~e~~Li~~~li~  287 (305)
T TIGR00635       221 IALKALEMLMIDELGLDEIDRKLLSVLIEQFQGG-PVGLKTLAAAL---G--ED-------ADTIEDVYEPYLLQIGFLQ  287 (305)
T ss_pred             HHHHHHHHhCCCCCCCCHHHHHHHHHHHHHhCCC-cccHHHHHHHh---C--CC-------cchHHHhhhHHHHHcCCcc
Confidence            1133344466778889998877666 55667543 45544443222   1  11       112334567 699999996


Q ss_pred             c
Q 001457          465 E  465 (1074)
Q Consensus       465 ~  465 (1074)
                      .
T Consensus       288 ~  288 (305)
T TIGR00635       288 R  288 (305)
T ss_pred             c
Confidence            3

RuvA specifically binds Holliday junctions as a sandwich of two tetramers and maintains the configuration of the junction. It forms a complex with two hexameric rings of RuvB, the subunit that contains helicase activity. The complex drives ATP-dependent branch migration of the Holliday junction recombination intermediate. The endonuclease RuvC resolves junctions.

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=98.89  E-value=1.4e-07  Score=109.43  Aligned_cols=285  Identities=15%  Similarity=0.162  Sum_probs=177.1

Q ss_pred             HHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCC-cCHHHHHHHHHHHhccCCCcchH-----
Q 001457          171 SVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQT-PDVKRVQDEIARFLNTELEGDVE-----  244 (1074)
Q Consensus       171 ~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~~~~~~~~~-----  244 (1074)
                      .+++.|... .+.+.+.|..++|.|||||+.+.......-..+.|+++.+. .+...+..-++..++...+...+     
T Consensus        26 rL~~~L~~~-~~~RL~li~APAGfGKttl~aq~~~~~~~~~~v~Wlslde~dndp~rF~~yLi~al~~~~p~~~~~a~~l  104 (894)
T COG2909          26 RLLDRLRRA-NDYRLILISAPAGFGKTTLLAQWRELAADGAAVAWLSLDESDNDPARFLSYLIAALQQATPTLGDEAQTL  104 (894)
T ss_pred             HHHHHHhcC-CCceEEEEeCCCCCcHHHHHHHHHHhcCcccceeEeecCCccCCHHHHHHHHHHHHHHhCccccHHHHHH
Confidence            455555544 23899999999999999999988765333356899999864 46777888887777643332221     


Q ss_pred             ---------HHHHHHHHHHHH-ccCeEEEEEcCcc---ccccccccccCCCCCCCCeEEEEecCChhHHhh---ccCCCe
Q 001457          245 ---------VLRAAFLSERLK-RQKRVLIILDDLW---GKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDE---MESTNY  308 (1074)
Q Consensus       245 ---------~~~~~~l~~~l~-~~k~~LlVlDdv~---~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~---~~~~~~  308 (1074)
                               ......+...+. -.++..+||||-.   +..--..+..-+.....+-..|||||+..-...   --....
T Consensus       105 ~q~~~~~~l~~l~~~L~~Ela~~~~pl~LVlDDyHli~~~~l~~~l~fLl~~~P~~l~lvv~SR~rP~l~la~lRlr~~l  184 (894)
T COG2909         105 LQKHQYVSLESLLSSLLNELASYEGPLYLVLDDYHLISDPALHEALRFLLKHAPENLTLVVTSRSRPQLGLARLRLRDEL  184 (894)
T ss_pred             HHhcccccHHHHHHHHHHHHHhhcCceEEEeccccccCcccHHHHHHHHHHhCCCCeEEEEEeccCCCCcccceeehhhH
Confidence                     112233333332 2468899999954   332222222223334468899999998753211   111122


Q ss_pred             EeC----CCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHHcCC-ChhHHHHHHHHHhhCCCCC
Q 001457          309 VQV----EELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHK-PVREWNEAIKRKKASTPIN  383 (1074)
Q Consensus       309 ~~l----~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~-~~~~w~~~~~~l~~~~~~~  383 (1074)
                      .++    =.|+.+|+-++|...-+.    +-.+.-.+.+.+...|=+-|+..++=.++.. +.+.--..+          
T Consensus       185 lEi~~~~Lrf~~eE~~~fl~~~~~l----~Ld~~~~~~L~~~teGW~~al~L~aLa~~~~~~~~q~~~~L----------  250 (894)
T COG2909         185 LEIGSEELRFDTEEAAAFLNDRGSL----PLDAADLKALYDRTEGWAAALQLIALALRNNTSAEQSLRGL----------  250 (894)
T ss_pred             HhcChHhhcCChHHHHHHHHHcCCC----CCChHHHHHHHhhcccHHHHHHHHHHHccCCCcHHHHhhhc----------
Confidence            333    268999999999887642    2223446778888999998888888877733 222111111          


Q ss_pred             CCCchHHHHH-HHHHhhcCChhhHHHHHHhhcCCCCCCccchHHHHHHHhhhcccccccchhhhhhcHHHHHHHHHhccc
Q 001457          384 VEGIPEEVVL-CVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSL  462 (1074)
Q Consensus       384 ~~~~~~~~~~-~l~~sy~~L~~~~k~cf~~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~~~~~~~l~~L~~~~l  462 (1074)
                       .+..+.+.. ...--++.||+++|..++-||+++.-   . .+|+..-         .+    .+.+...+++|.+++|
T Consensus       251 -sG~~~~l~dYL~eeVld~Lp~~l~~FLl~~svl~~f---~-~eL~~~L---------tg----~~ng~amLe~L~~~gL  312 (894)
T COG2909         251 -SGAASHLSDYLVEEVLDRLPPELRDFLLQTSVLSRF---N-DELCNAL---------TG----EENGQAMLEELERRGL  312 (894)
T ss_pred             -cchHHHHHHHHHHHHHhcCCHHHHHHHHHHHhHHHh---h-HHHHHHH---------hc----CCcHHHHHHHHHhCCC
Confidence             111122221 22345689999999999999998851   1 1222111         11    1123367999999998


Q ss_pred             cc-c-CCCCcceeechhHHHHHHHHHhh
Q 001457          463 LL-E-GDRESCFRIHDDTRKVVKYIAAR  488 (1074)
Q Consensus       463 l~-~-~~~~~~~~mhdlv~~~~~~~~~~  488 (1074)
                      +. + .++...|+.|.++.||.+.....
T Consensus       313 Fl~~Ldd~~~WfryH~LFaeFL~~r~~~  340 (894)
T COG2909         313 FLQRLDDEGQWFRYHHLFAEFLRQRLQR  340 (894)
T ss_pred             ceeeecCCCceeehhHHHHHHHHhhhcc
Confidence            64 3 45677899999999999877654

>PRK00080 ruvB Holliday junction DNA helicase RuvB; Reviewed

Probab=98.88  E-value=1.3e-07  Score=105.04  Aligned_cols=273  Identities=14%  Similarity=0.131  Sum_probs=150.5

Q ss_pred             CCcccCcchHHHHHHHHHHHhc---CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKD---NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~---~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      ..+..+.|+++.++.+...+..   .....+.+.|+|++|+||||+|+.+.+. ...+.   ++..+ .......+..++
T Consensus        22 ~~~~~~vG~~~~~~~l~~~l~~~~~~~~~~~~~ll~GppG~GKT~la~~ia~~l~~~~~---~~~~~-~~~~~~~l~~~l   97 (328)
T PRK00080         22 KSLDEFIGQEKVKENLKIFIEAAKKRGEALDHVLLYGPPGLGKTTLANIIANEMGVNIR---ITSGP-ALEKPGDLAAIL   97 (328)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHHHHhcCCCCCcEEEECCCCccHHHHHHHHHHHhCCCeE---EEecc-cccChHHHHHHH
Confidence            3455577787777776655542   2233567889999999999999999998 43321   22211 111122223333


Q ss_pred             HHhccCC----Cc--chHHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHhhcc--
Q 001457          233 RFLNTEL----EG--DVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEME--  304 (1074)
Q Consensus       233 ~~l~~~~----~~--~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~--  304 (1074)
                      ..+....    ++  .......+.+...+. +.+..+|+|+..+...+.   ..++   +.+-|..|||...+.....  
T Consensus        98 ~~l~~~~vl~IDEi~~l~~~~~e~l~~~~e-~~~~~~~l~~~~~~~~~~---~~l~---~~~li~at~~~~~l~~~L~sR  170 (328)
T PRK00080         98 TNLEEGDVLFIDEIHRLSPVVEEILYPAME-DFRLDIMIGKGPAARSIR---LDLP---PFTLIGATTRAGLLTSPLRDR  170 (328)
T ss_pred             HhcccCCEEEEecHhhcchHHHHHHHHHHH-hcceeeeeccCcccccee---ecCC---CceEEeecCCcccCCHHHHHh
Confidence            3332110    00  000112223334443 456666676655443322   1111   2456777777655533221  


Q ss_pred             CCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHHcCCChhHHHHHHHHHhhCCCCCC
Q 001457          305 STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINV  384 (1074)
Q Consensus       305 ~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~~  384 (1074)
                      ....+++++++.++..+++.+.+... ...-..+....|++.|+|.|-.+..+...+     ..|....    ..  ..+
T Consensus       171 f~~~~~l~~~~~~e~~~il~~~~~~~-~~~~~~~~~~~ia~~~~G~pR~a~~~l~~~-----~~~a~~~----~~--~~I  238 (328)
T PRK00080        171 FGIVQRLEFYTVEELEKIVKRSARIL-GVEIDEEGALEIARRSRGTPRIANRLLRRV-----RDFAQVK----GD--GVI  238 (328)
T ss_pred             cCeeeecCCCCHHHHHHHHHHHHHHc-CCCcCHHHHHHHHHHcCCCchHHHHHHHHH-----HHHHHHc----CC--CCC
Confidence            12468999999999999999887622 222335678999999999995444444322     1222111    00  011


Q ss_pred             C-CchHHHHHHHHHhhcCChhhHHHHHH-hhcCCCCCCccchHHHHHHHhhhcccccccchhhhhhcHHHHHH-HHHhcc
Q 001457          385 E-GIPEEVVLCVALGYDQLETVAKSCLQ-FSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVL-RLISSS  461 (1074)
Q Consensus       385 ~-~~~~~~~~~l~~sy~~L~~~~k~cf~-~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~~~~~~~l~-~L~~~~  461 (1074)
                      . ..-......+...|..|++..+..+. ....|+.+ .+..+.+...     +-.+..+.+       ..++ .|++.+
T Consensus       239 ~~~~v~~~l~~~~~~~~~l~~~~~~~l~~~~~~~~~~-~~~~~~~a~~-----lg~~~~~~~-------~~~e~~Li~~~  305 (328)
T PRK00080        239 TKEIADKALDMLGVDELGLDEMDRKYLRTIIEKFGGG-PVGLDTLAAA-----LGEERDTIE-------DVYEPYLIQQG  305 (328)
T ss_pred             CHHHHHHHHHHhCCCcCCCCHHHHHHHHHHHHHcCCC-ceeHHHHHHH-----HCCCcchHH-------HHhhHHHHHcC
Confidence            1 11144555667778889887777775 77778765 4555555322     212222222       3455 899999


Q ss_pred             cccc
Q 001457          462 LLLE  465 (1074)
Q Consensus       462 ll~~  465 (1074)
                      |++.
T Consensus       306 li~~  309 (328)
T PRK00080        306 FIQR  309 (328)
T ss_pred             Cccc
Confidence            9964

>PF14580 LRR_9: Leucine-rich repeat; PDB: 2JE1_D 2JE0_A 2JQD_A

Probab=98.84  E-value=2e-09  Score=105.22  Aligned_cols=132  Identities=26%  Similarity=0.346  Sum_probs=50.1

Q ss_pred             HhcCCCccEEEecCCccCCCCCCcc-CCccCCeeeccCCCCCCCccccCCCCccEEEeeCCCCcccCccc-cCCCCCCEE
Q 001457          551 FEHTREIKNLDLSSTNISSLAPSLP-CLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLL  628 (1074)
Q Consensus       551 ~~~l~~L~~L~l~~~~~~~lp~~i~-~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i-~~L~~L~~L  628 (1074)
                      +.+...++.|+|+++.|+.+. .++ .+.+|+.|++++|.|+..+.+..+++|++|++++|.|+.++..+ ..+++|++|
T Consensus        15 ~~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   93 (175)
T PF14580_consen   15 YNNPVKLRELNLRGNQISTIE-NLGATLDKLEVLDLSNNQITKLEGLPGLPRLKTLDLSNNRISSISEGLDKNLPNLQEL   93 (175)
T ss_dssp             ----------------------S--TT-TT--EEE-TTS--S--TT----TT--EEE--SS---S-CHHHHHH-TT--EE
T ss_pred             ccccccccccccccccccccc-chhhhhcCCCEEECCCCCCccccCccChhhhhhcccCCCCCCccccchHHhCCcCCEE
Confidence            346667899999999998774 455 57899999999999999778888999999999999999887655 468999999


Q ss_pred             eCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCccccccCcCCCEEEEe
Q 001457          629 DLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIH  690 (1074)
Q Consensus       629 ~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~  690 (1074)
                      ++++|.+...-.-..+..+++|+.|++.+|...       +...-...-+..+++|+.|+-.
T Consensus        94 ~L~~N~I~~l~~l~~L~~l~~L~~L~L~~NPv~-------~~~~YR~~vi~~lP~Lk~LD~~  148 (175)
T PF14580_consen   94 YLSNNKISDLNELEPLSSLPKLRVLSLEGNPVC-------EKKNYRLFVIYKLPSLKVLDGQ  148 (175)
T ss_dssp             E-TTS---SCCCCGGGGG-TT--EEE-TT-GGG-------GSTTHHHHHHHH-TT-SEETTE
T ss_pred             ECcCCcCCChHHhHHHHcCCCcceeeccCCccc-------chhhHHHHHHHHcChhheeCCE
Confidence            999987533211233778889999998887321       1111122335667777777654

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

Probab=98.82  E-value=1.6e-09  Score=121.13  Aligned_cols=84  Identities=19%  Similarity=0.150  Sum_probs=38.8

Q ss_pred             HhcCCCccEEEecCCccC-----CCCCCccCCccCCeeeccCCCCCC--------CccccCCCCccEEEeeCCCCc-ccC
Q 001457          551 FEHTREIKNLDLSSTNIS-----SLAPSLPCLEKLRSLHLENTHLND--------ASLIREFGELEVLILKGSRIV-ELP  616 (1074)
Q Consensus       551 ~~~l~~L~~L~l~~~~~~-----~lp~~i~~l~~Lr~L~L~~~~l~~--------~~~i~~l~~L~~L~L~~~~i~-~lp  616 (1074)
                      |..+..|++|+++++.++     .++..+...++|+.|+++++.+..        +..+.++++|+.|++++|.+. ..+
T Consensus        19 ~~~l~~L~~l~l~~~~l~~~~~~~i~~~l~~~~~l~~l~l~~~~~~~~~~~~~~~~~~l~~~~~L~~L~l~~~~~~~~~~   98 (319)
T cd00116          19 LPKLLCLQVLRLEGNTLGEEAAKALASALRPQPSLKELCLSLNETGRIPRGLQSLLQGLTKGCGLQELDLSDNALGPDGC   98 (319)
T ss_pred             HHHHhhccEEeecCCCCcHHHHHHHHHHHhhCCCceEEeccccccCCcchHHHHHHHHHHhcCceeEEEccCCCCChhHH
Confidence            444555555555555542     223334444555555555554441        123344455555555555443 222


Q ss_pred             ccccCCCC---CCEEeCCCCc
Q 001457          617 NGIGTVSN---LKLLDLSNNL  634 (1074)
Q Consensus       617 ~~i~~L~~---L~~L~l~~~~  634 (1074)
                      ..+..+.+   |++|++++|.
T Consensus        99 ~~~~~l~~~~~L~~L~ls~~~  119 (319)
T cd00116          99 GVLESLLRSSSLQELKLNNNG  119 (319)
T ss_pred             HHHHHHhccCcccEEEeeCCc
Confidence            22222222   5555555554

LRRs are 20-29 residue sequence motifs present in many proteins that participate in protein-protein interactions and have different functions and cellular locations. LRRs correspond to structural units consisting of a beta strand (LxxLxLxxN/CxL conserved pattern) and an alpha helix. This alignment contains 12 strands corresponding to 11 full repeats, consistent with the extent observed in the subfamily acting as Ran GTPase Activating Proteins (RanGAP1).

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

Probab=98.71  E-value=6.8e-09  Score=116.09  Aligned_cols=129  Identities=27%  Similarity=0.342  Sum_probs=63.8

Q ss_pred             CCCccEEEccCCCCCCCChhHHhcCCC---ccEEEecCCccCC-----CCCCccCC-ccCCeeeccCCCCCC------Cc
Q 001457          530 CPRLTTLFLQNNPFADIPNAFFEHTRE---IKNLDLSSTNISS-----LAPSLPCL-EKLRSLHLENTHLND------AS  594 (1074)
Q Consensus       530 ~~~Lr~L~l~~~~~~~~~~~~~~~l~~---L~~L~l~~~~~~~-----lp~~i~~l-~~Lr~L~L~~~~l~~------~~  594 (1074)
                      +++|+.|++++|.+.......+..+..   |+.|++++|.+..     +...+..+ ++|+.|++++|.++.      +.
T Consensus        80 ~~~L~~L~l~~~~~~~~~~~~~~~l~~~~~L~~L~ls~~~~~~~~~~~l~~~l~~~~~~L~~L~L~~n~l~~~~~~~~~~  159 (319)
T cd00116          80 GCGLQELDLSDNALGPDGCGVLESLLRSSSLQELKLNNNGLGDRGLRLLAKGLKDLPPALEKLVLGRNRLEGASCEALAK  159 (319)
T ss_pred             cCceeEEEccCCCCChhHHHHHHHHhccCcccEEEeeCCccchHHHHHHHHHHHhCCCCceEEEcCCCcCCchHHHHHHH
Confidence            456666666666554433333333333   6666666665541     11233444 556666666666552      22


Q ss_pred             cccCCCCccEEEeeCCCCc-----ccCccccCCCCCCEEeCCCCcCCCCcC---hhhhcCCCCcCEEEccCC
Q 001457          595 LIREFGELEVLILKGSRIV-----ELPNGIGTVSNLKLLDLSNNLFLQVIP---PNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       595 ~i~~l~~L~~L~L~~~~i~-----~lp~~i~~L~~L~~L~l~~~~~~~~~p---~~~i~~L~~L~~L~l~~~  658 (1074)
                      .+..+.+|++|++++|.+.     .++..+..+++|++|++++|.+...-+   ...+..+++|++|++++|
T Consensus       160 ~~~~~~~L~~L~l~~n~l~~~~~~~l~~~l~~~~~L~~L~L~~n~i~~~~~~~l~~~~~~~~~L~~L~ls~n  231 (319)
T cd00116         160 ALRANRDLKELNLANNGIGDAGIRALAEGLKANCNLEVLDLNNNGLTDEGASALAETLASLKSLEVLNLGDN  231 (319)
T ss_pred             HHHhCCCcCEEECcCCCCchHHHHHHHHHHHhCCCCCEEeccCCccChHHHHHHHHHhcccCCCCEEecCCC
Confidence            3444555666666666554     233334444566666666654321110   011344555666666554

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).

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.70  E-value=1.2e-09  Score=119.40  Aligned_cols=140  Identities=27%  Similarity=0.368  Sum_probs=64.1

Q ss_pred             EeeccCCcccCCCC-CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCC
Q 001457          514 LSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND  592 (1074)
Q Consensus       514 L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~  592 (1074)
                      .+++.|.+..+|.. ..+..|..+.+..|.+..+|... .++..|.+|||+.|+++.+|..++.|+ |++|-+++|+++.
T Consensus        80 aDlsrNR~~elp~~~~~f~~Le~liLy~n~~r~ip~~i-~~L~~lt~l~ls~NqlS~lp~~lC~lp-Lkvli~sNNkl~~  157 (722)
T KOG0532|consen   80 ADLSRNRFSELPEEACAFVSLESLILYHNCIRTIPEAI-CNLEALTFLDLSSNQLSHLPDGLCDLP-LKVLIVSNNKLTS  157 (722)
T ss_pred             hhccccccccCchHHHHHHHHHHHHHHhccceecchhh-hhhhHHHHhhhccchhhcCChhhhcCc-ceeEEEecCcccc
Confidence            33444444444432 22334444444444444444432 344445555555555555554444443 4455555555444


Q ss_pred             -CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCC
Q 001457          593 -ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       593 -~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~  658 (1074)
                       |..++.+..|..||.+.|.+..+|..++.|.+|+.|++..|. +..+|++ +..|+ |..|+++.|
T Consensus       158 lp~~ig~~~tl~~ld~s~nei~slpsql~~l~slr~l~vrRn~-l~~lp~E-l~~Lp-Li~lDfScN  221 (722)
T KOG0532|consen  158 LPEEIGLLPTLAHLDVSKNEIQSLPSQLGYLTSLRDLNVRRNH-LEDLPEE-LCSLP-LIRLDFSCN  221 (722)
T ss_pred             CCcccccchhHHHhhhhhhhhhhchHHhhhHHHHHHHHHhhhh-hhhCCHH-HhCCc-eeeeecccC
Confidence             444444444555555555555555555555555555554444 2334443 33222 444444443

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.69  E-value=1.7e-09  Score=108.66  Aligned_cols=126  Identities=26%  Similarity=0.360  Sum_probs=99.5

Q ss_pred             cCCCcEEeeccCCcccCCCCCC-CCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeecc
Q 001457          508 LQNCEKLSLMDGNVTALPDQPK-CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLE  586 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~~~-~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~  586 (1074)
                      |+.++.+++++|.+..+....+ .|++|.|++++|.+..+..  +..+.+|..||||+|.++++-..-.++-|.+.|.|.
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~n--La~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La  360 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQN--LAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLA  360 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehh--hhhcccceEeecccchhHhhhhhHhhhcCEeeeehh
Confidence            6778888888888887776644 4888888888888776655  567888888888888887765555667788888888


Q ss_pred             CCCCCCCccccCCCCccEEEeeCCCCcccC--ccccCCCCCCEEeCCCCcC
Q 001457          587 NTHLNDASLIREFGELEVLILKGSRIVELP--NGIGTVSNLKLLDLSNNLF  635 (1074)
Q Consensus       587 ~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp--~~i~~L~~L~~L~l~~~~~  635 (1074)
                      +|.|+..+.+++|.+|.+||+++|+|..+.  .+||+|+.|++|.+.+|++
T Consensus       361 ~N~iE~LSGL~KLYSLvnLDl~~N~Ie~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  361 QNKIETLSGLRKLYSLVNLDLSSNQIEELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             hhhHhhhhhhHhhhhheeccccccchhhHHHhcccccccHHHHHhhcCCCc
Confidence            888888888888888888888888887664  4588888888888888764

>KOG0532 consensus Leucine-rich repeat (LRR) protein, contains calponin homology domain [Cytoskeleton]

Probab=98.66  E-value=1e-09  Score=120.10  Aligned_cols=146  Identities=23%  Similarity=0.364  Sum_probs=111.9

Q ss_pred             cCCCcEEeeccCCcccCCCC-CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeecc
Q 001457          508 LQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLE  586 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~  586 (1074)
                      +..+..+.+..|.+..+|.. ..+..|..|+++.|.+..+|..++  .--|++|-+++|+++.+|+.++.+.+|..|+.+
T Consensus        97 f~~Le~liLy~n~~r~ip~~i~~L~~lt~l~ls~NqlS~lp~~lC--~lpLkvli~sNNkl~~lp~~ig~~~tl~~ld~s  174 (722)
T KOG0532|consen   97 FVSLESLILYHNCIRTIPEAICNLEALTFLDLSSNQLSHLPDGLC--DLPLKVLIVSNNKLTSLPEEIGLLPTLAHLDVS  174 (722)
T ss_pred             HHHHHHHHHHhccceecchhhhhhhHHHHhhhccchhhcCChhhh--cCcceeEEEecCccccCCcccccchhHHHhhhh
Confidence            33444556666666666653 566778888888888888887653  345888888888888888888888888888888


Q ss_pred             CCCCCC-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCC
Q 001457          587 NTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       587 ~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~  658 (1074)
                      .|.+.. |+.++.+..|+.|+++.|++..+|.++..| .|..||++.|+ +..+|.. |.+|+.||+|-|.+|
T Consensus       175 ~nei~slpsql~~l~slr~l~vrRn~l~~lp~El~~L-pLi~lDfScNk-is~iPv~-fr~m~~Lq~l~LenN  244 (722)
T KOG0532|consen  175 KNEIQSLPSQLGYLTSLRDLNVRRNHLEDLPEELCSL-PLIRLDFSCNK-ISYLPVD-FRKMRHLQVLQLENN  244 (722)
T ss_pred             hhhhhhchHHhhhHHHHHHHHHhhhhhhhCCHHHhCC-ceeeeecccCc-eeecchh-hhhhhhheeeeeccC
Confidence            888777 888888888888888888888888888744 57888888776 4667776 888888888888776

>COG2256 MGS1 ATPase related to the helicase subunit of the Holliday junction resolvase [DNA replication, recombination, and repair]

Probab=98.66  E-value=1.9e-07  Score=99.35  Aligned_cols=152  Identities=18%  Similarity=0.225  Sum_probs=97.2

Q ss_pred             HHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHH
Q 001457          174 KLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLS  252 (1074)
Q Consensus       174 ~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~  252 (1074)
                      .++..+.  +.-...||++|+||||||+.+... ...|     ..+|...+-.+-++++++..                +
T Consensus        41 r~v~~~~--l~SmIl~GPPG~GKTTlA~liA~~~~~~f-----~~~sAv~~gvkdlr~i~e~a----------------~   97 (436)
T COG2256          41 RAVEAGH--LHSMILWGPPGTGKTTLARLIAGTTNAAF-----EALSAVTSGVKDLREIIEEA----------------R   97 (436)
T ss_pred             HHHhcCC--CceeEEECCCCCCHHHHHHHHHHhhCCce-----EEeccccccHHHHHHHHHHH----------------H
Confidence            4444454  777889999999999999999988 5555     34444433333333443331                1


Q ss_pred             HHHHccCeEEEEEcCccc--cccccccccCCCCCCCCeEEEE--ecCChhH---HhhccCCCeEeCCCCCHHHHHHHHHH
Q 001457          253 ERLKRQKRVLIILDDLWG--KLDLAVVGIPYGEEHKGCKIIL--TSRFKEV---CDEMESTNYVQVEELTDEDRLILFKK  325 (1074)
Q Consensus       253 ~~l~~~k~~LlVlDdv~~--~~~~~~~~~~~~~~~~gs~iiv--TTR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf~~  325 (1074)
                      +....|++.+|++|.|..  ..+-+.+   +|.-..|.-|+|  ||.++..   ........++.+++|+.++-.+++.+
T Consensus        98 ~~~~~gr~tiLflDEIHRfnK~QQD~l---Lp~vE~G~iilIGATTENPsF~ln~ALlSR~~vf~lk~L~~~di~~~l~r  174 (436)
T COG2256          98 KNRLLGRRTILFLDEIHRFNKAQQDAL---LPHVENGTIILIGATTENPSFELNPALLSRARVFELKPLSSEDIKKLLKR  174 (436)
T ss_pred             HHHhcCCceEEEEehhhhcChhhhhhh---hhhhcCCeEEEEeccCCCCCeeecHHHhhhhheeeeecCCHHHHHHHHHH
Confidence            222248999999999974  3344433   333456777776  7777654   22234457999999999999999988


Q ss_pred             hcCCCC-C----Cc-hhHHHHHHHHHHhCCCh
Q 001457          326 KAGLPE-G----TK-AFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       326 ~a~~~~-~----~~-~~~~~~~~i~~~c~glP  351 (1074)
                      .+-+.. .    .. -.++.-..|+..++|=-
T Consensus       175 a~~~~~rgl~~~~~~i~~~a~~~l~~~s~GD~  206 (436)
T COG2256         175 ALLDEERGLGGQIIVLDEEALDYLVRLSNGDA  206 (436)
T ss_pred             HHhhhhcCCCcccccCCHHHHHHHHHhcCchH
Confidence            553111 1    11 23456777888888854

>PRK06893 DNA replication initiation factor; Validated

Probab=98.65  E-value=2.2e-07  Score=97.09  Aligned_cols=148  Identities=18%  Similarity=0.281  Sum_probs=94.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+.+.++|++|+|||+||+.+++. ......+.|+++....   ..                    ...+.+.+.  +.-
T Consensus        39 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~y~~~~~~~---~~--------------------~~~~~~~~~--~~d   93 (229)
T PRK06893         39 QPFFYIWGGKSSGKSHLLKAVSNHYLLNQRTAIYIPLSKSQ---YF--------------------SPAVLENLE--QQD   93 (229)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEeeHHHhh---hh--------------------hHHHHhhcc--cCC
Confidence            467899999999999999999998 3334456777764210   00                    001122232  345


Q ss_pred             EEEEcCcccc---ccccc-cccCCCCC-CCCeEEEEecCC----------hhHHhhccCCCeEeCCCCCHHHHHHHHHHh
Q 001457          262 LIILDDLWGK---LDLAV-VGIPYGEE-HKGCKIILTSRF----------KEVCDEMESTNYVQVEELTDEDRLILFKKK  326 (1074)
Q Consensus       262 LlVlDdv~~~---~~~~~-~~~~~~~~-~~gs~iivTTR~----------~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  326 (1074)
                      +||+||+|..   ..|+. +...+... ..|..+||+|.+          +++...+.....++++++++++.++++++.
T Consensus        94 lLilDDi~~~~~~~~~~~~l~~l~n~~~~~~~~illits~~~p~~l~~~~~~L~sRl~~g~~~~l~~pd~e~~~~iL~~~  173 (229)
T PRK06893         94 LVCLDDLQAVIGNEEWELAIFDLFNRIKEQGKTLLLISADCSPHALSIKLPDLASRLTWGEIYQLNDLTDEQKIIVLQRN  173 (229)
T ss_pred             EEEEeChhhhcCChHHHHHHHHHHHHHHHcCCcEEEEeCCCChHHccccchhHHHHHhcCCeeeCCCCCHHHHHHHHHHH
Confidence            8999999963   34542 21112211 235566554443          355666666678999999999999999988


Q ss_pred             cCCCCCCchhHHHHHHHHHHhCCChHHHHH
Q 001457          327 AGLPEGTKAFDRAAEEVVRQCGKLPNAIVI  356 (1074)
Q Consensus       327 a~~~~~~~~~~~~~~~i~~~c~glPLai~~  356 (1074)
                      +.... ..--+++..-|++++.|-.-++..
T Consensus       174 a~~~~-l~l~~~v~~~L~~~~~~d~r~l~~  202 (229)
T PRK06893        174 AYQRG-IELSDEVANFLLKRLDRDMHTLFD  202 (229)
T ss_pred             HHHcC-CCCCHHHHHHHHHhccCCHHHHHH
Confidence            86221 233457788888888876644443

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

Probab=98.61  E-value=1.4e-08  Score=108.07  Aligned_cols=206  Identities=24%  Similarity=0.267  Sum_probs=135.9

Q ss_pred             cCCCcEEeeccCCcccCC---CCCCCCCccEEEccCCCCCCCC--hhHHhcCCCccEEEecCCccCCCCCCc--cCCccC
Q 001457          508 LQNCEKLSLMDGNVTALP---DQPKCPRLTTLFLQNNPFADIP--NAFFEHTREIKNLDLSSTNISSLAPSL--PCLEKL  580 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~---~~~~~~~Lr~L~l~~~~~~~~~--~~~~~~l~~L~~L~l~~~~~~~lp~~i--~~l~~L  580 (1074)
                      +++++.+++.++.+...+   ....|+++|.|+|++|-+....  ..+...+++|+.|+++.|.+.....+.  ..+++|
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            567788888877776555   2367899999999998765542  234578999999999999877554432  467899


Q ss_pred             CeeeccCCCCCC---CccccCCCCccEEEeeCCC-CcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEcc
Q 001457          581 RSLHLENTHLND---ASLIREFGELEVLILKGSR-IVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVG  656 (1074)
Q Consensus       581 r~L~L~~~~l~~---~~~i~~l~~L~~L~L~~~~-i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~  656 (1074)
                      +.|.|+.|.++.   ......+++|+.|+|.+|. +..--.+...++.|+.|||++|++...-....++.++.|..|+++
T Consensus       200 K~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~~~i~~~L~~LdLs~N~li~~~~~~~~~~l~~L~~Lnls  279 (505)
T KOG3207|consen  200 KQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATSTKILQTLQELDLSNNNLIDFDQGYKVGTLPGLNQLNLS  279 (505)
T ss_pred             heEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecchhhhhhHHhhccccCCcccccccccccccccchhhhhcc
Confidence            999999999886   4455678999999999984 333333445678899999999886543211227888888888887


Q ss_pred             CCcCCccccccccCCCCCccccccCcCCCEEEEeecCccccc-cCcCCCCCCccEEEEEecC
Q 001457          657 NSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLS-VDFDGPWTNLKRFRVCVND  717 (1074)
Q Consensus       657 ~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~-~~~~~~~~~L~~L~l~~~~  717 (1074)
                      .|...    .+.........-...+.+|+.|.+..|.....+ .......++|+.|.+..+.
T Consensus       280 ~tgi~----si~~~d~~s~~kt~~f~kL~~L~i~~N~I~~w~sl~~l~~l~nlk~l~~~~n~  337 (505)
T KOG3207|consen  280 STGIA----SIAEPDVESLDKTHTFPKLEYLNISENNIRDWRSLNHLRTLENLKHLRITLNY  337 (505)
T ss_pred             ccCcc----hhcCCCccchhhhcccccceeeecccCccccccccchhhccchhhhhhccccc
Confidence            65211    000011111122346778888888877654332 1223344566666555543

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.54  E-value=6.5e-08  Score=111.43  Aligned_cols=173  Identities=32%  Similarity=0.436  Sum_probs=113.4

Q ss_pred             CCCCCccEEEccCCCCCCCChhHHhcCC-CccEEEecCCccCCCCCCccCCccCCeeeccCCCCCC-CccccCCCCccEE
Q 001457          528 PKCPRLTTLFLQNNPFADIPNAFFEHTR-EIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVL  605 (1074)
Q Consensus       528 ~~~~~Lr~L~l~~~~~~~~~~~~~~~l~-~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~-~~~i~~l~~L~~L  605 (1074)
                      ...+.+..|.+.++.+..+++.. ..+. +|+.|++++|.+..+|..+..+++|+.|++++|++.+ +...+.+.+|+.|
T Consensus       113 ~~~~~l~~L~l~~n~i~~i~~~~-~~~~~nL~~L~l~~N~i~~l~~~~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L  191 (394)
T COG4886         113 LELTNLTSLDLDNNNITDIPPLI-GLLKSNLKELDLSDNKIESLPSPLRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNL  191 (394)
T ss_pred             hcccceeEEecCCcccccCcccc-ccchhhcccccccccchhhhhhhhhccccccccccCCchhhhhhhhhhhhhhhhhe
Confidence            34456777777777777776643 2332 6777777777777777777777777777777777777 5555577777777


Q ss_pred             EeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCccccccCcCCC
Q 001457          606 ILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLT  685 (1074)
Q Consensus       606 ~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~  685 (1074)
                      +++++.+..+|..+..+.+|+.|.+++|..... +.. +.++.++..|.+.++..           ......++.+..|+
T Consensus       192 ~ls~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~-~~~-~~~~~~l~~l~l~~n~~-----------~~~~~~~~~l~~l~  258 (394)
T COG4886         192 DLSGNKISDLPPEIELLSALEELDLSNNSIIEL-LSS-LSNLKNLSGLELSNNKL-----------EDLPESIGNLSNLE  258 (394)
T ss_pred             eccCCccccCchhhhhhhhhhhhhhcCCcceec-chh-hhhcccccccccCCcee-----------eeccchhccccccc
Confidence            777777777777766677777777777743332 222 66677776666554421           11134456677777


Q ss_pred             EEEEeecCccccccCcCCCCCCccEEEEEec
Q 001457          686 VLYIHVSNTKVLSVDFDGPWTNLKRFRVCVN  716 (1074)
Q Consensus       686 ~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~  716 (1074)
                      .|+++.+....++.  ++...+++.|++..+
T Consensus       259 ~L~~s~n~i~~i~~--~~~~~~l~~L~~s~n  287 (394)
T COG4886         259 TLDLSNNQISSISS--LGSLTNLRELDLSGN  287 (394)
T ss_pred             eecccccccccccc--ccccCccCEEeccCc
Confidence            77777776655544  555666777766554

>KOG1259 consensus Nischarin, modulator of integrin alpha5 subunit action [Signal transduction mechanisms; Cytoskeleton]

Probab=98.54  E-value=1.1e-08  Score=103.16  Aligned_cols=129  Identities=24%  Similarity=0.303  Sum_probs=91.4

Q ss_pred             CCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCCCccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCC
Q 001457          554 TREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNN  633 (1074)
Q Consensus       554 l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~  633 (1074)
                      .+.|..||||+|.|+.+-++..-++.+|.|++++|.|.....+..|++|+.|||++|.+.++..+-.+|.|.+.|.+++|
T Consensus       283 Wq~LtelDLS~N~I~~iDESvKL~Pkir~L~lS~N~i~~v~nLa~L~~L~~LDLS~N~Ls~~~Gwh~KLGNIKtL~La~N  362 (490)
T KOG1259|consen  283 WQELTELDLSGNLITQIDESVKLAPKLRRLILSQNRIRTVQNLAELPQLQLLDLSGNLLAECVGWHLKLGNIKTLKLAQN  362 (490)
T ss_pred             HhhhhhccccccchhhhhhhhhhccceeEEeccccceeeehhhhhcccceEeecccchhHhhhhhHhhhcCEeeeehhhh
Confidence            45677888888888888777777888888888888877766677788888888888877777666667778888888887


Q ss_pred             cCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCccccccCcCCCEEEEeecCc
Q 001457          634 LFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNT  694 (1074)
Q Consensus       634 ~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~  694 (1074)
                      .+ ..+. + +++|-+|..|++.+|..    +     .-.....+++++.|+++.+..|..
T Consensus       363 ~i-E~LS-G-L~KLYSLvnLDl~~N~I----e-----~ldeV~~IG~LPCLE~l~L~~NPl  411 (490)
T KOG1259|consen  363 KI-ETLS-G-LRKLYSLVNLDLSSNQI----E-----ELDEVNHIGNLPCLETLRLTGNPL  411 (490)
T ss_pred             hH-hhhh-h-hHhhhhheeccccccch----h-----hHHHhcccccccHHHHHhhcCCCc
Confidence            53 4432 2 67777788888776521    1     112234567777777777766553

>PRK13342 recombination factor protein RarA; Reviewed

Probab=98.51  E-value=1.5e-06  Score=99.76  Aligned_cols=174  Identities=14%  Similarity=0.204  Sum_probs=101.9

Q ss_pred             ccCcchHHHHHH---HHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHh
Q 001457          160 VPLKSALEVIKS---VMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       160 ~~~~~r~~~~~~---l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l  235 (1074)
                      ..+.|++..+..   +..++..+.  ...+.++|++|+||||+|+.+++. ...|     +.++.......-.+++++. 
T Consensus        12 ~d~vGq~~~v~~~~~L~~~i~~~~--~~~ilL~GppGtGKTtLA~~ia~~~~~~~-----~~l~a~~~~~~~ir~ii~~-   83 (413)
T PRK13342         12 DEVVGQEHLLGPGKPLRRMIEAGR--LSSMILWGPPGTGKTTLARIIAGATDAPF-----EALSAVTSGVKDLREVIEE-   83 (413)
T ss_pred             HHhcCcHHHhCcchHHHHHHHcCC--CceEEEECCCCCCHHHHHHHHHHHhCCCE-----EEEecccccHHHHHHHHHH-
Confidence            334555555443   556665555  667889999999999999999988 4443     3332221111112222221 


Q ss_pred             ccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE--ecCChhH--H-hhccCCCe
Q 001457          236 NTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL--TSRFKEV--C-DEMESTNY  308 (1074)
Q Consensus       236 ~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv--TTR~~~v--~-~~~~~~~~  308 (1074)
                                     .......+++.+|++|+++.-  .+.+.+...+.   .|..++|  ||.+...  . ........
T Consensus        84 ---------------~~~~~~~g~~~vL~IDEi~~l~~~~q~~LL~~le---~~~iilI~att~n~~~~l~~aL~SR~~~  145 (413)
T PRK13342         84 ---------------ARQRRSAGRRTILFIDEIHRFNKAQQDALLPHVE---DGTITLIGATTENPSFEVNPALLSRAQV  145 (413)
T ss_pred             ---------------HHHhhhcCCceEEEEechhhhCHHHHHHHHHHhh---cCcEEEEEeCCCChhhhccHHHhcccee
Confidence                           111122368899999999864  33333332222   2444444  3444322  1 11222368


Q ss_pred             EeCCCCCHHHHHHHHHHhcCCC-CCC-chhHHHHHHHHHHhCCChHHHHHHHH
Q 001457          309 VQVEELTDEDRLILFKKKAGLP-EGT-KAFDRAAEEVVRQCGKLPNAIVIIGT  359 (1074)
Q Consensus       309 ~~l~~L~~~~~~~lf~~~a~~~-~~~-~~~~~~~~~i~~~c~glPLai~~~~~  359 (1074)
                      +++++++.++.+.++.+.+... ... +-..+....|++.|+|-|..+..+..
T Consensus       146 ~~~~~ls~e~i~~lL~~~l~~~~~~~i~i~~~al~~l~~~s~Gd~R~aln~Le  198 (413)
T PRK13342        146 FELKPLSEEDIEQLLKRALEDKERGLVELDDEALDALARLANGDARRALNLLE  198 (413)
T ss_pred             eEeCCCCHHHHHHHHHHHHHHhhcCCCCCCHHHHHHHHHhCCCCHHHHHHHHH
Confidence            8999999999999998876421 111 23356788899999998876554433

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

Probab=98.48  E-value=2.1e-08  Score=106.72  Aligned_cols=130  Identities=20%  Similarity=0.255  Sum_probs=84.6

Q ss_pred             CCCCCccEEEccCCCCCCCCh-hHHhcCCCccEEEecCCccCCC---CCCccCCccCCeeeccCCCCCCC---ccccCCC
Q 001457          528 PKCPRLTTLFLQNNPFADIPN-AFFEHTREIKNLDLSSTNISSL---APSLPCLEKLRSLHLENTHLNDA---SLIREFG  600 (1074)
Q Consensus       528 ~~~~~Lr~L~l~~~~~~~~~~-~~~~~l~~L~~L~l~~~~~~~l---p~~i~~l~~Lr~L~L~~~~l~~~---~~i~~l~  600 (1074)
                      .++++||...|.++.+...+. .....|++++.|||++|-+.+.   -.-+..|++|+.|+|+.|++..|   ..-..+.
T Consensus       118 sn~kkL~~IsLdn~~V~~~~~~~~~k~~~~v~~LdLS~NL~~nw~~v~~i~eqLp~Le~LNls~Nrl~~~~~s~~~~~l~  197 (505)
T KOG3207|consen  118 SNLKKLREISLDNYRVEDAGIEEYSKILPNVRDLDLSRNLFHNWFPVLKIAEQLPSLENLNLSSNRLSNFISSNTTLLLS  197 (505)
T ss_pred             hhHHhhhheeecCccccccchhhhhhhCCcceeecchhhhHHhHHHHHHHHHhcccchhcccccccccCCccccchhhhh
Confidence            567888888888888666553 3456788888888888866533   23456788888888888887652   1223567


Q ss_pred             CccEEEeeCCCCc--ccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCC
Q 001457          601 ELEVLILKGSRIV--ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       601 ~L~~L~L~~~~i~--~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~  658 (1074)
                      +|+.|.|+.|+++  .+-.-...+++|..|++..|......... ...++.|++|++++|
T Consensus       198 ~lK~L~l~~CGls~k~V~~~~~~fPsl~~L~L~~N~~~~~~~~~-~~i~~~L~~LdLs~N  256 (505)
T KOG3207|consen  198 HLKQLVLNSCGLSWKDVQWILLTFPSLEVLYLEANEIILIKATS-TKILQTLQELDLSNN  256 (505)
T ss_pred             hhheEEeccCCCCHHHHHHHHHhCCcHHHhhhhcccccceecch-hhhhhHHhhccccCC
Confidence            7888888888776  22223456677788888777321111111 334566777777665

>COG4886 Leucine-rich repeat (LRR) protein [Function unknown]

Probab=98.43  E-value=1.7e-07  Score=107.89  Aligned_cols=175  Identities=31%  Similarity=0.403  Sum_probs=143.8

Q ss_pred             cCCCcEEeeccCCcccCCCCCCCC--CccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeec
Q 001457          508 LQNCEKLSLMDGNVTALPDQPKCP--RLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHL  585 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~~~~~--~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L  585 (1074)
                      ++.+..+.+.++.+..++......  +|+.|++++|.+..++.. ...++.|+.|++++|.+..+|...+.+++|+.|++
T Consensus       115 ~~~l~~L~l~~n~i~~i~~~~~~~~~nL~~L~l~~N~i~~l~~~-~~~l~~L~~L~l~~N~l~~l~~~~~~~~~L~~L~l  193 (394)
T COG4886         115 LTNLTSLDLDNNNITDIPPLIGLLKSNLKELDLSDNKIESLPSP-LRNLPNLKNLDLSFNDLSDLPKLLSNLSNLNNLDL  193 (394)
T ss_pred             ccceeEEecCCcccccCccccccchhhcccccccccchhhhhhh-hhccccccccccCCchhhhhhhhhhhhhhhhheec
Confidence            456888999999999988865554  899999999999888633 47899999999999999999998888999999999


Q ss_pred             cCCCCCC-CccccCCCCccEEEeeCCCCcccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccc
Q 001457          586 ENTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEV  664 (1074)
Q Consensus       586 ~~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~  664 (1074)
                      ++|.++. |..+..+.+|++|.++++.+...+..+.++.++..|.+.++... .++. .++.+++|++|++++|..    
T Consensus       194 s~N~i~~l~~~~~~~~~L~~l~~~~N~~~~~~~~~~~~~~l~~l~l~~n~~~-~~~~-~~~~l~~l~~L~~s~n~i----  267 (394)
T COG4886         194 SGNKISDLPPEIELLSALEELDLSNNSIIELLSSLSNLKNLSGLELSNNKLE-DLPE-SIGNLSNLETLDLSNNQI----  267 (394)
T ss_pred             cCCccccCchhhhhhhhhhhhhhcCCcceecchhhhhcccccccccCCceee-eccc-hhccccccceeccccccc----
Confidence            9999999 77777888899999999987788888999999999998888643 3233 388999999999988732    


Q ss_pred             cccccCCCCCccccccCcCCCEEEEeecCcccc
Q 001457          665 EETANGQNARFSEVASLTRLTVLYIHVSNTKVL  697 (1074)
Q Consensus       665 ~~~~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~  697 (1074)
                              ..+..++.+.+|+.|+++++.....
T Consensus       268 --------~~i~~~~~~~~l~~L~~s~n~~~~~  292 (394)
T COG4886         268 --------SSISSLGSLTNLRELDLSGNSLSNA  292 (394)
T ss_pred             --------cccccccccCccCEEeccCcccccc
Confidence                    2223378889999999988765433

>PTZ00112 origin recognition complex 1 protein; Provisional

Probab=98.43  E-value=4.5e-05  Score=89.73  Aligned_cols=197  Identities=16%  Similarity=0.119  Sum_probs=116.3

Q ss_pred             CcchHHHHHHHHHHHhc---CCCceeEEEEEcCCCCcHHHHHHHHHhh------cCCCC--eEEEEEecCCcCHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKD---NSISINIIGVYGSGGIGKTTLMKQVMKQ------EIPFD--KVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~---~~~~~~vi~I~G~gG~GKTtLa~~v~~~------~~~F~--~~~wv~vs~~~~~~~~~~~  230 (1074)
                      +.+|++++++|...|.+   +.....++.|+|++|+|||+.++.|.+.      .....  .+++|++..-.+...++..
T Consensus       757 LPhREeEIeeLasfL~paIkgsgpnnvLYIyG~PGTGKTATVK~VLrELqeeaeqk~lp~f~vVYINCm~Lstp~sIYqv  836 (1164)
T PTZ00112        757 LPCREKEIKEVHGFLESGIKQSGSNQILYISGMPGTGKTATVYSVIQLLQHKTKQKLLPSFNVFEINGMNVVHPNAAYQV  836 (1164)
T ss_pred             CCChHHHHHHHHHHHHHHHhcCCCCceEEEECCCCCCHHHHHHHHHHHHHHHHhhccCCCceEEEEeCCccCCHHHHHHH
Confidence            56899999998887754   2222467889999999999999999876      12222  3567777766778888888


Q ss_pred             HHHHhccCCC--cchHHHHHHHHHHHHH--ccCeEEEEEcCccccc-----cccccccCCCCCCCCeEEEE--ecCChhH
Q 001457          231 IARFLNTELE--GDVEVLRAAFLSERLK--RQKRVLIILDDLWGKL-----DLAVVGIPYGEEHKGCKIIL--TSRFKEV  299 (1074)
Q Consensus       231 i~~~l~~~~~--~~~~~~~~~~l~~~l~--~~k~~LlVlDdv~~~~-----~~~~~~~~~~~~~~gs~iiv--TTR~~~v  299 (1074)
                      |.+++.....  +.........+...+.  .+...+||||+|+.-.     .+..+...  ....+++|+|  +|..-+.
T Consensus       837 I~qqL~g~~P~~GlsS~evLerLF~~L~k~~r~v~IIILDEID~L~kK~QDVLYnLFR~--~~~s~SKLiLIGISNdlDL  914 (1164)
T PTZ00112        837 LYKQLFNKKPPNALNSFKILDRLFNQNKKDNRNVSILIIDEIDYLITKTQKVLFTLFDW--PTKINSKLVLIAISNTMDL  914 (1164)
T ss_pred             HHHHHcCCCCCccccHHHHHHHHHhhhhcccccceEEEeehHhhhCccHHHHHHHHHHH--hhccCCeEEEEEecCchhc
Confidence            8888844332  2222334445555442  1234689999997432     12111111  1123556555  3332221


Q ss_pred             --------HhhccCCCeEeCCCCCHHHHHHHHHHhcCCC---CCCchhHHHHHHHHHHhCCChHHHHHHHHHH
Q 001457          300 --------CDEMESTNYVQVEELTDEDRLILFKKKAGLP---EGTKAFDRAAEEVVRQCGKLPNAIVIIGTAL  361 (1074)
Q Consensus       300 --------~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~---~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  361 (1074)
                              ...++ ...+..++.+.++-.+++..++...   .....++-+|+.++..-|-.=.||.++-.+.
T Consensus       915 perLdPRLRSRLg-~eeIvF~PYTaEQL~dILk~RAe~A~gVLdDdAIELIArkVAq~SGDARKALDILRrAg  986 (1164)
T PTZ00112        915 PERLIPRCRSRLA-FGRLVFSPYKGDEIEKIIKERLENCKEIIDHTAIQLCARKVANVSGDIRKALQICRKAF  986 (1164)
T ss_pred             chhhhhhhhhccc-cccccCCCCCHHHHHHHHHHHHHhCCCCCCHHHHHHHHHhhhhcCCHHHHHHHHHHHHH
Confidence                    11222 1246779999999999998887621   1223344444544444444555665555444

>cd01128 rho_factor Transcription termination factor rho is a bacterial ATP-dependent RNA/DNA helicase

Probab=98.43  E-value=6.1e-07  Score=93.75  Aligned_cols=89  Identities=17%  Similarity=0.166  Sum_probs=62.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCC--cCHHHHHHHHHH-----HhccCCCcchH--HHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQT--PDVKRVQDEIAR-----FLNTELEGDVE--VLRAAFL  251 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~--~~~~~~~~~i~~-----~l~~~~~~~~~--~~~~~~l  251 (1074)
                      -..++|+|++|+|||||++.+++.  ..+|+.++|+.+++.  +++.++++.+..     +++........  .......
T Consensus        16 Gqr~~I~G~~G~GKTTLlr~I~n~l~~~~fdv~~~v~vI~er~~ev~el~~~I~~~~v~~~~~~~~~~~~~~~~~~~~~a   95 (249)
T cd01128          16 GQRGLIVAPPKAGKTTLLQSIANAITKNHPEVYLIVLLIDERPEEVTDMQRSVKGEVIASTFDEPPERHVQVAEMVLEKA   95 (249)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccccccCCeEEEEEEccCCCccHHHHHHHhccEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            357899999999999999999999  558999999998877  799999999933     33321100000  1111222


Q ss_pred             HHHHHccCeEEEEEcCcccc
Q 001457          252 SERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       252 ~~~l~~~k~~LlVlDdv~~~  271 (1074)
                      ..+...+++.++++|++..-
T Consensus        96 ~~~~~~G~~vll~iDei~r~  115 (249)
T cd01128          96 KRLVEHGKDVVILLDSITRL  115 (249)
T ss_pred             HHHHHCCCCEEEEEECHHHh
Confidence            22333589999999999653

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.

>TIGR03420 DnaA_homol_Hda DnaA regulatory inactivator Hda

Probab=98.42  E-value=1.6e-06  Score=91.38  Aligned_cols=167  Identities=16%  Similarity=0.259  Sum_probs=99.6

Q ss_pred             chHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcc
Q 001457          164 SALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD  242 (1074)
Q Consensus       164 ~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~  242 (1074)
                      +....++.+-.++....  .+.|.|+|.+|+|||++|+.+++. .......+|++++.-.+.      .           
T Consensus        21 ~~~~~~~~l~~~~~~~~--~~~lll~G~~G~GKT~la~~~~~~~~~~~~~~~~i~~~~~~~~------~-----------   81 (226)
T TIGR03420        21 GNAELLAALRQLAAGKG--DRFLYLWGESGSGKSHLLQAACAAAEERGKSAIYLPLAELAQA------D-----------   81 (226)
T ss_pred             CcHHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHHHHhcCCcEEEEeHHHHHHh------H-----------
Confidence            34555666666654433  678999999999999999999988 444445667665432110      0           


Q ss_pred             hHHHHHHHHHHHHHccCeEEEEEcCccccc---ccc-ccccCCCC-CCCCeEEEEecCChh---------HHhhccCCCe
Q 001457          243 VEVLRAAFLSERLKRQKRVLIILDDLWGKL---DLA-VVGIPYGE-EHKGCKIILTSRFKE---------VCDEMESTNY  308 (1074)
Q Consensus       243 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---~~~-~~~~~~~~-~~~gs~iivTTR~~~---------v~~~~~~~~~  308 (1074)
                            ..+.+.+.  +.-+||+||++...   .|. .+...+.. ...+.+||+||+...         +...+.....
T Consensus        82 ------~~~~~~~~--~~~lLvIDdi~~l~~~~~~~~~L~~~l~~~~~~~~~iIits~~~~~~~~~~~~~L~~r~~~~~~  153 (226)
T TIGR03420        82 ------PEVLEGLE--QADLVCLDDVEAIAGQPEWQEALFHLYNRVREAGGRLLIAGRAAPAQLPLRLPDLRTRLAWGLV  153 (226)
T ss_pred             ------HHHHhhcc--cCCEEEEeChhhhcCChHHHHHHHHHHHHHHHcCCeEEEECCCChHHCCcccHHHHHHHhcCee
Confidence                  01112222  23489999998543   222 22221111 122457899887532         2223323457


Q ss_pred             EeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHH
Q 001457          309 VQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIG  358 (1074)
Q Consensus       309 ~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  358 (1074)
                      +++.++++++-..++...+... ..+--.+..+.|++.+.|.|..+.-+.
T Consensus       154 i~l~~l~~~e~~~~l~~~~~~~-~~~~~~~~l~~L~~~~~gn~r~L~~~l  202 (226)
T TIGR03420       154 FQLPPLSDEEKIAALQSRAARR-GLQLPDEVADYLLRHGSRDMGSLMALL  202 (226)
T ss_pred             EecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHhccCCHHHHHHHH
Confidence            8999999999999887754311 112234566777778888886655543

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=98.41  E-value=3.7e-07  Score=86.01  Aligned_cols=119  Identities=21%  Similarity=0.259  Sum_probs=79.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+++.|.|+-|+||||++++++.+ . ....++|++..+.........+                ..+.+.+... .++.
T Consensus         2 ~~~~~l~G~R~vGKTtll~~~~~~~~-~~~~~~yi~~~~~~~~~~~~~~----------------~~~~~~~~~~-~~~~   63 (128)
T PF13173_consen    2 RKIIILTGPRGVGKTTLLKQLAKDLL-PPENILYINFDDPRDRRLADPD----------------LLEYFLELIK-PGKK   63 (128)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHhc-ccccceeeccCCHHHHHHhhhh----------------hHHHHHHhhc-cCCc
Confidence            468999999999999999999987 4 4456777776554321110000                1222333322 3778


Q ss_pred             EEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHhhc------cCCCeEeCCCCCHHHH
Q 001457          262 LIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEM------ESTNYVQVEELTDEDR  319 (1074)
Q Consensus       262 LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~------~~~~~~~l~~L~~~~~  319 (1074)
                      +|++|+|....+|......+.+..+..+|++|+.+......-      +....+++.||+..|.
T Consensus        64 ~i~iDEiq~~~~~~~~lk~l~d~~~~~~ii~tgS~~~~l~~~~~~~l~gr~~~~~l~Plsf~E~  127 (128)
T PF13173_consen   64 YIFIDEIQYLPDWEDALKFLVDNGPNIKIILTGSSSSLLSKDIAESLAGRVIEIELYPLSFREF  127 (128)
T ss_pred             EEEEehhhhhccHHHHHHHHHHhccCceEEEEccchHHHhhcccccCCCeEEEEEECCCCHHHh
Confidence            899999999888876655555555678999999887765321      1224688999998774

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=98.34  E-value=1.1e-06  Score=83.57  Aligned_cols=112  Identities=23%  Similarity=0.316  Sum_probs=79.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cC-----CCCeEEEEEecCCcCHHHHHHHHHHHhccCCCc-chHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EI-----PFDKVIFVRVTQTPDVKRVQDEIARFLNTELEG-DVEVLRAAFLSERL  255 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~-----~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~l  255 (1074)
                      -+++.|+|.+|+|||++++.+.+. ..     .-..++|+.+....+...+...|+.+++..... .........+.+.+
T Consensus         4 ~~~~~i~G~~G~GKT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~~l~~~~~~~l   83 (131)
T PF13401_consen    4 QRILVISGPPGSGKTTLIKRLARQLNAEAEIKNHPDVIYVNCPSSRTPRDFAQEILEALGLPLKSRQTSDELRSLLIDAL   83 (131)
T ss_dssp             ---EEEEE-TTSSHHHHHHHHHHHHHHHHHHCCCEEEEEEEHHHHSSHHHHHHHHHHHHT-SSSSTS-HHHHHHHHHHHH
T ss_pred             CcccEEEcCCCCCHHHHHHHHHHHhHHhhhccCCCcEEEEEeCCCCCHHHHHHHHHHHhCccccccCCHHHHHHHHHHHH
Confidence            568999999999999999999988 22     134667999988889999999999999987666 44556667888888


Q ss_pred             HccCeEEEEEcCcccc-c--cccccccCCCCCCCCeEEEEecCC
Q 001457          256 KRQKRVLIILDDLWGK-L--DLAVVGIPYGEEHKGCKIILTSRF  296 (1074)
Q Consensus       256 ~~~k~~LlVlDdv~~~-~--~~~~~~~~~~~~~~gs~iivTTR~  296 (1074)
                      ...+..+||+|+++.- .  .++.+..-. + ..+.+||+.-+.
T Consensus        84 ~~~~~~~lviDe~~~l~~~~~l~~l~~l~-~-~~~~~vvl~G~~  125 (131)
T PF13401_consen   84 DRRRVVLLVIDEADHLFSDEFLEFLRSLL-N-ESNIKVVLVGTP  125 (131)
T ss_dssp             HHCTEEEEEEETTHHHHTHHHHHHHHHHT-C-SCBEEEEEEESS
T ss_pred             HhcCCeEEEEeChHhcCCHHHHHHHHHHH-h-CCCCeEEEEECh
Confidence            7666679999998764 2  233332222 1 556777777654

>PRK07003 DNA polymerase III subunits gamma and tau; Validated

Probab=98.33  E-value=2.7e-05  Score=91.23  Aligned_cols=183  Identities=13%  Similarity=0.116  Sum_probs=108.5

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCC-------------------CCeE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIP-------------------FDKV  213 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~-------------------F~~~  213 (1074)
                      ...|..+.|.+..++.|..++..+. -.+.+.++|..|+||||+|+.+.+.   ...                   |..+
T Consensus        12 PqtFdEVIGQe~Vv~~L~~aL~~gR-L~HAyLFtGPpGvGKTTlAriLAKaLnCe~~~~~~PCG~C~sCr~I~~G~h~Dv   90 (830)
T PRK07003         12 PKDFASLVGQEHVVRALTHALDGGR-LHHAYLFTGTRGVGKTTLSRIFAKALNCETGVTSQPCGVCRACREIDEGRFVDY   90 (830)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHhcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCccCCCCCCCcccHHHHHHhcCCCceE
Confidence            4455567788888888888887654 1345679999999999999988876   111                   1112


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      ++++-+....+.+ ++++++.                +...-..++.-++|+|++..-  ..++.+...+.......++|
T Consensus        91 iEIDAas~rgVDd-IReLIe~----------------a~~~P~~gr~KVIIIDEah~LT~~A~NALLKtLEEPP~~v~FI  153 (830)
T PRK07003         91 VEMDAASNRGVDE-MAALLER----------------AVYAPVDARFKVYMIDEVHMLTNHAFNAMLKTLEEPPPHVKFI  153 (830)
T ss_pred             EEecccccccHHH-HHHHHHH----------------HHhccccCCceEEEEeChhhCCHHHHHHHHHHHHhcCCCeEEE
Confidence            2222221111111 1111111                110011245668899999864  33555543333334467877


Q ss_pred             EecCChhH-Hhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh-HHHHHH
Q 001457          292 LTSRFKEV-CDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP-NAIVII  357 (1074)
Q Consensus       292 vTTR~~~v-~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~  357 (1074)
                      +||.+.+- ... ......++++.++.++..+.+.+.+.... ..-..+....|++.++|-. -|+..+
T Consensus       154 LaTtd~~KIp~TIrSRCq~f~Fk~Ls~eeIv~~L~~Il~~Eg-I~id~eAL~lIA~~A~GsmRdALsLL  221 (830)
T PRK07003        154 LATTDPQKIPVTVLSRCLQFNLKQMPAGHIVSHLERILGEER-IAFEPQALRLLARAAQGSMRDALSLT  221 (830)
T ss_pred             EEECChhhccchhhhheEEEecCCcCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            77766543 222 22236899999999999999988775221 2234567788999998855 455543

>PRK09376 rho transcription termination factor Rho; Provisional

Probab=98.33  E-value=1.4e-06  Score=94.38  Aligned_cols=87  Identities=14%  Similarity=0.115  Sum_probs=60.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCc--CHHHHHHHHHHHhccCCCcchHHHH-------HHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP--DVKRVQDEIARFLNTELEGDVEVLR-------AAFLS  252 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~--~~~~~~~~i~~~l~~~~~~~~~~~~-------~~~l~  252 (1074)
                      .-.+|+|++|+||||||++||+.  .++|+.++||.+++..  ++.+++++|...+-......+....       ...-.
T Consensus       170 QR~lIvgppGvGKTTLaK~Ian~I~~nhFDv~~~VvLIgER~~EVtdiqrsIlg~vv~st~d~~~~~~~~~a~~~ie~Ae  249 (416)
T PRK09376        170 QRGLIVAPPKAGKTVLLQNIANSITTNHPEVHLIVLLIDERPEEVTDMQRSVKGEVVASTFDEPAERHVQVAEMVIEKAK  249 (416)
T ss_pred             ceEEEeCCCCCChhHHHHHHHHHHHhhcCCeEEEEEEeCCchhHHHHHHHHhcCcEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            35789999999999999999999  5689999999999887  7888888886322211111111111       11111


Q ss_pred             HHHHccCeEEEEEcCccc
Q 001457          253 ERLKRQKRVLIILDDLWG  270 (1074)
Q Consensus       253 ~~l~~~k~~LlVlDdv~~  270 (1074)
                      .....|++++|++|++..
T Consensus       250 ~~~e~G~dVlL~iDsItR  267 (416)
T PRK09376        250 RLVEHGKDVVILLDSITR  267 (416)
T ss_pred             HHHHcCCCEEEEEEChHH
Confidence            222358999999999864

>PRK05564 DNA polymerase III subunit delta'; Validated

Probab=98.32  E-value=1.4e-05  Score=88.25  Aligned_cols=172  Identities=16%  Similarity=0.161  Sum_probs=108.1

Q ss_pred             cCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-------cCCCCeEEEEEe-cCCcCHHHHHHHHH
Q 001457          161 PLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-------EIPFDKVIFVRV-TQTPDVKRVQDEIA  232 (1074)
Q Consensus       161 ~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-------~~~F~~~~wv~v-s~~~~~~~~~~~i~  232 (1074)
                      .+.|.+..++.+..++..+. -.+...++|+.|+||||+|+.++..       ..|+|...|... +....+.+ .+++.
T Consensus         5 ~i~g~~~~~~~l~~~~~~~~-~~ha~Lf~G~~G~Gk~~la~~~a~~l~c~~~~~~h~D~~~~~~~~~~~i~v~~-ir~~~   82 (313)
T PRK05564          5 TIIGHENIKNRIKNSIIKNR-FSHAHIIVGEDGIGKSLLAKEIALKILGKSQQREYVDIIEFKPINKKSIGVDD-IRNII   82 (313)
T ss_pred             hccCcHHHHHHHHHHHHcCC-CCceEEeECCCCCCHHHHHHHHHHHHcCCCCCCCCCCeEEeccccCCCCCHHH-HHHHH
Confidence            34567777788888886654 2457789999999999999999885       346676666542 22233333 22233


Q ss_pred             HHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCc--cccccccccccCCCCCCCCeEEEEecCChhHH-hh-ccCCCe
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDL--WGKLDLAVVGIPYGEEHKGCKIILTSRFKEVC-DE-MESTNY  308 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv--~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~-~~-~~~~~~  308 (1074)
                      +.+...               -. .+++-++|+|++  .+...++.+...+.....++.+|++|.+.+.. .. ......
T Consensus        83 ~~~~~~---------------p~-~~~~kv~iI~~ad~m~~~a~naLLK~LEepp~~t~~il~~~~~~~ll~TI~SRc~~  146 (313)
T PRK05564         83 EEVNKK---------------PY-EGDKKVIIIYNSEKMTEQAQNAFLKTIEEPPKGVFIILLCENLEQILDTIKSRCQI  146 (313)
T ss_pred             HHHhcC---------------cc-cCCceEEEEechhhcCHHHHHHHHHHhcCCCCCeEEEEEeCChHhCcHHHHhhcee
Confidence            322210               01 134455556655  45566776666665555688898888765432 21 222368


Q ss_pred             EeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHH
Q 001457          309 VQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       309 ~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~  355 (1074)
                      +++.++++++....+.+....     ...+.+..++..++|.|..+.
T Consensus       147 ~~~~~~~~~~~~~~l~~~~~~-----~~~~~~~~l~~~~~g~~~~a~  188 (313)
T PRK05564        147 YKLNRLSKEEIEKFISYKYND-----IKEEEKKSAIAFSDGIPGKVE  188 (313)
T ss_pred             eeCCCcCHHHHHHHHHHHhcC-----CCHHHHHHHHHHcCCCHHHHH
Confidence            999999999998877665421     113446788999999986554

>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=98.31  E-value=4.1e-07  Score=72.84  Aligned_cols=58  Identities=36%  Similarity=0.604  Sum_probs=34.1

Q ss_pred             CccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCC-CccCCccCCeeeccCCC
Q 001457          532 RLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTH  589 (1074)
Q Consensus       532 ~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~-~i~~l~~Lr~L~L~~~~  589 (1074)
                      +|++|++++|.+..+++..|.++++|++|++++|.++.+++ .+..+++|++|++++|+
T Consensus         2 ~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    2 NLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             cCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            45566666666556665556666666666666666655544 45555566666555554

...

>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=98.30  E-value=2.3e-05  Score=78.31  Aligned_cols=171  Identities=16%  Similarity=0.212  Sum_probs=87.4

Q ss_pred             CcccCcchHHHHHH---HHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          158 EFVPLKSALEVIKS---VMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       158 ~~~~~~~r~~~~~~---l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      .+..+.|.++.+..   +++........+..+.+||++|+||||||+-+.+. ...|.   +++.+.-....++ ..++.
T Consensus        22 ~L~efiGQ~~l~~~l~i~i~aa~~r~~~l~h~lf~GPPG~GKTTLA~IIA~e~~~~~~---~~sg~~i~k~~dl-~~il~   97 (233)
T PF05496_consen   22 SLDEFIGQEHLKGNLKILIRAAKKRGEALDHMLFYGPPGLGKTTLARIIANELGVNFK---ITSGPAIEKAGDL-AAILT   97 (233)
T ss_dssp             SCCCS-S-HHHHHHHHHHHHHHHCTTS---EEEEESSTTSSHHHHHHHHHHHCT--EE---EEECCC--SCHHH-HHHHH
T ss_pred             CHHHccCcHHHHhhhHHHHHHHHhcCCCcceEEEECCCccchhHHHHHHHhccCCCeE---eccchhhhhHHHH-HHHHH
Confidence            33344455554444   33443333445788999999999999999999999 65552   2222111111111 12222


Q ss_pred             HhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--cc-------ccc---------------cccCCCCCCCCeE
Q 001457          234 FLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LD-------LAV---------------VGIPYGEEHKGCK  289 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~-------~~~---------------~~~~~~~~~~gs~  289 (1074)
                      .+                      +++-+|.+|++..-  .+       .++               +...++   +=+-
T Consensus        98 ~l----------------------~~~~ILFIDEIHRlnk~~qe~LlpamEd~~idiiiG~g~~ar~~~~~l~---~FTl  152 (233)
T PF05496_consen   98 NL----------------------KEGDILFIDEIHRLNKAQQEILLPAMEDGKIDIIIGKGPNARSIRINLP---PFTL  152 (233)
T ss_dssp             T------------------------TT-EEEECTCCC--HHHHHHHHHHHHCSEEEEEBSSSSS-BEEEEE-------EE
T ss_pred             hc----------------------CCCcEEEEechhhccHHHHHHHHHHhccCeEEEEeccccccceeeccCC---CceE
Confidence            22                      13345555655421  00       011               111111   2345


Q ss_pred             EEEecCChhHHhhccCCC--eEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHH
Q 001457          290 IILTSRFKEVCDEMESTN--YVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIG  358 (1074)
Q Consensus       290 iivTTR~~~v~~~~~~~~--~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  358 (1074)
                      |=.|||...+........  +.+++..+.+|-.++..+.+.. -..+-.++.+.+|+++|.|-|--+.-+-
T Consensus       153 igATTr~g~ls~pLrdRFgi~~~l~~Y~~~el~~Iv~r~a~~-l~i~i~~~~~~~Ia~rsrGtPRiAnrll  222 (233)
T PF05496_consen  153 IGATTRAGLLSSPLRDRFGIVLRLEFYSEEELAKIVKRSARI-LNIEIDEDAAEEIARRSRGTPRIANRLL  222 (233)
T ss_dssp             EEEESSGCCTSHCCCTTSSEEEE----THHHHHHHHHHCCHC-TT-EE-HHHHHHHHHCTTTSHHHHHHHH
T ss_pred             eeeeccccccchhHHhhcceecchhcCCHHHHHHHHHHHHHH-hCCCcCHHHHHHHHHhcCCChHHHHHHH
Confidence            667999877755544443  4589999999999999887751 2233446889999999999995444333

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.

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.29  E-value=2.3e-08  Score=101.00  Aligned_cols=140  Identities=18%  Similarity=0.158  Sum_probs=77.7

Q ss_pred             cccceEEEecCCCccccccchhHhhhcCCCceecccccccceeeccchhhHhhhhhhccccccCCCCcccCCceEEEecc
Q 001457          853 KTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGK  932 (1074)
Q Consensus       853 ~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~~~~l~~l~l~~~~~~~~~~~L~~L~l~~  932 (1074)
                      .+|+.|+++.|+.++......++.+|+.|.+|+|++|..-++...+.-.                  +--++|+.|+|++
T Consensus       234 ~~L~~lnlsm~sG~t~n~~~ll~~scs~L~~LNlsWc~l~~~~Vtv~V~------------------hise~l~~LNlsG  295 (419)
T KOG2120|consen  234 SNLVRLNLSMCSGFTENALQLLLSSCSRLDELNLSWCFLFTEKVTVAVA------------------HISETLTQLNLSG  295 (419)
T ss_pred             ccceeeccccccccchhHHHHHHHhhhhHhhcCchHhhccchhhhHHHh------------------hhchhhhhhhhhh
Confidence            5677777777777776655556778888888888888766654322110                  0115666666666


Q ss_pred             cccccccc-cccccccccCccEEEEeeccCcceeecccchhhcccCcccccccccccccccccccccccCccccccCCCc
Q 001457          933 CNKMKRVL-SLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSL 1011 (1074)
Q Consensus       933 C~~L~~~~-~~~~~~~l~~L~~L~i~~C~~l~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~i~~~~~~~~~~~~L 1011 (1074)
                      |..--... .......+|+|..|++++|..++.-.        ...+..|+-|++|.++.|-.+.--  ..+.+...|+|
T Consensus       296 ~rrnl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~--------~~~~~kf~~L~~lSlsRCY~i~p~--~~~~l~s~psl  365 (419)
T KOG2120|consen  296 YRRNLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDC--------FQEFFKFNYLQHLSLSRCYDIIPE--TLLELNSKPSL  365 (419)
T ss_pred             hHhhhhhhHHHHHHHhCCceeeeccccccccCchH--------HHHHHhcchheeeehhhhcCCChH--HeeeeccCcce
Confidence            65421111 11113456667777777666554311        012345667777777766543211  11111133777


Q ss_pred             cEEEEeCCC
Q 001457         1012 EELKVWDCP 1020 (1074)
Q Consensus      1012 ~~L~i~~C~ 1020 (1074)
                      .+|++.||-
T Consensus       366 ~yLdv~g~v  374 (419)
T KOG2120|consen  366 VYLDVFGCV  374 (419)
T ss_pred             EEEEecccc
Confidence            777777764

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

Probab=98.28  E-value=5e-06  Score=80.92  Aligned_cols=121  Identities=17%  Similarity=0.208  Sum_probs=70.5

Q ss_pred             chHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcc
Q 001457          164 SALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD  242 (1074)
Q Consensus       164 ~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~  242 (1074)
                      +++..+..+...+....  .+.+.|+|.+|+||||+|+.+++. ...-..++++...+..........+...        
T Consensus         2 ~~~~~~~~i~~~~~~~~--~~~v~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~--------   71 (151)
T cd00009           2 GQEEAIEALREALELPP--PKNLLLYGPPGTGKTTLARAIANELFRPGAPFLYLNASDLLEGLVVAELFGHF--------   71 (151)
T ss_pred             chHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHhhcCCCCeEEEehhhhhhhhHHHHHhhhh--------
Confidence            46677778877776644  568999999999999999999998 3323456677665543322221111100        


Q ss_pred             hHHHHHHHHHHHHHccCeEEEEEcCcccc-----ccccccccCCCC---CCCCeEEEEecCChh
Q 001457          243 VEVLRAAFLSERLKRQKRVLIILDDLWGK-----LDLAVVGIPYGE---EHKGCKIILTSRFKE  298 (1074)
Q Consensus       243 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~-----~~~~~~~~~~~~---~~~gs~iivTTR~~~  298 (1074)
                         .......... ..+..++|+||++..     ..+..+......   ...+.+||+||....
T Consensus        72 ---~~~~~~~~~~-~~~~~~lilDe~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~ii~~~~~~~  131 (151)
T cd00009          72 ---LVRLLFELAE-KAKPGVLFIDEIDSLSRGAQNALLRVLETLNDLRIDRENVRVIGATNRPL  131 (151)
T ss_pred             ---hHhHHHHhhc-cCCCeEEEEeChhhhhHHHHHHHHHHHHhcCceeccCCCeEEEEecCccc
Confidence               0000111111 357889999999853     222222112111   135788999988653

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.

>KOG2028 consensus ATPase related to the helicase subunit of the Holliday junction resolvase [Replication, recombination and repair]

Probab=98.26  E-value=1e-05  Score=84.43  Aligned_cols=155  Identities=15%  Similarity=0.194  Sum_probs=101.4

Q ss_pred             HHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHH
Q 001457          175 LLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSE  253 (1074)
Q Consensus       175 ~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~  253 (1074)
                      .+..+.  +.-+.+||++|+||||||+.+.+. +.+-  ..||..|....-..-.++|+++...             . .
T Consensus       156 ~ieq~~--ipSmIlWGppG~GKTtlArlia~tsk~~S--yrfvelSAt~a~t~dvR~ife~aq~-------------~-~  217 (554)
T KOG2028|consen  156 LIEQNR--IPSMILWGPPGTGKTTLARLIASTSKKHS--YRFVELSATNAKTNDVRDIFEQAQN-------------E-K  217 (554)
T ss_pred             HHHcCC--CCceEEecCCCCchHHHHHHHHhhcCCCc--eEEEEEeccccchHHHHHHHHHHHH-------------H-H
Confidence            334455  788889999999999999999988 4432  6678887665555555566554321             1 1


Q ss_pred             HHHccCeEEEEEcCccc--cccccccccCCCCCCCCeEEEE--ecCChhH---HhhccCCCeEeCCCCCHHHHHHHHHHh
Q 001457          254 RLKRQKRVLIILDDLWG--KLDLAVVGIPYGEEHKGCKIIL--TSRFKEV---CDEMESTNYVQVEELTDEDRLILFKKK  326 (1074)
Q Consensus       254 ~l~~~k~~LlVlDdv~~--~~~~~~~~~~~~~~~~gs~iiv--TTR~~~v---~~~~~~~~~~~l~~L~~~~~~~lf~~~  326 (1074)
                      .+ .++|.+|.+|.|..  ..+-+.+   +|...+|+-++|  ||.+...   +.......++.|+.|+.++-..++.+.
T Consensus       218 ~l-~krkTilFiDEiHRFNksQQD~f---LP~VE~G~I~lIGATTENPSFqln~aLlSRC~VfvLekL~~n~v~~iL~ra  293 (554)
T KOG2028|consen  218 SL-TKRKTILFIDEIHRFNKSQQDTF---LPHVENGDITLIGATTENPSFQLNAALLSRCRVFVLEKLPVNAVVTILMRA  293 (554)
T ss_pred             hh-hcceeEEEeHHhhhhhhhhhhcc---cceeccCceEEEecccCCCccchhHHHHhccceeEeccCCHHHHHHHHHHH
Confidence            12 37899999999964  3344433   444556776666  7887765   233444578999999999999998774


Q ss_pred             cC---C------CCCCc---hhHHHHHHHHHHhCCCh
Q 001457          327 AG---L------PEGTK---AFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       327 a~---~------~~~~~---~~~~~~~~i~~~c~glP  351 (1074)
                      ..   +      .-.++   ....+..-++..|.|-.
T Consensus       294 ia~l~dser~~~~l~n~s~~ve~siidyla~lsdGDa  330 (554)
T KOG2028|consen  294 IASLGDSERPTDPLPNSSMFVEDSIIDYLAYLSDGDA  330 (554)
T ss_pred             HHhhccccccCCCCCCcchhhhHHHHHHHHHhcCchH
Confidence            32   1      11121   22456677777787754

>PLN03150 hypothetical protein; Provisional

Probab=98.25  E-value=1.7e-06  Score=104.37  Aligned_cols=101  Identities=20%  Similarity=0.383  Sum_probs=71.1

Q ss_pred             ccEEEecCCccC-CCCCCccCCccCCeeeccCCCCCC--CccccCCCCccEEEeeCCCCc-ccCccccCCCCCCEEeCCC
Q 001457          557 IKNLDLSSTNIS-SLAPSLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSN  632 (1074)
Q Consensus       557 L~~L~l~~~~~~-~lp~~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~~~~i~-~lp~~i~~L~~L~~L~l~~  632 (1074)
                      ++.|+|++|.+. .+|..++.+++|++|+|++|.+..  |..++.+++|++|+|++|++. .+|..+++|++|++|++++
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            667777777776 556677777777777777777765  667777777777777777766 6677777777777777777


Q ss_pred             CcCCCCcChhhhcC-CCCcCEEEccCC
Q 001457          633 NLFLQVIPPNVISK-LSQLEELYVGNS  658 (1074)
Q Consensus       633 ~~~~~~~p~~~i~~-L~~L~~L~l~~~  658 (1074)
                      |.+...+|.. ++. ..++..+++.+|
T Consensus       500 N~l~g~iP~~-l~~~~~~~~~l~~~~N  525 (623)
T PLN03150        500 NSLSGRVPAA-LGGRLLHRASFNFTDN  525 (623)
T ss_pred             CcccccCChH-HhhccccCceEEecCC
Confidence            7776677765 433 344556666554

>PLN03150 hypothetical protein; Provisional

Probab=98.24  E-value=2.2e-06  Score=103.30  Aligned_cols=107  Identities=21%  Similarity=0.328  Sum_probs=93.3

Q ss_pred             CccEEEccCCCCCCCChhHHhcCCCccEEEecCCccC-CCCCCccCCccCCeeeccCCCCCC--CccccCCCCccEEEee
Q 001457          532 RLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS-SLAPSLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILK  608 (1074)
Q Consensus       532 ~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~-~lp~~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~  608 (1074)
                      .++.|+|++|.+....+..+.++++|+.|+|++|.+. .+|+.++.+++|++|+|++|.++.  |..++++++|++|+|+
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            4788999999988766667899999999999999998 778899999999999999999986  8899999999999999


Q ss_pred             CCCCc-ccCccccCC-CCCCEEeCCCCcCCCC
Q 001457          609 GSRIV-ELPNGIGTV-SNLKLLDLSNNLFLQV  638 (1074)
Q Consensus       609 ~~~i~-~lp~~i~~L-~~L~~L~l~~~~~~~~  638 (1074)
                      +|.+. .+|..++.+ .++..+++.+|..+..
T Consensus       499 ~N~l~g~iP~~l~~~~~~~~~l~~~~N~~lc~  530 (623)
T PLN03150        499 GNSLSGRVPAALGGRLLHRASFNFTDNAGLCG  530 (623)
T ss_pred             CCcccccCChHHhhccccCceEEecCCccccC
Confidence            99987 889888764 5778899888865443

>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=98.21  E-value=1.5e-06  Score=69.63  Aligned_cols=57  Identities=26%  Similarity=0.475  Sum_probs=36.7

Q ss_pred             CCccEEEecCCccCCCCC-CccCCccCCeeeccCCCCCC--CccccCCCCccEEEeeCCC
Q 001457          555 REIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSR  611 (1074)
Q Consensus       555 ~~L~~L~l~~~~~~~lp~-~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~~~~  611 (1074)
                      ++|++|++++|.++.+|+ .+..+++|++|++++|.++.  +..+.++++|++|++++|+
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 PNLESLDLSNNKLTEIPPDSFSNLPNLETLDLSNNNLTSIPPDAFSNLPNLRYLDLSNNN   60 (61)
T ss_dssp             TTESEEEETSSTESEECTTTTTTGTTESEEEETSSSESEEETTTTTTSTTESEEEETSSS
T ss_pred             CcCcEEECCCCCCCccCHHHHcCCCCCCEeEccCCccCccCHHHHcCCCCCCEEeCcCCc
Confidence            356677777777776664 55666777777777666655  4455666666666666654

...

>TIGR02903 spore_lon_C ATP-dependent protease, Lon family

Probab=98.21  E-value=0.00025  Score=84.92  Aligned_cols=199  Identities=20%  Similarity=0.156  Sum_probs=111.4

Q ss_pred             CcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCC---CeEEEEEecCC---cCHHHHH
Q 001457          158 EFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPF---DKVIFVRVTQT---PDVKRVQ  228 (1074)
Q Consensus       158 ~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F---~~~~wv~vs~~---~~~~~~~  228 (1074)
                      .+..+.|+...+..++..+....  ...+.|+|++|+||||+|+.+++.   ...+   ...-|+.+...   .+...+.
T Consensus       152 ~~~~iiGqs~~~~~l~~~ia~~~--~~~vlL~Gp~GtGKTTLAr~i~~~~~~~~~~~~~~~~~fv~i~~~~l~~d~~~i~  229 (615)
T TIGR02903       152 AFSEIVGQERAIKALLAKVASPF--PQHIILYGPPGVGKTTAARLALEEAKKLKHTPFAEDAPFVEVDGTTLRWDPREVT  229 (615)
T ss_pred             cHHhceeCcHHHHHHHHHHhcCC--CCeEEEECCCCCCHHHHHHHHHHhhhhccCCcccCCCCeEEEechhccCCHHHHh
Confidence            33345577777777777775444  567999999999999999999877   2222   12346655432   1222221


Q ss_pred             HHH---------------HHHhccC------------------CCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--cc
Q 001457          229 DEI---------------ARFLNTE------------------LEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LD  273 (1074)
Q Consensus       229 ~~i---------------~~~l~~~------------------~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~  273 (1074)
                      ..+               +...+..                  .-...+......+.+.++ .+++.++-|+.|..  ..
T Consensus       230 ~~llg~~~~~~~~~a~~~l~~~gl~~~~~g~v~~asgGvL~LDEi~~Ld~~~Q~~Ll~~Le-~~~v~~~~~~~~~~~~~~  308 (615)
T TIGR02903       230 NPLLGSVHDPIYQGARRDLAETGVPEPKTGLVTDAHGGVLFIDEIGELDPLLQNKLLKVLE-DKRVEFSSSYYDPDDPNV  308 (615)
T ss_pred             HHhcCCccHHHHHHHHHHHHHcCCCchhcCchhhcCCCeEEEeccccCCHHHHHHHHHHHh-hCeEEeecceeccCCccc
Confidence            111               1111100                  001112334556777775 68888887766643  45


Q ss_pred             ccccccCCCCCCCCeEEEE--ecCChhH-Hhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCC
Q 001457          274 LAVVGIPYGEEHKGCKIIL--TSRFKEV-CDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGK  349 (1074)
Q Consensus       274 ~~~~~~~~~~~~~gs~iiv--TTR~~~v-~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~g  349 (1074)
                      |+.+...+....+...|++  ||++... .... .....+.+.+++.+|.+.++.+.+.... ..--.++.+.|++.+..
T Consensus       309 ~~~ik~~~~~~~~~~~VLI~aTt~~~~~l~~aLrSR~~~i~~~pls~edi~~Il~~~a~~~~-v~ls~eal~~L~~ys~~  387 (615)
T TIGR02903       309 PKYIKKLFEEGAPADFVLIGATTRDPEEINPALRSRCAEVFFEPLTPEDIALIVLNAAEKIN-VHLAAGVEELIARYTIE  387 (615)
T ss_pred             chhhhhhcccCccceEEEEEeccccccccCHHHHhceeEEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHCCCc
Confidence            7777666655555555555  5665432 1111 1124678899999999999988765211 11113444445554443


Q ss_pred             ChHHHHHHHHH
Q 001457          350 LPNAIVIIGTA  360 (1074)
Q Consensus       350 lPLai~~~~~~  360 (1074)
                      -+-|+..++..
T Consensus       388 gRraln~L~~~  398 (615)
T TIGR02903       388 GRKAVNILADV  398 (615)
T ss_pred             HHHHHHHHHHH
Confidence            34455444433

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.

>PRK06645 DNA polymerase III subunits gamma and tau; Validated

Probab=98.19  E-value=3.2e-05  Score=89.24  Aligned_cols=193  Identities=12%  Similarity=0.088  Sum_probs=106.4

Q ss_pred             CCCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--c-CCCCe-EEEEEecCCcCHHHHHHH
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--E-IPFDK-VIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       155 ~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~-~~F~~-~~wv~vs~~~~~~~~~~~  230 (1074)
                      .+..+..+.|.+..+..+...+..+. -.+.+.++|+.|+||||+|+.+++.  . ..... -.+..+...    .-...
T Consensus        16 RP~~f~dliGq~~vv~~L~~ai~~~r-i~~a~Lf~Gp~G~GKTT~ArilAk~Lnc~~~~~~~~~~~~C~~C----~~C~~   90 (507)
T PRK06645         16 RPSNFAELQGQEVLVKVLSYTILNDR-LAGGYLLTGIRGVGKTTSARIIAKAVNCSALITENTTIKTCEQC----TNCIS   90 (507)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCccccccCcCcCCCCCC----hHHHH
Confidence            34455556677777777766665544 2357889999999999999999887  1 11100 000000000    00111


Q ss_pred             HHHHhccC---CC--cchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE-ecCChh
Q 001457          231 IARFLNTE---LE--GDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL-TSRFKE  298 (1074)
Q Consensus       231 i~~~l~~~---~~--~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv-TTR~~~  298 (1074)
                      +......+   .+  .....+....+.+...    .+++-++|+|+++.-  ..++.+...+......+++|+ ||+.+.
T Consensus        91 i~~~~h~Dv~eidaas~~~vd~Ir~iie~a~~~P~~~~~KVvIIDEa~~Ls~~a~naLLk~LEepp~~~vfI~aTte~~k  170 (507)
T PRK06645         91 FNNHNHPDIIEIDAASKTSVDDIRRIIESAEYKPLQGKHKIFIIDEVHMLSKGAFNALLKTLEEPPPHIIFIFATTEVQK  170 (507)
T ss_pred             HhcCCCCcEEEeeccCCCCHHHHHHHHHHHHhccccCCcEEEEEEChhhcCHHHHHHHHHHHhhcCCCEEEEEEeCChHH
Confidence            11000000   00  0000111111211111    257788999999863  446655544444344666654 555555


Q ss_pred             HHhhcc-CCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHH
Q 001457          299 VCDEME-STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       299 v~~~~~-~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLa  353 (1074)
                      +..... ....+++++++.++....+.+.+.... ..-..+....|++.++|.+--
T Consensus       171 I~~tI~SRc~~~ef~~ls~~el~~~L~~i~~~eg-i~ie~eAL~~Ia~~s~GslR~  225 (507)
T PRK06645        171 IPATIISRCQRYDLRRLSFEEIFKLLEYITKQEN-LKTDIEALRIIAYKSEGSARD  225 (507)
T ss_pred             hhHHHHhcceEEEccCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHH
Confidence            544332 336799999999999999988875221 122345677799999997743

>PRK14949 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.18  E-value=3e-05  Score=92.75  Aligned_cols=183  Identities=13%  Similarity=0.118  Sum_probs=107.2

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cC-C-------------------CCeE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EI-P-------------------FDKV  213 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~-~-------------------F~~~  213 (1074)
                      +..|..+.|.+..++.+.+++..+. -...+.++|+.|+||||+|+.+.+.  .. .                   |.-+
T Consensus        12 P~tFddIIGQe~Iv~~LknaI~~~r-l~HAyLFtGPpGtGKTTLARiLAk~Lnce~~~~~~pCg~C~sC~~i~~g~~~Dv   90 (944)
T PRK14949         12 PATFEQMVGQSHVLHALTNALTQQR-LHHAYLFTGTRGVGKTSLARLFAKGLNCEQGVTATPCGVCSSCVEIAQGRFVDL   90 (944)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCC-CCeEEEEECCCCCCHHHHHHHHHHhccCccCCCCCCCCCchHHHHHhcCCCceE
Confidence            3445556678888888877776655 1345589999999999999999988  21 1                   1111


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      ++++.+....+.. +++|...+                ...-..+++-++|+|++..-  ..++.+...+-......++|
T Consensus        91 iEidAas~~kVDd-IReLie~v----------------~~~P~~gk~KViIIDEAh~LT~eAqNALLKtLEEPP~~vrFI  153 (944)
T PRK14949         91 IEVDAASRTKVDD-TRELLDNV----------------QYRPSRGRFKVYLIDEVHMLSRSSFNALLKTLEEPPEHVKFL  153 (944)
T ss_pred             EEeccccccCHHH-HHHHHHHH----------------HhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhccCCCeEEE
Confidence            2221111111111 12222111                11111367889999998753  44444433332223456666


Q ss_pred             EecC-ChhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          292 LTSR-FKEVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       292 vTTR-~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      ++|. ...+... ......|++++++.++..+.+.+.+... ...-..+....|++.++|.|--+..+
T Consensus       154 LaTTe~~kLl~TIlSRCq~f~fkpLs~eEI~~~L~~il~~E-gI~~edeAL~lIA~~S~Gd~R~ALnL  220 (944)
T PRK14949        154 LATTDPQKLPVTVLSRCLQFNLKSLTQDEIGTQLNHILTQE-QLPFEAEALTLLAKAANGSMRDALSL  220 (944)
T ss_pred             EECCCchhchHHHHHhheEEeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            6554 4444322 2233689999999999999888766421 12233567888999999988544433

>PRK04195 replication factor C large subunit; Provisional

Probab=98.18  E-value=0.00013  Score=85.60  Aligned_cols=254  Identities=13%  Similarity=0.106  Sum_probs=135.7

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCC--CceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNS--ISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~--~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +..+..+.|.++.++.+..|+....  ...+.+.|+|++|+||||+|+.++++-+ |+ .+-++.++..+.. .+..++.
T Consensus        10 P~~l~dlvg~~~~~~~l~~~l~~~~~g~~~~~lLL~GppG~GKTtla~ala~el~-~~-~ielnasd~r~~~-~i~~~i~   86 (482)
T PRK04195         10 PKTLSDVVGNEKAKEQLREWIESWLKGKPKKALLLYGPPGVGKTSLAHALANDYG-WE-VIELNASDQRTAD-VIERVAG   86 (482)
T ss_pred             CCCHHHhcCCHHHHHHHHHHHHHHhcCCCCCeEEEECCCCCCHHHHHHHHHHHcC-CC-EEEEcccccccHH-HHHHHHH
Confidence            3344456678888888888775421  1267899999999999999999998821 22 3334444433222 2222222


Q ss_pred             HhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccccc------ccccccCCCCCCCCeEEEEecCChh-HHh-hc-c
Q 001457          234 FLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLD------LAVVGIPYGEEHKGCKIILTSRFKE-VCD-EM-E  304 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~------~~~~~~~~~~~~~gs~iivTTR~~~-v~~-~~-~  304 (1074)
                      .....              ..+...++-+||+|+++....      +..+...+.  ..+..||+|+.+.. ... .. .
T Consensus        87 ~~~~~--------------~sl~~~~~kvIiIDEaD~L~~~~d~~~~~aL~~~l~--~~~~~iIli~n~~~~~~~k~Lrs  150 (482)
T PRK04195         87 EAATS--------------GSLFGARRKLILLDEVDGIHGNEDRGGARAILELIK--KAKQPIILTANDPYDPSLRELRN  150 (482)
T ss_pred             Hhhcc--------------CcccCCCCeEEEEecCcccccccchhHHHHHHHHHH--cCCCCEEEeccCccccchhhHhc
Confidence            21100              001112678999999976421      233322221  12344666654322 211 11 2


Q ss_pred             CCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHHc-CC---ChhHHHHHHHHHhhCC
Q 001457          305 STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALR-HK---PVREWNEAIKRKKAST  380 (1074)
Q Consensus       305 ~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~-~~---~~~~w~~~~~~l~~~~  380 (1074)
                      ....+++.+++.++....+.+.+.... ..-..++...|++.++|-.-.+......+. +.   +.+.-..+..      
T Consensus       151 r~~~I~f~~~~~~~i~~~L~~i~~~eg-i~i~~eaL~~Ia~~s~GDlR~ain~Lq~~a~~~~~it~~~v~~~~~------  223 (482)
T PRK04195        151 ACLMIEFKRLSTRSIVPVLKRICRKEG-IECDDEALKEIAERSGGDLRSAINDLQAIAEGYGKLTLEDVKTLGR------  223 (482)
T ss_pred             cceEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHHhcCCCCCcHHHHHHhhc------
Confidence            235789999999998888877764211 112256788899999997655443333332 22   2222222211      


Q ss_pred             CCCCCCchHHHHHHHHHhhc-CChhhHHHHHHhhcCCCCCCccchHHHHHHHhhhcccccccchhhhh
Q 001457          381 PINVEGIPEEVVLCVALGYD-QLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVG  447 (1074)
Q Consensus       381 ~~~~~~~~~~~~~~l~~sy~-~L~~~~k~cf~~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~  447 (1074)
                          .+....++.++..-+. .-+..+...+..+       .++. ..+-.|+.|++.......+++.
T Consensus       224 ----~d~~~~if~~l~~i~~~k~~~~a~~~~~~~-------~~~~-~~i~~~l~en~~~~~~~~~~~~  279 (482)
T PRK04195        224 ----RDREESIFDALDAVFKARNADQALEASYDV-------DEDP-DDLIEWIDENIPKEYDDPEDIA  279 (482)
T ss_pred             ----CCCCCCHHHHHHHHHCCCCHHHHHHHHHcc-------cCCH-HHHHHHHHhccccccCCHHHHH
Confidence                1122455666654444 2233333322222       2233 3567899999987544444443

>PRK12323 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.17  E-value=2.1e-05  Score=90.92  Aligned_cols=199  Identities=14%  Similarity=0.084  Sum_probs=107.2

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cC-CCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EI-PFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~-~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      ...|..+.|.+..++.+.+.+..+. -.+.+.++|..|+||||+|+.+.+. .. .-+..--+. +..+..-...+.|..
T Consensus        12 PqtFddVIGQe~vv~~L~~al~~gR-LpHA~LFtGP~GvGKTTLAriLAkaLnC~~p~~~~g~~-~~PCG~C~sC~~I~a   89 (700)
T PRK12323         12 PRDFTTLVGQEHVVRALTHALEQQR-LHHAYLFTGTRGVGKTTLSRILAKSLNCTGADGEGGIT-AQPCGQCRACTEIDA   89 (700)
T ss_pred             CCcHHHHcCcHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCccccccCC-CCCCcccHHHHHHHc
Confidence            4455567788888888888887665 1346789999999999999999877 11 000000000 000100111111110


Q ss_pred             Hh-----ccCCCcchHHHHHHHHHHHH----HccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE-EecCChhHHh
Q 001457          234 FL-----NTELEGDVEVLRAAFLSERL----KRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII-LTSRFKEVCD  301 (1074)
Q Consensus       234 ~l-----~~~~~~~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii-vTTR~~~v~~  301 (1074)
                      .-     ..+.......+.+..+.+.+    ..++.-++|+|++..-  ..++.+...+..-..+.++| +||....+..
T Consensus        90 G~hpDviEIdAas~~gVDdIReLie~~~~~P~~gr~KViIIDEah~Ls~~AaNALLKTLEEPP~~v~FILaTtep~kLlp  169 (700)
T PRK12323         90 GRFVDYIEMDAASNRGVDEMAQLLDKAVYAPTAGRFKVYMIDEVHMLTNHAFNAMLKTLEEPPEHVKFILATTDPQKIPV  169 (700)
T ss_pred             CCCCcceEecccccCCHHHHHHHHHHHHhchhcCCceEEEEEChHhcCHHHHHHHHHhhccCCCCceEEEEeCChHhhhh
Confidence            00     00000000011112222222    1367779999999854  34444443333323355554 4555555532


Q ss_pred             hc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          302 EM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       302 ~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      .+ .....++++.++.++..+.+.+.+.... .....+..+.|++.++|.|.....+
T Consensus       170 TIrSRCq~f~f~~ls~eei~~~L~~Il~~Eg-i~~d~eAL~~IA~~A~Gs~RdALsL  225 (700)
T PRK12323        170 TVLSRCLQFNLKQMPPGHIVSHLDAILGEEG-IAHEVNALRLLAQAAQGSMRDALSL  225 (700)
T ss_pred             HHHHHHHhcccCCCChHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            22 2236899999999999998887764211 1223456688999999998654443

>PRK14963 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.16  E-value=8.3e-05  Score=86.34  Aligned_cols=194  Identities=16%  Similarity=0.078  Sum_probs=107.2

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +..+..+.|.+..++.+..++..+. -...+.++|++|+||||+|+.+++.   .+.+...+|.|.+... +.......+
T Consensus        10 P~~~~dvvGq~~v~~~L~~~i~~~~-l~ha~Lf~GppGtGKTTlA~~lA~~l~c~~~~~~~cg~C~sc~~-i~~~~h~dv   87 (504)
T PRK14963         10 PITFDEVVGQEHVKEVLLAALRQGR-LGHAYLFSGPRGVGKTTTARLIAMAVNCSGEDPKPCGECESCLA-VRRGAHPDV   87 (504)
T ss_pred             CCCHHHhcChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHhccCCCCCCCCcChhhHH-HhcCCCCce
Confidence            3344556677777777777776655 2346699999999999999999887   2223323333321100 000000000


Q ss_pred             HHhccCCCcchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEec-CChhHHhhc-c
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTS-RFKEVCDEM-E  304 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTT-R~~~v~~~~-~  304 (1074)
                      ..+...  .......+..+.+.+.    .+++-++|+|+++..  ..++.+...+........+|++| +...+.... .
T Consensus        88 ~el~~~--~~~~vd~iR~l~~~~~~~p~~~~~kVVIIDEad~ls~~a~naLLk~LEep~~~t~~Il~t~~~~kl~~~I~S  165 (504)
T PRK14963         88 LEIDAA--SNNSVEDVRDLREKVLLAPLRGGRKVYILDEAHMMSKSAFNALLKTLEEPPEHVIFILATTEPEKMPPTILS  165 (504)
T ss_pred             EEeccc--ccCCHHHHHHHHHHHhhccccCCCeEEEEECccccCHHHHHHHHHHHHhCCCCEEEEEEcCChhhCChHHhc
Confidence            000000  0000111222222221    256779999998754  34555544443333455555555 444443222 2


Q ss_pred             CCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          305 STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       305 ~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      ....+++.+++.++..+.+.+.+.... ..-..+....|++.++|.+--+
T Consensus       166 Rc~~~~f~~ls~~el~~~L~~i~~~eg-i~i~~~Al~~ia~~s~GdlR~a  214 (504)
T PRK14963        166 RTQHFRFRRLTEEEIAGKLRRLLEAEG-REAEPEALQLVARLADGAMRDA  214 (504)
T ss_pred             ceEEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            236899999999999999988765211 1223567888999999988543

>PLN03025 replication factor C subunit; Provisional

Probab=98.16  E-value=1.8e-05  Score=87.53  Aligned_cols=179  Identities=11%  Similarity=0.146  Sum_probs=100.6

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCC-eEEEEEecCCcCHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFD-KVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~-~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +..+..+.|..+.++.+..++..+.  .+.+.++|++|+||||+|+.+.+.  ...|. .++-++.++..... ..++++
T Consensus         9 P~~l~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~G~GKTtla~~la~~l~~~~~~~~~~eln~sd~~~~~-~vr~~i   85 (319)
T PLN03025          9 PTKLDDIVGNEDAVSRLQVIARDGN--MPNLILSGPPGTGKTTSILALAHELLGPNYKEAVLELNASDDRGID-VVRNKI   85 (319)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHHHhcccCccceeeecccccccHH-HHHHHH
Confidence            3444456677776776666665544  556789999999999999999988  33343 22223333332222 222222


Q ss_pred             HHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCCh-hHHhhc-cCCCe
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFK-EVCDEM-ESTNY  308 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~-~~~~~  308 (1074)
                      +.+.....             ....++.-++|+|+++.-  .....+...+......+++|+++... .+.... .....
T Consensus        86 ~~~~~~~~-------------~~~~~~~kviiiDE~d~lt~~aq~aL~~~lE~~~~~t~~il~~n~~~~i~~~L~SRc~~  152 (319)
T PLN03025         86 KMFAQKKV-------------TLPPGRHKIVILDEADSMTSGAQQALRRTMEIYSNTTRFALACNTSSKIIEPIQSRCAI  152 (319)
T ss_pred             HHHHhccc-------------cCCCCCeEEEEEechhhcCHHHHHHHHHHHhcccCCceEEEEeCCccccchhHHHhhhc
Confidence            21110000             001245678999999754  22222222222223456777766432 222111 12257


Q ss_pred             EeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          309 VQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       309 ~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      ++++++++++....+.+.+.... ..-..+....|++.++|-.
T Consensus       153 i~f~~l~~~~l~~~L~~i~~~eg-i~i~~~~l~~i~~~~~gDl  194 (319)
T PLN03025        153 VRFSRLSDQEILGRLMKVVEAEK-VPYVPEGLEAIIFTADGDM  194 (319)
T ss_pred             ccCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCH
Confidence            89999999999988887775211 1112456788999998865

>COG1474 CDC6 Cdc6-related protein, AAA superfamily ATPase [DNA replication, recombination, and repair / Posttranslational modification, protein turnover, chaperones]

Probab=98.16  E-value=0.00016  Score=80.35  Aligned_cols=196  Identities=23%  Similarity=0.261  Sum_probs=124.2

Q ss_pred             CcchHHHHHHHHHHHhcC--CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCC-Ce-EEEEEecCCcCHHHHHHHHHHHhc
Q 001457          162 LKSALEVIKSVMKLLKDN--SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF-DK-VIFVRVTQTPDVKRVQDEIARFLN  236 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~--~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F-~~-~~wv~vs~~~~~~~~~~~i~~~l~  236 (1074)
                      +.+|+++++++...+..-  +....-+.|+|.+|+|||+.++.|... .... .. +++|++-...+..+++..|+++++
T Consensus        19 l~~Re~ei~~l~~~l~~~~~~~~p~n~~iyG~~GTGKT~~~~~v~~~l~~~~~~~~~~yINc~~~~t~~~i~~~i~~~~~   98 (366)
T COG1474          19 LPHREEEINQLASFLAPALRGERPSNIIIYGPTGTGKTATVKFVMEELEESSANVEVVYINCLELRTPYQVLSKILNKLG   98 (366)
T ss_pred             ccccHHHHHHHHHHHHHHhcCCCCccEEEECCCCCCHhHHHHHHHHHHHhhhccCceEEEeeeeCCCHHHHHHHHHHHcC
Confidence            557888888888776431  111334899999999999999999998 2221 22 789999999999999999999996


Q ss_pred             c-CCCcchHHHHHHHHHHHHH-ccCeEEEEEcCcccccc-----ccccccCCCCCCCCeEEEE--ecCChhHHhh-----
Q 001457          237 T-ELEGDVEVLRAAFLSERLK-RQKRVLIILDDLWGKLD-----LAVVGIPYGEEHKGCKIIL--TSRFKEVCDE-----  302 (1074)
Q Consensus       237 ~-~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~-----~~~~~~~~~~~~~gs~iiv--TTR~~~v~~~-----  302 (1074)
                      . ...+.+..+....+.+.+. .++.++||||+++.-..     +..+......  .+++|+|  .+-+......     
T Consensus        99 ~~p~~g~~~~~~~~~l~~~~~~~~~~~IvvLDEid~L~~~~~~~LY~L~r~~~~--~~~~v~vi~i~n~~~~~~~ld~rv  176 (366)
T COG1474          99 KVPLTGDSSLEILKRLYDNLSKKGKTVIVILDEVDALVDKDGEVLYSLLRAPGE--NKVKVSIIAVSNDDKFLDYLDPRV  176 (366)
T ss_pred             CCCCCCCchHHHHHHHHHHHHhcCCeEEEEEcchhhhccccchHHHHHHhhccc--cceeEEEEEEeccHHHHHHhhhhh
Confidence            3 3345566777777777775 37899999999985422     2222222111  1454444  3333332222     


Q ss_pred             ---ccCCCeEeCCCCCHHHHHHHHHHhcC----CCCCCch-hHHHHHHHHHHhCCChHHHHHHHHH
Q 001457          303 ---MESTNYVQVEELTDEDRLILFKKKAG----LPEGTKA-FDRAAEEVVRQCGKLPNAIVIIGTA  360 (1074)
Q Consensus       303 ---~~~~~~~~l~~L~~~~~~~lf~~~a~----~~~~~~~-~~~~~~~i~~~c~glPLai~~~~~~  360 (1074)
                         ++. ..+..++-+.+|-..++..++.    .....+. ++-++...++..|-.=.||..+-..
T Consensus       177 ~s~l~~-~~I~F~pY~a~el~~Il~~R~~~~~~~~~~~~~vl~lia~~~a~~~GDAR~aidilr~A  241 (366)
T COG1474         177 KSSLGP-SEIVFPPYTAEELYDILRERVEEGFSAGVIDDDVLKLIAALVAAESGDARKAIDILRRA  241 (366)
T ss_pred             hhccCc-ceeeeCCCCHHHHHHHHHHHHHhhccCCCcCccHHHHHHHHHHHcCccHHHHHHHHHHH
Confidence               222 3477889999999999887764    2222333 3344444444444444555554433

>PRK14961 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.15  E-value=6e-05  Score=84.78  Aligned_cols=191  Identities=12%  Similarity=0.089  Sum_probs=104.6

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHh
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l  235 (1074)
                      ..+..+.|.+..++.+...+..+. -.+.+.++|+.|+||||+|+.+.+. ......    . ...+..-....++....
T Consensus        13 ~~~~~iiGq~~~~~~l~~~~~~~~-~~h~~L~~Gp~G~GKTtla~~la~~l~c~~~~----~-~~pc~~c~~c~~~~~~~   86 (363)
T PRK14961         13 QYFRDIIGQKHIVTAISNGLSLGR-IHHAWLLSGTRGVGKTTIARLLAKSLNCQNGI----T-SNPCRKCIICKEIEKGL   86 (363)
T ss_pred             CchhhccChHHHHHHHHHHHHcCC-CCeEEEEecCCCCCHHHHHHHHHHHhcCCCCC----C-CCCCCCCHHHHHHhcCC
Confidence            444556678888888877776654 2356789999999999999999887 211000    0 00000000111111110


Q ss_pred             ccCC---Cc--chHHHHHHHHHHHHH----ccCeEEEEEcCccccc--cccccccCCCCCCCCeEEEEecCCh-hHHhhc
Q 001457          236 NTEL---EG--DVEVLRAAFLSERLK----RQKRVLIILDDLWGKL--DLAVVGIPYGEEHKGCKIILTSRFK-EVCDEM  303 (1074)
Q Consensus       236 ~~~~---~~--~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~~--~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~  303 (1074)
                      ..+.   +.  .........+.+.+.    .+++-++|+|++..-.  .++.+...+.......++|++|.+. .+....
T Consensus        87 ~~d~~~~~~~~~~~v~~ir~i~~~~~~~p~~~~~kviIIDEa~~l~~~a~naLLk~lEe~~~~~~fIl~t~~~~~l~~tI  166 (363)
T PRK14961         87 CLDLIEIDAASRTKVEEMREILDNIYYSPSKSRFKVYLIDEVHMLSRHSFNALLKTLEEPPQHIKFILATTDVEKIPKTI  166 (363)
T ss_pred             CCceEEecccccCCHHHHHHHHHHHhcCcccCCceEEEEEChhhcCHHHHHHHHHHHhcCCCCeEEEEEcCChHhhhHHH
Confidence            0000   00  000111222222221    2456699999998643  3444443333334466777766543 333222


Q ss_pred             -cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          304 -ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       304 -~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                       +....+++++++.++..+.+.+.+.... ..-.++.+..|++.++|-|-.+
T Consensus       167 ~SRc~~~~~~~l~~~el~~~L~~~~~~~g-~~i~~~al~~ia~~s~G~~R~a  217 (363)
T PRK14961        167 LSRCLQFKLKIISEEKIFNFLKYILIKES-IDTDEYALKLIAYHAHGSMRDA  217 (363)
T ss_pred             HhhceEEeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence             2236899999999999888877654211 1223466788999999988543

>PRK08084 DNA replication initiation factor; Provisional

Probab=98.15  E-value=2.9e-05  Score=81.52  Aligned_cols=162  Identities=12%  Similarity=0.196  Sum_probs=97.1

Q ss_pred             HHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchH
Q 001457          166 LEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVE  244 (1074)
Q Consensus       166 ~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~  244 (1074)
                      ...+..+-.+.....  .+.+.|+|+.|+|||+|++.+++. ...-..+.|+++.....                     
T Consensus        30 ~~a~~~l~~~~~~~~--~~~l~l~Gp~G~GKThLl~a~~~~~~~~~~~v~y~~~~~~~~---------------------   86 (235)
T PRK08084         30 DSLLAALQNALRQEH--SGYIYLWSREGAGRSHLLHAACAELSQRGRAVGYVPLDKRAW---------------------   86 (235)
T ss_pred             HHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEEHHHHhh---------------------
Confidence            334444444443333  468899999999999999999988 33334566776543100                     


Q ss_pred             HHHHHHHHHHHHccCeEEEEEcCcccc---ccccccc-cCCCC-CCCC-eEEEEecCCh---------hHHhhccCCCeE
Q 001457          245 VLRAAFLSERLKRQKRVLIILDDLWGK---LDLAVVG-IPYGE-EHKG-CKIILTSRFK---------EVCDEMESTNYV  309 (1074)
Q Consensus       245 ~~~~~~l~~~l~~~k~~LlVlDdv~~~---~~~~~~~-~~~~~-~~~g-s~iivTTR~~---------~v~~~~~~~~~~  309 (1074)
                        ....+.+.+.  +--+|++||+...   ..|+... ..+.. ...| .++|+||+..         ++...+....++
T Consensus        87 --~~~~~~~~~~--~~dlliiDdi~~~~~~~~~~~~lf~l~n~~~e~g~~~li~ts~~~p~~l~~~~~~L~SRl~~g~~~  162 (235)
T PRK08084         87 --FVPEVLEGME--QLSLVCIDNIECIAGDELWEMAIFDLYNRILESGRTRLLITGDRPPRQLNLGLPDLASRLDWGQIY  162 (235)
T ss_pred             --hhHHHHHHhh--hCCEEEEeChhhhcCCHHHHHHHHHHHHHHHHcCCCeEEEeCCCChHHcCcccHHHHHHHhCCcee
Confidence              0011222222  2247899999653   3343211 11111 0123 4799998754         234445555789


Q ss_pred             eCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHH
Q 001457          310 QVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       310 ~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~  355 (1074)
                      +++++++++-.+++.+++... .-.--+++..-|++.+.|-.-++.
T Consensus       163 ~l~~~~~~~~~~~l~~~a~~~-~~~l~~~v~~~L~~~~~~d~r~l~  207 (235)
T PRK08084        163 KLQPLSDEEKLQALQLRARLR-GFELPEDVGRFLLKRLDREMRTLF  207 (235)
T ss_pred             eecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHhhcCCHHHHH
Confidence            999999999999988866522 123346778888888887554433

>PRK08727 hypothetical protein; Validated

Probab=98.14  E-value=2.8e-05  Score=81.50  Aligned_cols=146  Identities=16%  Similarity=0.192  Sum_probs=89.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      ...+.|+|..|+|||+|++.+++. ......++|+++.+      ....+.                 ...+.+  .+.-
T Consensus        41 ~~~l~l~G~~G~GKThL~~a~~~~~~~~~~~~~y~~~~~------~~~~~~-----------------~~~~~l--~~~d   95 (233)
T PRK08727         41 SDWLYLSGPAGTGKTHLALALCAAAEQAGRSSAYLPLQA------AAGRLR-----------------DALEAL--EGRS   95 (233)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEeHHH------hhhhHH-----------------HHHHHH--hcCC
Confidence            356999999999999999999988 33334566776422      111111                 112233  2446


Q ss_pred             EEEEcCcccc---ccccccccCC-CC-CCCCeEEEEecCChh---------HHhhccCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          262 LIILDDLWGK---LDLAVVGIPY-GE-EHKGCKIILTSRFKE---------VCDEMESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       262 LlVlDdv~~~---~~~~~~~~~~-~~-~~~gs~iivTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      +||+||+...   ..|......+ .. ...|..||+|++...         +...+.....+++++++.++-.+++.+++
T Consensus        96 lLiIDDi~~l~~~~~~~~~lf~l~n~~~~~~~~vI~ts~~~p~~l~~~~~dL~SRl~~~~~~~l~~~~~e~~~~iL~~~a  175 (233)
T PRK08727         96 LVALDGLESIAGQREDEVALFDFHNRARAAGITLLYTARQMPDGLALVLPDLRSRLAQCIRIGLPVLDDVARAAVLRERA  175 (233)
T ss_pred             EEEEeCcccccCChHHHHHHHHHHHHHHHcCCeEEEECCCChhhhhhhhHHHHHHHhcCceEEecCCCHHHHHHHHHHHH
Confidence            8999998743   2232211111 11 123567999997422         22333345689999999999999999877


Q ss_pred             CCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          328 GLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       328 ~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      ... .-.--+++...|++.+.|-.-++
T Consensus       176 ~~~-~l~l~~e~~~~La~~~~rd~r~~  201 (233)
T PRK08727        176 QRR-GLALDEAAIDWLLTHGERELAGL  201 (233)
T ss_pred             HHc-CCCCCHHHHHHHHHhCCCCHHHH
Confidence            521 12333567778888887655433

>PRK13341 recombination factor protein RarA/unknown domain fusion protein; Reviewed

Probab=98.13  E-value=1.4e-05  Score=96.22  Aligned_cols=169  Identities=17%  Similarity=0.222  Sum_probs=94.2

Q ss_pred             CCcccCcchHHHHH---HHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          157 PEFVPLKSALEVIK---SVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~---~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      ..+..+.|.+..+.   .+...+..+.  ...+.++|++|+||||+|+.+++. ..+|.   .++.+. ..+.. .+++ 
T Consensus        25 ~tldd~vGQe~ii~~~~~L~~~i~~~~--~~slLL~GPpGtGKTTLA~aIA~~~~~~f~---~lna~~-~~i~d-ir~~-   96 (725)
T PRK13341         25 RTLEEFVGQDHILGEGRLLRRAIKADR--VGSLILYGPPGVGKTTLARIIANHTRAHFS---SLNAVL-AGVKD-LRAE-   96 (725)
T ss_pred             CcHHHhcCcHHHhhhhHHHHHHHhcCC--CceEEEECCCCCCHHHHHHHHHHHhcCcce---eehhhh-hhhHH-HHHH-
Confidence            34444556665553   3444555444  667889999999999999999988 55552   111110 00111 0111 


Q ss_pred             HHhccCCCcchHHHHHHHHHHHHH-ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE--ecCChh--HHhh-cc
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLK-RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL--TSRFKE--VCDE-ME  304 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv--TTR~~~--v~~~-~~  304 (1074)
                                     .....+.+. .+++.++|+||++.-  .+++.+...+   ..|+.++|  ||.+..  +... ..
T Consensus        97 ---------------i~~a~~~l~~~~~~~IL~IDEIh~Ln~~qQdaLL~~l---E~g~IiLI~aTTenp~~~l~~aL~S  158 (725)
T PRK13341         97 ---------------VDRAKERLERHGKRTILFIDEVHRFNKAQQDALLPWV---ENGTITLIGATTENPYFEVNKALVS  158 (725)
T ss_pred             ---------------HHHHHHHhhhcCCceEEEEeChhhCCHHHHHHHHHHh---cCceEEEEEecCCChHhhhhhHhhc
Confidence                           111111111 246789999999743  3444443222   23555555  344432  2111 12


Q ss_pred             CCCeEeCCCCCHHHHHHHHHHhcCC------CCCCchhHHHHHHHHHHhCCCh
Q 001457          305 STNYVQVEELTDEDRLILFKKKAGL------PEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       305 ~~~~~~l~~L~~~~~~~lf~~~a~~------~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      ...++.+++++.++...++.+.+..      .....-.++....|++.+.|--
T Consensus       159 R~~v~~l~pLs~edi~~IL~~~l~~~~~~~g~~~v~I~deaL~~La~~s~GD~  211 (725)
T PRK13341        159 RSRLFRLKSLSDEDLHQLLKRALQDKERGYGDRKVDLEPEAEKHLVDVANGDA  211 (725)
T ss_pred             cccceecCCCCHHHHHHHHHHHHHHHHhhcCCcccCCCHHHHHHHHHhCCCCH
Confidence            2357999999999999999876641      1112223566778888887753

>COG3903 Predicted ATPase [General function prediction only]

Probab=98.13  E-value=4.9e-06  Score=89.59  Aligned_cols=289  Identities=18%  Similarity=0.163  Sum_probs=180.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCC-CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPF-DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F-~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+.+.++|.||+||||++-++..-...| +.+.++....-.+...+.-.....++......  ......+..+.. .+|.
T Consensus        14 ~RlvtL~g~ggvgkttl~~~~a~~~~~~~~~v~~vdl~pitD~~~v~~~~ag~~gl~~~~g--~~~~~~~~~~~~-~rr~   90 (414)
T COG3903          14 LRLVTLTGAGGVGKTTLALQAAHAASEYADGVAFVDLAPITDPALVFPTLAGALGLHVQPG--DSAVDTLVRRIG-DRRA   90 (414)
T ss_pred             hheeeeeccCccceehhhhhhHhHhhhcccceeeeeccccCchhHhHHHHHhhcccccccc--hHHHHHHHHHHh-hhhH
Confidence            6899999999999999999988843445 56677777776677777666666666543221  112223344443 6999


Q ss_pred             EEEEcCcccc-ccccccccCCCCCCCCeEEEEecCChhHHhhccCCCeEeCCCCCHH-HHHHHHHHhcCC----CCCCch
Q 001457          262 LIILDDLWGK-LDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYVQVEELTDE-DRLILFKKKAGL----PEGTKA  335 (1074)
Q Consensus       262 LlVlDdv~~~-~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~~~~~~~l~~L~~~-~~~~lf~~~a~~----~~~~~~  335 (1074)
                      ++|+||..+. ++-..+...+..+...-.|+.|+|..-.   ......+.+.+|+.. ++.++|...+..    -.-...
T Consensus        91 llvldncehl~~~~a~~i~all~~~~~~~~~atsre~~l---~~ge~~~~~~~L~~~d~a~~lf~~ra~~~~~~f~l~~~  167 (414)
T COG3903          91 LLVLDNCEHLLDACAALIVALLGACPRLAILATSREAIL---VAGEVHRRVPSLSLFDEAIELFVCRAVLVALSFWLTDD  167 (414)
T ss_pred             HHHhcCcHHHHHHHHHHHHHHHccchhhhhHHHhHhhhc---ccccccccCCccccCCchhHHHHHHHHHhccceeecCC
Confidence            9999997654 2222222223333445578888885533   234457778888766 788999777641    112334


Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHcCCChhHHHHHHH----HHhhCCCCCCCCchHHHHHHHHHhhcCChhhHHHHHH
Q 001457          336 FDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIK----RKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQ  411 (1074)
Q Consensus       336 ~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~~~----~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~cf~  411 (1074)
                      ......+|.++.+|.|++|...++..+.-...+-..-++    .+..- .....--.....+.+.+||.-|..-.+--|-
T Consensus       168 ~~a~v~~icr~ldg~~laielaaarv~sl~~~~i~~~L~drf~ll~~~-~r~a~~~~qtl~asl~ws~~lLtgwe~~~~~  246 (414)
T COG3903         168 NAAAVAEICRRLDGIPLAIELAAARVRSLSPDEIAAGLRDRFRLLTGG-ARLAVLRQQTLRASLDWSYALLTGWERALFG  246 (414)
T ss_pred             chHHHHHHHHHhhcchHHHHHHHHHHHhcCHHHHHHHHhhHHHHHhcc-cccchhHHHhccchhhhhhHhhhhHHHHHhc
Confidence            457788999999999999999999998764433322222    12211 1000011256788899999999999999999


Q ss_pred             hhcCCCCCCccchHHHHHHHhhhcccccccchhhhhhcHHHHHHHHHhccccccCC--CCcceeechhHHHHHHHHHh
Q 001457          412 FSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGD--RESCFRIHDDTRKVVKYIAA  487 (1074)
Q Consensus       412 ~~s~fp~~~~i~~~~li~~wia~g~i~~~~~~~~~~~~~~~~l~~L~~~~ll~~~~--~~~~~~mhdlv~~~~~~~~~  487 (1074)
                      -++.|...+...    ...|.+-|-.-     ....-.+..-+..+++++++--.+  ....|+.-+-+|.|+..+-.
T Consensus       247 rLa~~~g~f~~~----l~~~~a~g~~~-----~~~~y~~~~a~~ll~~kslv~a~~~~~~a~~Rl~eT~r~YalaeL~  315 (414)
T COG3903         247 RLAVFVGGFDLG----LALAVAAGADV-----DVPRYLVLLALTLLVDKSLVVALDLLGRARYRLLETGRRYALAELH  315 (414)
T ss_pred             chhhhhhhhccc----HHHHHhcCCcc-----ccchHHHHHHHHHHhhccchhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            999998766544    23444433211     011112234567788888863322  33356666667777766554

>PRK14960 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.13  E-value=3.8e-05  Score=89.14  Aligned_cols=193  Identities=11%  Similarity=0.060  Sum_probs=106.4

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~  234 (1074)
                      +..+..+.|.+...+.+..++..+. -...+.++|+.|+||||+|+.+.+. ....    ++.. ..++.-...+.|...
T Consensus        11 PktFddVIGQe~vv~~L~~aI~~gr-l~HAyLF~GPpGvGKTTlAriLAK~LnC~~----~~~~-~pCg~C~sC~~I~~g   84 (702)
T PRK14960         11 PRNFNELVGQNHVSRALSSALERGR-LHHAYLFTGTRGVGKTTIARILAKCLNCET----GVTS-TPCEVCATCKAVNEG   84 (702)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCc----CCCC-CCCccCHHHHHHhcC
Confidence            4455667788888888888887654 2357789999999999999998877 1110    1100 000100111111110


Q ss_pred             hccCC---Cc--chHHHHHHHHHHHH----HccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCChh-HH-h
Q 001457          235 LNTEL---EG--DVEVLRAAFLSERL----KRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFKE-VC-D  301 (1074)
Q Consensus       235 l~~~~---~~--~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~~-v~-~  301 (1074)
                      -..+.   +.  ....+....+....    ..+++-++|+|++..-  ...+.+...+.....+.++|++|.+.. +. .
T Consensus        85 ~hpDviEIDAAs~~~VddIReli~~~~y~P~~gk~KV~IIDEVh~LS~~A~NALLKtLEEPP~~v~FILaTtd~~kIp~T  164 (702)
T PRK14960         85 RFIDLIEIDAASRTKVEDTRELLDNVPYAPTQGRFKVYLIDEVHMLSTHSFNALLKTLEEPPEHVKFLFATTDPQKLPIT  164 (702)
T ss_pred             CCCceEEecccccCCHHHHHHHHHHHhhhhhcCCcEEEEEechHhcCHHHHHHHHHHHhcCCCCcEEEEEECChHhhhHH
Confidence            00000   00  00011111111111    1356778999999854  334444333333234567777665433 32 2


Q ss_pred             hccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHH
Q 001457          302 EMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       302 ~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~  355 (1074)
                      .......+++++++.++..+.+.+.+... ...-..+....|++.++|-+-.+.
T Consensus       165 IlSRCq~feFkpLs~eEI~k~L~~Il~kE-gI~id~eAL~~IA~~S~GdLRdAL  217 (702)
T PRK14960        165 VISRCLQFTLRPLAVDEITKHLGAILEKE-QIAADQDAIWQIAESAQGSLRDAL  217 (702)
T ss_pred             HHHhhheeeccCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHH
Confidence            22333689999999999998888776421 122335667889999999774443

>PTZ00202 tuzin; Provisional

Probab=98.13  E-value=0.00012  Score=79.87  Aligned_cols=161  Identities=14%  Similarity=0.182  Sum_probs=96.7

Q ss_pred             ccCcchHHHHHHHHHHHhcCC-CceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccC
Q 001457          160 VPLKSALEVIKSVMKLLKDNS-ISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTE  238 (1074)
Q Consensus       160 ~~~~~r~~~~~~l~~~l~~~~-~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~  238 (1074)
                      .++.||++++..+...|.+.+ ...+++.|.|++|+|||||++.+..... + ...+++..   +..++++.++.++|.+
T Consensus       262 ~~FVGReaEla~Lr~VL~~~d~~~privvLtG~~G~GKTTLlR~~~~~l~-~-~qL~vNpr---g~eElLr~LL~ALGV~  336 (550)
T PTZ00202        262 RQFVSREAEESWVRQVLRRLDTAHPRIVVFTGFRGCGKSSLCRSAVRKEG-M-PAVFVDVR---GTEDTLRSVVKALGVP  336 (550)
T ss_pred             cCCCCcHHHHHHHHHHHhccCCCCceEEEEECCCCCCHHHHHHHHHhcCC-c-eEEEECCC---CHHHHHHHHHHHcCCC
Confidence            346678888888877775433 2356999999999999999999997632 1 12233322   6799999999999974


Q ss_pred             CCcchHHHHHHHHHHHHH----c-cCeEEEEEcCcccccccccc---ccCCCCCCCCeEEEEecCChhHHhhc---cCCC
Q 001457          239 LEGDVEVLRAAFLSERLK----R-QKRVLIILDDLWGKLDLAVV---GIPYGEEHKGCKIILTSRFKEVCDEM---ESTN  307 (1074)
Q Consensus       239 ~~~~~~~~~~~~l~~~l~----~-~k~~LlVlDdv~~~~~~~~~---~~~~~~~~~gs~iivTTR~~~v~~~~---~~~~  307 (1074)
                      .. .........|.+.+.    . +++.+||+-= .+.+.+..+   ...+.....-|.|++----+.+.-..   ..-.
T Consensus       337 p~-~~k~dLLrqIqeaLl~~~~e~GrtPVLII~l-reg~~l~rvyne~v~la~drr~ch~v~evpleslt~~~~~lprld  414 (550)
T PTZ00202        337 NV-EACGDLLDFISEACRRAKKMNGETPLLVLKL-REGSSLQRVYNEVVALACDRRLCHVVIEVPLESLTIANTLLPRLD  414 (550)
T ss_pred             Cc-ccHHHHHHHHHHHHHHHHHhCCCCEEEEEEe-cCCCcHHHHHHHHHHHHccchhheeeeeehHhhcchhcccCccce
Confidence            32 222334444444442    3 7788888742 111111110   01222333456676655444432111   1124


Q ss_pred             eEeCCCCCHHHHHHHHHHhc
Q 001457          308 YVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       308 ~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      .|.++.++.++|.+.-....
T Consensus       415 f~~vp~fsr~qaf~y~~h~~  434 (550)
T PTZ00202        415 FYLVPNFSRSQAFAYTQHAI  434 (550)
T ss_pred             eEecCCCCHHHHHHHHhhcc
Confidence            78899999999987665443

>TIGR00767 rho transcription termination factor Rho

Probab=98.12  E-value=8.5e-06  Score=89.04  Aligned_cols=87  Identities=15%  Similarity=0.145  Sum_probs=62.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCC--cCHHHHHHHHHHHhccCCCcchH---HHH----HHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQT--PDVKRVQDEIARFLNTELEGDVE---VLR----AAFLS  252 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~--~~~~~~~~~i~~~l~~~~~~~~~---~~~----~~~l~  252 (1074)
                      ..++|+|++|+|||||++.+++.  .++|+..+||.+.+.  .++.++++.+...+-...-+.+.   ...    .+...
T Consensus       169 q~~~IvG~~g~GKTtL~~~i~~~I~~nhfdv~v~VlLIgER~~EVtDLqrsIlg~Vvast~d~p~~~~~~va~~v~e~Ae  248 (415)
T TIGR00767       169 QRGLIVAPPKAGKTVLLQKIAQAITRNHPEVELIVLLIDERPEEVTDMQRSVKGEVVASTFDEPASRHVQVAEMVIEKAK  248 (415)
T ss_pred             CEEEEECCCCCChhHHHHHHHHhhcccCCceEEEEEEcCCCCccHHHHHHHhhceEEEecCCCChHHHHHHHHHHHHHHH
Confidence            47899999999999999999998  667999999999976  78999999985433221111111   111    12222


Q ss_pred             HHHHccCeEEEEEcCccc
Q 001457          253 ERLKRQKRVLIILDDLWG  270 (1074)
Q Consensus       253 ~~l~~~k~~LlVlDdv~~  270 (1074)
                      .....|++.+|++|++..
T Consensus       249 ~~~~~GkdVVLlIDEitR  266 (415)
T TIGR00767       249 RLVEHKKDVVILLDSITR  266 (415)
T ss_pred             HHHHcCCCeEEEEEChhH
Confidence            233368999999999864

Members of this family differ in the specificity of RNA binding.

>PRK12402 replication factor C small subunit 2; Reviewed

Probab=98.11  E-value=3.5e-05  Score=86.78  Aligned_cols=193  Identities=15%  Similarity=0.161  Sum_probs=103.5

Q ss_pred             cccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCC-eEEEEEecCCcCH--HHHHH--HH
Q 001457          159 FVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFD-KVIFVRVTQTPDV--KRVQD--EI  231 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~-~~~wv~vs~~~~~--~~~~~--~i  231 (1074)
                      +..+.|++..++.+..++..+.  .+.+.++|++|+||||+|+.+.+.  ...+. ..+.+++++..+.  ..+..  ..
T Consensus        14 ~~~~~g~~~~~~~L~~~~~~~~--~~~lll~Gp~GtGKT~la~~~~~~l~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~   91 (337)
T PRK12402         14 LEDILGQDEVVERLSRAVDSPN--LPHLLVQGPPGSGKTAAVRALARELYGDPWENNFTEFNVADFFDQGKKYLVEDPRF   91 (337)
T ss_pred             HHHhcCCHHHHHHHHHHHhCCC--CceEEEECCCCCCHHHHHHHHHHHhcCcccccceEEechhhhhhcchhhhhcCcch
Confidence            3345577888888878776654  567889999999999999999887  33322 2345554432100  00000  00


Q ss_pred             HHHhccC-CCcchHHHHHHHHHHHHH-----ccCeEEEEEcCccccc--cccccccCCCCCCCCeEEEEecCChh-HHhh
Q 001457          232 ARFLNTE-LEGDVEVLRAAFLSERLK-----RQKRVLIILDDLWGKL--DLAVVGIPYGEEHKGCKIILTSRFKE-VCDE  302 (1074)
Q Consensus       232 ~~~l~~~-~~~~~~~~~~~~l~~~l~-----~~k~~LlVlDdv~~~~--~~~~~~~~~~~~~~gs~iivTTR~~~-v~~~  302 (1074)
                      ...++.. ............+.+...     .+.+-+||+||+....  ....+...+......+++|+||.... +...
T Consensus        92 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~vlilDe~~~l~~~~~~~L~~~le~~~~~~~~Il~~~~~~~~~~~  171 (337)
T PRK12402         92 AHFLGTDKRIRSSKIDNFKHVLKEYASYRPLSADYKTILLDNAEALREDAQQALRRIMEQYSRTCRFIIATRQPSKLIPP  171 (337)
T ss_pred             hhhhhhhhhhccchHHHHHHHHHHHHhcCCCCCCCcEEEEeCcccCCHHHHHHHHHHHHhccCCCeEEEEeCChhhCchh
Confidence            0000000 000001111222221111     1344589999996542  22223222222234567887775432 2222


Q ss_pred             c-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          303 M-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       303 ~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      . .....+++.+++.++....+.+.+.... ..--.+....+++.++|-+-.+
T Consensus       172 L~sr~~~v~~~~~~~~~~~~~l~~~~~~~~-~~~~~~al~~l~~~~~gdlr~l  223 (337)
T PRK12402        172 IRSRCLPLFFRAPTDDELVDVLESIAEAEG-VDYDDDGLELIAYYAGGDLRKA  223 (337)
T ss_pred             hcCCceEEEecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            2 2225788999999999888887764211 1223567888889998866444

>PRK14962 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=5.9e-05  Score=86.82  Aligned_cols=187  Identities=17%  Similarity=0.194  Sum_probs=104.2

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC--------------------CCeE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP--------------------FDKV  213 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~--------------------F~~~  213 (1074)
                      +..+..+.|.+.....+...+..+. -.+.+.++|++|+||||+|+.+.+.  ...                    +...
T Consensus        10 P~~~~divGq~~i~~~L~~~i~~~~-l~~~~Lf~GPpGtGKTTlA~~lA~~l~~~~~~~~~pc~~c~~c~~i~~g~~~dv   88 (472)
T PRK14962         10 PKTFSEVVGQDHVKKLIINALKKNS-ISHAYIFAGPRGTGKTTVARILAKSLNCENRKGVEPCNECRACRSIDEGTFMDV   88 (472)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCCCCCCcccHHHHHHhcCCCCcc
Confidence            3344456677766666666666554 1356889999999999999999877  110                    1112


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      +.++.+....+..+ ++|......               .-. .+++-++|+|++..-  ...+.+...+........+|
T Consensus        89 ~el~aa~~~gid~i-R~i~~~~~~---------------~p~-~~~~kVvIIDE~h~Lt~~a~~~LLk~LE~p~~~vv~I  151 (472)
T PRK14962         89 IELDAASNRGIDEI-RKIRDAVGY---------------RPM-EGKYKVYIIDEVHMLTKEAFNALLKTLEEPPSHVVFV  151 (472)
T ss_pred             EEEeCcccCCHHHH-HHHHHHHhh---------------Chh-cCCeEEEEEEChHHhHHHHHHHHHHHHHhCCCcEEEE
Confidence            22232222222221 122211110               001 256779999998743  33344433333222344544


Q ss_pred             E-ecCChhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCC-ChHHHHHHHHHH
Q 001457          292 L-TSRFKEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGK-LPNAIVIIGTAL  361 (1074)
Q Consensus       292 v-TTR~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~g-lPLai~~~~~~l  361 (1074)
                      + ||....+.... .....+++++++.++....+.+.+.... ..-.++....|++.++| ++.|+..+..+.
T Consensus       152 lattn~~kl~~~L~SR~~vv~f~~l~~~el~~~L~~i~~~eg-i~i~~eal~~Ia~~s~GdlR~aln~Le~l~  223 (472)
T PRK14962        152 LATTNLEKVPPTIISRCQVIEFRNISDELIIKRLQEVAEAEG-IEIDREALSFIAKRASGGLRDALTMLEQVW  223 (472)
T ss_pred             EEeCChHhhhHHHhcCcEEEEECCccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence            4 44434443333 2336889999999998888887764211 12234667788888865 566766665543

>PRK14956 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.09  E-value=3.3e-05  Score=87.20  Aligned_cols=191  Identities=12%  Similarity=0.077  Sum_probs=106.5

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCce-eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISI-NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~-~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +..+..+.|.+..+..+..++..+.  + ..+.++|+.|+||||+|+.+.+.  ..+....  ..+.....-..+...+.
T Consensus        14 P~~f~dvVGQe~iv~~L~~~i~~~r--i~ha~Lf~GP~GtGKTTlAriLAk~Lnce~~~~~--~pCg~C~sC~~i~~g~~   89 (484)
T PRK14956         14 PQFFRDVIHQDLAIGALQNALKSGK--IGHAYIFFGPRGVGKTTIARILAKRLNCENPIGN--EPCNECTSCLEITKGIS   89 (484)
T ss_pred             CCCHHHHhChHHHHHHHHHHHHcCC--CCeEEEEECCCCCCHHHHHHHHHHhcCcccccCc--cccCCCcHHHHHHccCC
Confidence            4455556777878888888877665  4 45889999999999999999887  2111100  00111111111111110


Q ss_pred             HHhccCCCc--chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE-EecCChhHHhhc
Q 001457          233 RFLNTELEG--DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII-LTSRFKEVCDEM  303 (1074)
Q Consensus       233 ~~l~~~~~~--~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii-vTTR~~~v~~~~  303 (1074)
                      ..+.. .+.  ....+.+..+.+.+.    .++.-++|+|++..-  ..++.+...+-.......+| .||....+....
T Consensus        90 ~dviE-Idaas~~gVd~IReL~e~l~~~p~~g~~KV~IIDEah~Ls~~A~NALLKtLEEPp~~viFILaTte~~kI~~TI  168 (484)
T PRK14956         90 SDVLE-IDAASNRGIENIRELRDNVKFAPMGGKYKVYIIDEVHMLTDQSFNALLKTLEEPPAHIVFILATTEFHKIPETI  168 (484)
T ss_pred             cccee-echhhcccHHHHHHHHHHHHhhhhcCCCEEEEEechhhcCHHHHHHHHHHhhcCCCceEEEeecCChhhccHHH
Confidence            00000 000  000111222222221    356779999999853  44555543333323345555 455545553332


Q ss_pred             -cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChH
Q 001457          304 -ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       304 -~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPL  352 (1074)
                       .....|.+.+++.++-.+.+.+.+.... ..-..+....|++.++|-+-
T Consensus       169 ~SRCq~~~f~~ls~~~i~~~L~~i~~~Eg-i~~e~eAL~~Ia~~S~Gd~R  217 (484)
T PRK14956        169 LSRCQDFIFKKVPLSVLQDYSEKLCKIEN-VQYDQEGLFWIAKKGDGSVR  217 (484)
T ss_pred             HhhhheeeecCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCChHH
Confidence             2336799999999998888877764211 22235678889999999883

>KOG2120 consensus SCF ubiquitin ligase, Skp2 component [Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=1.7e-07  Score=94.81  Aligned_cols=183  Identities=23%  Similarity=0.176  Sum_probs=94.0

Q ss_pred             CccEEEeeCCCCc--ccCccccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccCCcCCccccccccCCCCCcccc
Q 001457          601 ELEVLILKGSRIV--ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEV  678 (1074)
Q Consensus       601 ~L~~L~L~~~~i~--~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l  678 (1074)
                      .||+|||++..|+  .+..-+..+.+|+.|.+.++..-..+... +.+-.+|+.|+++.|.+...        ++.-.-+
T Consensus       186 Rlq~lDLS~s~it~stl~~iLs~C~kLk~lSlEg~~LdD~I~~~-iAkN~~L~~lnlsm~sG~t~--------n~~~ll~  256 (419)
T KOG2120|consen  186 RLQHLDLSNSVITVSTLHGILSQCSKLKNLSLEGLRLDDPIVNT-IAKNSNLVRLNLSMCSGFTE--------NALQLLL  256 (419)
T ss_pred             hhHHhhcchhheeHHHHHHHHHHHHhhhhccccccccCcHHHHH-Hhccccceeeccccccccch--------hHHHHHH
Confidence            3677777776655  33334556666777777666544333322 56666677776666532110        0001113


Q ss_pred             ccCcCCCEEEEeecCccccccCcCCCCCCccEEEEEecCcccCCCccceeEeccchhhhHHHHHHHHhccceeeeccCCC
Q 001457          679 ASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSN  758 (1074)
Q Consensus       679 ~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~l~~l~l~~~~~~~~~~~~~~~~~L~~L~L~~~~~  758 (1074)
                      .+++.|..|.++|+..                        ..+.              ....+...-++|..|+|++|..
T Consensus       257 ~scs~L~~LNlsWc~l------------------------~~~~--------------Vtv~V~hise~l~~LNlsG~rr  298 (419)
T KOG2120|consen  257 SSCSRLDELNLSWCFL------------------------FTEK--------------VTVAVAHISETLTQLNLSGYRR  298 (419)
T ss_pred             HhhhhHhhcCchHhhc------------------------cchh--------------hhHHHhhhchhhhhhhhhhhHh
Confidence            4555566666665542                        2111              1111222225555666655532


Q ss_pred             ccccccc--ccccCCCccEEEEeccccccccccCcccccccceeEEEeeecccc--eeecccccccccccCCCcceeecC
Q 001457          759 LQDIGEI--DVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLK--EVFCLEDIEGEQAGLKRLRELVLV  834 (1074)
Q Consensus       759 l~~~~~l--~~~~l~~L~~L~L~~~~~~~~~~~~~~~~l~~L~~L~l~~~~~l~--~~~~~~~~~~~~~~~~~L~~L~L~  834 (1074)
                      .-....+  -...+|+|.+|+|++|......-...+-+++.|++|.++.|+.+.  .+..+..       .|+|..|++.
T Consensus       299 nl~~sh~~tL~~rcp~l~~LDLSD~v~l~~~~~~~~~kf~~L~~lSlsRCY~i~p~~~~~l~s-------~psl~yLdv~  371 (419)
T KOG2120|consen  299 NLQKSHLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFKFNYLQHLSLSRCYDIIPETLLELNS-------KPSLVYLDVF  371 (419)
T ss_pred             hhhhhHHHHHHHhCCceeeeccccccccCchHHHHHHhcchheeeehhhhcCCChHHeeeecc-------CcceEEEEec
Confidence            2111111  123567777777777743332223334567777788887777542  1222333       7888888888


Q ss_pred             Ccc
Q 001457          835 GLP  837 (1074)
Q Consensus       835 ~~~  837 (1074)
                      +|-
T Consensus       372 g~v  374 (419)
T KOG2120|consen  372 GCV  374 (419)
T ss_pred             ccc
Confidence            873

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.04  E-value=2.3e-06  Score=86.84  Aligned_cols=98  Identities=18%  Similarity=0.306  Sum_probs=49.0

Q ss_pred             CccEEEecCCccCCCCC--Cc-cCCccCCeeeccCCCCCC----CccccCCCCccEEEeeCCCCc----ccCccccCCCC
Q 001457          556 EIKNLDLSSTNISSLAP--SL-PCLEKLRSLHLENTHLND----ASLIREFGELEVLILKGSRIV----ELPNGIGTVSN  624 (1074)
Q Consensus       556 ~L~~L~l~~~~~~~lp~--~i-~~l~~Lr~L~L~~~~l~~----~~~i~~l~~L~~L~L~~~~i~----~lp~~i~~L~~  624 (1074)
                      .+..|.+.++.|...-.  .+ ..+.+++.|+|.+|.|++    ...+.+|+.|++|+|+.|.+.    .+|   -.+.+
T Consensus        46 a~ellvln~~~id~~gd~~~~~~~~~~v~elDL~~N~iSdWseI~~ile~lP~l~~LNls~N~L~s~I~~lp---~p~~n  122 (418)
T KOG2982|consen   46 ALELLVLNGSIIDNEGDVMLFGSSVTDVKELDLTGNLISDWSEIGAILEQLPALTTLNLSCNSLSSDIKSLP---LPLKN  122 (418)
T ss_pred             chhhheecCCCCCcchhHHHHHHHhhhhhhhhcccchhccHHHHHHHHhcCccceEeeccCCcCCCccccCc---ccccc
Confidence            34455555665543322  22 345667777777777766    222345666666666666433    333   23445


Q ss_pred             CCEEeCCCCcCCCCcChhhhcCCCCcCEEEcc
Q 001457          625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYVG  656 (1074)
Q Consensus       625 L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~  656 (1074)
                      |+.|-+.++.....-....+..++.+++|+++
T Consensus       123 l~~lVLNgT~L~w~~~~s~l~~lP~vtelHmS  154 (418)
T KOG2982|consen  123 LRVLVLNGTGLSWTQSTSSLDDLPKVTELHMS  154 (418)
T ss_pred             eEEEEEcCCCCChhhhhhhhhcchhhhhhhhc
Confidence            66666655443222222223444444444443

>TIGR01242 26Sp45 26S proteasome subunit P45 family

Probab=98.03  E-value=6.2e-05  Score=85.03  Aligned_cols=173  Identities=16%  Similarity=0.182  Sum_probs=96.5

Q ss_pred             cccCcchHHHHHHHHHHHhcC----C-------CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHH
Q 001457          159 FVPLKSALEVIKSVMKLLKDN----S-------ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKR  226 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l~~~----~-------~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~  226 (1074)
                      +..+.|.++.++++.+.+...    +       ...+-|.++|++|+|||++|+.+++. ...|     +.+..    ..
T Consensus       121 ~~di~Gl~~~~~~l~~~i~~~~~~~~~~~~~g~~~p~gvLL~GppGtGKT~lakaia~~l~~~~-----~~v~~----~~  191 (364)
T TIGR01242       121 YEDIGGLEEQIREIREAVELPLKHPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNATF-----IRVVG----SE  191 (364)
T ss_pred             HHHhCChHHHHHHHHHHHHHHhcCHHHHHhcCCCCCceEEEECCCCCCHHHHHHHHHHhCCCCE-----Eecch----HH
Confidence            334567777777776655311    0       12456899999999999999999998 5444     22221    11


Q ss_pred             HHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc----------------cccccccCCC--CCCCCe
Q 001457          227 VQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL----------------DLAVVGIPYG--EEHKGC  288 (1074)
Q Consensus       227 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------------~~~~~~~~~~--~~~~gs  288 (1074)
                      +...   .++     . .......+.+......+.+|++||++...                .+..+...+.  ....+.
T Consensus       192 l~~~---~~g-----~-~~~~i~~~f~~a~~~~p~il~iDEiD~l~~~~~~~~~~~~~~~~~~l~~ll~~ld~~~~~~~v  262 (364)
T TIGR01242       192 LVRK---YIG-----E-GARLVREIFELAKEKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAELDGFDPRGNV  262 (364)
T ss_pred             HHHH---hhh-----H-HHHHHHHHHHHHHhcCCcEEEhhhhhhhccccccCCCCccHHHHHHHHHHHHHhhCCCCCCCE
Confidence            1111   011     0 11112222233333567899999987531                0111111111  112467


Q ss_pred             EEEEecCChhH-----HhhccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          289 KIILTSRFKEV-----CDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       289 ~iivTTR~~~v-----~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      +||.||...+.     ......+..+.+...+.++..++|..++......++  .....+++.+.|..
T Consensus       263 ~vI~ttn~~~~ld~al~r~grfd~~i~v~~P~~~~r~~Il~~~~~~~~l~~~--~~~~~la~~t~g~s  328 (364)
T TIGR01242       263 KVIAATNRPDILDPALLRPGRFDRIIEVPLPDFEGRLEILKIHTRKMKLAED--VDLEAIAKMTEGAS  328 (364)
T ss_pred             EEEEecCChhhCChhhcCcccCceEEEeCCcCHHHHHHHHHHHHhcCCCCcc--CCHHHHHHHcCCCC
Confidence            88888875433     111122467899999999999999888753222211  11456777777754

Many proteins may score above the trusted cutoff because an internal

>PRK14957 DNA polymerase III subunits gamma and tau; Provisional

Probab=98.02  E-value=0.0001  Score=85.71  Aligned_cols=184  Identities=14%  Similarity=0.171  Sum_probs=106.3

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cC---------------------CCCeE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EI---------------------PFDKV  213 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~---------------------~F~~~  213 (1074)
                      +..|..+.|.+..++.+...+..+. ....+.++|+.|+||||+|+.+.+. ..                     .|...
T Consensus        12 P~~f~diiGq~~~v~~L~~~i~~~r-l~ha~Lf~Gp~GvGKTTlAr~lAk~L~c~~~~~~~pCg~C~sC~~i~~~~~~dl   90 (546)
T PRK14957         12 PQSFAEVAGQQHALNSLVHALETQK-VHHAYLFTGTRGVGKTTLGRLLAKCLNCKTGVTAEPCNKCENCVAINNNSFIDL   90 (546)
T ss_pred             cCcHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCcccHHHHHHhcCCCCce
Confidence            3445556678888888888887654 2355789999999999999999876 11                     12222


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      +++.......+.++ ++++.                .+...-..+++-++|+|++..-  ..++.+...+......+++|
T Consensus        91 ieidaas~~gvd~i-r~ii~----------------~~~~~p~~g~~kViIIDEa~~ls~~a~naLLK~LEepp~~v~fI  153 (546)
T PRK14957         91 IEIDAASRTGVEET-KEILD----------------NIQYMPSQGRYKVYLIDEVHMLSKQSFNALLKTLEEPPEYVKFI  153 (546)
T ss_pred             EEeecccccCHHHH-HHHHH----------------HHHhhhhcCCcEEEEEechhhccHHHHHHHHHHHhcCCCCceEE
Confidence            33322222222111 11111                1111111356779999998743  33444443333333455555


Q ss_pred             -EecCChhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh-HHHHHHH
Q 001457          292 -LTSRFKEVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP-NAIVIIG  358 (1074)
Q Consensus       292 -vTTR~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~  358 (1074)
                       +||....+... ......+++++++.++-.+.+.+.+.... ..-..+....|++.++|-+ -|+..+-
T Consensus       154 L~Ttd~~kil~tI~SRc~~~~f~~Ls~~eI~~~L~~il~~eg-i~~e~~Al~~Ia~~s~GdlR~alnlLe  222 (546)
T PRK14957        154 LATTDYHKIPVTILSRCIQLHLKHISQADIKDQLKIILAKEN-INSDEQSLEYIAYHAKGSLRDALSLLD  222 (546)
T ss_pred             EEECChhhhhhhHHHheeeEEeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHH
Confidence             45544444322 22336899999999998877776554211 2233556778999999966 3444443

>PRK00440 rfc replication factor C small subunit; Reviewed

Probab=98.02  E-value=9.1e-05  Score=82.66  Aligned_cols=178  Identities=12%  Similarity=0.128  Sum_probs=101.6

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEe--cCCcCHHHHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRV--TQTPDVKRVQDEIA  232 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~v--s~~~~~~~~~~~i~  232 (1074)
                      ..+-.+.|+++.++.+..++....  .+.+.++|.+|+||||+|+.+.+.  ...+.. .++.+  +...... ...+.+
T Consensus        14 ~~~~~~~g~~~~~~~l~~~i~~~~--~~~~ll~G~~G~GKt~~~~~l~~~l~~~~~~~-~~i~~~~~~~~~~~-~~~~~i   89 (319)
T PRK00440         14 RTLDEIVGQEEIVERLKSYVKEKN--MPHLLFAGPPGTGKTTAALALARELYGEDWRE-NFLELNASDERGID-VIRNKI   89 (319)
T ss_pred             CcHHHhcCcHHHHHHHHHHHhCCC--CCeEEEECCCCCCHHHHHHHHHHHHcCCcccc-ceEEeccccccchH-HHHHHH
Confidence            344446678888888888887655  556799999999999999999988  333321 22333  2222111 111111


Q ss_pred             HHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCCh-hHHhhc-cCCCe
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFK-EVCDEM-ESTNY  308 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~-~~~~~  308 (1074)
                      ..+.....              .....+-+|++|+++..  +....+...+......+++|+++... .+.... .....
T Consensus        90 ~~~~~~~~--------------~~~~~~~vviiDe~~~l~~~~~~~L~~~le~~~~~~~lIl~~~~~~~l~~~l~sr~~~  155 (319)
T PRK00440         90 KEFARTAP--------------VGGAPFKIIFLDEADNLTSDAQQALRRTMEMYSQNTRFILSCNYSSKIIDPIQSRCAV  155 (319)
T ss_pred             HHHHhcCC--------------CCCCCceEEEEeCcccCCHHHHHHHHHHHhcCCCCCeEEEEeCCccccchhHHHHhhe
Confidence            11100000              00124568999998643  22233332222223456777766432 221111 12247


Q ss_pred             EeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHH
Q 001457          309 VQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       309 ~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLa  353 (1074)
                      ++++++++++....+...+.... ..-..+....+++.++|-+--
T Consensus       156 ~~~~~l~~~ei~~~l~~~~~~~~-~~i~~~al~~l~~~~~gd~r~  199 (319)
T PRK00440        156 FRFSPLKKEAVAERLRYIAENEG-IEITDDALEAIYYVSEGDMRK  199 (319)
T ss_pred             eeeCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHH
Confidence            89999999999888887765211 122356788889999998754

>TIGR00678 holB DNA polymerase III, delta' subunit

Probab=98.01  E-value=0.00014  Score=73.94  Aligned_cols=155  Identities=17%  Similarity=0.173  Sum_probs=89.1

Q ss_pred             HHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cC---------------------CCCeEEEEEecC-CcCHHHH
Q 001457          172 VMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EI---------------------PFDKVIFVRVTQ-TPDVKRV  227 (1074)
Q Consensus       172 l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~---------------------~F~~~~wv~vs~-~~~~~~~  227 (1074)
                      +.+.+..+. -...+.++|+.|+||||+|+.+...  ..                     +.|. .++.... ...+ +.
T Consensus         4 l~~~i~~~~-~~~~~L~~G~~G~gkt~~a~~~~~~l~~~~~~~~~~c~~~~~c~~~~~~~~~d~-~~~~~~~~~~~~-~~   80 (188)
T TIGR00678         4 LKRALEKGR-LAHAYLFAGPEGVGKELLALALAKALLCEQPGGGEPCGECPSCRLIEAGNHPDL-HRLEPEGQSIKV-DQ   80 (188)
T ss_pred             HHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCCHHHHHHHcCCCCcE-EEeccccCcCCH-HH
Confidence            444454443 1367889999999999999998877  21                     1122 2222111 1111 11


Q ss_pred             HHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCCh-hHHhhc-
Q 001457          228 QDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFK-EVCDEM-  303 (1074)
Q Consensus       228 ~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~-  303 (1074)
                      .+++.+.+...               -. .+.+-++|+||+..-  ..++.+...+......+.+|++|++. .+.... 
T Consensus        81 i~~i~~~~~~~---------------~~-~~~~kviiide~~~l~~~~~~~Ll~~le~~~~~~~~il~~~~~~~l~~~i~  144 (188)
T TIGR00678        81 VRELVEFLSRT---------------PQ-ESGRRVVIIEDAERMNEAAANALLKTLEEPPPNTLFILITPSPEKLLPTIR  144 (188)
T ss_pred             HHHHHHHHccC---------------cc-cCCeEEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhChHHHH
Confidence            11222221100               01 256778999998753  33444443333333456677666543 332222 


Q ss_pred             cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChH
Q 001457          304 ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       304 ~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPL  352 (1074)
                      .....+++.+++.++..+.+.+. +  .    ..+.+..|++.++|.|.
T Consensus       145 sr~~~~~~~~~~~~~~~~~l~~~-g--i----~~~~~~~i~~~~~g~~r  186 (188)
T TIGR00678       145 SRCQVLPFPPLSEEALLQWLIRQ-G--I----SEEAAELLLALAGGSPG  186 (188)
T ss_pred             hhcEEeeCCCCCHHHHHHHHHHc-C--C----CHHHHHHHHHHcCCCcc
Confidence            22358999999999988888776 2  1    14678899999999885

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.

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.99  E-value=1.3e-05  Score=88.07  Aligned_cols=136  Identities=18%  Similarity=0.249  Sum_probs=88.5

Q ss_pred             CCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccccceeeccchhhHh
Q 001457          825 LKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVE  904 (1074)
Q Consensus       825 ~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~i~~~~~~~~~  904 (1074)
                      +++++.|++++| +|+.++.      ..++|+.|.+.+|++|+.++  ..+  .++|++|.+++|..+..++        
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 ARASGRLYIKDC-DIESLPV------LPNELTEITIENCNNLTTLP--GSI--PEGLEKLTVCHCPEISGLP--------  111 (426)
T ss_pred             hcCCCEEEeCCC-CCcccCC------CCCCCcEEEccCCCCcccCC--chh--hhhhhheEccCcccccccc--------
Confidence            688999999999 7777651      22469999999999998773  222  3689999999987765432        


Q ss_pred             hhhhhccccccCCCCcccCCceEEEecc--cccccccccccccccccCccEEEEeeccCcceeecccchhhcccCccccc
Q 001457          905 QGAAQERNVSSAPQPMFFPNLKKLLIGK--CNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLP  982 (1074)
Q Consensus       905 ~~~l~~l~l~~~~~~~~~~~L~~L~l~~--C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~~~~~~~~~~~~~~l~  982 (1074)
                                        ++|++|+|..  |..+..++        ++|++|.+.++.......         ......+
T Consensus       112 ------------------~sLe~L~L~~n~~~~L~~LP--------ssLk~L~I~~~n~~~~~~---------lp~~LPs  156 (426)
T PRK15386        112 ------------------ESVRSLEIKGSATDSIKNVP--------NGLTSLSINSYNPENQAR---------IDNLISP  156 (426)
T ss_pred             ------------------cccceEEeCCCCCcccccCc--------chHhheeccccccccccc---------cccccCC
Confidence                              5688888752  22233321        367788875433111000         0112336


Q ss_pred             ccccccccccccccccccCccccccCCCccEEEEeCCC
Q 001457          983 KLKILALEDLPELDSVYNGEIAALRWPSLEELKVWDCP 1020 (1074)
Q Consensus       983 ~L~~L~l~~c~~L~~i~~~~~~~~~~~~L~~L~i~~C~ 1020 (1074)
                      +|++|.+.+|..+. +| ..++    .+|++|.+..+.
T Consensus       157 SLk~L~Is~c~~i~-LP-~~LP----~SLk~L~ls~n~  188 (426)
T PRK15386        157 SLKTLSLTGCSNII-LP-EKLP----ESLQSITLHIEQ  188 (426)
T ss_pred             cccEEEecCCCccc-Cc-cccc----ccCcEEEecccc
Confidence            89999999998653 33 2243    589999997753

>COG3899 Predicted ATPase [General function prediction only]

Probab=97.97  E-value=0.0003  Score=87.27  Aligned_cols=260  Identities=15%  Similarity=0.134  Sum_probs=148.1

Q ss_pred             CcchHHHHHHHHHHHhcCC-CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEec---CCc---CHHHHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKDNS-ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVT---QTP---DVKRVQDEIAR  233 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~-~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs---~~~---~~~~~~~~i~~  233 (1074)
                      +.||+.+++.++..+..-. ..-.++.|.|..|+|||+|++.|... .+.+...+--.+.   .+.   .....+++++.
T Consensus         2 l~GRe~ev~~Ll~~f~~v~~g~~~~~lv~G~sGIGKsalv~ev~~~i~~~~~~~i~~~f~q~~~~ipl~~lvq~~r~l~~   81 (849)
T COG3899           2 LYGRETELAQLLAAFDRVSKGRGEVVLVAGESGIGKSALVNEVHKPITQQRGYFIKGKFDQFERNIPLSPLVQAFRDLMG   81 (849)
T ss_pred             CCchHhHHHHHHHHHHHHhCCCeEEEEEeecCCCcHHHHHHHHHHHHhccceeeeHhhcccccCCCchHHHHHHHHHHHH
Confidence            4578888888888775432 23569999999999999999999988 3332222111111   111   12233334433


Q ss_pred             Hh-------------------ccCC--------------C---------cchHHHH-----HHHHHHHHHccCeEEEEEc
Q 001457          234 FL-------------------NTEL--------------E---------GDVEVLR-----AAFLSERLKRQKRVLIILD  266 (1074)
Q Consensus       234 ~l-------------------~~~~--------------~---------~~~~~~~-----~~~l~~~l~~~k~~LlVlD  266 (1074)
                      ++                   +...              .         +.....+     ...+.....+.++.++|+|
T Consensus        82 ~ll~~~~~~~~~~~~~il~~~g~~~~~~~~vip~L~~i~g~~~~~~el~~~~~~~r~n~~~~~~i~~~~~~~~plVi~le  161 (849)
T COG3899          82 QLLSESDTRILSWRARLLAALGENGQVIIDVIPELELIIGKRPPALELSPTAAQNRFNLAFLRFIQVFTAEEHPLVIVLE  161 (849)
T ss_pred             HHhhccchHHHHHHHHHHHHhcccchhHHhhhHHHHhhcCCCcchhhcccchhHHHHHHHHHHHHHHHHhccCCeEEEEe
Confidence            33                   1100              0         0000111     1223333345679999999


Q ss_pred             Cccccc--cc---cccccCCCC-CCCCeEEEE--ecCCh--hHHhhccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchh
Q 001457          267 DLWGKL--DL---AVVGIPYGE-EHKGCKIIL--TSRFK--EVCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAF  336 (1074)
Q Consensus       267 dv~~~~--~~---~~~~~~~~~-~~~gs~iiv--TTR~~--~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~  336 (1074)
                      |+.-.+  .+   +.+...... ...-..|..  |.+..  .+.........+.|.||+..+.-.+.....+..  ....
T Consensus       162 DlhWaD~~SL~lL~~lm~~~~~~~~~~n~v~~~h~~~~~~~~~~~~~~~i~~I~L~PL~~~d~~~lV~~~l~~~--~~~~  239 (849)
T COG3899         162 DLHWADSASLKLLQLLMDRIAIGAYRDNEVLLLHPLRPTLGEILKSATNITTITLAPLSRADTNQLVAATLGCT--KLLP  239 (849)
T ss_pred             cccccChhHHHHHHHHHHhcchhhhhccccccCCCccchhhHHhhcCCceeEEecCcCchhhHHHHHHHHhCCc--cccc
Confidence            984211  11   111111100 001122333  33322  112222333689999999999999998887632  2334


Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHcCC-------ChhHHHHHHHHHhhCCCCCCCCchHHHHHHHHHhhcCChhhHHHH
Q 001457          337 DRAAEEVVRQCGKLPNAIVIIGTALRHK-------PVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSC  409 (1074)
Q Consensus       337 ~~~~~~i~~~c~glPLai~~~~~~l~~~-------~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L~~~~k~c  409 (1074)
                      .+..+.|+++..|.|+-+.-+-..+...       +...|+.-...+.     . ....+.+...+..-.+.||...+..
T Consensus       240 ~p~~~~i~~kt~GnPfFi~e~lk~l~~~~~i~f~~~~~~w~~~~~~i~-----~-~~~~~~vv~~l~~rl~kL~~~t~~V  313 (849)
T COG3899         240 APLLELIFEKTKGNPFFIEEFLKALYEEGLLVFNFDTGAWQCSIASLG-----I-LATTDAVVEFLAARLQKLPGTTREV  313 (849)
T ss_pred             chHHHHHHHHhcCCCccHHHHHHHHHhCCeeEecCCCcceeccHHhcC-----C-chhhHHHHHHHHHHHhcCCHHHHHH
Confidence            5778899999999999998888888542       2334443222111     1 1112446667888899999999998


Q ss_pred             HHhhcCCCCCCccchHHHHHHH
Q 001457          410 LQFSCLFPPYYSVSMEEFVIHG  431 (1074)
Q Consensus       410 f~~~s~fp~~~~i~~~~li~~w  431 (1074)
                      .-..|++-.  .|+.+.|...|
T Consensus       314 l~~AA~iG~--~F~l~~La~l~  333 (849)
T COG3899         314 LKAAACIGN--RFDLDTLAALA  333 (849)
T ss_pred             HHHHHHhCc--cCCHHHHHHHH
Confidence            888887753  45555555444

>PRK09112 DNA polymerase III subunit delta'; Validated

Probab=97.97  E-value=0.00018  Score=79.58  Aligned_cols=193  Identities=11%  Similarity=0.086  Sum_probs=108.4

Q ss_pred             cccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC---CCeEEEEEecCCcCHHHHHHHHHH
Q 001457          159 FVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP---FDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~---F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +..+.|.++....+...+..+. ....+.|+|+.|+||||+|+.+...  ...   +....   ....+......+.+..
T Consensus        22 ~~~l~Gh~~a~~~L~~a~~~gr-l~ha~L~~G~~G~GKttlA~~lA~~Llc~~~~~~~~~~---~~~~~~~c~~c~~i~~   97 (351)
T PRK09112         22 NTRLFGHEEAEAFLAQAYREGK-LHHALLFEGPEGIGKATLAFHLANHILSHPDPAEAPET---LADPDPASPVWRQIAQ   97 (351)
T ss_pred             hhhccCcHHHHHHHHHHHHcCC-CCeeEeeECCCCCCHHHHHHHHHHHHcCCCccccCccc---cCCCCCCCHHHHHHHc
Confidence            3346678888888888877654 2346889999999999999999888  211   22111   1111111123333322


Q ss_pred             Hhc-------cCCC-------cchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeE-EEE
Q 001457          234 FLN-------TELE-------GDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCK-IIL  292 (1074)
Q Consensus       234 ~l~-------~~~~-------~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~-iiv  292 (1074)
                      .-.       ...+       .....+.+..+.+++.    .+++-++|+|+++.-  ...+.+...+.....+.. |++
T Consensus        98 ~~hPdl~~l~~~~~~~~~~~~~~I~vd~iR~l~~~l~~~~~~g~~rVviIDeAd~l~~~aanaLLk~LEEpp~~~~fiLi  177 (351)
T PRK09112         98 GAHPNLLHITRPFDEKTGKFKTAITVDEIRRVGHFLSQTSGDGNWRIVIIDPADDMNRNAANAILKTLEEPPARALFILI  177 (351)
T ss_pred             CCCCCEEEeecccccccccccccCCHHHHHHHHHHhhhccccCCceEEEEEchhhcCHHHHHHHHHHHhcCCCCceEEEE
Confidence            211       0000       0011223334444443    367779999999853  223333222222122344 555


Q ss_pred             ecCChhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHH
Q 001457          293 TSRFKEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIG  358 (1074)
Q Consensus       293 TTR~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  358 (1074)
                      |++...+.... .....+++.+++.++..+++.+......   -..+....|++.++|.|.....+.
T Consensus       178 t~~~~~llptIrSRc~~i~l~pl~~~~~~~~L~~~~~~~~---~~~~~~~~i~~~s~G~pr~Al~ll  241 (351)
T PRK09112        178 SHSSGRLLPTIRSRCQPISLKPLDDDELKKALSHLGSSQG---SDGEITEALLQRSKGSVRKALLLL  241 (351)
T ss_pred             ECChhhccHHHHhhccEEEecCCCHHHHHHHHHHhhcccC---CCHHHHHHHHHHcCCCHHHHHHHH
Confidence            55544443222 2236899999999999999987432111   224557789999999997655443

>PRK09087 hypothetical protein; Validated

Probab=97.95  E-value=9.8e-05  Score=76.70  Aligned_cols=140  Identities=14%  Similarity=0.111  Sum_probs=85.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL  262 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L  262 (1074)
                      .+.+.|+|..|+|||+|++.++...    ...|++..      .+..+++                    ..+.   .-+
T Consensus        44 ~~~l~l~G~~GsGKThLl~~~~~~~----~~~~i~~~------~~~~~~~--------------------~~~~---~~~   90 (226)
T PRK09087         44 SPVVVLAGPVGSGKTHLASIWREKS----DALLIHPN------EIGSDAA--------------------NAAA---EGP   90 (226)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHhc----CCEEecHH------HcchHHH--------------------Hhhh---cCe
Confidence            4678999999999999999888651    11244321      1111111                    1111   137


Q ss_pred             EEEcCccccc-cccccccCCCC-CCCCeEEEEecCC---------hhHHhhccCCCeEeCCCCCHHHHHHHHHHhcCCCC
Q 001457          263 IILDDLWGKL-DLAVVGIPYGE-EHKGCKIILTSRF---------KEVCDEMESTNYVQVEELTDEDRLILFKKKAGLPE  331 (1074)
Q Consensus       263 lVlDdv~~~~-~~~~~~~~~~~-~~~gs~iivTTR~---------~~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~  331 (1074)
                      |++||+.... +-+.+..-+.. ...|..||+|++.         ++....+....+++++++++++-.+++.+++... 
T Consensus        91 l~iDDi~~~~~~~~~lf~l~n~~~~~g~~ilits~~~p~~~~~~~~dL~SRl~~gl~~~l~~pd~e~~~~iL~~~~~~~-  169 (226)
T PRK09087         91 VLIEDIDAGGFDETGLFHLINSVRQAGTSLLMTSRLWPSSWNVKLPDLKSRLKAATVVEIGEPDDALLSQVIFKLFADR-  169 (226)
T ss_pred             EEEECCCCCCCCHHHHHHHHHHHHhCCCeEEEECCCChHHhccccccHHHHHhCCceeecCCCCHHHHHHHHHHHHHHc-
Confidence            8889996431 11111111111 1236778988863         3344555566789999999999999999888632 


Q ss_pred             CCchhHHHHHHHHHHhCCChHHHHH
Q 001457          332 GTKAFDRAAEEVVRQCGKLPNAIVI  356 (1074)
Q Consensus       332 ~~~~~~~~~~~i~~~c~glPLai~~  356 (1074)
                      ...--+++..-|++.+.|-.-++..
T Consensus       170 ~~~l~~ev~~~La~~~~r~~~~l~~  194 (226)
T PRK09087        170 QLYVDPHVVYYLVSRMERSLFAAQT  194 (226)
T ss_pred             CCCCCHHHHHHHHHHhhhhHHHHHH
Confidence            1223367788888888887765554

>PRK07994 DNA polymerase III subunits gamma and tau; Validated

Probab=97.94  E-value=0.00013  Score=86.14  Aligned_cols=195  Identities=12%  Similarity=0.089  Sum_probs=105.8

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~  234 (1074)
                      +..|..+.|.+..++.+...+..+. -...+.++|..|+||||+|+.+.+. .....    + ....+..-...+.|...
T Consensus        12 P~~f~divGQe~vv~~L~~~l~~~r-l~hAyLf~Gp~GvGKTTlAr~lAk~L~c~~~----~-~~~pCg~C~~C~~i~~g   85 (647)
T PRK07994         12 PQTFAEVVGQEHVLTALANALDLGR-LHHAYLFSGTRGVGKTTIARLLAKGLNCETG----I-TATPCGECDNCREIEQG   85 (647)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhhhccC----C-CCCCCCCCHHHHHHHcC
Confidence            3445556778888888888877665 1245689999999999999999877 11100    0 00011111111122110


Q ss_pred             hccC---CCcc--hHHHHHHHHHHHH----HccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEe-cCChhHHhh
Q 001457          235 LNTE---LEGD--VEVLRAAFLSERL----KRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILT-SRFKEVCDE  302 (1074)
Q Consensus       235 l~~~---~~~~--~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivT-TR~~~v~~~  302 (1074)
                      -..+   .+..  ...+....+.+.+    ..+++-++|+|++..-  ...+.+...+-......++|.+ |....+...
T Consensus        86 ~~~D~ieidaas~~~VddiR~li~~~~~~p~~g~~KV~IIDEah~Ls~~a~NALLKtLEEPp~~v~FIL~Tt~~~kLl~T  165 (647)
T PRK07994         86 RFVDLIEIDAASRTKVEDTRELLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPVT  165 (647)
T ss_pred             CCCCceeecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEechHhCCHHHHHHHHHHHHcCCCCeEEEEecCCccccchH
Confidence            0000   0000  0011112222222    1367779999999753  3344443222222335555554 444444322


Q ss_pred             -ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          303 -MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       303 -~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                       ......|++++++.++....+.+.+... ......+....|++.++|.+-.+..+
T Consensus       166 I~SRC~~~~f~~Ls~~ei~~~L~~il~~e-~i~~e~~aL~~Ia~~s~Gs~R~Al~l  220 (647)
T PRK07994        166 ILSRCLQFHLKALDVEQIRQQLEHILQAE-QIPFEPRALQLLARAADGSMRDALSL  220 (647)
T ss_pred             HHhhheEeeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHHH
Confidence             2234689999999999998888765311 12223466778999999988544433

>PRK14951 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.94  E-value=0.00016  Score=85.19  Aligned_cols=193  Identities=14%  Similarity=0.101  Sum_probs=104.6

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--c-CCC--CeEEEEEecCCcCHHHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--E-IPF--DKVIFVRVTQTPDVKRVQDEI  231 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~-~~F--~~~~wv~vs~~~~~~~~~~~i  231 (1074)
                      ..|..+.|.+..+..+.+++..+. -...+.++|..|+||||+|+.+.+.  . ...  .....    ..++.-...+.|
T Consensus        13 ~~f~dviGQe~vv~~L~~~l~~~r-l~ha~Lf~Gp~GvGKTtlAr~lAk~LnC~~~~~~~~~~~----~pCg~C~~C~~i   87 (618)
T PRK14951         13 RSFSEMVGQEHVVQALTNALTQQR-LHHAYLFTGTRGVGKTTVSRILAKSLNCQGPDGQGGITA----TPCGVCQACRDI   87 (618)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCcccccCCCC----CCCCccHHHHHH
Confidence            445556677777777778777665 2356789999999999999998766  1 110  00000    011111111112


Q ss_pred             HHHhccC---CCc--chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEec-CChhH
Q 001457          232 ARFLNTE---LEG--DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTS-RFKEV  299 (1074)
Q Consensus       232 ~~~l~~~---~~~--~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTT-R~~~v  299 (1074)
                      ...-..+   .+.  ....+.+..+.+...    .++.-++|+|+|+.-  ..++.+...+.......++|++| ....+
T Consensus        88 ~~g~h~D~~eldaas~~~Vd~iReli~~~~~~p~~g~~KV~IIDEvh~Ls~~a~NaLLKtLEEPP~~~~fIL~Ttd~~ki  167 (618)
T PRK14951         88 DSGRFVDYTELDAASNRGVDEVQQLLEQAVYKPVQGRFKVFMIDEVHMLTNTAFNAMLKTLEEPPEYLKFVLATTDPQKV  167 (618)
T ss_pred             HcCCCCceeecCcccccCHHHHHHHHHHHHhCcccCCceEEEEEChhhCCHHHHHHHHHhcccCCCCeEEEEEECCchhh
Confidence            1100000   000  000111122222211    245668999999853  34444444443333456666554 44444


Q ss_pred             Hhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHH
Q 001457          300 CDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       300 ~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~  355 (1074)
                      ... ......+++++++.++..+.+.+.+.... ..-..+....|++.++|-+--+.
T Consensus       168 l~TIlSRc~~~~f~~Ls~eei~~~L~~i~~~eg-i~ie~~AL~~La~~s~GslR~al  223 (618)
T PRK14951        168 PVTVLSRCLQFNLRPMAPETVLEHLTQVLAAEN-VPAEPQALRLLARAARGSMRDAL  223 (618)
T ss_pred             hHHHHHhceeeecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHH
Confidence            322 23346899999999999888887764211 22234667889999999774443

>PRK15386 type III secretion protein GogB; Provisional

Probab=97.93  E-value=2.3e-05  Score=86.26  Aligned_cols=58  Identities=17%  Similarity=0.328  Sum_probs=30.6

Q ss_pred             CCCccEEEEeccccccccccCccccc-ccceeEEEeeecccceeecccccccccccCCCcceeecCCccCcce
Q 001457          770 FTGLMCMHLRACSMQRIFHSNFYPTV-QILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLT  841 (1074)
Q Consensus       770 l~~L~~L~L~~~~~~~~~~~~~~~~l-~~L~~L~l~~~~~l~~~~~~~~~~~~~~~~~~L~~L~L~~~~~L~~  841 (1074)
                      +++++.|++++|.+... |     .+ ++|+.|.+++|..++.++..  +      .++|+.|.+.+|.++..
T Consensus        51 ~~~l~~L~Is~c~L~sL-P-----~LP~sLtsL~Lsnc~nLtsLP~~--L------P~nLe~L~Ls~Cs~L~s  109 (426)
T PRK15386         51 ARASGRLYIKDCDIESL-P-----VLPNELTEITIENCNNLTTLPGS--I------PEGLEKLTVCHCPEISG  109 (426)
T ss_pred             hcCCCEEEeCCCCCccc-C-----CCCCCCcEEEccCCCCcccCCch--h------hhhhhheEccCcccccc
Confidence            56777777777744332 2     12 24666666666555443321  0      24566666666555443

>PRK14964 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.92  E-value=0.00018  Score=82.30  Aligned_cols=179  Identities=13%  Similarity=0.112  Sum_probs=105.1

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-c---------------------CCCCeE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-E---------------------IPFDKV  213 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~---------------------~~F~~~  213 (1074)
                      +..|..+.|.+..++.+.+.+..+. -.+.+.++|+.|+||||+|+.+... .                     ..+..+
T Consensus         9 P~~f~dliGQe~vv~~L~~a~~~~r-i~ha~Lf~Gp~G~GKTT~ArilAk~LnC~~~~~~~pCg~C~~C~~i~~~~~~Dv   87 (491)
T PRK14964          9 PSSFKDLVGQDVLVRILRNAFTLNK-IPQSILLVGASGVGKTTCARIISLCLNCSNGPTSDPCGTCHNCISIKNSNHPDV   87 (491)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCccHHHHHHHHHHHHcCcCCCCCCCccccHHHHHHhccCCCCE
Confidence            3455556677777777767766554 1347889999999999999988764 1                     111223


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      +.++.+....+.++ ++|++.....               -. .+++-++|+|++..-  ...+.+...+....+.+++|
T Consensus        88 ~eidaas~~~vddI-R~Iie~~~~~---------------P~-~~~~KVvIIDEah~Ls~~A~NaLLK~LEePp~~v~fI  150 (491)
T PRK14964         88 IEIDAASNTSVDDI-KVILENSCYL---------------PI-SSKFKVYIIDEVHMLSNSAFNALLKTLEEPAPHVKFI  150 (491)
T ss_pred             EEEecccCCCHHHH-HHHHHHHHhc---------------cc-cCCceEEEEeChHhCCHHHHHHHHHHHhCCCCCeEEE
Confidence            34444333332221 1222211100               01 256678999998743  33444433333333456666


Q ss_pred             Eec-CChhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHH
Q 001457          292 LTS-RFKEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       292 vTT-R~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLa  353 (1074)
                      ++| ..+.+...+ .....+++++++.++-.+.+.+.+.... ..-..+....|++.++|-+-.
T Consensus       151 latte~~Kl~~tI~SRc~~~~f~~l~~~el~~~L~~ia~~Eg-i~i~~eAL~lIa~~s~GslR~  213 (491)
T PRK14964        151 LATTEVKKIPVTIISRCQRFDLQKIPTDKLVEHLVDIAKKEN-IEHDEESLKLIAENSSGSMRN  213 (491)
T ss_pred             EEeCChHHHHHHHHHhheeeecccccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHH
Confidence            555 444554332 2336889999999999988888775221 222346677899999987743

>PRK14958 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.91  E-value=0.00013  Score=85.00  Aligned_cols=181  Identities=12%  Similarity=0.096  Sum_probs=103.4

Q ss_pred             CCCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCC-------------------Ce
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPF-------------------DK  212 (1074)
Q Consensus       155 ~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F-------------------~~  212 (1074)
                      .+..|..+.|.+..++.+..++..+. -...+.++|+.|+||||+|+.+.+.   ...+                   .-
T Consensus        11 RP~~f~divGq~~v~~~L~~~~~~~~-l~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pCg~C~~C~~i~~g~~~d   89 (509)
T PRK14958         11 RPRCFQEVIGQAPVVRALSNALDQQY-LHHAYLFTGTRGVGKTTISRILAKCLNCEKGVSANPCNDCENCREIDEGRFPD   89 (509)
T ss_pred             CCCCHHHhcCCHHHHHHHHHHHHhCC-CCeeEEEECCCCCCHHHHHHHHHHHhcCCCCCCcccCCCCHHHHHHhcCCCce
Confidence            34455667788888888888887665 1345789999999999999998887   1111                   11


Q ss_pred             EEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEE
Q 001457          213 VIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKI  290 (1074)
Q Consensus       213 ~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~i  290 (1074)
                      ++.++.+....+..+ +++++.+.                ..-..++.-++|+|+|..-  ...+.+...+......+++
T Consensus        90 ~~eidaas~~~v~~i-R~l~~~~~----------------~~p~~~~~kV~iIDE~~~ls~~a~naLLk~LEepp~~~~f  152 (509)
T PRK14958         90 LFEVDAASRTKVEDT-RELLDNIP----------------YAPTKGRFKVYLIDEVHMLSGHSFNALLKTLEEPPSHVKF  152 (509)
T ss_pred             EEEEcccccCCHHHH-HHHHHHHh----------------hccccCCcEEEEEEChHhcCHHHHHHHHHHHhccCCCeEE
Confidence            233332222222221 11222111                0001356778999999853  3344443333332345666


Q ss_pred             EEecC-ChhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          291 ILTSR-FKEVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       291 ivTTR-~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      |++|. ...+... ......+++++++.++-...+.+.+.... ..-..+....|++.++|-+--+
T Consensus       153 Ilattd~~kl~~tI~SRc~~~~f~~l~~~~i~~~l~~il~~eg-i~~~~~al~~ia~~s~GslR~a  217 (509)
T PRK14958        153 ILATTDHHKLPVTVLSRCLQFHLAQLPPLQIAAHCQHLLKEEN-VEFENAALDLLARAANGSVRDA  217 (509)
T ss_pred             EEEECChHhchHHHHHHhhhhhcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCcHHHH
Confidence            66553 3333322 22235788999999987776666554211 1122455677888899877443

>PRK08691 DNA polymerase III subunits gamma and tau; Validated

Probab=97.90  E-value=0.00013  Score=85.54  Aligned_cols=181  Identities=14%  Similarity=0.108  Sum_probs=102.8

Q ss_pred             CCCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCC-------------------CCe
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIP-------------------FDK  212 (1074)
Q Consensus       155 ~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~-------------------F~~  212 (1074)
                      .+..|..+.|.+..++.+..++..+. -.+.+.++|..|+||||+|+.+.+.   ...                   |..
T Consensus        11 RP~tFddIIGQe~vv~~L~~ai~~~r-l~Ha~Lf~GP~GvGKTTlAriLAk~LnC~~~~~~~pCg~C~sCr~i~~g~~~D   89 (709)
T PRK08691         11 RPKTFADLVGQEHVVKALQNALDEGR-LHHAYLLTGTRGVGKTTIARILAKSLNCENAQHGEPCGVCQSCTQIDAGRYVD   89 (709)
T ss_pred             CCCCHHHHcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccCCCCCCCCcccHHHHHHhccCccc
Confidence            34456667788888888888887654 1356899999999999999998876   111                   111


Q ss_pred             EEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc--cccccccCCCCCCCCeEE
Q 001457          213 VIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL--DLAVVGIPYGEEHKGCKI  290 (1074)
Q Consensus       213 ~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--~~~~~~~~~~~~~~gs~i  290 (1074)
                      ++.++.+....+.. +++++..                ....-..+++-++|+|++....  ..+.+...+......+++
T Consensus        90 vlEidaAs~~gVd~-IRelle~----------------a~~~P~~gk~KVIIIDEad~Ls~~A~NALLKtLEEPp~~v~f  152 (709)
T PRK08691         90 LLEIDAASNTGIDN-IREVLEN----------------AQYAPTAGKYKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKF  152 (709)
T ss_pred             eEEEeccccCCHHH-HHHHHHH----------------HHhhhhhCCcEEEEEECccccCHHHHHHHHHHHHhCCCCcEE
Confidence            11222111111111 1111111                0000012567789999987532  233333222222335666


Q ss_pred             EEecCCh-hHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          291 ILTSRFK-EVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       291 ivTTR~~-~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      |++|.+. .+... .+....+++.+++.++....+.+.+.... ..-..+....|++.++|-+.-+
T Consensus       153 ILaTtd~~kL~~TIrSRC~~f~f~~Ls~eeI~~~L~~Il~kEg-i~id~eAL~~Ia~~A~GslRdA  217 (709)
T PRK08691        153 ILATTDPHKVPVTVLSRCLQFVLRNMTAQQVADHLAHVLDSEK-IAYEPPALQLLGRAAAGSMRDA  217 (709)
T ss_pred             EEEeCCccccchHHHHHHhhhhcCCCCHHHHHHHHHHHHHHcC-CCcCHHHHHHHHHHhCCCHHHH
Confidence            6666433 33211 12225688899999999888887765211 2223467788999999988443

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.89  E-value=2.2e-05  Score=75.77  Aligned_cols=82  Identities=28%  Similarity=0.415  Sum_probs=45.0

Q ss_pred             CCcEEeeccCCcccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCC--CccCCccCCeeeccC
Q 001457          510 NCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP--SLPCLEKLRSLHLEN  587 (1074)
Q Consensus       510 ~~~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~--~i~~l~~Lr~L~L~~  587 (1074)
                      +...+++++|++..++.++.++.|.+|.+.+|.++.+.+..-..+++|.+|.|.+|++..+-+  .+..|+.|++|.+-+
T Consensus        43 ~~d~iDLtdNdl~~l~~lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Ltll~  122 (233)
T KOG1644|consen   43 QFDAIDLTDNDLRKLDNLPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLTLLG  122 (233)
T ss_pred             ccceecccccchhhcccCCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceeeecC
Confidence            344555566665555555556666666666666665555544445556666666665554432  344455555555555


Q ss_pred             CCCC
Q 001457          588 THLN  591 (1074)
Q Consensus       588 ~~l~  591 (1074)
                      |.++
T Consensus       123 Npv~  126 (233)
T KOG1644|consen  123 NPVE  126 (233)
T ss_pred             Cchh
Confidence            5443

>PRK07940 DNA polymerase III subunit delta'; Validated

Probab=97.88  E-value=0.00038  Score=78.27  Aligned_cols=170  Identities=11%  Similarity=0.049  Sum_probs=97.9

Q ss_pred             cCcchHHHHHHHHHHHhcCCC--------ceeEEEEEcCCCCcHHHHHHHHHhh-cCC--------------------CC
Q 001457          161 PLKSALEVIKSVMKLLKDNSI--------SINIIGVYGSGGIGKTTLMKQVMKQ-EIP--------------------FD  211 (1074)
Q Consensus       161 ~~~~r~~~~~~l~~~l~~~~~--------~~~vi~I~G~gG~GKTtLa~~v~~~-~~~--------------------F~  211 (1074)
                      .+.|.+..++.+...+..+..        -.+.+.++|+.|+||||+|+.+... -..                    ..
T Consensus         6 ~IiGq~~~~~~L~~~i~~~~~~~~~~~~~l~ha~Lf~Gp~G~GKt~lA~~lA~~l~c~~~~~~~Cg~C~~C~~~~~~~hp   85 (394)
T PRK07940          6 DLVGQEAVVAELRAAARAARADVAAAGSGMTHAWLFTGPPGSGRSVAARAFAAALQCTDPDEPGCGECRACRTVLAGTHP   85 (394)
T ss_pred             hccChHHHHHHHHHHHHhccccccccCCCCCeEEEEECCCCCcHHHHHHHHHHHhCCCCCCCCCCCCCHHHHHHhcCCCC
Confidence            355777777777777765421        2467889999999999999998776 111                    00


Q ss_pred             eEEEEEecC-CcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCC
Q 001457          212 KVIFVRVTQ-TPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEE  284 (1074)
Q Consensus       212 ~~~wv~vs~-~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~  284 (1074)
                      -..++.... ...+.+                     +..+.+...    .+++-++|+|+++.-  ...+.+...+...
T Consensus        86 D~~~i~~~~~~i~i~~---------------------iR~l~~~~~~~p~~~~~kViiIDead~m~~~aanaLLk~LEep  144 (394)
T PRK07940         86 DVRVVAPEGLSIGVDE---------------------VRELVTIAARRPSTGRWRIVVIEDADRLTERAANALLKAVEEP  144 (394)
T ss_pred             CEEEeccccccCCHHH---------------------HHHHHHHHHhCcccCCcEEEEEechhhcCHHHHHHHHHHhhcC
Confidence            111221110 111111                     112222221    245668888998753  2233332222222


Q ss_pred             CCCeEEEEecCC-hhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          285 HKGCKIILTSRF-KEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       285 ~~gs~iivTTR~-~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      ..+..+|++|.+ ..+...+ .....+.+.+++.++..+.+.+..+    .  ..+.+..++..++|.|.....+
T Consensus       145 ~~~~~fIL~a~~~~~llpTIrSRc~~i~f~~~~~~~i~~~L~~~~~----~--~~~~a~~la~~s~G~~~~A~~l  213 (394)
T PRK07940        145 PPRTVWLLCAPSPEDVLPTIRSRCRHVALRTPSVEAVAEVLVRRDG----V--DPETARRAARASQGHIGRARRL  213 (394)
T ss_pred             CCCCeEEEEECChHHChHHHHhhCeEEECCCCCHHHHHHHHHHhcC----C--CHHHHHHHHHHcCCCHHHHHHH
Confidence            345556555554 4444332 2336899999999999988875432    1  1355788999999999655443

>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=97.88  E-value=0.00019  Score=74.37  Aligned_cols=153  Identities=22%  Similarity=0.258  Sum_probs=89.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCC-CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPF-DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F-~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  259 (1074)
                      ...+.|+|..|+|||.|.+.+++.  +.+- ..++|++      ..++...++..+..        .....+++.+.  .
T Consensus        34 ~~~l~l~G~~G~GKTHLL~Ai~~~~~~~~~~~~v~y~~------~~~f~~~~~~~~~~--------~~~~~~~~~~~--~   97 (219)
T PF00308_consen   34 YNPLFLYGPSGLGKTHLLQAIANEAQKQHPGKRVVYLS------AEEFIREFADALRD--------GEIEEFKDRLR--S   97 (219)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHHHHHHHHCTTS-EEEEE------HHHHHHHHHHHHHT--------TSHHHHHHHHC--T
T ss_pred             CCceEEECCCCCCHHHHHHHHHHHHHhccccccceeec------HHHHHHHHHHHHHc--------ccchhhhhhhh--c
Confidence            456889999999999999999998  3222 2456764      44555555555432        11233445553  4


Q ss_pred             eEEEEEcCcccc---ccccc-cccCCC-CCCCCeEEEEecCChh---------HHhhccCCCeEeCCCCCHHHHHHHHHH
Q 001457          260 RVLIILDDLWGK---LDLAV-VGIPYG-EEHKGCKIILTSRFKE---------VCDEMESTNYVQVEELTDEDRLILFKK  325 (1074)
Q Consensus       260 ~~LlVlDdv~~~---~~~~~-~~~~~~-~~~~gs~iivTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~  325 (1074)
                      -=+|++||++..   ..|.+ +..-+. ....|-+||+|++...         +...+...-++++++.++++-.+++.+
T Consensus        98 ~DlL~iDDi~~l~~~~~~q~~lf~l~n~~~~~~k~li~ts~~~P~~l~~~~~~L~SRl~~Gl~~~l~~pd~~~r~~il~~  177 (219)
T PF00308_consen   98 ADLLIIDDIQFLAGKQRTQEELFHLFNRLIESGKQLILTSDRPPSELSGLLPDLRSRLSWGLVVELQPPDDEDRRRILQK  177 (219)
T ss_dssp             SSEEEEETGGGGTTHHHHHHHHHHHHHHHHHTTSEEEEEESS-TTTTTTS-HHHHHHHHCSEEEEE----HHHHHHHHHH
T ss_pred             CCEEEEecchhhcCchHHHHHHHHHHHHHHhhCCeEEEEeCCCCccccccChhhhhhHhhcchhhcCCCCHHHHHHHHHH
Confidence            568899999754   22322 111111 0123668999985432         234445556899999999999999988


Q ss_pred             hcCCCCCCchhHHHHHHHHHHhCCChH
Q 001457          326 KAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       326 ~a~~~~~~~~~~~~~~~i~~~c~glPL  352 (1074)
                      ++.... -.--++++.-|++.+.+-.-
T Consensus       178 ~a~~~~-~~l~~~v~~~l~~~~~~~~r  203 (219)
T PF00308_consen  178 KAKERG-IELPEEVIEYLARRFRRDVR  203 (219)
T ss_dssp             HHHHTT---S-HHHHHHHHHHTTSSHH
T ss_pred             HHHHhC-CCCcHHHHHHHHHhhcCCHH
Confidence            885211 12335666777777665443

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.

>PRK14087 dnaA chromosomal replication initiation protein; Provisional

Probab=97.87  E-value=0.00026  Score=81.47  Aligned_cols=162  Identities=14%  Similarity=0.123  Sum_probs=100.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-c-CC-CCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-E-IP-FDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~-~~-F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  259 (1074)
                      ..-+.|+|..|+|||+|++.+.+. . .+ -..+++++      ..++...+...++..      ......+++.+.  .
T Consensus       141 ~npl~i~G~~G~GKTHLl~Ai~~~l~~~~~~~~v~yv~------~~~f~~~~~~~l~~~------~~~~~~~~~~~~--~  206 (450)
T PRK14087        141 YNPLFIYGESGMGKTHLLKAAKNYIESNFSDLKVSYMS------GDEFARKAVDILQKT------HKEIEQFKNEIC--Q  206 (450)
T ss_pred             cCceEEECCCCCcHHHHHHHHHHHHHHhCCCCeEEEEE------HHHHHHHHHHHHHHh------hhHHHHHHHHhc--c
Confidence            356889999999999999999997 2 22 23445554      345666666655421      012233444442  4


Q ss_pred             eEEEEEcCccccc---cc-cccccCCCC-CCCCeEEEEecCCh---------hHHhhccCCCeEeCCCCCHHHHHHHHHH
Q 001457          260 RVLIILDDLWGKL---DL-AVVGIPYGE-EHKGCKIILTSRFK---------EVCDEMESTNYVQVEELTDEDRLILFKK  325 (1074)
Q Consensus       260 ~~LlVlDdv~~~~---~~-~~~~~~~~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~  325 (1074)
                      .-+||+||+....   .+ +.+..-+.. ...|..||+|+...         .+...+...-++.+++++.++-.+++.+
T Consensus       207 ~dvLiIDDiq~l~~k~~~~e~lf~l~N~~~~~~k~iIltsd~~P~~l~~l~~rL~SR~~~Gl~~~L~~pd~e~r~~iL~~  286 (450)
T PRK14087        207 NDVLIIDDVQFLSYKEKTNEIFFTIFNNFIENDKQLFFSSDKSPELLNGFDNRLITRFNMGLSIAIQKLDNKTATAIIKK  286 (450)
T ss_pred             CCEEEEeccccccCCHHHHHHHHHHHHHHHHcCCcEEEECCCCHHHHhhccHHHHHHHhCCceeccCCcCHHHHHHHHHH
Confidence            5589999996431   22 222221211 12345788886532         2233344445788999999999999998


Q ss_pred             hcCCCCC-CchhHHHHHHHHHHhCCChHHHHHHH
Q 001457          326 KAGLPEG-TKAFDRAAEEVVRQCGKLPNAIVIIG  358 (1074)
Q Consensus       326 ~a~~~~~-~~~~~~~~~~i~~~c~glPLai~~~~  358 (1074)
                      ++..... ..--+++..-|++.++|.|-.+..+.
T Consensus       287 ~~~~~gl~~~l~~evl~~Ia~~~~gd~R~L~gaL  320 (450)
T PRK14087        287 EIKNQNIKQEVTEEAINFISNYYSDDVRKIKGSV  320 (450)
T ss_pred             HHHhcCCCCCCCHHHHHHHHHccCCCHHHHHHHH
Confidence            8852211 12346888999999999986655544

>TIGR02397 dnaX_nterm DNA polymerase III, subunit gamma and tau

Probab=97.86  E-value=0.00038  Score=78.91  Aligned_cols=182  Identities=15%  Similarity=0.129  Sum_probs=104.9

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cC---------------------CCCeE
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EI---------------------PFDKV  213 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~---------------------~F~~~  213 (1074)
                      ..+..+.|.++.++.+.+++..+. -.+.+.++|++|+||||+|+.+...  ..                     +++. 
T Consensus        11 ~~~~~iig~~~~~~~l~~~~~~~~-~~~~~Ll~G~~G~GKt~~a~~la~~l~~~~~~~~~~c~~c~~c~~~~~~~~~~~-   88 (355)
T TIGR02397        11 QTFEDVIGQEHIVQTLKNAIKNGR-IAHAYLFSGPRGTGKTSIARIFAKALNCQNGPDGEPCNECESCKEINSGSSLDV-   88 (355)
T ss_pred             CcHhhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCCE-
Confidence            344456678888888888886654 2357789999999999999998877  11                     1221 


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      ++++-+....... .+++...+...               -. .+++-++|+|++..-  ...+.+...+......+.+|
T Consensus        89 ~~~~~~~~~~~~~-~~~l~~~~~~~---------------p~-~~~~~vviidea~~l~~~~~~~Ll~~le~~~~~~~lI  151 (355)
T TIGR02397        89 IEIDAASNNGVDD-IREILDNVKYA---------------PS-SGKYKVYIIDEVHMLSKSAFNALLKTLEEPPEHVVFI  151 (355)
T ss_pred             EEeeccccCCHHH-HHHHHHHHhcC---------------cc-cCCceEEEEeChhhcCHHHHHHHHHHHhCCccceeEE
Confidence            2222211111111 11222111100               01 245568899998643  33444433333333466766


Q ss_pred             EecCChh-HHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHH
Q 001457          292 LTSRFKE-VCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIG  358 (1074)
Q Consensus       292 vTTR~~~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~  358 (1074)
                      ++|.+.. +.... .....+++.++++++..+.+...+.... ..--++.+..|++.++|-|..+....
T Consensus       152 l~~~~~~~l~~~l~sr~~~~~~~~~~~~~l~~~l~~~~~~~g-~~i~~~a~~~l~~~~~g~~~~a~~~l  219 (355)
T TIGR02397       152 LATTEPHKIPATILSRCQRFDFKRIPLEDIVERLKKILDKEG-IKIEDEALELIARAADGSLRDALSLL  219 (355)
T ss_pred             EEeCCHHHHHHHHHhheeEEEcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCChHHHHHHH
Confidence            6665443 32222 2235788999999998888887664211 11224678889999999886554443

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.

>PRK07471 DNA polymerase III subunit delta'; Validated

Probab=97.85  E-value=3.7e-05  Score=85.54  Aligned_cols=189  Identities=12%  Similarity=0.036  Sum_probs=104.6

Q ss_pred             ccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC-CCeEE------EEEecCCcCHHHHHHH
Q 001457          160 VPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP-FDKVI------FVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       160 ~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~-F~~~~------wv~vs~~~~~~~~~~~  230 (1074)
                      ..+.|.++.++.+.+.+..+. -...+.++|+.|+||+|+|..+...  ... .....      =..+....   ...+.
T Consensus        19 ~~iiGq~~~~~~L~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~~A~~Llc~~~~~~~~~~~~~~~l~~~~~c---~~c~~   94 (365)
T PRK07471         19 TALFGHAAAEAALLDAYRSGR-LHHAWLIGGPQGIGKATLAYRMARFLLATPPPGGDGAVPPPTSLAIDPDH---PVARR   94 (365)
T ss_pred             hhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHhCCCCCCCCccccccccccCCCCC---hHHHH
Confidence            345677787888888877665 1346889999999999999988877  211 11000      00000111   11122


Q ss_pred             HHHHhccC-------CCc-------chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEE
Q 001457          231 IARFLNTE-------LEG-------DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKI  290 (1074)
Q Consensus       231 i~~~l~~~-------~~~-------~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~i  290 (1074)
                      |...-..+       .++       ....+.+..+.+++.    .+++-++|+||++.-  .....+...+.....++.+
T Consensus        95 i~~~~HPDl~~i~~~~~~~~~~~~~~I~VdqiR~l~~~~~~~~~~~~~kVviIDead~m~~~aanaLLK~LEepp~~~~~  174 (365)
T PRK07471         95 IAAGAHGGLLTLERSWNEKGKRLRTVITVDEVRELISFFGLTAAEGGWRVVIVDTADEMNANAANALLKVLEEPPARSLF  174 (365)
T ss_pred             HHccCCCCeEEEecccccccccccccccHHHHHHHHHHhCcCcccCCCEEEEEechHhcCHHHHHHHHHHHhcCCCCeEE
Confidence            21111000       000       011222333444332    367779999998753  3333333222222345667


Q ss_pred             EEecCChh-HHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          291 ILTSRFKE-VCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       291 ivTTR~~~-v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      |++|.+.+ +.... .....+.+.+++.++..+++.+.....   +  .+....++..++|.|..+..+
T Consensus       175 IL~t~~~~~llpti~SRc~~i~l~~l~~~~i~~~L~~~~~~~---~--~~~~~~l~~~s~Gsp~~Al~l  238 (365)
T PRK07471        175 LLVSHAPARLLPTIRSRCRKLRLRPLAPEDVIDALAAAGPDL---P--DDPRAALAALAEGSVGRALRL  238 (365)
T ss_pred             EEEECCchhchHHhhccceEEECCCCCHHHHHHHHHHhcccC---C--HHHHHHHHHHcCCCHHHHHHH
Confidence            77666554 33222 233689999999999999998764311   1  122267899999999865544

>PRK08903 DnaA regulatory inactivator Hda; Validated

Probab=97.84  E-value=0.00016  Score=75.91  Aligned_cols=148  Identities=12%  Similarity=0.157  Sum_probs=86.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCe
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  260 (1074)
                      .+.+.|+|..|+|||+||+.+++.  ... ...++++.....      ..    +                 ...  ...
T Consensus        42 ~~~~~l~G~~G~GKT~La~ai~~~~~~~~-~~~~~i~~~~~~------~~----~-----------------~~~--~~~   91 (227)
T PRK08903         42 DRFFYLWGEAGSGRSHLLQALVADASYGG-RNARYLDAASPL------LA----F-----------------DFD--PEA   91 (227)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEEehHHhH------HH----H-----------------hhc--ccC
Confidence            567889999999999999999988  332 234555533211      00    0                 111  233


Q ss_pred             EEEEEcCcccccccc--ccccCCCC-CCCCe-EEEEecCChhHHh--------hccCCCeEeCCCCCHHHHHHHHHHhcC
Q 001457          261 VLIILDDLWGKLDLA--VVGIPYGE-EHKGC-KIILTSRFKEVCD--------EMESTNYVQVEELTDEDRLILFKKKAG  328 (1074)
Q Consensus       261 ~LlVlDdv~~~~~~~--~~~~~~~~-~~~gs-~iivTTR~~~v~~--------~~~~~~~~~l~~L~~~~~~~lf~~~a~  328 (1074)
                      -+||+||+.....+.  .+...+.. ...|. .||+|++......        .+.....+++.++++++-..++.+.+.
T Consensus        92 ~~liiDdi~~l~~~~~~~L~~~~~~~~~~~~~~vl~~~~~~~~~~~l~~~L~sr~~~~~~i~l~pl~~~~~~~~l~~~~~  171 (227)
T PRK08903         92 ELYAVDDVERLDDAQQIALFNLFNRVRAHGQGALLVAGPAAPLALPLREDLRTRLGWGLVYELKPLSDADKIAALKAAAA  171 (227)
T ss_pred             CEEEEeChhhcCchHHHHHHHHHHHHHHcCCcEEEEeCCCCHHhCCCCHHHHHHHhcCeEEEecCCCHHHHHHHHHHHHH
Confidence            478899997542221  22112211 11233 4677766443221        222336889999999887777766443


Q ss_pred             CCCCCchhHHHHHHHHHHhCCChHHHHHHHHHH
Q 001457          329 LPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTAL  361 (1074)
Q Consensus       329 ~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  361 (1074)
                      .. ...--++....+++.+.|.+..+..+-..+
T Consensus       172 ~~-~v~l~~~al~~L~~~~~gn~~~l~~~l~~l  203 (227)
T PRK08903        172 ER-GLQLADEVPDYLLTHFRRDMPSLMALLDAL  203 (227)
T ss_pred             Hc-CCCCCHHHHHHHHHhccCCHHHHHHHHHHH
Confidence            11 122335677888888888887776665554

>PF13191 AAA_16: AAA ATPase domain; PDB: 2V1U_A

Probab=97.83  E-value=5.6e-05  Score=76.74  Aligned_cols=45  Identities=27%  Similarity=0.359  Sum_probs=31.4

Q ss_pred             CcchHHHHHHHHHHHhc-CCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          162 LKSALEVIKSVMKLLKD-NSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~-~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.||+++++++...+.. .....+++.|+|.+|+|||+|++.++..
T Consensus         2 fvgR~~e~~~l~~~l~~~~~~~~~~~ll~G~~G~GKT~ll~~~~~~   47 (185)
T PF13191_consen    2 FVGREEEIERLRDLLDAAQSGSPRNLLLTGESGSGKTSLLRALLDR   47 (185)
T ss_dssp             -TT-HHHHHHHHHTTGGTSS-----EEE-B-TTSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHcCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            56899999999998842 2234689999999999999999999988

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.83  E-value=2e-06  Score=99.06  Aligned_cols=105  Identities=30%  Similarity=0.406  Sum_probs=51.4

Q ss_pred             CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCCCccccCCCCccEEEe
Q 001457          528 PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLIL  607 (1074)
Q Consensus       528 ~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L  607 (1074)
                      ..+.+|..|++.+|.+..+... +..+++|++|++++|.|+++. .+..+..|+.|++.+|.|+....+..+++|+.+++
T Consensus        92 ~~~~~l~~l~l~~n~i~~i~~~-l~~~~~L~~L~ls~N~I~~i~-~l~~l~~L~~L~l~~N~i~~~~~~~~l~~L~~l~l  169 (414)
T KOG0531|consen   92 SKLKSLEALDLYDNKIEKIENL-LSSLVNLQVLDLSFNKITKLE-GLSTLTLLKELNLSGNLISDISGLESLKSLKLLDL  169 (414)
T ss_pred             ccccceeeeeccccchhhcccc-hhhhhcchheecccccccccc-chhhccchhhheeccCcchhccCCccchhhhcccC
Confidence            3445555555555554444331 234555555555555555442 33444445555555555555444444555555555


Q ss_pred             eCCCCcccCcc-ccCCCCCCEEeCCCCc
Q 001457          608 KGSRIVELPNG-IGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       608 ~~~~i~~lp~~-i~~L~~L~~L~l~~~~  634 (1074)
                      ++|.+..++.. ...+.+|+.+++.+|.
T Consensus       170 ~~n~i~~ie~~~~~~~~~l~~l~l~~n~  197 (414)
T KOG0531|consen  170 SYNRIVDIENDELSELISLEELDLGGNS  197 (414)
T ss_pred             CcchhhhhhhhhhhhccchHHHhccCCc
Confidence            55555544332 3445555555555544

>PRK14955 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.83  E-value=0.00017  Score=82.24  Aligned_cols=196  Identities=12%  Similarity=0.109  Sum_probs=105.1

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--c-CCCCeEEEEE-ecCCcCHHHHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--E-IPFDKVIFVR-VTQTPDVKRVQDEIA  232 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~-~~F~~~~wv~-vs~~~~~~~~~~~i~  232 (1074)
                      ..+..+.|.+..++.+..++..+. -...+.++|+.|+||||+|+.+.+.  . ...+...|.. +...+..-...+.+.
T Consensus        13 ~~~~eiiGq~~~~~~L~~~~~~~~-~~ha~lf~Gp~G~GKtt~A~~~a~~l~c~~~~~~~~~~~~~~~~c~~c~~c~~~~   91 (397)
T PRK14955         13 KKFADITAQEHITRTIQNSLRMGR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDADYLQEVTEPCGECESCRDFD   91 (397)
T ss_pred             CcHhhccChHHHHHHHHHHHHhCC-cceeEEEECCCCCCHHHHHHHHHHHhcCCCCcCcccccccCCCCCCCCHHHHHHh
Confidence            334446677777777777777655 1345889999999999999999887  2 2111111110 001111111111111


Q ss_pred             HHhccC---CCc--chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEec-CChhHH
Q 001457          233 RFLNTE---LEG--DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTS-RFKEVC  300 (1074)
Q Consensus       233 ~~l~~~---~~~--~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTT-R~~~v~  300 (1074)
                      ..-..+   .+.  ....+.+..+.+.+.    .+++-++|+|++..-  ..++.+...+......+.+|++| +...+.
T Consensus        92 ~~~~~n~~~~~~~~~~~id~Ir~l~~~~~~~p~~~~~kvvIIdea~~l~~~~~~~LLk~LEep~~~t~~Il~t~~~~kl~  171 (397)
T PRK14955         92 AGTSLNISEFDAASNNSVDDIRLLRENVRYGPQKGRYRVYIIDEVHMLSIAAFNAFLKTLEEPPPHAIFIFATTELHKIP  171 (397)
T ss_pred             cCCCCCeEeecccccCCHHHHHHHHHHHhhchhcCCeEEEEEeChhhCCHHHHHHHHHHHhcCCCCeEEEEEeCChHHhH
Confidence            110000   000  000111222223231    256678999998753  34555544444334466666555 444443


Q ss_pred             hhcc-CCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          301 DEME-STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       301 ~~~~-~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      .... ....++++++++++..+.+...+... ...-..+.+..|++.++|-+--+
T Consensus       172 ~tl~sR~~~v~f~~l~~~ei~~~l~~~~~~~-g~~i~~~al~~l~~~s~g~lr~a  225 (397)
T PRK14955        172 ATIASRCQRFNFKRIPLEEIQQQLQGICEAE-GISVDADALQLIGRKAQGSMRDA  225 (397)
T ss_pred             HHHHHHHHHhhcCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHH
Confidence            3221 22578999999999888887766411 12233567889999999977433

>PRK05642 DNA replication initiation factor; Validated

Probab=97.82  E-value=0.00021  Score=74.92  Aligned_cols=149  Identities=19%  Similarity=0.278  Sum_probs=90.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      ...+.|+|..|+|||.|++.+++. ...-..++|++..+      +...                 ...+.+.+. +- =
T Consensus        45 ~~~l~l~G~~G~GKTHLl~a~~~~~~~~~~~v~y~~~~~------~~~~-----------------~~~~~~~~~-~~-d   99 (234)
T PRK05642         45 ESLIYLWGKDGVGRSHLLQAACLRFEQRGEPAVYLPLAE------LLDR-----------------GPELLDNLE-QY-E   99 (234)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHhCCCcEEEeeHHH------HHhh-----------------hHHHHHhhh-hC-C
Confidence            367899999999999999999887 32234567776432      1111                 012333343 12 2


Q ss_pred             EEEEcCcccc---ccccc-cccCCCC-CCCCeEEEEecCChhH---------HhhccCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          262 LIILDDLWGK---LDLAV-VGIPYGE-EHKGCKIILTSRFKEV---------CDEMESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       262 LlVlDdv~~~---~~~~~-~~~~~~~-~~~gs~iivTTR~~~v---------~~~~~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ++|+||+...   ..|+. +..-+.. ...|.+||+|++...-         ...+....+++++++++++-.++.++++
T Consensus       100 ~LiiDDi~~~~~~~~~~~~Lf~l~n~~~~~g~~ilits~~~p~~l~~~~~~L~SRl~~gl~~~l~~~~~e~~~~il~~ka  179 (234)
T PRK05642        100 LVCLDDLDVIAGKADWEEALFHLFNRLRDSGRRLLLAASKSPRELPIKLPDLKSRLTLALVFQMRGLSDEDKLRALQLRA  179 (234)
T ss_pred             EEEEechhhhcCChHHHHHHHHHHHHHHhcCCEEEEeCCCCHHHcCccCccHHHHHhcCeeeecCCCCHHHHHHHHHHHH
Confidence            6889999632   34433 2222211 1236678888874332         2223334678999999999999998666


Q ss_pred             CCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          328 GLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       328 ~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      ... .-.--+++..-|++++.|-.-++..+
T Consensus       180 ~~~-~~~l~~ev~~~L~~~~~~d~r~l~~~  208 (234)
T PRK05642        180 SRR-GLHLTDEVGHFILTRGTRSMSALFDL  208 (234)
T ss_pred             HHc-CCCCCHHHHHHHHHhcCCCHHHHHHH
Confidence            522 11222577888888888765444333

>PRK05896 DNA polymerase III subunits gamma and tau; Validated

Probab=97.82  E-value=0.00032  Score=81.65  Aligned_cols=196  Identities=15%  Similarity=0.135  Sum_probs=104.6

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +..+..+.|++..++.+..++..+. -.+.+.++|+.|+||||+|+.+.+.  ..+     |.... .++.-...+.+..
T Consensus        12 P~~F~dIIGQe~iv~~L~~aI~~~r-l~hA~Lf~GP~GvGKTTlA~~lAk~L~C~~-----~~~~~-~Cg~C~sCr~i~~   84 (605)
T PRK05896         12 PHNFKQIIGQELIKKILVNAILNNK-LTHAYIFSGPRGIGKTSIAKIFAKAINCLN-----PKDGD-CCNSCSVCESINT   84 (605)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHhcCCC-----CCCCC-CCcccHHHHHHHc
Confidence            4445567788888888888876654 1357889999999999999999877  111     11100 1111111111111


Q ss_pred             HhccCC---Ccc--hHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEec-CChhHHh
Q 001457          234 FLNTEL---EGD--VEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTS-RFKEVCD  301 (1074)
Q Consensus       234 ~l~~~~---~~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTT-R~~~v~~  301 (1074)
                      ....+.   +..  ...+....+.+...    .+++-++|+|+++.-  ..+..+...+........+|++| ....+..
T Consensus        85 ~~h~DiieIdaas~igVd~IReIi~~~~~~P~~~~~KVIIIDEad~Lt~~A~NaLLKtLEEPp~~tvfIL~Tt~~~KLl~  164 (605)
T PRK05896         85 NQSVDIVELDAASNNGVDEIRNIIDNINYLPTTFKYKVYIIDEAHMLSTSAWNALLKTLEEPPKHVVFIFATTEFQKIPL  164 (605)
T ss_pred             CCCCceEEeccccccCHHHHHHHHHHHHhchhhCCcEEEEEechHhCCHHHHHHHHHHHHhCCCcEEEEEECCChHhhhH
Confidence            100000   000  00111111111111    134457999998753  34444433332223355555544 4444432


Q ss_pred             h-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh-HHHHHHHH
Q 001457          302 E-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP-NAIVIIGT  359 (1074)
Q Consensus       302 ~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~  359 (1074)
                      . ......+++.++++++....+.+.+.... ..-..+.+..|++.++|-+ .|+..+-.
T Consensus       165 TI~SRcq~ieF~~Ls~~eL~~~L~~il~keg-i~Is~eal~~La~lS~GdlR~AlnlLek  223 (605)
T PRK05896        165 TIISRCQRYNFKKLNNSELQELLKSIAKKEK-IKIEDNAIDKIADLADGSLRDGLSILDQ  223 (605)
T ss_pred             HHHhhhhhcccCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCcHHHHHHHHHH
Confidence            2 22336889999999999888887664211 1122456788999999966 34444443

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.82  E-value=3.1e-07  Score=103.63  Aligned_cols=171  Identities=21%  Similarity=0.263  Sum_probs=109.4

Q ss_pred             cCCCcEEeeccCCcccCCCCCCC-CCccEEEccCCC----------CCCCChhHHhcCCCccEEEecCCccCCCCCCccC
Q 001457          508 LQNCEKLSLMDGNVTALPDQPKC-PRLTTLFLQNNP----------FADIPNAFFEHTREIKNLDLSSTNISSLAPSLPC  576 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~~~~-~~Lr~L~l~~~~----------~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~  576 (1074)
                      ++.+|+|.+.++++........+ ..|++|...+.-          ...+....  ....|.+.+.+.|.+..+-.++.-
T Consensus       108 F~sLr~LElrg~~L~~~~GL~~lr~qLe~LIC~~Sl~Al~~v~ascggd~~ns~--~Wn~L~~a~fsyN~L~~mD~SLql  185 (1096)
T KOG1859|consen  108 FRSLRVLELRGCDLSTAKGLQELRHQLEKLICHNSLDALRHVFASCGGDISNSP--VWNKLATASFSYNRLVLMDESLQL  185 (1096)
T ss_pred             ccceeeEEecCcchhhhhhhHHHHHhhhhhhhhccHHHHHHHHHHhccccccch--hhhhHhhhhcchhhHHhHHHHHHH
Confidence            68888898888877553322111 233343332210          01111100  123567777788877777777788


Q ss_pred             CccCCeeeccCCCCCCCccccCCCCccEEEeeCCCCcccCcc-ccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEc
Q 001457          577 LEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV  655 (1074)
Q Consensus       577 l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l  655 (1074)
                      ++.|+.|+|++|+++....+..|++|++|||++|.++.+|.- ...+ +|+.|.+++|.. ..+ .+ +.+|.+|+.|++
T Consensus       186 l~ale~LnLshNk~~~v~~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc-~L~~L~lrnN~l-~tL-~g-ie~LksL~~LDl  261 (1096)
T KOG1859|consen  186 LPALESLNLSHNKFTKVDNLRRLPKLKHLDLSYNCLRHVPQLSMVGC-KLQLLNLRNNAL-TTL-RG-IENLKSLYGLDL  261 (1096)
T ss_pred             HHHhhhhccchhhhhhhHHHHhcccccccccccchhccccccchhhh-hheeeeecccHH-Hhh-hh-HHhhhhhhccch
Confidence            888888888888888866888888888888888888877753 2233 488888888864 333 23 788888888888


Q ss_pred             cCCcCCccccccccCCCCCccccccCcCCCEEEEeecC
Q 001457          656 GNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSN  693 (1074)
Q Consensus       656 ~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  693 (1074)
                      +.|....         ...+..+..|..|+.|.+.+|.
T Consensus       262 syNll~~---------hseL~pLwsLs~L~~L~LeGNP  290 (1096)
T KOG1859|consen  262 SYNLLSE---------HSELEPLWSLSSLIVLWLEGNP  290 (1096)
T ss_pred             hHhhhhc---------chhhhHHHHHHHHHHHhhcCCc
Confidence            7764311         1233445667777788887764

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.75  E-value=7.5e-06  Score=98.18  Aligned_cols=144  Identities=20%  Similarity=0.307  Sum_probs=90.6

Q ss_pred             CCCcEEeeccCCc--ccCCC--CCCCCCccEEEccCCCCCCC-ChhHHhcCCCccEEEecCCccCCCCCCccCCccCCee
Q 001457          509 QNCEKLSLMDGNV--TALPD--QPKCPRLTTLFLQNNPFADI-PNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSL  583 (1074)
Q Consensus       509 ~~~~~L~l~~~~~--~~l~~--~~~~~~Lr~L~l~~~~~~~~-~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L  583 (1074)
                      +++++|++++...  ...+.  ..-+|.|++|.+.+-.+..- ....+.++++|+.||+|+++++.+ ..++.|++|+.|
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            5667777765432  11111  14578888888887654321 233456788888888888888877 677888888888


Q ss_pred             eccCCCCCC---CccccCCCCccEEEeeCCCCcccCc-------cccCCCCCCEEeCCCCcCCCCcChhhhcCCCCcCEE
Q 001457          584 HLENTHLND---ASLIREFGELEVLILKGSRIVELPN-------GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEEL  653 (1074)
Q Consensus       584 ~L~~~~l~~---~~~i~~l~~L~~L~L~~~~i~~lp~-------~i~~L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L  653 (1074)
                      .+++=.+..   ...+.+|++|++||+|......-+.       .-..|++||.||.+++.+...+-...+..-++|+.+
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgTdi~~~~le~ll~sH~~L~~i  280 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGTDINEEILEELLNSHPNLQQI  280 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCcchhHHHHHHHHHhCccHhhh
Confidence            888777665   5567788888888888765433331       112477888888777765444333333333444433

>PRK14959 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.75  E-value=0.0023  Score=75.17  Aligned_cols=196  Identities=13%  Similarity=0.138  Sum_probs=105.3

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--c-CCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--E-IPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~-~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      ..+..+.|.+..++.+...+..+. -...+.++|+.|+||||+|+.+.+.  . ...+.       ..++.-...+.|..
T Consensus        13 ~sf~dIiGQe~v~~~L~~ai~~~r-i~ha~Lf~GPpG~GKTtiArilAk~L~C~~~~~~-------~pCg~C~sC~~i~~   84 (624)
T PRK14959         13 QTFAEVAGQETVKAILSRAAQENR-VAPAYLFSGTRGVGKTTIARIFAKALNCETAPTG-------EPCNTCEQCRKVTQ   84 (624)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhccccCCCCC-------CCCcccHHHHHHhc
Confidence            334445566666666666665543 2467889999999999999999887  2 11110       00111111111111


Q ss_pred             HhccCC---Cc--chHHHHHHHHHHHH----HccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCC-hhHHh
Q 001457          234 FLNTEL---EG--DVEVLRAAFLSERL----KRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRF-KEVCD  301 (1074)
Q Consensus       234 ~l~~~~---~~--~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~-~~v~~  301 (1074)
                      ....+.   +.  ....+.+..+.+.+    ..+++-+||+|++..-  ..++.+...+........+|++|.. ..+..
T Consensus        85 g~hpDv~eId~a~~~~Id~iR~L~~~~~~~p~~g~~kVIIIDEad~Lt~~a~naLLk~LEEP~~~~ifILaTt~~~kll~  164 (624)
T PRK14959         85 GMHVDVVEIDGASNRGIDDAKRLKEAIGYAPMEGRYKVFIIDEAHMLTREAFNALLKTLEEPPARVTFVLATTEPHKFPV  164 (624)
T ss_pred             CCCCceEEEecccccCHHHHHHHHHHHHhhhhcCCceEEEEEChHhCCHHHHHHHHHHhhccCCCEEEEEecCChhhhhH
Confidence            100000   00  00011111122221    1356779999998754  3344444333322234556665544 44432


Q ss_pred             hc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh-HHHHHHHHHH
Q 001457          302 EM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP-NAIVIIGTAL  361 (1074)
Q Consensus       302 ~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~l  361 (1074)
                      .+ .....+++++++.++....+.+.+.... ..-..+.+..|++.++|-+ .|+..+..++
T Consensus       165 TI~SRcq~i~F~pLs~~eL~~~L~~il~~eg-i~id~eal~lIA~~s~GdlR~Al~lLeqll  225 (624)
T PRK14959        165 TIVSRCQHFTFTRLSEAGLEAHLTKVLGREG-VDYDPAAVRLIARRAAGSVRDSMSLLGQVL  225 (624)
T ss_pred             HHHhhhhccccCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            22 2235789999999999988887664211 1223567888999999955 6777766554

>TIGR02881 spore_V_K stage V sporulation protein K

Probab=97.74  E-value=0.00023  Score=76.35  Aligned_cols=130  Identities=15%  Similarity=0.193  Sum_probs=67.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCC-CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPF-DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F-~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  259 (1074)
                      ...+.++|++|+||||+|+.+++.  .... ....++.++..    ++...   .     .+...    ..+.+.+....
T Consensus        42 ~~~vll~GppGtGKTtlA~~ia~~l~~~~~~~~~~~v~~~~~----~l~~~---~-----~g~~~----~~~~~~~~~a~  105 (261)
T TIGR02881        42 VLHMIFKGNPGTGKTTVARILGKLFKEMNVLSKGHLIEVERA----DLVGE---Y-----IGHTA----QKTREVIKKAL  105 (261)
T ss_pred             cceEEEEcCCCCCHHHHHHHHHHHHHhcCcccCCceEEecHH----Hhhhh---h-----ccchH----HHHHHHHHhcc
Confidence            567889999999999999999876  1111 11123333221    11111   0     01111    11222222222


Q ss_pred             eEEEEEcCcccc----------ccccccccCCCCCCCCeEEEEecCChhHHh------hcc--CCCeEeCCCCCHHHHHH
Q 001457          260 RVLIILDDLWGK----------LDLAVVGIPYGEEHKGCKIILTSRFKEVCD------EME--STNYVQVEELTDEDRLI  321 (1074)
Q Consensus       260 ~~LlVlDdv~~~----------~~~~~~~~~~~~~~~gs~iivTTR~~~v~~------~~~--~~~~~~l~~L~~~~~~~  321 (1074)
                      ..+|++|++..-          +..+.+............+|+++...+...      ...  ....+++++++.++-.+
T Consensus       106 ~~VL~IDE~~~L~~~~~~~~~~~~i~~Ll~~~e~~~~~~~vila~~~~~~~~~~~~~p~L~sRf~~~i~f~~~~~~el~~  185 (261)
T TIGR02881       106 GGVLFIDEAYSLARGGEKDFGKEAIDTLVKGMEDNRNEFVLILAGYSDEMDYFLSLNPGLRSRFPISIDFPDYTVEELME  185 (261)
T ss_pred             CCEEEEechhhhccCCccchHHHHHHHHHHHHhccCCCEEEEecCCcchhHHHHhcChHHHhccceEEEECCCCHHHHHH
Confidence            358999999742          122223222222223345666655433211      111  12457889999999999


Q ss_pred             HHHHhcC
Q 001457          322 LFKKKAG  328 (1074)
Q Consensus       322 lf~~~a~  328 (1074)
                      ++.+.+.
T Consensus       186 Il~~~~~  192 (261)
T TIGR02881       186 IAERMVK  192 (261)
T ss_pred             HHHHHHH
Confidence            8887764

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.

>TIGR02880 cbbX_cfxQ probable Rubsico expression protein CbbX

Probab=97.72  E-value=0.00045  Score=74.67  Aligned_cols=128  Identities=16%  Similarity=0.143  Sum_probs=70.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh--c-CCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ--E-IPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~--~-~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      -+.++|.+|+||||+|+.+...  . ......-|+.++.    .++    ...+..    .+...    +.+.+..-..-
T Consensus        60 ~vll~G~pGTGKT~lA~~ia~~l~~~g~~~~~~~v~v~~----~~l----~~~~~g----~~~~~----~~~~~~~a~~g  123 (284)
T TIGR02880        60 HMSFTGNPGTGKTTVALRMAQILHRLGYVRKGHLVSVTR----DDL----VGQYIG----HTAPK----TKEILKRAMGG  123 (284)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHHHHcCCcccceEEEecH----HHH----hHhhcc----cchHH----HHHHHHHccCc
Confidence            5889999999999999887776  1 1111123444442    122    211111    11111    12222222346


Q ss_pred             EEEEcCcccc-----------ccccccccCCCCCCCCeEEEEecCChhHHhhcc--------CCCeEeCCCCCHHHHHHH
Q 001457          262 LIILDDLWGK-----------LDLAVVGIPYGEEHKGCKIILTSRFKEVCDEME--------STNYVQVEELTDEDRLIL  322 (1074)
Q Consensus       262 LlVlDdv~~~-----------~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~--------~~~~~~l~~L~~~~~~~l  322 (1074)
                      +|++|++..-           +.++.+...+.....+.+||++|..+.......        ....+++++++.+|-.++
T Consensus       124 vL~iDEi~~L~~~~~~~~~~~~~~~~Ll~~le~~~~~~~vI~a~~~~~~~~~~~~np~L~sR~~~~i~fp~l~~edl~~I  203 (284)
T TIGR02880       124 VLFIDEAYYLYRPDNERDYGQEAIEILLQVMENQRDDLVVILAGYKDRMDSFFESNPGFSSRVAHHVDFPDYSEAELLVI  203 (284)
T ss_pred             EEEEechhhhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhhCHHHHhhCCcEEEeCCcCHHHHHHH
Confidence            8999998621           112233333333345667888776543321111        124689999999999999


Q ss_pred             HHHhcC
Q 001457          323 FKKKAG  328 (1074)
Q Consensus       323 f~~~a~  328 (1074)
                      +...+.
T Consensus       204 ~~~~l~  209 (284)
T TIGR02880       204 AGLMLK  209 (284)
T ss_pred             HHHHHH
Confidence            877764

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.

>PRK14969 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.71  E-value=0.00043  Score=81.34  Aligned_cols=177  Identities=15%  Similarity=0.129  Sum_probs=99.9

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCC---------------------CCeEE
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIP---------------------FDKVI  214 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~---------------------F~~~~  214 (1074)
                      ..|..+.|.+..++.+..++..+. -.+.+.++|+.|+||||+|+.+... ...                     |...+
T Consensus        13 ~~f~divGq~~v~~~L~~~i~~~~-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~~~pcg~C~~C~~i~~~~~~d~~   91 (527)
T PRK14969         13 KSFSELVGQEHVVRALTNALEQQR-LHHAYLFTGTRGVGKTTLARILAKSLNCETGVTATPCGVCSACLEIDSGRFVDLI   91 (527)
T ss_pred             CcHHHhcCcHHHHHHHHHHHHcCC-CCEEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCCHHHHHHhcCCCCcee
Confidence            445556678888888888877655 1345689999999999999999876 111                     11122


Q ss_pred             EEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE
Q 001457          215 FVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL  292 (1074)
Q Consensus       215 wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv  292 (1074)
                      ++..+....+.. .++++..+.                ..-..+++-++|+|++..-  ...+.+...+......+.+|+
T Consensus        92 ei~~~~~~~vd~-ir~l~~~~~----------------~~p~~~~~kVvIIDEad~ls~~a~naLLK~LEepp~~~~fIL  154 (527)
T PRK14969         92 EVDAASNTQVDA-MRELLDNAQ----------------YAPTRGRFKVYIIDEVHMLSKSAFNAMLKTLEEPPEHVKFIL  154 (527)
T ss_pred             EeeccccCCHHH-HHHHHHHHh----------------hCcccCCceEEEEcCcccCCHHHHHHHHHHHhCCCCCEEEEE
Confidence            222211111111 111111110                0001356779999999754  233333333333234566665


Q ss_pred             ecCC-hhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChH
Q 001457          293 TSRF-KEVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       293 TTR~-~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPL  352 (1074)
                      +|.+ ..+... ......+++++++.++..+.+.+.+.... .....+....|++.++|.+-
T Consensus       155 ~t~d~~kil~tI~SRc~~~~f~~l~~~~i~~~L~~il~~eg-i~~~~~al~~la~~s~Gslr  215 (527)
T PRK14969        155 ATTDPQKIPVTVLSRCLQFNLKQMPPPLIVSHLQHILEQEN-IPFDATALQLLARAAAGSMR  215 (527)
T ss_pred             EeCChhhCchhHHHHHHHHhcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHH
Confidence            5543 333211 11225789999999998888877664211 22234566889999999774

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.71  E-value=0.00076  Score=71.08  Aligned_cols=196  Identities=14%  Similarity=0.109  Sum_probs=116.2

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCC-CceeEEEEEcCCCCcHHHHHHHHHhh-cCCC------CeEEEEEecCCcCHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNS-ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF------DKVIFVRVTQTPDVKRV  227 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~-~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F------~~~~wv~vs~~~~~~~~  227 (1074)
                      .+..+|...-.+.++.+-+.+.... ...+-+.|||.+|.|||++++++... ...+      -.++.|.....++...+
T Consensus        33 ~~rWIgY~~A~~~L~~L~~Ll~~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~d~~~~~~PVv~vq~P~~p~~~~~  112 (302)
T PF05621_consen   33 ADRWIGYPRAKEALDRLEELLEYPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQSDEDAERIPVVYVQMPPEPDERRF  112 (302)
T ss_pred             cCCeecCHHHHHHHHHHHHHHhCCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCCCCCCccccEEEEecCCCCChHHH
Confidence            3445555544555665555555443 23567999999999999999999877 1112      14667788889999999


Q ss_pred             HHHHHHHhccCCCcchH-HHHHHHHHHHHHccCeEEEEEcCcccc---------ccccccccCCCCCCCCeEEEEecCCh
Q 001457          228 QDEIARFLNTELEGDVE-VLRAAFLSERLKRQKRVLIILDDLWGK---------LDLAVVGIPYGEEHKGCKIILTSRFK  297 (1074)
Q Consensus       228 ~~~i~~~l~~~~~~~~~-~~~~~~l~~~l~~~k~~LlVlDdv~~~---------~~~~~~~~~~~~~~~gs~iivTTR~~  297 (1074)
                      ...|+.+++........ .....+..+.++.-+-=+||+|++.+.         +.++.++ .+...-.=+-|.|-|+.-
T Consensus       113 Y~~IL~~lgaP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK-~L~NeL~ipiV~vGt~~A  191 (302)
T PF05621_consen  113 YSAILEALGAPYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALK-FLGNELQIPIVGVGTREA  191 (302)
T ss_pred             HHHHHHHhCcccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHH-HHhhccCCCeEEeccHHH
Confidence            99999999987644333 333444445555556678999999763         1111111 111111234455556533


Q ss_pred             hHHhhcc-----CCCeEeCCCCCHHH-HHHHHHHhcC----CCCCCchhHHHHHHHHHHhCCChH
Q 001457          298 EVCDEME-----STNYVQVEELTDED-RLILFKKKAG----LPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       298 ~v~~~~~-----~~~~~~l~~L~~~~-~~~lf~~~a~----~~~~~~~~~~~~~~i~~~c~glPL  352 (1074)
                      .-+-..+     ...++.++.-..++ ...|+.....    .....-...+++..|...++|+.=
T Consensus       192 ~~al~~D~QLa~RF~~~~Lp~W~~d~ef~~LL~s~e~~LPLr~~S~l~~~~la~~i~~~s~G~iG  256 (302)
T PF05621_consen  192 YRALRTDPQLASRFEPFELPRWELDEEFRRLLASFERALPLRKPSNLASPELARRIHERSEGLIG  256 (302)
T ss_pred             HHHhccCHHHHhccCCccCCCCCCCcHHHHHHHHHHHhCCCCCCCCCCCHHHHHHHHHHcCCchH
Confidence            2221111     11356666555544 4444433222    222223457899999999999863

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG3665 consensus ZYG-1-like serine/threonine protein kinases [General function prediction only]

Probab=97.70  E-value=2e-05  Score=94.66  Aligned_cols=129  Identities=17%  Similarity=0.197  Sum_probs=94.7

Q ss_pred             CCCccEEEccCCC--CCCCChhHHhcCCCccEEEecCCccC--CCCCCccCCccCCeeeccCCCCCCCccccCCCCccEE
Q 001457          530 CPRLTTLFLQNNP--FADIPNAFFEHTREIKNLDLSSTNIS--SLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVL  605 (1074)
Q Consensus       530 ~~~Lr~L~l~~~~--~~~~~~~~~~~l~~L~~L~l~~~~~~--~lp~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L  605 (1074)
                      -.+|+.|+++|..  ...-+......+|.|+.|.+++-.+.  .+..-..++++|+.||+++++++....+++|+|||+|
T Consensus       121 r~nL~~LdI~G~~~~s~~W~~kig~~LPsL~sL~i~~~~~~~~dF~~lc~sFpNL~sLDIS~TnI~nl~GIS~LknLq~L  200 (699)
T KOG3665|consen  121 RQNLQHLDISGSELFSNGWPKKIGTMLPSLRSLVISGRQFDNDDFSQLCASFPNLRSLDISGTNISNLSGISRLKNLQVL  200 (699)
T ss_pred             HHhhhhcCccccchhhccHHHHHhhhCcccceEEecCceecchhHHHHhhccCccceeecCCCCccCcHHHhccccHHHH
Confidence            3578999998865  23344455567999999999987664  2233456789999999999999999999999999999


Q ss_pred             EeeCCCCcccC--ccccCCCCCCEEeCCCCcCCCCc--Ch---hhhcCCCCcCEEEccCC
Q 001457          606 ILKGSRIVELP--NGIGTVSNLKLLDLSNNLFLQVI--PP---NVISKLSQLEELYVGNS  658 (1074)
Q Consensus       606 ~L~~~~i~~lp--~~i~~L~~L~~L~l~~~~~~~~~--p~---~~i~~L~~L~~L~l~~~  658 (1074)
                      .+++-.+..-+  ..+.+|++|++||++........  ..   +.-..|++|+.|+.++.
T Consensus       201 ~mrnLe~e~~~~l~~LF~L~~L~vLDIS~~~~~~~~~ii~qYlec~~~LpeLrfLDcSgT  260 (699)
T KOG3665|consen  201 SMRNLEFESYQDLIDLFNLKKLRVLDISRDKNNDDTKIIEQYLECGMVLPELRFLDCSGT  260 (699)
T ss_pred             hccCCCCCchhhHHHHhcccCCCeeeccccccccchHHHHHHHHhcccCccccEEecCCc
Confidence            99987776543  34788999999999986543321  11   11234778888887764

>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=97.68  E-value=3.2e-05  Score=56.42  Aligned_cols=36  Identities=36%  Similarity=0.648  Sum_probs=15.8

Q ss_pred             CccEEEecCCccCCCCCCccCCccCCeeeccCCCCC
Q 001457          556 EIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLN  591 (1074)
Q Consensus       556 ~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~  591 (1074)
                      +|++|++++|.|+.+|+.+++|++|++|++++|+++
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~i~   37 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNPIS   37 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSCCS
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCCCC
Confidence            344444444444444444444444444444444443

...

>TIGR00362 DnaA chromosomal replication initiator protein DnaA

Probab=97.66  E-value=0.002  Score=74.12  Aligned_cols=154  Identities=21%  Similarity=0.274  Sum_probs=90.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCC--CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPF--DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F--~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  259 (1074)
                      ...+.|+|..|+|||+||+.+++. ....  ..++|++.      .++...+...+...        ....+.+.+.  +
T Consensus       136 ~n~l~l~G~~G~GKThL~~ai~~~l~~~~~~~~v~yi~~------~~~~~~~~~~~~~~--------~~~~~~~~~~--~  199 (405)
T TIGR00362       136 YNPLFIYGGVGLGKTHLLHAIGNEILENNPNAKVVYVSS------EKFTNDFVNALRNN--------KMEEFKEKYR--S  199 (405)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCCcEEEEEH------HHHHHHHHHHHHcC--------CHHHHHHHHH--h
Confidence            456899999999999999999998 3322  24556643      33444444444321        1222334443  2


Q ss_pred             eEEEEEcCccccc---cc-cccccCCCC-CCCCeEEEEecCCh-h--------HHhhccCCCeEeCCCCCHHHHHHHHHH
Q 001457          260 RVLIILDDLWGKL---DL-AVVGIPYGE-EHKGCKIILTSRFK-E--------VCDEMESTNYVQVEELTDEDRLILFKK  325 (1074)
Q Consensus       260 ~~LlVlDdv~~~~---~~-~~~~~~~~~-~~~gs~iivTTR~~-~--------v~~~~~~~~~~~l~~L~~~~~~~lf~~  325 (1074)
                      .-+||+||+....   .+ +.+...+.. ...|..||+|+... .        +...+....++.+++.+.++-..++.+
T Consensus       200 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~~~~~~~~iiits~~~p~~l~~l~~~l~SRl~~g~~v~i~~pd~~~r~~il~~  279 (405)
T TIGR00362       200 VDLLLIDDIQFLAGKERTQEEFFHTFNALHENGKQIVLTSDRPPKELPGLEERLRSRFEWGLVVDIEPPDLETRLAILQK  279 (405)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCCEEEecCCCHHHHhhhhhhhhhhccCCeEEEeCCCCHHHHHHHHHH
Confidence            3488999997531   11 112111111 01345688877542 1        122233334789999999999999988


Q ss_pred             hcCCCCCCchhHHHHHHHHHHhCCChHH
Q 001457          326 KAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       326 ~a~~~~~~~~~~~~~~~i~~~c~glPLa  353 (1074)
                      ++... ...--+++...|++.+.|-+-.
T Consensus       280 ~~~~~-~~~l~~e~l~~ia~~~~~~~r~  306 (405)
T TIGR00362       280 KAEEE-GLELPDEVLEFIAKNIRSNVRE  306 (405)
T ss_pred             HHHHc-CCCCCHHHHHHHHHhcCCCHHH
Confidence            88632 1222357788888888886543

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).

>KOG0989 consensus Replication factor C, subunit RFC4 [Replication, recombination and repair]

Probab=97.66  E-value=0.0003  Score=72.62  Aligned_cols=188  Identities=19%  Similarity=0.174  Sum_probs=115.0

Q ss_pred             CCCCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEE-EEEecCCcCHHHHHH
Q 001457          154 IPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVI-FVRVTQTPDVKRVQD  229 (1074)
Q Consensus       154 ~~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~-wv~vs~~~~~~~~~~  229 (1074)
                      ..+..+..+.|.+..+.-+.+.+....  ..+...+|++|.|||+-|+.+...   .+-|.+++ =.++|..-.+.-+-.
T Consensus        30 YrPkt~de~~gQe~vV~~L~~a~~~~~--lp~~LFyGPpGTGKTStalafar~L~~~~~~~~rvl~lnaSderGisvvr~  107 (346)
T KOG0989|consen   30 YRPKTFDELAGQEHVVQVLKNALLRRI--LPHYLFYGPPGTGKTSTALAFARALNCEQLFPCRVLELNASDERGISVVRE  107 (346)
T ss_pred             hCCCcHHhhcchHHHHHHHHHHHhhcC--CceEEeeCCCCCcHhHHHHHHHHHhcCccccccchhhhcccccccccchhh
Confidence            345556667788888888888887755  889999999999999999988887   56676555 345555433321111


Q ss_pred             HHHHHhccCCCcchHHHHHHHHHHHH-----HccCe-EEEEEcCccc--cccccccccCCCCCCCCeEEEEecCChhH-H
Q 001457          230 EIARFLNTELEGDVEVLRAAFLSERL-----KRQKR-VLIILDDLWG--KLDLAVVGIPYGEEHKGCKIILTSRFKEV-C  300 (1074)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~l~~~l-----~~~k~-~LlVlDdv~~--~~~~~~~~~~~~~~~~gs~iivTTR~~~v-~  300 (1074)
                      .+              .....+.-..     ..-++ -.||||+++.  .+.|..+..........+|.|..|-.-+. .
T Consensus       108 Ki--------------k~fakl~~~~~~~~~~~~~~fKiiIlDEcdsmtsdaq~aLrr~mE~~s~~trFiLIcnylsrii  173 (346)
T KOG0989|consen  108 KI--------------KNFAKLTVLLKRSDGYPCPPFKIIILDECDSMTSDAQAALRRTMEDFSRTTRFILICNYLSRII  173 (346)
T ss_pred             hh--------------cCHHHHhhccccccCCCCCcceEEEEechhhhhHHHHHHHHHHHhccccceEEEEEcCChhhCC
Confidence            11              0001111100     01123 4788899886  47788776655555566776655543332 2


Q ss_pred             hhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCC-hHHHHHHH
Q 001457          301 DEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKL-PNAIVIIG  358 (1074)
Q Consensus       301 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~gl-PLai~~~~  358 (1074)
                      ... ....-++.++|.+++...-++..+..+ ..+-..+..+.|++.++|- --|+.++-
T Consensus       174 ~pi~SRC~KfrFk~L~d~~iv~rL~~Ia~~E-~v~~d~~al~~I~~~S~GdLR~Ait~Lq  232 (346)
T KOG0989|consen  174 RPLVSRCQKFRFKKLKDEDIVDRLEKIASKE-GVDIDDDALKLIAKISDGDLRRAITTLQ  232 (346)
T ss_pred             hHHHhhHHHhcCCCcchHHHHHHHHHHHHHh-CCCCCHHHHHHHHHHcCCcHHHHHHHHH
Confidence            221 122468899999999888887777521 2233356678899999883 34444443

>PRK08451 DNA polymerase III subunits gamma and tau; Validated

Probab=97.66  E-value=0.00096  Score=77.28  Aligned_cols=183  Identities=13%  Similarity=0.088  Sum_probs=103.9

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCC-C-------------------eE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPF-D-------------------KV  213 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F-~-------------------~~  213 (1074)
                      +..+..+.|.+...+.+...+..+. -.++..++|+.|+||||+|+.+.+.  .... +                   .+
T Consensus        10 P~~fdeiiGqe~v~~~L~~~I~~gr-l~hayLf~Gp~G~GKTt~Ar~LAk~L~c~~~~~~~pC~~C~~C~~~~~~~h~dv   88 (535)
T PRK08451         10 PKHFDELIGQESVSKTLSLALDNNR-LAHAYLFSGLRGSGKTSSARIFARALVCEQGPSSTPCDTCIQCQSALENRHIDI   88 (535)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCcHHHHHHHHHHHhcCCCCCCCCCCcccHHHHHHhhcCCCeE
Confidence            3445556777777788888876665 2346689999999999999988776  1110 0                   11


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      +.+..+....+..+ ++++.+..                ..-..+++-++|+|++..-  +..+.+...+-.....+++|
T Consensus        89 ~eldaas~~gId~I-Relie~~~----------------~~P~~~~~KVvIIDEad~Lt~~A~NALLK~LEEpp~~t~FI  151 (535)
T PRK08451         89 IEMDAASNRGIDDI-RELIEQTK----------------YKPSMARFKIFIIDEVHMLTKEAFNALLKTLEEPPSYVKFI  151 (535)
T ss_pred             EEeccccccCHHHH-HHHHHHHh----------------hCcccCCeEEEEEECcccCCHHHHHHHHHHHhhcCCceEEE
Confidence            22221111111111 11111100                0000146678999998753  33343433332223467777


Q ss_pred             EecCCh-hHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          292 LTSRFK-EVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       292 vTTR~~-~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      ++|.+. .+... ......+++.+++.++....+.+.+.... ..-..+.+..|++.++|-+--+..+
T Consensus       152 L~ttd~~kL~~tI~SRc~~~~F~~Ls~~ei~~~L~~Il~~EG-i~i~~~Al~~Ia~~s~GdlR~alnl  218 (535)
T PRK08451        152 LATTDPLKLPATILSRTQHFRFKQIPQNSIISHLKTILEKEG-VSYEPEALEILARSGNGSLRDTLTL  218 (535)
T ss_pred             EEECChhhCchHHHhhceeEEcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCcHHHHHHH
Confidence            666543 22211 12236889999999999888877664211 2223567889999999988544443

>KOG0531 consensus Protein phosphatase 1, regulatory subunit, and related proteins [Signal transduction mechanisms]

Probab=97.66  E-value=5e-06  Score=95.84  Aligned_cols=126  Identities=29%  Similarity=0.413  Sum_probs=100.8

Q ss_pred             CCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCCCccccCCCCccEEEee
Q 001457          529 KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILK  608 (1074)
Q Consensus       529 ~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~  608 (1074)
                      .+..+..+.+..|.+..+.. ....++.|..|++.+|.|..+...+..+.+|++|++++|.|+....+..+..|+.|++.
T Consensus        70 ~l~~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   70 SLTSLKELNLRQNLIAKILN-HLSKLKSLEALDLYDNKIEKIENLLSSLVNLQVLDLSFNKITKLEGLSTLTLLKELNLS  148 (414)
T ss_pred             HhHhHHhhccchhhhhhhhc-ccccccceeeeeccccchhhcccchhhhhcchheeccccccccccchhhccchhhheec
Confidence            34555556666666655222 24678999999999999998877688999999999999999998889999999999999


Q ss_pred             CCCCcccCccccCCCCCCEEeCCCCcCCCCcCh-hhhcCCCCcCEEEccCC
Q 001457          609 GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPP-NVISKLSQLEELYVGNS  658 (1074)
Q Consensus       609 ~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~-~~i~~L~~L~~L~l~~~  658 (1074)
                      +|.|..++. +..+++|+.+++++|.+... .. . ...+.+|+.+.+.+|
T Consensus       149 ~N~i~~~~~-~~~l~~L~~l~l~~n~i~~i-e~~~-~~~~~~l~~l~l~~n  196 (414)
T KOG0531|consen  149 GNLISDISG-LESLKSLKLLDLSYNRIVDI-ENDE-LSELISLEELDLGGN  196 (414)
T ss_pred             cCcchhccC-CccchhhhcccCCcchhhhh-hhhh-hhhccchHHHhccCC
Confidence            999988754 56699999999999985443 33 1 367888888888876

>PRK14970 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.66  E-value=0.0011  Score=75.12  Aligned_cols=177  Identities=13%  Similarity=0.125  Sum_probs=99.4

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cC--------CCCeEE-EEEecCCcCHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EI--------PFDKVI-FVRVTQTPDVKR  226 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~--------~F~~~~-wv~vs~~~~~~~  226 (1074)
                      ..+..+.|.+..++.+.+.+..+. -.+.+.++|++|+||||+|+.+.+. ..        .|...+ .+.-....+...
T Consensus        14 ~~~~~iig~~~~~~~l~~~i~~~~-~~~~~L~~G~~G~GKt~~a~~la~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~   92 (367)
T PRK14970         14 QTFDDVVGQSHITNTLLNAIENNH-LAQALLFCGPRGVGKTTCARILARKINQPGYDDPNEDFSFNIFELDAASNNSVDD   92 (367)
T ss_pred             CcHHhcCCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCCCCCCCCCcceEEeccccCCCHHH
Confidence            344456678888888888887654 2458889999999999999999876 21        121111 111111111111


Q ss_pred             HHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEec-CChhHHhh-
Q 001457          227 VQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTS-RFKEVCDE-  302 (1074)
Q Consensus       227 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTT-R~~~v~~~-  302 (1074)
                       .+++++++...               -. .+++-++|+|++...  ..++.+...+......+.+|++| +...+... 
T Consensus        93 -i~~l~~~~~~~---------------p~-~~~~kiviIDE~~~l~~~~~~~ll~~le~~~~~~~~Il~~~~~~kl~~~l  155 (367)
T PRK14970         93 -IRNLIDQVRIP---------------PQ-TGKYKIYIIDEVHMLSSAAFNAFLKTLEEPPAHAIFILATTEKHKIIPTI  155 (367)
T ss_pred             -HHHHHHHHhhc---------------cc-cCCcEEEEEeChhhcCHHHHHHHHHHHhCCCCceEEEEEeCCcccCCHHH
Confidence             11222211100               01 145568999998643  23444432222222345555554 43333222 


Q ss_pred             ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChH
Q 001457          303 MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       303 ~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPL  352 (1074)
                      ......++++++++++....+.+.+.... ..-..+....|++.++|-+-
T Consensus       156 ~sr~~~v~~~~~~~~~l~~~l~~~~~~~g-~~i~~~al~~l~~~~~gdlr  204 (367)
T PRK14970        156 LSRCQIFDFKRITIKDIKEHLAGIAVKEG-IKFEDDALHIIAQKADGALR  204 (367)
T ss_pred             HhcceeEecCCccHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHhCCCCHH
Confidence            22335789999999999888887664211 11224678888888988654

>PRK03992 proteasome-activating nucleotidase; Provisional

Probab=97.65  E-value=0.00057  Score=77.54  Aligned_cols=171  Identities=19%  Similarity=0.204  Sum_probs=92.4

Q ss_pred             cCcchHHHHHHHHHHHhc---C--------CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHH
Q 001457          161 PLKSALEVIKSVMKLLKD---N--------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       161 ~~~~r~~~~~~l~~~l~~---~--------~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~  228 (1074)
                      .+.|+++.++++.+.+..   .        -...+-|.++|++|+|||++|+.+++. ...     |+.++..    .+.
T Consensus       132 di~Gl~~~~~~l~~~i~~pl~~~~~~~~~g~~~p~gvLL~GppGtGKT~lAkaia~~~~~~-----~i~v~~~----~l~  202 (389)
T PRK03992        132 DIGGLEEQIREVREAVELPLKKPELFEEVGIEPPKGVLLYGPPGTGKTLLAKAVAHETNAT-----FIRVVGS----ELV  202 (389)
T ss_pred             HhCCcHHHHHHHHHHHHHHhhCHHHHHhcCCCCCCceEEECCCCCChHHHHHHHHHHhCCC-----EEEeehH----HHh
Confidence            355666766666655421   1        022567899999999999999999988 433     2333221    111


Q ss_pred             HHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc------------c----ccccccCCC--CCCCCeEE
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL------------D----LAVVGIPYG--EEHKGCKI  290 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~~~~~~~--~~~~gs~i  290 (1074)
                          ...    .+.. ......+.+........+|++||++...            .    +..+...+.  ....+.+|
T Consensus       203 ----~~~----~g~~-~~~i~~~f~~a~~~~p~IlfiDEiD~l~~~r~~~~~~~~~~~~~~l~~lL~~ld~~~~~~~v~V  273 (389)
T PRK03992        203 ----QKF----IGEG-ARLVRELFELAREKAPSIIFIDEIDAIAAKRTDSGTSGDREVQRTLMQLLAEMDGFDPRGNVKI  273 (389)
T ss_pred             ----Hhh----ccch-HHHHHHHHHHHHhcCCeEEEEechhhhhcccccCCCCccHHHHHHHHHHHHhccccCCCCCEEE
Confidence                110    0111 1122223333333567899999987520            0    111111111  11235678


Q ss_pred             EEecCChhHHh-hc----cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          291 ILTSRFKEVCD-EM----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       291 ivTTR~~~v~~-~~----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      |.||...+... .+    .-+..+.++..+.++-.++|+.++......++  .....+++.+.|.-
T Consensus       274 I~aTn~~~~ld~allRpgRfd~~I~v~~P~~~~R~~Il~~~~~~~~~~~~--~~~~~la~~t~g~s  337 (389)
T PRK03992        274 IAATNRIDILDPAILRPGRFDRIIEVPLPDEEGRLEILKIHTRKMNLADD--VDLEELAELTEGAS  337 (389)
T ss_pred             EEecCChhhCCHHHcCCccCceEEEECCCCHHHHHHHHHHHhccCCCCCc--CCHHHHHHHcCCCC
Confidence            88887544321 11    12357899999999999999887753221111  11345666666643

>CHL00181 cbbX CbbX; Provisional

Probab=97.65  E-value=0.00076  Score=72.78  Aligned_cols=129  Identities=16%  Similarity=0.156  Sum_probs=70.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCC-CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCe
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPF-DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F-~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  260 (1074)
                      ..+.++|.+|+||||+|+.+++.  ...+ ...-|+.++..    .+    ......    ......    .+.+.....
T Consensus        60 ~~ill~G~pGtGKT~lAr~la~~~~~~g~~~~~~~~~v~~~----~l----~~~~~g----~~~~~~----~~~l~~a~g  123 (287)
T CHL00181         60 LHMSFTGSPGTGKTTVALKMADILYKLGYIKKGHLLTVTRD----DL----VGQYIG----HTAPKT----KEVLKKAMG  123 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCCCCCceEEecHH----HH----HHHHhc----cchHHH----HHHHHHccC
Confidence            35789999999999999999876  2111 11124554421    22    111111    111111    122221233


Q ss_pred             EEEEEcCcccc-----------ccccccccCCCCCCCCeEEEEecCChhHHhhc--------cCCCeEeCCCCCHHHHHH
Q 001457          261 VLIILDDLWGK-----------LDLAVVGIPYGEEHKGCKIILTSRFKEVCDEM--------ESTNYVQVEELTDEDRLI  321 (1074)
Q Consensus       261 ~LlVlDdv~~~-----------~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~--------~~~~~~~l~~L~~~~~~~  321 (1074)
                      -+|++|++...           +..+.+...+.....+.+||+++..+.+....        .....+++++++.+|-.+
T Consensus       124 gVLfIDE~~~l~~~~~~~~~~~e~~~~L~~~me~~~~~~~vI~ag~~~~~~~~~~~np~L~sR~~~~i~F~~~t~~el~~  203 (287)
T CHL00181        124 GVLFIDEAYYLYKPDNERDYGSEAIEILLQVMENQRDDLVVIFAGYKDRMDKFYESNPGLSSRIANHVDFPDYTPEELLQ  203 (287)
T ss_pred             CEEEEEccchhccCCCccchHHHHHHHHHHHHhcCCCCEEEEEeCCcHHHHHHHhcCHHHHHhCCceEEcCCcCHHHHHH
Confidence            59999998642           11122222232333466788887654432111        123478999999999988


Q ss_pred             HHHHhcC
Q 001457          322 LFKKKAG  328 (1074)
Q Consensus       322 lf~~~a~  328 (1074)
                      ++...+.
T Consensus       204 I~~~~l~  210 (287)
T CHL00181        204 IAKIMLE  210 (287)
T ss_pred             HHHHHHH
Confidence            8877764

>PRK07764 DNA polymerase III subunits gamma and tau; Validated

Probab=97.65  E-value=0.00073  Score=82.81  Aligned_cols=175  Identities=14%  Similarity=0.091  Sum_probs=102.6

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-c--CCCC---------------------
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-E--IPFD---------------------  211 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~--~~F~---------------------  211 (1074)
                      ...|..+.|.+..++.|..++..+. -.+.+.++|..|+||||+|+.+.+. .  ....                     
T Consensus        11 P~~f~eiiGqe~v~~~L~~~i~~~r-i~Ha~Lf~Gp~G~GKTt~A~~lAr~L~C~~~~~~~pCg~C~sC~~~~~g~~~~~   89 (824)
T PRK07764         11 PATFAEVIGQEHVTEPLSTALDSGR-INHAYLFSGPRGCGKTSSARILARSLNCVEGPTSTPCGECDSCVALAPGGPGSL   89 (824)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHhCcccCCCCCCCcccHHHHHHHcCCCCCC
Confidence            3445556678888888888887665 1346789999999999999999877 1  1110                     


Q ss_pred             eEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHH----HccCeEEEEEcCcccc--ccccccccCCCCCC
Q 001457          212 KVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERL----KRQKRVLIILDDLWGK--LDLAVVGIPYGEEH  285 (1074)
Q Consensus       212 ~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~  285 (1074)
                      .+++++-.....+..                     +..+++.+    ..+++-++|+|++...  ..++.|...+..-.
T Consensus        90 dv~eidaas~~~Vd~---------------------iR~l~~~~~~~p~~~~~KV~IIDEad~lt~~a~NaLLK~LEEpP  148 (824)
T PRK07764         90 DVTEIDAASHGGVDD---------------------ARELRERAFFAPAESRYKIFIIDEAHMVTPQGFNALLKIVEEPP  148 (824)
T ss_pred             cEEEecccccCCHHH---------------------HHHHHHHHHhchhcCCceEEEEechhhcCHHHHHHHHHHHhCCC
Confidence            012221111111111                     11122211    1356668899998753  33444443333333


Q ss_pred             CCeEEEEec-CChhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHH
Q 001457          286 KGCKIILTS-RFKEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       286 ~gs~iivTT-R~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLa  353 (1074)
                      ..+.+|++| ....+...+ .....|++..++.++-.+.+.+.+.... .....+....|++.++|-+..
T Consensus       149 ~~~~fIl~tt~~~kLl~TIrSRc~~v~F~~l~~~~l~~~L~~il~~EG-v~id~eal~lLa~~sgGdlR~  217 (824)
T PRK07764        149 EHLKFIFATTEPDKVIGTIRSRTHHYPFRLVPPEVMRGYLERICAQEG-VPVEPGVLPLVIRAGGGSVRD  217 (824)
T ss_pred             CCeEEEEEeCChhhhhHHHHhheeEEEeeCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHH
Confidence            456666555 444454333 2336899999999998888877654211 222345567889999997743

>PRK14952 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.63  E-value=0.0012  Score=77.72  Aligned_cols=197  Identities=15%  Similarity=0.079  Sum_probs=105.8

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-c--CCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-E--IPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~--~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +..|..+.|.+..++.+..++..+. -...+.++|+.|+||||+|+.+.+. .  ...+   +    ..++.-...+.|.
T Consensus         9 P~~f~eivGq~~i~~~L~~~i~~~r-~~ha~Lf~Gp~G~GKTt~A~~lAk~l~c~~~~~---~----~pCg~C~~C~~i~   80 (584)
T PRK14952          9 PATFAEVVGQEHVTEPLSSALDAGR-INHAYLFSGPRGCGKTSSARILARSLNCAQGPT---A----TPCGVCESCVALA   80 (584)
T ss_pred             CCcHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhccccCCC---C----CcccccHHHHHhh
Confidence            3445556778888888888887655 1345789999999999999999877 1  1110   0    0000001111111


Q ss_pred             HHhccC-----CCc--chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE-ecCChh
Q 001457          233 RFLNTE-----LEG--DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL-TSRFKE  298 (1074)
Q Consensus       233 ~~l~~~-----~~~--~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv-TTR~~~  298 (1074)
                      ..-+..     .+.  ....+....+.+...    .+++-++|+|++..-  ...+.+...+........+|+ ||....
T Consensus        81 ~~~~~~~dvieidaas~~gvd~iRel~~~~~~~P~~~~~KVvIIDEah~Lt~~A~NALLK~LEEpp~~~~fIL~tte~~k  160 (584)
T PRK14952         81 PNGPGSIDVVELDAASHGGVDDTRELRDRAFYAPAQSRYRIFIVDEAHMVTTAGFNALLKIVEEPPEHLIFIFATTEPEK  160 (584)
T ss_pred             cccCCCceEEEeccccccCHHHHHHHHHHHHhhhhcCCceEEEEECCCcCCHHHHHHHHHHHhcCCCCeEEEEEeCChHh
Confidence            000000     000  000111112222211    256668999998743  344444333333333555554 555555


Q ss_pred             HHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChH-HHHHHHHHH
Q 001457          299 VCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN-AIVIIGTAL  361 (1074)
Q Consensus       299 v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPL-ai~~~~~~l  361 (1074)
                      +... ......+++.+++.++..+.+.+.+.... ..-..+....|++.++|-+- |+..+-.++
T Consensus       161 ll~TI~SRc~~~~F~~l~~~~i~~~L~~i~~~eg-i~i~~~al~~Ia~~s~GdlR~aln~Ldql~  224 (584)
T PRK14952        161 VLPTIRSRTHHYPFRLLPPRTMRALIARICEQEG-VVVDDAVYPLVIRAGGGSPRDTLSVLDQLL  224 (584)
T ss_pred             hHHHHHHhceEEEeeCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHHHHHHH
Confidence            5433 23346899999999998888877664211 12224567788999999773 444444433

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.62  E-value=3.6e-06  Score=100.28  Aligned_cols=140  Identities=15%  Similarity=0.154  Sum_probs=66.2

Q ss_pred             HhccceeeeccCCCccccc-ccccccCCCccEEEEecc-ccccccc---cCcccccccceeEEEeeecccceeecccccc
Q 001457          745 LEKTEYLTLTRSSNLQDIG-EIDVQGFTGLMCMHLRAC-SMQRIFH---SNFYPTVQILEELHVEYCYSLKEVFCLEDIE  819 (1074)
Q Consensus       745 ~~~L~~L~L~~~~~l~~~~-~l~~~~l~~L~~L~L~~~-~~~~~~~---~~~~~~l~~L~~L~l~~~~~l~~~~~~~~~~  819 (1074)
                      +++|+.|.+.+|..+.+.. .-....+++|+.|++++| ......+   ......+++|+.|++++|..+.+.    ++.
T Consensus       187 ~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~~L~~l~l~~~~~isd~----~l~  262 (482)
T KOG1947|consen  187 CPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSPLLLLLLLSICRKLKSLDLSGCGLVTDI----GLS  262 (482)
T ss_pred             CchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccchhHhhhhhhhcCCcCccchhhhhccCch----hHH
Confidence            5677777777776666532 112234677777777763 1111111   123344566666666665532221    111


Q ss_pred             cccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccc
Q 001457          820 GEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKC  889 (1074)
Q Consensus       820 ~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c  889 (1074)
                      .....+|+|+.|.+.+|+.++.... ..-...+++|++|+++.|..+++........++++|+.|.+..+
T Consensus       263 ~l~~~c~~L~~L~l~~c~~lt~~gl-~~i~~~~~~L~~L~l~~c~~~~d~~l~~~~~~c~~l~~l~~~~~  331 (482)
T KOG1947|consen  263 ALASRCPNLETLSLSNCSNLTDEGL-VSIAERCPSLRELDLSGCHGLTDSGLEALLKNCPNLRELKLLSL  331 (482)
T ss_pred             HHHhhCCCcceEccCCCCccchhHH-HHHHHhcCcccEEeeecCccchHHHHHHHHHhCcchhhhhhhhc
Confidence            1112255666666555654332100 01113455566666666665544322233344555555444443

>PRK11331 5-methylcytosine-specific restriction enzyme subunit McrB; Provisional

Probab=97.62  E-value=0.00026  Score=79.09  Aligned_cols=103  Identities=17%  Similarity=0.172  Sum_probs=67.6

Q ss_pred             CcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcCHHHHHHHHHHHhccC
Q 001457          162 LKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTE  238 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~  238 (1074)
                      ....++.++.++..+....    .|.++|++|+|||++|+.+++.   ...|+.+.||.+++.++..+++....-. +..
T Consensus       177 ~~i~e~~le~l~~~L~~~~----~iil~GppGtGKT~lA~~la~~l~~~~~~~~v~~VtFHpsySYeDFI~G~rP~-~vg  251 (459)
T PRK11331        177 LFIPETTIETILKRLTIKK----NIILQGPPGVGKTFVARRLAYLLTGEKAPQRVNMVQFHQSYSYEDFIQGYRPN-GVG  251 (459)
T ss_pred             ccCCHHHHHHHHHHHhcCC----CEEEECCCCCCHHHHHHHHHHHhcCCcccceeeEEeecccccHHHHhcccCCC-CCC
Confidence            3456778888888887543    7788999999999999999988   4567888999999988877766433110 000


Q ss_pred             CCcchHHH-HHHHHHHHHH-ccCeEEEEEcCcccc
Q 001457          239 LEGDVEVL-RAAFLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       239 ~~~~~~~~-~~~~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      .  ..... ..+.+..... ..+++++|+|++...
T Consensus       252 y--~~~~G~f~~~~~~A~~~p~~~~vliIDEINRa  284 (459)
T PRK11331        252 F--RRKDGIFYNFCQQAKEQPEKKYVFIIDEINRA  284 (459)
T ss_pred             e--EecCchHHHHHHHHHhcccCCcEEEEehhhcc
Confidence            0  00011 1111122111 247899999998754

>PRK09111 DNA polymerase III subunits gamma and tau; Validated

Probab=97.62  E-value=0.00081  Score=79.62  Aligned_cols=196  Identities=12%  Similarity=0.105  Sum_probs=108.0

Q ss_pred             CCCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCC--CC--eEEEEEecCCcCHHHHHH
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIP--FD--KVIFVRVTQTPDVKRVQD  229 (1074)
Q Consensus       155 ~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~--F~--~~~wv~vs~~~~~~~~~~  229 (1074)
                      .+..+..+.|.+..++.+.+.+..+. -...+.++|+.|+||||+|+.+.+. ...  ..  ...+-    .+..-.-.+
T Consensus        19 RP~~f~dliGq~~~v~~L~~~~~~gr-i~ha~L~~Gp~GvGKTt~Ar~lAk~L~c~~~~~~~~~~~~----~cg~c~~C~   93 (598)
T PRK09111         19 RPQTFDDLIGQEAMVRTLTNAFETGR-IAQAFMLTGVRGVGKTTTARILARALNYEGPDGDGGPTID----LCGVGEHCQ   93 (598)
T ss_pred             CCCCHHHhcCcHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHhhCcCCccccCCCccc----cCcccHHHH
Confidence            34556667788888888888887654 2346889999999999999999887 211  11  00000    001111112


Q ss_pred             HHHHHhccCC---C--cchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEe-cCCh
Q 001457          230 EIARFLNTEL---E--GDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILT-SRFK  297 (1074)
Q Consensus       230 ~i~~~l~~~~---~--~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivT-TR~~  297 (1074)
                      .|...-..+.   +  .....+.+..+.+...    .+++-++|+|++..-  ...+.+...+..-..++++|++ |..+
T Consensus        94 ~i~~g~h~Dv~e~~a~s~~gvd~IReIie~~~~~P~~a~~KVvIIDEad~Ls~~a~naLLKtLEePp~~~~fIl~tte~~  173 (598)
T PRK09111         94 AIMEGRHVDVLEMDAASHTGVDDIREIIESVRYRPVSARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHVKFIFATTEIR  173 (598)
T ss_pred             HHhcCCCCceEEecccccCCHHHHHHHHHHHHhchhcCCcEEEEEEChHhCCHHHHHHHHHHHHhCCCCeEEEEEeCChh
Confidence            2221111100   0  0000111222222221    245668999998654  2344443333333345666654 4444


Q ss_pred             hHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHH
Q 001457          298 EVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVI  356 (1074)
Q Consensus       298 ~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~  356 (1074)
                      .+...+ .....+++..++.++....+.+.+... ...--.+....|++.++|-+.-+..
T Consensus       174 kll~tI~SRcq~~~f~~l~~~el~~~L~~i~~ke-gi~i~~eAl~lIa~~a~Gdlr~al~  232 (598)
T PRK09111        174 KVPVTVLSRCQRFDLRRIEADVLAAHLSRIAAKE-GVEVEDEALALIARAAEGSVRDGLS  232 (598)
T ss_pred             hhhHHHHhheeEEEecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHH
Confidence            443222 223688999999999998888876421 1122246778899999998855443

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.61  E-value=3.9e-06  Score=75.36  Aligned_cols=90  Identities=27%  Similarity=0.343  Sum_probs=68.5

Q ss_pred             CCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCC-CccccCCCCccEEEe
Q 001457          529 KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVLIL  607 (1074)
Q Consensus       529 ~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~-~~~i~~l~~L~~L~L  607 (1074)
                      ...+|...++++|.+.++|+.+-.+++.+..|++++|.+..+|..+..++.||.|+++.|.+.. |..+..|.+|-.|+.
T Consensus        51 ~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~~N~l~~~p~vi~~L~~l~~Lds  130 (177)
T KOG4579|consen   51 KGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLRFNPLNAEPRVIAPLIKLDMLDS  130 (177)
T ss_pred             CCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccccCccccchHHHHHHHhHHHhcC
Confidence            3456777788888888888877777777888888888888888777778888888888887766 777777777777777


Q ss_pred             eCCCCcccCcc
Q 001457          608 KGSRIVELPNG  618 (1074)
Q Consensus       608 ~~~~i~~lp~~  618 (1074)
                      .++.+.++|-.
T Consensus       131 ~~na~~eid~d  141 (177)
T KOG4579|consen  131 PENARAEIDVD  141 (177)
T ss_pred             CCCccccCcHH
Confidence            77766666654

>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=97.61  E-value=6.9e-05  Score=54.72  Aligned_cols=34  Identities=41%  Similarity=0.604  Sum_probs=18.3

Q ss_pred             CccEEEeeCCCCcccCccccCCCCCCEEeCCCCc
Q 001457          601 ELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       601 ~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~  634 (1074)
                      +|++|++++|+|+.+|..+++|++|+.|++++|+
T Consensus         2 ~L~~L~l~~N~i~~l~~~l~~l~~L~~L~l~~N~   35 (44)
T PF12799_consen    2 NLEELDLSNNQITDLPPELSNLPNLETLNLSNNP   35 (44)
T ss_dssp             T-SEEEETSSS-SSHGGHGTTCTTSSEEEETSSC
T ss_pred             cceEEEccCCCCcccCchHhCCCCCCEEEecCCC
Confidence            4555555555555555555555555555555554

...

>PHA02544 44 clamp loader, small subunit; Provisional

Probab=97.61  E-value=0.00043  Score=76.97  Aligned_cols=149  Identities=15%  Similarity=0.143  Sum_probs=82.7

Q ss_pred             CCCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       155 ~~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      .+..+..+.|.++..+.+..++..+. ...++.++|++|+||||+|+.+++. ...   ...++.+. ..... .++.+.
T Consensus        16 rP~~~~~~~~~~~~~~~l~~~~~~~~-~~~~lll~G~~G~GKT~la~~l~~~~~~~---~~~i~~~~-~~~~~-i~~~l~   89 (316)
T PHA02544         16 RPSTIDECILPAADKETFKSIVKKGR-IPNMLLHSPSPGTGKTTVAKALCNEVGAE---VLFVNGSD-CRIDF-VRNRLT   89 (316)
T ss_pred             CCCcHHHhcCcHHHHHHHHHHHhcCC-CCeEEEeeCcCCCCHHHHHHHHHHHhCcc---ceEeccCc-ccHHH-HHHHHH
Confidence            34455556778888888888876543 2467777999999999999999887 332   23444443 22111 111111


Q ss_pred             HhccCCCcchHHHHHHHHHHHH-HccCeEEEEEcCcccc---ccccccccCCCCCCCCeEEEEecCChhH-Hhhc-cCCC
Q 001457          234 FLNTELEGDVEVLRAAFLSERL-KRQKRVLIILDDLWGK---LDLAVVGIPYGEEHKGCKIILTSRFKEV-CDEM-ESTN  307 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l-~~~k~~LlVlDdv~~~---~~~~~~~~~~~~~~~gs~iivTTR~~~v-~~~~-~~~~  307 (1074)
                      .+                .... ..+.+-+||+||+...   +....+...+.....++++|+||..... .... ....
T Consensus        90 ~~----------------~~~~~~~~~~~vliiDe~d~l~~~~~~~~L~~~le~~~~~~~~Ilt~n~~~~l~~~l~sR~~  153 (316)
T PHA02544         90 RF----------------ASTVSLTGGGKVIIIDEFDRLGLADAQRHLRSFMEAYSKNCSFIITANNKNGIIEPLRSRCR  153 (316)
T ss_pred             HH----------------HHhhcccCCCeEEEEECcccccCHHHHHHHHHHHHhcCCCceEEEEcCChhhchHHHHhhce
Confidence            10                0000 0134568899999754   1112222222223357789988865432 1111 1123


Q ss_pred             eEeCCCCCHHHHHHHHHH
Q 001457          308 YVQVEELTDEDRLILFKK  325 (1074)
Q Consensus       308 ~~~l~~L~~~~~~~lf~~  325 (1074)
                      .+.++..+.++..+++..
T Consensus       154 ~i~~~~p~~~~~~~il~~  171 (316)
T PHA02544        154 VIDFGVPTKEEQIEMMKQ  171 (316)
T ss_pred             EEEeCCCCHHHHHHHHHH
Confidence            567777777777665543

>PRK06620 hypothetical protein; Validated

Probab=97.61  E-value=0.0007  Score=69.70  Aligned_cols=130  Identities=17%  Similarity=0.100  Sum_probs=76.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL  262 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L  262 (1074)
                      +.+.|+|++|+|||+|++.+.+. ..     .++.  ..+..                    .       +.+  ...-+
T Consensus        45 ~~l~l~Gp~G~GKThLl~a~~~~~~~-----~~~~--~~~~~--------------------~-------~~~--~~~d~   88 (214)
T PRK06620         45 FTLLIKGPSSSGKTYLTKIWQNLSNA-----YIIK--DIFFN--------------------E-------EIL--EKYNA   88 (214)
T ss_pred             ceEEEECCCCCCHHHHHHHHHhccCC-----EEcc--hhhhc--------------------h-------hHH--hcCCE
Confidence            57899999999999999988776 22     1211  00000                    0       111  13357


Q ss_pred             EEEcCccccccccccccCCC-CCCCCeEEEEecCChh-------HHhhccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCc
Q 001457          263 IILDDLWGKLDLAVVGIPYG-EEHKGCKIILTSRFKE-------VCDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTK  334 (1074)
Q Consensus       263 lVlDdv~~~~~~~~~~~~~~-~~~~gs~iivTTR~~~-------v~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~  334 (1074)
                      +++||+....+ ..+..-+. ....|..||+|++...       ....+...-+++++++++++-..+..+.+... .-.
T Consensus        89 lliDdi~~~~~-~~lf~l~N~~~e~g~~ilits~~~p~~l~l~~L~SRl~~gl~~~l~~pd~~~~~~~l~k~~~~~-~l~  166 (214)
T PRK06620         89 FIIEDIENWQE-PALLHIFNIINEKQKYLLLTSSDKSRNFTLPDLSSRIKSVLSILLNSPDDELIKILIFKHFSIS-SVT  166 (214)
T ss_pred             EEEeccccchH-HHHHHHHHHHHhcCCEEEEEcCCCccccchHHHHHHHhCCceEeeCCCCHHHHHHHHHHHHHHc-CCC
Confidence            88899973221 01111111 0134678999887432       23334444589999999999888887776521 122


Q ss_pred             hhHHHHHHHHHHhCCCh
Q 001457          335 AFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       335 ~~~~~~~~i~~~c~glP  351 (1074)
                      --+++..-|++.+.|--
T Consensus       167 l~~ev~~~L~~~~~~d~  183 (214)
T PRK06620        167 ISRQIIDFLLVNLPREY  183 (214)
T ss_pred             CCHHHHHHHHHHccCCH
Confidence            23567777877777644

>PRK00149 dnaA chromosomal replication initiation protein; Reviewed

Probab=97.59  E-value=0.0031  Score=73.52  Aligned_cols=177  Identities=20%  Similarity=0.215  Sum_probs=102.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCC--CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPF--DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F--~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  259 (1074)
                      ..-+.|+|..|+|||+||+.+.+. ...+  ..++|++..      .+...+...+...        ....+.+.++  +
T Consensus       148 ~~~l~l~G~~G~GKThL~~ai~~~~~~~~~~~~v~yi~~~------~~~~~~~~~~~~~--------~~~~~~~~~~--~  211 (450)
T PRK00149        148 YNPLFIYGGVGLGKTHLLHAIGNYILEKNPNAKVVYVTSE------KFTNDFVNALRNN--------TMEEFKEKYR--S  211 (450)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEEEHH------HHHHHHHHHHHcC--------cHHHHHHHHh--c
Confidence            456899999999999999999999 4333  234566532      3333444433211        1123344443  3


Q ss_pred             eEEEEEcCcccc---ccc-cccccCCCC-CCCCeEEEEecCChh---------HHhhccCCCeEeCCCCCHHHHHHHHHH
Q 001457          260 RVLIILDDLWGK---LDL-AVVGIPYGE-EHKGCKIILTSRFKE---------VCDEMESTNYVQVEELTDEDRLILFKK  325 (1074)
Q Consensus       260 ~~LlVlDdv~~~---~~~-~~~~~~~~~-~~~gs~iivTTR~~~---------v~~~~~~~~~~~l~~L~~~~~~~lf~~  325 (1074)
                      .-+||+||+...   ..+ +.+...+.. ...|..||+||....         +...+....++++++.+.++-..++.+
T Consensus       212 ~dlLiiDDi~~l~~~~~~~~~l~~~~n~l~~~~~~iiits~~~p~~l~~l~~~l~SRl~~gl~v~i~~pd~~~r~~il~~  291 (450)
T PRK00149        212 VDVLLIDDIQFLAGKERTQEEFFHTFNALHEAGKQIVLTSDRPPKELPGLEERLRSRFEWGLTVDIEPPDLETRIAILKK  291 (450)
T ss_pred             CCEEEEehhhhhcCCHHHHHHHHHHHHHHHHCCCcEEEECCCCHHHHHHHHHHHHhHhcCCeeEEecCCCHHHHHHHHHH
Confidence            458999999642   111 122111110 012455788776431         123344445799999999999999998


Q ss_pred             hcCCCCCCchhHHHHHHHHHHhCCChHH----HHHHHHHH--cCC--ChhHHHHHHHHH
Q 001457          326 KAGLPEGTKAFDRAAEEVVRQCGKLPNA----IVIIGTAL--RHK--PVREWNEAIKRK  376 (1074)
Q Consensus       326 ~a~~~~~~~~~~~~~~~i~~~c~glPLa----i~~~~~~l--~~~--~~~~w~~~~~~l  376 (1074)
                      ++... ...--+++...|++.+.|-.-.    +..+..+-  .++  +.+..+++++.+
T Consensus       292 ~~~~~-~~~l~~e~l~~ia~~~~~~~R~l~~~l~~l~~~~~~~~~~it~~~~~~~l~~~  349 (450)
T PRK00149        292 KAEEE-GIDLPDEVLEFIAKNITSNVRELEGALNRLIAYASLTGKPITLELAKEALKDL  349 (450)
T ss_pred             HHHHc-CCCCCHHHHHHHHcCcCCCHHHHHHHHHHHHHHHHhhCCCCCHHHHHHHHHHh
Confidence            87531 1223357788888888886643    33332221  122  566677777654

>PRK14954 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.59  E-value=0.0012  Score=78.27  Aligned_cols=195  Identities=12%  Similarity=0.122  Sum_probs=102.6

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEE-ecCCcCHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVR-VTQTPDVKRVQDEI  231 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~-vs~~~~~~~~~~~i  231 (1074)
                      +..+..+.|.+..++.+..++..+. -...+.++|+.|+||||+|+.+.+.   ...++.-.|.. +...+..-...+.+
T Consensus        12 P~~f~eivGQe~i~~~L~~~i~~~r-i~ha~Lf~Gp~GvGKttlA~~lAk~L~c~~~~~~~~~~~~~~~~Cg~C~sC~~~   90 (620)
T PRK14954         12 PSKFADITAQEHITHTIQNSLRMDR-VGHGYIFSGLRGVGKTTAARVFAKAVNCQRMIDDPVYLQEVTEPCGECESCRDF   90 (620)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCcCCccccccccCCCCccCHHHHHH
Confidence            3445556677777777777776654 1345889999999999999998877   22121111111 00111111111111


Q ss_pred             HHHhccC---CCc--chHHHHHHHHHHHH----HccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE-ecCChhH
Q 001457          232 ARFLNTE---LEG--DVEVLRAAFLSERL----KRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL-TSRFKEV  299 (1074)
Q Consensus       232 ~~~l~~~---~~~--~~~~~~~~~l~~~l----~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv-TTR~~~v  299 (1074)
                      ...-..+   .++  ....+.+..+.+.+    ..+++-++|+|+++.-  ...+.+...+..-...+.+|+ |++...+
T Consensus        91 ~~g~~~n~~~~d~~s~~~vd~Ir~l~e~~~~~P~~~~~KVvIIdEad~Lt~~a~naLLK~LEePp~~tv~IL~t~~~~kL  170 (620)
T PRK14954         91 DAGTSLNISEFDAASNNSVDDIRQLRENVRYGPQKGRYRVYIIDEVHMLSTAAFNAFLKTLEEPPPHAIFIFATTELHKI  170 (620)
T ss_pred             hccCCCCeEEecccccCCHHHHHHHHHHHHhhhhcCCCEEEEEeChhhcCHHHHHHHHHHHhCCCCCeEEEEEeCChhhh
Confidence            1100000   000  00011122222222    1245668899998754  234444333333233455554 5444444


Q ss_pred             Hhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChH
Q 001457          300 CDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       300 ~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPL  352 (1074)
                      ... ......+++.+++.++....+.+.+... ...-..+.+..|++.++|-.-
T Consensus       171 l~TI~SRc~~vef~~l~~~ei~~~L~~i~~~e-gi~I~~eal~~La~~s~Gdlr  223 (620)
T PRK14954        171 PATIASRCQRFNFKRIPLDEIQSQLQMICRAE-GIQIDADALQLIARKAQGSMR  223 (620)
T ss_pred             hHHHHhhceEEecCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHhCCCHH
Confidence            433 2334689999999999887777665311 111235677889999999553

>PF14516 AAA_35: AAA-like domain

Probab=97.59  E-value=0.0045  Score=68.64  Aligned_cols=192  Identities=12%  Similarity=0.161  Sum_probs=110.9

Q ss_pred             hHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCC-----cCHHHHHHHHHH----H
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQT-----PDVKRVQDEIAR----F  234 (1074)
Q Consensus       165 r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~-----~~~~~~~~~i~~----~  234 (1074)
                      |...-+++.+.+...+   ..+.|.|+-.+|||||...+.+. +..=-.++++++..-     .+..+.++.++.    +
T Consensus        16 R~~~e~~~~~~i~~~G---~~~~I~apRq~GKTSll~~l~~~l~~~~~~~v~id~~~~~~~~~~~~~~f~~~~~~~i~~~   92 (331)
T PF14516_consen   16 RPPAEQECYQEIVQPG---SYIRIKAPRQMGKTSLLLRLLERLQQQGYRCVYIDLQQLGSAIFSDLEQFLRWFCEEISRQ   92 (331)
T ss_pred             chHHHHHHHHHHhcCC---CEEEEECcccCCHHHHHHHHHHHHHHCCCEEEEEEeecCCCcccCCHHHHHHHHHHHHHHH
Confidence            4445556666766543   48999999999999999999888 333234567877652     245555555544    4


Q ss_pred             hccCCCc--------chHHHHHHHHHHHHH--ccCeEEEEEcCcccccc--------ccccccCCC-----CCCCCeEEE
Q 001457          235 LNTELEG--------DVEVLRAAFLSERLK--RQKRVLIILDDLWGKLD--------LAVVGIPYG-----EEHKGCKII  291 (1074)
Q Consensus       235 l~~~~~~--------~~~~~~~~~l~~~l~--~~k~~LlVlDdv~~~~~--------~~~~~~~~~-----~~~~gs~ii  291 (1074)
                      ++....-        .........+.+.+.  .+++.+|++|+|+..-.        +..++.-..     .....-+.+
T Consensus        93 L~l~~~l~~~w~~~~~~~~~~~~~~~~~ll~~~~~~lVL~iDEiD~l~~~~~~~~dF~~~LR~~~~~~~~~~~~~~L~li  172 (331)
T PF14516_consen   93 LKLDEKLDEYWDEEIGSKISCTEYFEEYLLKQIDKPLVLFIDEIDRLFEYPQIADDFFGLLRSWYEQRKNNPIWQKLRLI  172 (331)
T ss_pred             cCCChhHHHHHHHhcCChhhHHHHHHHHHHhcCCCCEEEEEechhhhccCcchHHHHHHHHHHHHHhcccCcccceEEEE
Confidence            4432210        011122233334332  36899999999975311        111111000     001111222


Q ss_pred             Ee--cCChhHHhh----ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHHcCC
Q 001457          292 LT--SRFKEVCDE----MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHK  364 (1074)
Q Consensus       292 vT--TR~~~v~~~----~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~  364 (1074)
                      +.  |+.......    +.....++|++++.+|...|..++-..     --....++|...+||+|.-+..++..+...
T Consensus       173 ~~~~t~~~~~~~~~~SPFNIg~~i~L~~Ft~~ev~~L~~~~~~~-----~~~~~~~~l~~~tgGhP~Lv~~~~~~l~~~  246 (331)
T PF14516_consen  173 LAGSTEDYIILDINQSPFNIGQPIELPDFTPEEVQELAQRYGLE-----FSQEQLEQLMDWTGGHPYLVQKACYLLVEE  246 (331)
T ss_pred             EecCcccccccCCCCCCcccccceeCCCCCHHHHHHHHHhhhcc-----CCHHHHHHHHHHHCCCHHHHHHHHHHHHHc
Confidence            22  221111111    122247899999999999998877431     112228899999999999999999999653

>PRK07133 DNA polymerase III subunits gamma and tau; Validated

Probab=97.58  E-value=0.0018  Score=77.19  Aligned_cols=176  Identities=13%  Similarity=0.109  Sum_probs=102.2

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCC-----------------eEEEE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFD-----------------KVIFV  216 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~-----------------~~~wv  216 (1074)
                      +..+..+.|.+..++.+..++..+. -.+.+.++|+.|+||||+|+.+...  ..+..                 .++++
T Consensus        14 P~~f~dIiGQe~~v~~L~~aI~~~r-l~HAYLF~GP~GtGKTt~AriLAk~LnC~~~~~~~~pC~~C~~~~~~~~Dviei   92 (725)
T PRK07133         14 PKTFDDIVGQDHIVQTLKNIIKSNK-ISHAYLFSGPRGTGKTSVAKIFANALNCSHKTDLLEPCQECIENVNNSLDIIEM   92 (725)
T ss_pred             CCCHHHhcCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCcHHHHHHHHHHHhcccccCCCCCchhHHHHhhcCCCcEEEE
Confidence            3445556778888888888887654 2356689999999999999999876  21110                 00111


Q ss_pred             EecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEE
Q 001457          217 RVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKI  290 (1074)
Q Consensus       217 ~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~i  290 (1074)
                      .......                     ...++.+.+...    .+++-++|+|++..-  ..+..+...+-.......+
T Consensus        93 daasn~~---------------------vd~IReLie~~~~~P~~g~~KV~IIDEa~~LT~~A~NALLKtLEEPP~~tif  151 (725)
T PRK07133         93 DAASNNG---------------------VDEIRELIENVKNLPTQSKYKIYIIDEVHMLSKSAFNALLKTLEEPPKHVIF  151 (725)
T ss_pred             eccccCC---------------------HHHHHHHHHHHHhchhcCCCEEEEEEChhhCCHHHHHHHHHHhhcCCCceEE
Confidence            1000000                     111222322222    256779999998743  3444443333222334554


Q ss_pred             E-EecCChhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          291 I-LTSRFKEVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       291 i-vTTR~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      | +||+...+... ......+++.+++.++....+...+.... .....+.+..|++.++|-+--+
T Consensus       152 ILaTte~~KLl~TI~SRcq~ieF~~L~~eeI~~~L~~il~keg-I~id~eAl~~LA~lS~GslR~A  216 (725)
T PRK07133        152 ILATTEVHKIPLTILSRVQRFNFRRISEDEIVSRLEFILEKEN-ISYEKNALKLIAKLSSGSLRDA  216 (725)
T ss_pred             EEEcCChhhhhHHHHhhceeEEccCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            4 55555555432 22336899999999999888877654111 1222456788999999976433

>KOG2227 consensus Pre-initiation complex, subunit CDC6, AAA+ superfamily ATPase [Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=97.58  E-value=0.0043  Score=68.12  Aligned_cols=190  Identities=15%  Similarity=0.190  Sum_probs=115.0

Q ss_pred             cCcchHHHHHHHHHHHhcC--CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCC-C-eEEEEEecCCcCHHHHHHHHHHHh
Q 001457          161 PLKSALEVIKSVMKLLKDN--SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF-D-KVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       161 ~~~~r~~~~~~l~~~l~~~--~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F-~-~~~wv~vs~~~~~~~~~~~i~~~l  235 (1074)
                      +..||+.++..+-.++...  ...-+-+-|.|-+|.|||.+...|+.+ .... . .+++++...-.....++..|...+
T Consensus       151 ~l~gRe~e~~~v~~F~~~hle~~t~gSlYVsG~PGtgkt~~l~rvl~~~~~~~~~~~~v~inc~sl~~~~aiF~kI~~~~  230 (529)
T KOG2227|consen  151 TLKGRELEMDIVREFFSLHLELNTSGSLYVSGQPGTGKTALLSRVLDSLSKSSKSPVTVYINCTSLTEASAIFKKIFSSL  230 (529)
T ss_pred             CccchHHHHHHHHHHHHhhhhcccCcceEeeCCCCcchHHHHHHHHHhhhhhcccceeEEEeeccccchHHHHHHHHHHH
Confidence            3668999888888877543  223678999999999999999999999 2221 2 457787766567788888888877


Q ss_pred             ccCC-CcchHHHHHHHHHHHHHccC-eEEEEEcCcccccc--ccccccCCC-CCCCCeEEEEecCChhH------Hhhc-
Q 001457          236 NTEL-EGDVEVLRAAFLSERLKRQK-RVLIILDDLWGKLD--LAVVGIPYG-EEHKGCKIILTSRFKEV------CDEM-  303 (1074)
Q Consensus       236 ~~~~-~~~~~~~~~~~l~~~l~~~k-~~LlVlDdv~~~~~--~~~~~~~~~-~~~~gs~iivTTR~~~v------~~~~-  303 (1074)
                      -... ......+....+.+..+..+ -+|+|+|.++.-..  -..+...|. +.-+++|+|+.---..+      .... 
T Consensus       231 ~q~~~s~~~~~~~~~~~~~h~~q~k~~~llVlDEmD~L~tr~~~vLy~lFewp~lp~sr~iLiGiANslDlTdR~LprL~  310 (529)
T KOG2227|consen  231 LQDLVSPGTGMQHLEKFEKHTKQSKFMLLLVLDEMDHLITRSQTVLYTLFEWPKLPNSRIILIGIANSLDLTDRFLPRLN  310 (529)
T ss_pred             HHHhcCCchhHHHHHHHHHHHhcccceEEEEechhhHHhhcccceeeeehhcccCCcceeeeeeehhhhhHHHHHhhhhh
Confidence            2222 12222344455555555333 79999999874311  111111111 22346776654322211      1111 


Q ss_pred             ----cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCC
Q 001457          304 ----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKL  350 (1074)
Q Consensus       304 ----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~gl  350 (1074)
                          ..-..+..++-+.++-.++|.++.............++-+++|+.|.
T Consensus       311 ~~~~~~P~~l~F~PYTk~qI~~Il~~rl~~~~t~~~~~~Aie~~ArKvaa~  361 (529)
T KOG2227|consen  311 LDLTIKPKLLVFPPYTKDQIVEILQQRLSEESTSIFLNAAIELCARKVAAP  361 (529)
T ss_pred             hccCCCCceeeecCCCHHHHHHHHHHHHhcccccccchHHHHHHHHHhccC
Confidence                12256788999999999999988763333333334455555555443

>PRK14971 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.57  E-value=0.0014  Score=78.15  Aligned_cols=178  Identities=12%  Similarity=0.099  Sum_probs=104.3

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-c-----------------------CCCCe
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-E-----------------------IPFDK  212 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~-----------------------~~F~~  212 (1074)
                      ..+..+.|.+..++.+..++..+. -.+.+.++|+.|+||||+|+.+... .                       .+|+.
T Consensus        14 ~~f~~viGq~~~~~~L~~~i~~~~-l~hayLf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~Cg~C~sC~~~~~~~~~n~   92 (614)
T PRK14971         14 STFESVVGQEALTTTLKNAIATNK-LAHAYLFCGPRGVGKTTCARIFAKTINCQNLTADGEACNECESCVAFNEQRSYNI   92 (614)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CCeeEEEECCCCCCHHHHHHHHHHHhCCCCCCCCCCCCCcchHHHHHhcCCCCce
Confidence            445556678888888888887765 1345889999999999999887775 1                       12331


Q ss_pred             EEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEE
Q 001457          213 VIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKI  290 (1074)
Q Consensus       213 ~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~i  290 (1074)
                       ..+..+....+..+ ++++.++...              - . .+++-++|+|++..-  ..++.+...+..-..++.+
T Consensus        93 -~~ld~~~~~~vd~I-r~li~~~~~~--------------P-~-~~~~KVvIIdea~~Ls~~a~naLLK~LEepp~~tif  154 (614)
T PRK14971         93 -HELDAASNNSVDDI-RNLIEQVRIP--------------P-Q-IGKYKIYIIDEVHMLSQAAFNAFLKTLEEPPSYAIF  154 (614)
T ss_pred             -EEecccccCCHHHH-HHHHHHHhhC--------------c-c-cCCcEEEEEECcccCCHHHHHHHHHHHhCCCCCeEE
Confidence             12222211111111 1111111100              0 0 245668899998753  3445444433333345666


Q ss_pred             EE-ecCChhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          291 IL-TSRFKEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       291 iv-TTR~~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      |+ ||+...+.... ....+++++++++++....+.+.+.... ..-..+.+..|++.++|-.--+
T Consensus       155 IL~tt~~~kIl~tI~SRc~iv~f~~ls~~ei~~~L~~ia~~eg-i~i~~~al~~La~~s~gdlr~a  219 (614)
T PRK14971        155 ILATTEKHKILPTILSRCQIFDFNRIQVADIVNHLQYVASKEG-ITAEPEALNVIAQKADGGMRDA  219 (614)
T ss_pred             EEEeCCchhchHHHHhhhheeecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            55 44545554332 2336899999999999888887664221 2223456788999999966433

>PRK14950 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.53  E-value=0.0021  Score=77.07  Aligned_cols=195  Identities=14%  Similarity=0.113  Sum_probs=106.3

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHh
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l  235 (1074)
                      ..+..+.|.+..++.+..++..+. -...+.++|..|+||||+|+.+.+. ......    .....++.-...+.|....
T Consensus        13 ~~~~eiiGq~~~~~~L~~~i~~~~-i~~a~Lf~Gp~G~GKTtlA~~lA~~l~c~~~~----~~~~~c~~c~~c~~i~~~~   87 (585)
T PRK14950         13 QTFAELVGQEHVVQTLRNAIAEGR-VAHAYLFTGPRGVGKTSTARILAKAVNCTTND----PKGRPCGTCEMCRAIAEGS   87 (585)
T ss_pred             CCHHHhcCCHHHHHHHHHHHHhCC-CceEEEEECCCCCCHHHHHHHHHHHhcCCCCC----CCCCCCccCHHHHHHhcCC
Confidence            344456677787888877776654 1346789999999999999999877 211100    0001111122233332222


Q ss_pred             ccCC---C--cchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCC-hhHHhhc
Q 001457          236 NTEL---E--GDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRF-KEVCDEM  303 (1074)
Q Consensus       236 ~~~~---~--~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~-~~v~~~~  303 (1074)
                      +.+.   +  .....+.+..+.+.+.    .+++-++|+|++..-  +..+.+...+......+.+|++|.+ ..+....
T Consensus        88 ~~d~~~i~~~~~~~vd~ir~ii~~~~~~p~~~~~kVvIIDEa~~L~~~a~naLLk~LEepp~~tv~Il~t~~~~kll~tI  167 (585)
T PRK14950         88 AVDVIEMDAASHTSVDDAREIIERVQFRPALARYKVYIIDEVHMLSTAAFNALLKTLEEPPPHAIFILATTEVHKVPATI  167 (585)
T ss_pred             CCeEEEEeccccCCHHHHHHHHHHHhhCcccCCeEEEEEeChHhCCHHHHHHHHHHHhcCCCCeEEEEEeCChhhhhHHH
Confidence            1110   0  0001111222222221    256778999998643  3344443333332345666665543 3333222


Q ss_pred             -cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          304 -ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       304 -~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                       .....++++.++.++....+.+.+.... ..-..+.+..|++.++|-+..+...
T Consensus       168 ~SR~~~i~f~~l~~~el~~~L~~~a~~eg-l~i~~eal~~La~~s~Gdlr~al~~  221 (585)
T PRK14950        168 LSRCQRFDFHRHSVADMAAHLRKIAAAEG-INLEPGALEAIARAATGSMRDAENL  221 (585)
T ss_pred             HhccceeeCCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence             2235788999999998888877765211 1123467888999999988544433

>KOG1644 consensus U2-associated snRNP A' protein [RNA processing and modification]

Probab=97.52  E-value=0.00014  Score=70.45  Aligned_cols=100  Identities=23%  Similarity=0.390  Sum_probs=64.1

Q ss_pred             CCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccC-CccCCeeeccCCCCCC---CccccCCCCccEEE
Q 001457          531 PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPC-LEKLRSLHLENTHLND---ASLIREFGELEVLI  606 (1074)
Q Consensus       531 ~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~-l~~Lr~L~L~~~~l~~---~~~i~~l~~L~~L~  606 (1074)
                      .+...++|++|.+..++.  |..++.|.+|.+.+|.|+.+-+.+.. +++|..|.|.+|+|..   ...+..++.|++|.
T Consensus        42 d~~d~iDLtdNdl~~l~~--lp~l~rL~tLll~nNrIt~I~p~L~~~~p~l~~L~LtnNsi~~l~dl~pLa~~p~L~~Lt  119 (233)
T KOG1644|consen   42 DQFDAIDLTDNDLRKLDN--LPHLPRLHTLLLNNNRITRIDPDLDTFLPNLKTLILTNNSIQELGDLDPLASCPKLEYLT  119 (233)
T ss_pred             cccceecccccchhhccc--CCCccccceEEecCCcceeeccchhhhccccceEEecCcchhhhhhcchhccCCccceee
Confidence            456667777777666554  56777777888888877777665543 4557777777777654   44455666677777


Q ss_pred             eeCCCCcccCcc----ccCCCCCCEEeCCC
Q 001457          607 LKGSRIVELPNG----IGTVSNLKLLDLSN  632 (1074)
Q Consensus       607 L~~~~i~~lp~~----i~~L~~L~~L~l~~  632 (1074)
                      +-+|.+...+..    +.++++|+.||..+
T Consensus       120 ll~Npv~~k~~YR~yvl~klp~l~~LDF~k  149 (233)
T KOG1644|consen  120 LLGNPVEHKKNYRLYVLYKLPSLRTLDFQK  149 (233)
T ss_pred             ecCCchhcccCceeEEEEecCcceEeehhh
Confidence            666665544321    55566666666554

>KOG1947 consensus Leucine rich repeat proteins, some proteins contain F-box [General function prediction only]

Probab=97.51  E-value=1.1e-05  Score=96.18  Aligned_cols=148  Identities=19%  Similarity=0.140  Sum_probs=93.7

Q ss_pred             HHhccceeeeccCCCccccc--ccccccCCCccEEEEecc-ccccccccCcccccccceeEEEeee-cccceeecccccc
Q 001457          744 LLEKTEYLTLTRSSNLQDIG--EIDVQGFTGLMCMHLRAC-SMQRIFHSNFYPTVQILEELHVEYC-YSLKEVFCLEDIE  819 (1074)
Q Consensus       744 ~~~~L~~L~L~~~~~l~~~~--~l~~~~l~~L~~L~L~~~-~~~~~~~~~~~~~l~~L~~L~l~~~-~~l~~~~~~~~~~  819 (1074)
                      ....++.+....+.......  ..-...+++|+.|.+.+| .+....-......++.|+.|+++.| ....... .. ..
T Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~L~~l~l~~~~~~~~~~~~~~~~~~~~L~~L~l~~~~~~~~~~~-~~-~~  236 (482)
T KOG1947|consen  159 GLANLESLSLSCCGSLLLDKILLRLLSSCPLLKRLSLSGCSKITDDSLDALALKCPNLEELDLSGCCLLITLSP-LL-LL  236 (482)
T ss_pred             HHHHHheeeeecccccccHHHHHHHHhhCchhhHhhhcccccCChhhHHHHHhhCchhheecccCcccccccch-hH-hh
Confidence            34555555555443332221  111234799999999999 3333222334677899999999874 2211111 00 01


Q ss_pred             cccccCCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccccce
Q 001457          820 GEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEE  894 (1074)
Q Consensus       820 ~~~~~~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~  894 (1074)
                      .....+++|+.|.+..+..+.+.-.... ...+++|+.|.+.+|..+++.....+...+++|++|++++|..+++
T Consensus       237 ~~~~~~~~L~~l~l~~~~~isd~~l~~l-~~~c~~L~~L~l~~c~~lt~~gl~~i~~~~~~L~~L~l~~c~~~~d  310 (482)
T KOG1947|consen  237 LLLSICRKLKSLDLSGCGLVTDIGLSAL-ASRCPNLETLSLSNCSNLTDEGLVSIAERCPSLRELDLSGCHGLTD  310 (482)
T ss_pred             hhhhhcCCcCccchhhhhccCchhHHHH-HhhCCCcceEccCCCCccchhHHHHHHHhcCcccEEeeecCccchH
Confidence            1223478999999999876554321111 1238999999999999987765566778899999999999998844

>KOG1859 consensus Leucine-rich repeat proteins [General function prediction only]

Probab=97.51  E-value=1.9e-06  Score=97.54  Aligned_cols=125  Identities=22%  Similarity=0.252  Sum_probs=98.0

Q ss_pred             cCCCcEEeeccCCcccCCCC-CCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCC-CccCCccCCeeec
Q 001457          508 LQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHL  585 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~-~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~-~i~~l~~Lr~L~L  585 (1074)
                      |.++...+..+|.+..+... .-++.|++|+|++|.+++..  .+..+++|+.|||+.|.+..+|. +-..+. |..|+|
T Consensus       163 Wn~L~~a~fsyN~L~~mD~SLqll~ale~LnLshNk~~~v~--~Lr~l~~LkhLDlsyN~L~~vp~l~~~gc~-L~~L~l  239 (1096)
T KOG1859|consen  163 WNKLATASFSYNRLVLMDESLQLLPALESLNLSHNKFTKVD--NLRRLPKLKHLDLSYNCLRHVPQLSMVGCK-LQLLNL  239 (1096)
T ss_pred             hhhHhhhhcchhhHHhHHHHHHHHHHhhhhccchhhhhhhH--HHHhcccccccccccchhccccccchhhhh-heeeee
Confidence            45666667777776655543 34588999999999988765  46889999999999999998887 334444 999999


Q ss_pred             cCCCCCCCccccCCCCccEEEeeCCCCcccC--ccccCCCCCCEEeCCCCcC
Q 001457          586 ENTHLNDASLIREFGELEVLILKGSRIVELP--NGIGTVSNLKLLDLSNNLF  635 (1074)
Q Consensus       586 ~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp--~~i~~L~~L~~L~l~~~~~  635 (1074)
                      ++|-++....|.+|.+|+.||+++|-+....  .-++.|..|+.|+|.+|+.
T Consensus       240 rnN~l~tL~gie~LksL~~LDlsyNll~~hseL~pLwsLs~L~~L~LeGNPl  291 (1096)
T KOG1859|consen  240 RNNALTTLRGIENLKSLYGLDLSYNLLSEHSELEPLWSLSSLIVLWLEGNPL  291 (1096)
T ss_pred             cccHHHhhhhHHhhhhhhccchhHhhhhcchhhhHHHHHHHHHHHhhcCCcc
Confidence            9999988888999999999999999665432  2367788899999999874

>PRK14953 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.50  E-value=0.0035  Score=72.76  Aligned_cols=179  Identities=13%  Similarity=0.108  Sum_probs=101.8

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cC---C------------------CCeE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EI---P------------------FDKV  213 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~---~------------------F~~~  213 (1074)
                      +..+..+.|.+..+..+.+++..+. -.+.+.++|+.|+||||+|+.+... ..   .                  |...
T Consensus        12 P~~f~diiGq~~i~~~L~~~i~~~~-i~hayLf~Gp~G~GKTtlAr~lAk~L~c~~~~~~~pc~~c~nc~~i~~g~~~d~   90 (486)
T PRK14953         12 PKFFKEVIGQEIVVRILKNAVKLQR-VSHAYIFAGPRGTGKTTIARILAKVLNCLNPQEGEPCGKCENCVEIDKGSFPDL   90 (486)
T ss_pred             CCcHHHccChHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCcCCCCCCCCCccHHHHHHhcCCCCcE
Confidence            3445556688888888888887654 1345678999999999999998776 11   0                  1111


Q ss_pred             EEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCC
Q 001457          214 IFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKG  287 (1074)
Q Consensus       214 ~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~g  287 (1074)
                      +++..+....+                     +....+.+...    .+++-++|+|++..-  ...+.+...+......
T Consensus        91 ~eidaas~~gv---------------------d~ir~I~~~~~~~P~~~~~KVvIIDEad~Lt~~a~naLLk~LEepp~~  149 (486)
T PRK14953         91 IEIDAASNRGI---------------------DDIRALRDAVSYTPIKGKYKVYIIDEAHMLTKEAFNALLKTLEEPPPR  149 (486)
T ss_pred             EEEeCccCCCH---------------------HHHHHHHHHHHhCcccCCeeEEEEEChhhcCHHHHHHHHHHHhcCCCC
Confidence            22221111111                     11112222221    356779999998743  3334443333322334


Q ss_pred             eEEEEe-cCChhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          288 CKIILT-SRFKEVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       288 s~iivT-TR~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      ..+|++ |+...+... ......+.+.+++.++-...+.+.+.... ..-..+.+..|++.++|-+-.+..+
T Consensus       150 ~v~Il~tt~~~kl~~tI~SRc~~i~f~~ls~~el~~~L~~i~k~eg-i~id~~al~~La~~s~G~lr~al~~  220 (486)
T PRK14953        150 TIFILCTTEYDKIPPTILSRCQRFIFSKPTKEQIKEYLKRICNEEK-IEYEEKALDLLAQASEGGMRDAASL  220 (486)
T ss_pred             eEEEEEECCHHHHHHHHHHhceEEEcCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            555554 444444322 22235789999999998888877654111 1223466777888899876544433

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=97.50  E-value=0.0011  Score=81.75  Aligned_cols=155  Identities=16%  Similarity=0.228  Sum_probs=88.2

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC-----CCeEEEEEecCCcCHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP-----FDKVIFVRVTQTPDVKRVQD  229 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~-----F~~~~wv~vs~~~~~~~~~~  229 (1074)
                      ..+.++.||+++++.++..|....  ..-+.++|++|+|||++|+.+.+.  ...     .+..+|. +    +...+..
T Consensus       179 ~~l~~~igr~~ei~~~~~~L~~~~--~~n~lL~G~pG~GKT~l~~~la~~~~~~~~p~~l~~~~~~~-~----~~~~l~a  251 (731)
T TIGR02639       179 GKIDPLIGREDELERTIQVLCRRK--KNNPLLVGEPGVGKTAIAEGLALRIAEGKVPENLKNAKIYS-L----DMGSLLA  251 (731)
T ss_pred             CCCCcccCcHHHHHHHHHHHhcCC--CCceEEECCCCCCHHHHHHHHHHHHHhCCCchhhcCCeEEE-e----cHHHHhh
Confidence            445567899999999998887665  445679999999999999999987  221     1344442 1    1111110


Q ss_pred             HHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc----------cccccccCCCCCCCC-eEEEEecCChh
Q 001457          230 EIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL----------DLAVVGIPYGEEHKG-CKIILTSRFKE  298 (1074)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------~~~~~~~~~~~~~~g-s~iivTTR~~~  298 (1074)
                            +....+ .-+.....+.+.+...++.+|++|++..-.          +...+..+..  .+| -++|-+|..++
T Consensus       252 ------~~~~~g-~~e~~l~~i~~~~~~~~~~ILfiDEih~l~~~g~~~~~~~~~~~~L~~~l--~~g~i~~IgaTt~~e  322 (731)
T TIGR02639       252 ------GTKYRG-DFEERLKAVVSEIEKEPNAILFIDEIHTIVGAGATSGGSMDASNLLKPAL--SSGKLRCIGSTTYEE  322 (731)
T ss_pred             ------hccccc-hHHHHHHHHHHHHhccCCeEEEEecHHHHhccCCCCCccHHHHHHHHHHH--hCCCeEEEEecCHHH
Confidence                  000011 112333444444443568999999987321          1111221211  223 34555554322


Q ss_pred             HH------hhc-cCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          299 VC------DEM-ESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       299 v~------~~~-~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ..      ... ..-..++++.++.++..+++....
T Consensus       323 ~~~~~~~d~al~rRf~~i~v~~p~~~~~~~il~~~~  358 (731)
T TIGR02639       323 YKNHFEKDRALSRRFQKIDVGEPSIEETVKILKGLK  358 (731)
T ss_pred             HHHHhhhhHHHHHhCceEEeCCCCHHHHHHHHHHHH
Confidence            21      111 112478999999999999998654

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=97.49  E-value=0.0015  Score=81.21  Aligned_cols=177  Identities=15%  Similarity=0.212  Sum_probs=98.7

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC-----CCeEEE-EEecCCcCHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP-----FDKVIF-VRVTQTPDVKRV  227 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~-----F~~~~w-v~vs~~~~~~~~  227 (1074)
                      +..+.++.||++++..++..|....  ..-+.++|.+|+||||+|+.+...  ...     .+..+| +.++.-.     
T Consensus       183 ~~~ld~~iGr~~ei~~~i~~l~r~~--~~n~lLvG~pGvGKTal~~~La~~i~~~~v~~~l~~~~i~~l~l~~l~-----  255 (852)
T TIGR03345       183 EGKIDPVLGRDDEIRQMIDILLRRR--QNNPILTGEAGVGKTAVVEGLALRIAAGDVPPALRNVRLLSLDLGLLQ-----  255 (852)
T ss_pred             CCCCCcccCCHHHHHHHHHHHhcCC--cCceeEECCCCCCHHHHHHHHHHHHhhCCCCccccCCeEEEeehhhhh-----
Confidence            3445567889999999999887665  445569999999999999999987  221     123333 2222100     


Q ss_pred             HHHHHHHhccCCCcchHHHHHHHHHHHHH-ccCeEEEEEcCccccc-------ccc--ccccCCCCCCCC-eEEEEecCC
Q 001457          228 QDEIARFLNTELEGDVEVLRAAFLSERLK-RQKRVLIILDDLWGKL-------DLA--VVGIPYGEEHKG-CKIILTSRF  296 (1074)
Q Consensus       228 ~~~i~~~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~-------~~~--~~~~~~~~~~~g-s~iivTTR~  296 (1074)
                             .+....+.- ......+.+... .+++.+|++|++..-.       .-+  .+..|..  .+| -++|-||..
T Consensus       256 -------ag~~~~ge~-e~~lk~ii~e~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~n~Lkp~l--~~G~l~~IgaTT~  325 (852)
T TIGR03345       256 -------AGASVKGEF-ENRLKSVIDEVKASPQPIILFIDEAHTLIGAGGQAGQGDAANLLKPAL--ARGELRTIAATTW  325 (852)
T ss_pred             -------cccccchHH-HHHHHHHHHHHHhcCCCeEEEEeChHHhccCCCccccccHHHHhhHHh--hCCCeEEEEecCH
Confidence                   000001111 122222333332 3578999999986431       111  1222221  233 466666665


Q ss_pred             hhHHhhc-------cCCCeEeCCCCCHHHHHHHHHHhcC---CCCCCchhHHHHHHHHHHhCC
Q 001457          297 KEVCDEM-------ESTNYVQVEELTDEDRLILFKKKAG---LPEGTKAFDRAAEEVVRQCGK  349 (1074)
Q Consensus       297 ~~v~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a~---~~~~~~~~~~~~~~i~~~c~g  349 (1074)
                      .+....+       ..-..+.+++++.++..+++.....   ......-..+....+++.+.+
T Consensus       326 ~e~~~~~~~d~AL~rRf~~i~v~eps~~~~~~iL~~~~~~~e~~~~v~i~d~al~~~~~ls~r  388 (852)
T TIGR03345       326 AEYKKYFEKDPALTRRFQVVKVEEPDEETAIRMLRGLAPVLEKHHGVLILDEAVVAAVELSHR  388 (852)
T ss_pred             HHHhhhhhccHHHHHhCeEEEeCCCCHHHHHHHHHHHHHhhhhcCCCeeCHHHHHHHHHHccc
Confidence            3321111       1225899999999999999755443   111112234566667777755

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.

>TIGR03689 pup_AAA proteasome ATPase

Probab=97.49  E-value=0.00088  Score=77.13  Aligned_cols=162  Identities=17%  Similarity=0.205  Sum_probs=89.1

Q ss_pred             CCCCcccCcchHHHHHHHHHHHhc----C-------CCceeEEEEEcCCCCcHHHHHHHHHhh-cCC-----CCeEEEEE
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKD----N-------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIP-----FDKVIFVR  217 (1074)
Q Consensus       155 ~~~~~~~~~~r~~~~~~l~~~l~~----~-------~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~-----F~~~~wv~  217 (1074)
                      |...+..+.|.+..++++.+.+.-    .       -...+-|.++|++|+|||++|+.+++. ...     +....|++
T Consensus       177 p~v~~~dIgGl~~~i~~i~~~v~lp~~~~~l~~~~gl~~p~GILLyGPPGTGKT~LAKAlA~eL~~~i~~~~~~~~~fl~  256 (512)
T TIGR03689       177 PDVTYADIGGLDSQIEQIRDAVELPFLHPELYREYDLKPPKGVLLYGPPGCGKTLIAKAVANSLAQRIGAETGDKSYFLN  256 (512)
T ss_pred             CCCCHHHcCChHHHHHHHHHHHHHHhhCHHHHHhccCCCCcceEEECCCCCcHHHHHHHHHHhhccccccccCCceeEEe
Confidence            333444455677777766665421    0       012456899999999999999999998 333     22345555


Q ss_pred             ecCCcCHHHHHHHHHHHhccCCCcchHH---HHHHHHHHHHHccCeEEEEEcCccccc---------cc-----cccccC
Q 001457          218 VTQTPDVKRVQDEIARFLNTELEGDVEV---LRAAFLSERLKRQKRVLIILDDLWGKL---------DL-----AVVGIP  280 (1074)
Q Consensus       218 vs~~~~~~~~~~~i~~~l~~~~~~~~~~---~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~-----~~~~~~  280 (1074)
                      +....    +..    .    ..+..+.   ......++....+++++|++|+++...         +.     ..+...
T Consensus       257 v~~~e----Ll~----k----yvGete~~ir~iF~~Ar~~a~~g~p~IIfIDEiD~L~~~R~~~~s~d~e~~il~~LL~~  324 (512)
T TIGR03689       257 IKGPE----LLN----K----YVGETERQIRLIFQRAREKASDGRPVIVFFDEMDSIFRTRGSGVSSDVETTVVPQLLSE  324 (512)
T ss_pred             ccchh----hcc----c----ccchHHHHHHHHHHHHHHHhhcCCCceEEEehhhhhhcccCCCccchHHHHHHHHHHHH
Confidence            54321    110    0    0011111   111222222223578999999997420         11     122111


Q ss_pred             CC--CCCCCeEEEEecCChhHHh-hc----cCCCeEeCCCCCHHHHHHHHHHhcC
Q 001457          281 YG--EEHKGCKIILTSRFKEVCD-EM----ESTNYVQVEELTDEDRLILFKKKAG  328 (1074)
Q Consensus       281 ~~--~~~~gs~iivTTR~~~v~~-~~----~~~~~~~l~~L~~~~~~~lf~~~a~  328 (1074)
                      +.  ....+..||.||...+... .+    .-+..++++..+.++..++|..+..
T Consensus       325 LDgl~~~~~ViVI~ATN~~d~LDpALlRpGRfD~~I~~~~Pd~e~r~~Il~~~l~  379 (512)
T TIGR03689       325 LDGVESLDNVIVIGASNREDMIDPAILRPGRLDVKIRIERPDAEAAADIFSKYLT  379 (512)
T ss_pred             hcccccCCceEEEeccCChhhCCHhhcCccccceEEEeCCCCHHHHHHHHHHHhh
Confidence            11  1123455666665544321 11    2235689999999999999998875

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.

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.49  E-value=2e-05  Score=82.48  Aligned_cols=130  Identities=22%  Similarity=0.361  Sum_probs=60.0

Q ss_pred             CCCCccEEEccCCCCCCCC----hhHHhcCCCccEEEecCCccCCC--------------CCCccCCccCCeeeccCCCC
Q 001457          529 KCPRLTTLFLQNNPFADIP----NAFFEHTREIKNLDLSSTNISSL--------------APSLPCLEKLRSLHLENTHL  590 (1074)
Q Consensus       529 ~~~~Lr~L~l~~~~~~~~~----~~~~~~l~~L~~L~l~~~~~~~l--------------p~~i~~l~~Lr~L~L~~~~l  590 (1074)
                      .+++|++|+|+.|-+..-.    ...++.+..|+.|.|.+|.+...              ..-+..-+.||++...+|++
T Consensus        90 ~~~~L~~ldLSDNA~G~~g~~~l~~ll~s~~~L~eL~L~N~Glg~~ag~~l~~al~~l~~~kk~~~~~~Lrv~i~~rNrl  169 (382)
T KOG1909|consen   90 GCPKLQKLDLSDNAFGPKGIRGLEELLSSCTDLEELYLNNCGLGPEAGGRLGRALFELAVNKKAASKPKLRVFICGRNRL  169 (382)
T ss_pred             cCCceeEeeccccccCccchHHHHHHHHhccCHHHHhhhcCCCChhHHHHHHHHHHHHHHHhccCCCcceEEEEeecccc
Confidence            4445555555555432211    11234455555555555544311              11223344566666666655


Q ss_pred             CC-C-----ccccCCCCccEEEeeCCCCc-----ccCccccCCCCCCEEeCCCCcCCCCcC---hhhhcCCCCcCEEEcc
Q 001457          591 ND-A-----SLIREFGELEVLILKGSRIV-----ELPNGIGTVSNLKLLDLSNNLFLQVIP---PNVISKLSQLEELYVG  656 (1074)
Q Consensus       591 ~~-~-----~~i~~l~~L~~L~L~~~~i~-----~lp~~i~~L~~L~~L~l~~~~~~~~~p---~~~i~~L~~L~~L~l~  656 (1074)
                      .+ +     ..+...+.|+.+.+..|.|.     -+-..+..+++|+.||+.+|.+...-.   ...+..+++|++|+++
T Consensus       170 en~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~LakaL~s~~~L~El~l~  249 (382)
T KOG1909|consen  170 ENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKALSSWPHLRELNLG  249 (382)
T ss_pred             ccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHHhcccchheeeccc
Confidence            44 1     22334455666666555443     122334555666666666654432210   0114445556666655


Q ss_pred             CC
Q 001457          657 NS  658 (1074)
Q Consensus       657 ~~  658 (1074)
                      +|
T Consensus       250 dc  251 (382)
T KOG1909|consen  250 DC  251 (382)
T ss_pred             cc
Confidence            55

>COG1373 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=97.46  E-value=0.00093  Score=75.74  Aligned_cols=134  Identities=16%  Similarity=0.187  Sum_probs=84.8

Q ss_pred             hHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcch
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDV  243 (1074)
Q Consensus       165 r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~  243 (1074)
                      +...+.++++.+....  . ++.|.|+-++||||+++.+... ...   .++++.-+......-+.+..           
T Consensus        22 ~~~~~~~l~~~~~~~~--~-i~~i~GpR~~GKTtll~~l~~~~~~~---~iy~~~~d~~~~~~~l~d~~-----------   84 (398)
T COG1373          22 RRKLLPRLIKKLDLRP--F-IILILGPRQVGKTTLLKLLIKGLLEE---IIYINFDDLRLDRIELLDLL-----------   84 (398)
T ss_pred             HHhhhHHHHhhcccCC--c-EEEEECCccccHHHHHHHHHhhCCcc---eEEEEecchhcchhhHHHHH-----------
Confidence            4444555555554443  2 9999999999999999777666 333   56665433221111111111           


Q ss_pred             HHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhH-----Hhhc-cCCCeEeCCCCCHH
Q 001457          244 EVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEV-----CDEM-ESTNYVQVEELTDE  317 (1074)
Q Consensus       244 ~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v-----~~~~-~~~~~~~l~~L~~~  317 (1074)
                           ..+.+... .++..|+||.|.....|+.....+.+..+. +|++|+-+...     +... |....+++.|||..
T Consensus        85 -----~~~~~~~~-~~~~yifLDEIq~v~~W~~~lk~l~d~~~~-~v~itgsss~ll~~~~~~~L~GR~~~~~l~PlSF~  157 (398)
T COG1373          85 -----RAYIELKE-REKSYIFLDEIQNVPDWERALKYLYDRGNL-DVLITGSSSSLLSKEISESLAGRGKDLELYPLSFR  157 (398)
T ss_pred             -----HHHHHhhc-cCCceEEEecccCchhHHHHHHHHHccccc-eEEEECCchhhhccchhhhcCCCceeEEECCCCHH
Confidence                 11111111 267899999999999998776666665555 89999877665     2222 23357899999999


Q ss_pred             HHHHH
Q 001457          318 DRLIL  322 (1074)
Q Consensus       318 ~~~~l  322 (1074)
                      |...+
T Consensus       158 Efl~~  162 (398)
T COG1373         158 EFLKL  162 (398)
T ss_pred             HHHhh
Confidence            98764

>PRK10536 hypothetical protein; Provisional

Probab=97.46  E-value=0.00087  Score=69.20  Aligned_cols=55  Identities=20%  Similarity=0.305  Sum_probs=40.3

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEE
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVI  214 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~  214 (1074)
                      ..++.++.++......++.++.+.    .+|.+.|.+|+|||+||..+..+   .+.|+.++
T Consensus        51 ~~~~~~i~p~n~~Q~~~l~al~~~----~lV~i~G~aGTGKT~La~a~a~~~l~~~~~~kIi  108 (262)
T PRK10536         51 SRDTSPILARNEAQAHYLKAIESK----QLIFATGEAGCGKTWISAAKAAEALIHKDVDRII  108 (262)
T ss_pred             hcCCccccCCCHHHHHHHHHHhcC----CeEEEECCCCCCHHHHHHHHHHHHHhcCCeeEEE
Confidence            334445667777777888887653    39999999999999999998875   34444333

>PRK06305 DNA polymerase III subunits gamma and tau; Validated

Probab=97.46  E-value=0.0039  Score=71.95  Aligned_cols=182  Identities=14%  Similarity=0.126  Sum_probs=101.0

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC--CC---e--------------EEE
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP--FD---K--------------VIF  215 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~--F~---~--------------~~w  215 (1074)
                      ..+..+.|.+..++.+.+++..+. -...+.++|+.|+||||+|+.+.+.  ...  -+   |              .-|
T Consensus        14 ~~~~diiGq~~~v~~L~~~i~~~~-i~ha~Lf~Gp~G~GKtt~A~~lAk~l~c~~~~~~~~~c~~c~~C~~i~~~~~~d~   92 (451)
T PRK06305         14 QTFSEILGQDAVVAVLKNALRFNR-AAHAYLFSGIRGTGKTTLARIFAKALNCQNPTEDQEPCNQCASCKEISSGTSLDV   92 (451)
T ss_pred             CCHHHhcCcHHHHHHHHHHHHcCC-CceEEEEEcCCCCCHHHHHHHHHHHhcCCCcccCCCCCcccHHHHHHhcCCCCce
Confidence            344456677888888888887654 1356789999999999999998876  110  00   0              012


Q ss_pred             EEecC--CcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEE
Q 001457          216 VRVTQ--TPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKII  291 (1074)
Q Consensus       216 v~vs~--~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~ii  291 (1074)
                      +.+..  ...+.. .+++.+.                +...-..+++-++|+|++..-  ...+.+...+.....+..+|
T Consensus        93 ~~i~g~~~~gid~-ir~i~~~----------------l~~~~~~~~~kvvIIdead~lt~~~~n~LLk~lEep~~~~~~I  155 (451)
T PRK06305         93 LEIDGASHRGIED-IRQINET----------------VLFTPSKSRYKIYIIDEVHMLTKEAFNSLLKTLEEPPQHVKFF  155 (451)
T ss_pred             EEeeccccCCHHH-HHHHHHH----------------HHhhhhcCCCEEEEEecHHhhCHHHHHHHHHHhhcCCCCceEE
Confidence            22211  111111 1111111                110001256778999998643  23333333333323355666


Q ss_pred             Eec-CChhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh-HHHHHH
Q 001457          292 LTS-RFKEVCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP-NAIVII  357 (1074)
Q Consensus       292 vTT-R~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~  357 (1074)
                      ++| +...+... ......++++++++++....+.+.+... ...-..+.+..|++.++|-+ .|+..+
T Consensus       156 l~t~~~~kl~~tI~sRc~~v~f~~l~~~el~~~L~~~~~~e-g~~i~~~al~~L~~~s~gdlr~a~~~L  223 (451)
T PRK06305        156 LATTEIHKIPGTILSRCQKMHLKRIPEETIIDKLALIAKQE-GIETSREALLPIARAAQGSLRDAESLY  223 (451)
T ss_pred             EEeCChHhcchHHHHhceEEeCCCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            655 33333322 2233578999999999888887765421 11223567788999999966 344433

>KOG2543 consensus Origin recognition complex, subunit 5 [Replication, recombination and repair]

Probab=97.45  E-value=0.0009  Score=71.28  Aligned_cols=161  Identities=17%  Similarity=0.269  Sum_probs=101.4

Q ss_pred             CcchHHHHHHHHHHHhcCCCc-eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhc-cC
Q 001457          162 LKSALEVIKSVMKLLKDNSIS-INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLN-TE  238 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~~~-~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~-~~  238 (1074)
                      +.+|+..+..+...+.+++.. ..+|-|+|-+|.|||.+.+++++. ..+   .+|+++-+.++.+-+...|+.+.+ .+
T Consensus         8 v~~Re~qi~~L~~Llg~~~~~~PS~~~iyG~sgTGKT~~~r~~l~~~n~~---~vw~n~~ecft~~~lle~IL~~~~~~d   84 (438)
T KOG2543|consen    8 VPCRESQIRRLKSLLGNNSCTIPSIVHIYGHSGTGKTYLVRQLLRKLNLE---NVWLNCVECFTYAILLEKILNKSQLAD   84 (438)
T ss_pred             ccchHHHHHHHHHHhCCCCcccceeEEEeccCCCchhHHHHHHHhhcCCc---ceeeehHHhccHHHHHHHHHHHhccCC
Confidence            457888888888877666543 456699999999999999999988 333   589999999999999999999985 33


Q ss_pred             CCcchHH-------HHHHHHHH--HHH-ccCeEEEEEcCccccccccccccC----CC--CCCCCeEEEEecCCh--hH-
Q 001457          239 LEGDVEV-------LRAAFLSE--RLK-RQKRVLIILDDLWGKLDLAVVGIP----YG--EEHKGCKIILTSRFK--EV-  299 (1074)
Q Consensus       239 ~~~~~~~-------~~~~~l~~--~l~-~~k~~LlVlDdv~~~~~~~~~~~~----~~--~~~~gs~iivTTR~~--~v-  299 (1074)
                      .++....       .....+.+  ... .++.++||||+++.-.+.+.+..+    +.  -..+.. +|+++-..  .. 
T Consensus        85 ~dg~~~~~~~en~~d~i~~l~q~~~~t~~d~~~~liLDnad~lrD~~a~ll~~l~~L~el~~~~~i-~iils~~~~e~~y  163 (438)
T KOG2543|consen   85 KDGDKVEGDAENFSDFIYLLVQWPAATNRDQKVFLILDNADALRDMDAILLQCLFRLYELLNEPTI-VIILSAPSCEKQY  163 (438)
T ss_pred             CchhhhhhHHHHHHHHHHHHHhhHHhhccCceEEEEEcCHHhhhccchHHHHHHHHHHHHhCCCce-EEEEeccccHHHh
Confidence            2222111       11222222  111 246899999999876544432110    00  111223 33333322  22 


Q ss_pred             HhhccCCC--eEeCCCCCHHHHHHHHHHh
Q 001457          300 CDEMESTN--YVQVEELTDEDRLILFKKK  326 (1074)
Q Consensus       300 ~~~~~~~~--~~~l~~L~~~~~~~lf~~~  326 (1074)
                      -..+++..  ++..+.-+.+|..+++.+.
T Consensus       164 ~~n~g~~~i~~l~fP~Ys~~e~~~Il~~~  192 (438)
T KOG2543|consen  164 LINTGTLEIVVLHFPQYSVEETQVILSRD  192 (438)
T ss_pred             hcccCCCCceEEecCCCCHHHHHHHHhcC
Confidence            12244443  4567788888888888554

>PRK14088 dnaA chromosomal replication initiation protein; Provisional

Probab=97.44  E-value=0.0025  Score=73.41  Aligned_cols=153  Identities=15%  Similarity=0.240  Sum_probs=90.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCC-eEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFD-KVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~-~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k  259 (1074)
                      ..-+.|+|.+|+|||+||+.+.+.  +.+.+ .++|++.      .++..++...+...        ......+.+. .+
T Consensus       130 ~n~l~lyG~~G~GKTHLl~ai~~~l~~~~~~~~v~yi~~------~~f~~~~~~~~~~~--------~~~~f~~~~~-~~  194 (440)
T PRK14088        130 YNPLFIYGGVGLGKTHLLQSIGNYVVQNEPDLRVMYITS------EKFLNDLVDSMKEG--------KLNEFREKYR-KK  194 (440)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHHHHHHhCCCCeEEEEEH------HHHHHHHHHHHhcc--------cHHHHHHHHH-hc
Confidence            345999999999999999999998  33333 4567653      34555555554321        1112333332 24


Q ss_pred             eEEEEEcCcccc---ccc-cccccCCCC-CCCCeEEEEecC-ChhH--------HhhccCCCeEeCCCCCHHHHHHHHHH
Q 001457          260 RVLIILDDLWGK---LDL-AVVGIPYGE-EHKGCKIILTSR-FKEV--------CDEMESTNYVQVEELTDEDRLILFKK  325 (1074)
Q Consensus       260 ~~LlVlDdv~~~---~~~-~~~~~~~~~-~~~gs~iivTTR-~~~v--------~~~~~~~~~~~l~~L~~~~~~~lf~~  325 (1074)
                      .-+|++||+...   ..+ +.+...+.. ...|..||+||. ...-        ...+....++++++.+.+.-.+++.+
T Consensus       195 ~dvLlIDDi~~l~~~~~~q~elf~~~n~l~~~~k~iIitsd~~p~~l~~l~~rL~SR~~~gl~v~i~~pd~e~r~~IL~~  274 (440)
T PRK14088        195 VDVLLIDDVQFLIGKTGVQTELFHTFNELHDSGKQIVICSDREPQKLSEFQDRLVSRFQMGLVAKLEPPDEETRKKIARK  274 (440)
T ss_pred             CCEEEEechhhhcCcHHHHHHHHHHHHHHHHcCCeEEEECCCCHHHHHHHHHHHhhHHhcCceEeeCCCCHHHHHHHHHH
Confidence            568999999743   111 112111110 112457888875 3221        12233345789999999999999988


Q ss_pred             hcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          326 KAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       326 ~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      ++.... ..--+++...|++.+.|--
T Consensus       275 ~~~~~~-~~l~~ev~~~Ia~~~~~~~  299 (440)
T PRK14088        275 MLEIEH-GELPEEVLNFVAENVDDNL  299 (440)
T ss_pred             HHHhcC-CCCCHHHHHHHHhccccCH
Confidence            875211 1223567888888887743

>PTZ00361 26 proteosome regulatory subunit 4-like protein; Provisional

Probab=97.43  E-value=0.00096  Score=75.72  Aligned_cols=156  Identities=15%  Similarity=0.205  Sum_probs=85.7

Q ss_pred             CCCCcccCcchHHHHHHHHHHHh----cC-------CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCc
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLK----DN-------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTP  222 (1074)
Q Consensus       155 ~~~~~~~~~~r~~~~~~l~~~l~----~~-------~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~  222 (1074)
                      |...+..+.|.+..++++-+.+.    ..       -...+-|.++|++|+|||++|+.+++. ...|     +.+... 
T Consensus       178 p~~~~~DIgGl~~qi~~l~e~v~lpl~~p~~~~~~gi~~p~gVLL~GPPGTGKT~LAraIA~el~~~f-----i~V~~s-  251 (438)
T PTZ00361        178 PLESYADIGGLEQQIQEIKEAVELPLTHPELYDDIGIKPPKGVILYGPPGTGKTLLAKAVANETSATF-----LRVVGS-  251 (438)
T ss_pred             CCCCHHHhcCHHHHHHHHHHHHHhhhhCHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHhhCCCE-----EEEecc-
Confidence            44444445566666666555442    11       012456889999999999999999998 5544     222211 


Q ss_pred             CHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccccc----------------ccccccCCC--CC
Q 001457          223 DVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLD----------------LAVVGIPYG--EE  284 (1074)
Q Consensus       223 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~----------------~~~~~~~~~--~~  284 (1074)
                         .+..    ..    .+.. ......+.+....+.+.+|++|+++....                +..+...+.  ..
T Consensus       252 ---eL~~----k~----~Ge~-~~~vr~lF~~A~~~~P~ILfIDEID~l~~kR~~~~sgg~~e~qr~ll~LL~~Ldg~~~  319 (438)
T PTZ00361        252 ---ELIQ----KY----LGDG-PKLVRELFRVAEENAPSIVFIDEIDAIGTKRYDATSGGEKEIQRTMLELLNQLDGFDS  319 (438)
T ss_pred             ---hhhh----hh----cchH-HHHHHHHHHHHHhCCCcEEeHHHHHHHhccCCCCCCcccHHHHHHHHHHHHHHhhhcc
Confidence               1111    00    0111 11122222223346788999999763210                001111111  11


Q ss_pred             CCCeEEEEecCChhHHhh-c----cCCCeEeCCCCCHHHHHHHHHHhcC
Q 001457          285 HKGCKIILTSRFKEVCDE-M----ESTNYVQVEELTDEDRLILFKKKAG  328 (1074)
Q Consensus       285 ~~gs~iivTTR~~~v~~~-~----~~~~~~~l~~L~~~~~~~lf~~~a~  328 (1074)
                      ..+.+||+||...+.... +    ..+..+++...+.++..++|..++.
T Consensus       320 ~~~V~VI~ATNr~d~LDpaLlRpGRfd~~I~~~~Pd~~~R~~Il~~~~~  368 (438)
T PTZ00361        320 RGDVKVIMATNRIESLDPALIRPGRIDRKIEFPNPDEKTKRRIFEIHTS  368 (438)
T ss_pred             cCCeEEEEecCChHHhhHHhccCCeeEEEEEeCCCCHHHHHHHHHHHHh
Confidence            235678888876554322 1    1235789999999999999987765

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=97.43  E-value=0.00044  Score=66.53  Aligned_cols=89  Identities=22%  Similarity=0.248  Sum_probs=50.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL  262 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L  262 (1074)
                      ..+.|+|++|+||||+|+.+... ......+++++.+........... ...................+.+..+..+..+
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v   81 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPGGGVIYIDGEDILEEVLDQLL-LIIVGGKKASGSGELRLRLALALARKLKPDV   81 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCCCCEEEECCEEccccCHHHHH-hhhhhccCCCCCHHHHHHHHHHHHHhcCCCE
Confidence            57899999999999999999988 333334566655543322222211 1111111111222233334444444333499


Q ss_pred             EEEcCcccccc
Q 001457          263 IILDDLWGKLD  273 (1074)
Q Consensus       263 lVlDdv~~~~~  273 (1074)
                      |++|+++....
T Consensus        82 iiiDei~~~~~   92 (148)
T smart00382       82 LILDEITSLLD   92 (148)
T ss_pred             EEEECCcccCC
Confidence            99999987533

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.

>PRK14086 dnaA chromosomal replication initiation protein; Provisional

Probab=97.43  E-value=0.0047  Score=72.17  Aligned_cols=151  Identities=17%  Similarity=0.219  Sum_probs=90.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCC--CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCe
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPF--DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F--~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  260 (1074)
                      ..+.|+|..|+|||.|++.+.+. ...+  ..++|++.      .++..++...+..        .....+++.+.  +-
T Consensus       315 NpL~LyG~sGsGKTHLL~AIa~~a~~~~~g~~V~Yita------eef~~el~~al~~--------~~~~~f~~~y~--~~  378 (617)
T PRK14086        315 NPLFIYGESGLGKTHLLHAIGHYARRLYPGTRVRYVSS------EEFTNEFINSIRD--------GKGDSFRRRYR--EM  378 (617)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHHHHhCCCCeEEEeeH------HHHHHHHHHHHHh--------ccHHHHHHHhh--cC
Confidence            45899999999999999999998 3322  34556653      3344444433321        11122334443  34


Q ss_pred             EEEEEcCcccc---cccc-ccccCCCC-CCCCeEEEEecCCh---------hHHhhccCCCeEeCCCCCHHHHHHHHHHh
Q 001457          261 VLIILDDLWGK---LDLA-VVGIPYGE-EHKGCKIILTSRFK---------EVCDEMESTNYVQVEELTDEDRLILFKKK  326 (1074)
Q Consensus       261 ~LlVlDdv~~~---~~~~-~~~~~~~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~  326 (1074)
                      =+||+||+...   ..|. .+..-+.. ...|..|||||+..         .+...+...-+++++..+.+.-.+++.++
T Consensus       379 DLLlIDDIq~l~gke~tqeeLF~l~N~l~e~gk~IIITSd~~P~eL~~l~~rL~SRf~~GLvv~I~~PD~EtR~aIL~kk  458 (617)
T PRK14086        379 DILLVDDIQFLEDKESTQEEFFHTFNTLHNANKQIVLSSDRPPKQLVTLEDRLRNRFEWGLITDVQPPELETRIAILRKK  458 (617)
T ss_pred             CEEEEehhccccCCHHHHHHHHHHHHHHHhcCCCEEEecCCChHhhhhccHHHHhhhhcCceEEcCCCCHHHHHHHHHHH
Confidence            57899999743   2222 12111111 12355688888752         22344455568999999999999999988


Q ss_pred             cCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          327 AGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       327 a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      +... ...--++++.-|++.+.+..
T Consensus       459 a~~r-~l~l~~eVi~yLa~r~~rnv  482 (617)
T PRK14086        459 AVQE-QLNAPPEVLEFIASRISRNI  482 (617)
T ss_pred             HHhc-CCCCCHHHHHHHHHhccCCH
Confidence            8622 12223577777777776543

>CHL00095 clpC Clp protease ATP binding subunit

Probab=97.42  E-value=0.0021  Score=80.37  Aligned_cols=154  Identities=17%  Similarity=0.253  Sum_probs=88.8

Q ss_pred             CcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCC-----CeEEEEEecCCcCHHHHHHH
Q 001457          158 EFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPF-----DKVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       158 ~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F-----~~~~wv~vs~~~~~~~~~~~  230 (1074)
                      .+.++.||+++++.+++.|....  ..-+.++|.+|+|||++|+.++..  ...-     +..+|. +    +...++. 
T Consensus       177 ~~~~~igr~~ei~~~~~~L~r~~--~~n~lL~G~pGvGKTal~~~la~~i~~~~vp~~l~~~~i~~-l----~~~~l~a-  248 (821)
T CHL00095        177 NLDPVIGREKEIERVIQILGRRT--KNNPILIGEPGVGKTAIAEGLAQRIVNRDVPDILEDKLVIT-L----DIGLLLA-  248 (821)
T ss_pred             CCCCCCCcHHHHHHHHHHHcccc--cCCeEEECCCCCCHHHHHHHHHHHHHhCCCChhhcCCeEEE-e----eHHHHhc-
Confidence            34557899999999999997665  345569999999999999999887  2111     344553 1    1111110 


Q ss_pred             HHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc---------cccccccCCCCCCCCeEEEEecCChhHHh
Q 001457          231 IARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL---------DLAVVGIPYGEEHKGCKIILTSRFKEVCD  301 (1074)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~---------~~~~~~~~~~~~~~gs~iivTTR~~~v~~  301 (1074)
                           +....+. -+.....+.+.+...++.+|++|++..-.         +...+..+.... ..-++|.+|..++...
T Consensus       249 -----g~~~~ge-~e~rl~~i~~~~~~~~~~ILfiDEih~l~~~g~~~g~~~~a~lLkp~l~r-g~l~~IgaTt~~ey~~  321 (821)
T CHL00095        249 -----GTKYRGE-FEERLKRIFDEIQENNNIILVIDEVHTLIGAGAAEGAIDAANILKPALAR-GELQCIGATTLDEYRK  321 (821)
T ss_pred             -----cCCCccH-HHHHHHHHHHHHHhcCCeEEEEecHHHHhcCCCCCCcccHHHHhHHHHhC-CCcEEEEeCCHHHHHH
Confidence                 1111121 23344444444444578999999986321         111122221111 1245666665554321


Q ss_pred             ------hc-cCCCeEeCCCCCHHHHHHHHHHh
Q 001457          302 ------EM-ESTNYVQVEELTDEDRLILFKKK  326 (1074)
Q Consensus       302 ------~~-~~~~~~~l~~L~~~~~~~lf~~~  326 (1074)
                            .+ ....++.++..+.++...++...
T Consensus       322 ~ie~D~aL~rRf~~I~v~ep~~~e~~aILr~l  353 (821)
T CHL00095        322 HIEKDPALERRFQPVYVGEPSVEETIEILFGL  353 (821)
T ss_pred             HHhcCHHHHhcceEEecCCCCHHHHHHHHHHH
Confidence                  11 12256788999999988887644

>PRK14948 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.41  E-value=0.0037  Score=74.71  Aligned_cols=195  Identities=14%  Similarity=0.070  Sum_probs=104.8

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~  234 (1074)
                      ..+..+.|.+..+..+..++..+. ..+.+.++|..|+||||+|+.+...  ...++...    ...+..-...+.+...
T Consensus        13 ~~f~~liGq~~i~~~L~~~l~~~r-l~~a~Lf~Gp~G~GKttlA~~lAk~L~c~~~~~~~----~~~Cg~C~~C~~i~~g   87 (620)
T PRK14948         13 QRFDELVGQEAIATTLKNALISNR-IAPAYLFTGPRGTGKTSSARILAKSLNCLNSDKPT----PEPCGKCELCRAIAAG   87 (620)
T ss_pred             CcHhhccChHHHHHHHHHHHHcCC-CCceEEEECCCCCChHHHHHHHHHHhcCCCcCCCC----CCCCcccHHHHHHhcC
Confidence            444556677787888888777654 1357789999999999999999888  22211100    0111112222223222


Q ss_pred             hccCC---C--cchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE-ecCChhHHhh
Q 001457          235 LNTEL---E--GDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL-TSRFKEVCDE  302 (1074)
Q Consensus       235 l~~~~---~--~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv-TTR~~~v~~~  302 (1074)
                      ...+.   +  .....+.+..+.+...    .+++-++|+|++..-  ..++.+...+........+|+ |+....+...
T Consensus        88 ~h~D~~ei~~~~~~~vd~IReii~~a~~~p~~~~~KViIIDEad~Lt~~a~naLLK~LEePp~~tvfIL~t~~~~~llpT  167 (620)
T PRK14948         88 NALDVIEIDAASNTGVDNIRELIERAQFAPVQARWKVYVIDECHMLSTAAFNALLKTLEEPPPRVVFVLATTDPQRVLPT  167 (620)
T ss_pred             CCccEEEEeccccCCHHHHHHHHHHHhhChhcCCceEEEEECccccCHHHHHHHHHHHhcCCcCeEEEEEeCChhhhhHH
Confidence            11110   0  0000111222222221    245668999998753  344444333332223455554 4443334332


Q ss_pred             c-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          303 M-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       303 ~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      + .....+++..++.++....+.+.+.... ..--.+.+..|++.++|-+..+..+
T Consensus       168 IrSRc~~~~f~~l~~~ei~~~L~~ia~keg-i~is~~al~~La~~s~G~lr~A~~l  222 (620)
T PRK14948        168 IISRCQRFDFRRIPLEAMVQHLSEIAEKES-IEIEPEALTLVAQRSQGGLRDAESL  222 (620)
T ss_pred             HHhheeEEEecCCCHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHcCCCHHHHHHH
Confidence            2 2235788889999988887776664211 1112356788999999987544433

>PRK12422 chromosomal replication initiation protein; Provisional

Probab=97.38  E-value=0.00098  Score=76.46  Aligned_cols=150  Identities=15%  Similarity=0.207  Sum_probs=86.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      ..-+.|+|..|+|||+|++.+.+. ......+++++.      ..+...+...+...        ....+++.+  ...-
T Consensus       141 ~npl~L~G~~G~GKTHLl~Ai~~~l~~~~~~v~yi~~------~~f~~~~~~~l~~~--------~~~~f~~~~--~~~d  204 (445)
T PRK12422        141 FNPIYLFGPEGSGKTHLMQAAVHALRESGGKILYVRS------ELFTEHLVSAIRSG--------EMQRFRQFY--RNVD  204 (445)
T ss_pred             CceEEEEcCCCCCHHHHHHHHHHHHHHcCCCEEEeeH------HHHHHHHHHHHhcc--------hHHHHHHHc--ccCC
Confidence            356889999999999999999998 333334566652      33444444444311        112233333  2455


Q ss_pred             EEEEcCcccccc--c--cccccCCCC-CCCCeEEEEecCCh---------hHHhhccCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          262 LIILDDLWGKLD--L--AVVGIPYGE-EHKGCKIILTSRFK---------EVCDEMESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       262 LlVlDdv~~~~~--~--~~~~~~~~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ++++||+.....  +  +.+...+.. ...|..||+||...         .+...+.....+++++++.++-..++.+++
T Consensus       205 vLiIDDiq~l~~k~~~qeelf~l~N~l~~~~k~IIlts~~~p~~l~~l~~rL~SR~~~Gl~~~l~~pd~e~r~~iL~~k~  284 (445)
T PRK12422        205 ALFIEDIEVFSGKGATQEEFFHTFNSLHTEGKLIVISSTCAPQDLKAMEERLISRFEWGIAIPLHPLTKEGLRSFLERKA  284 (445)
T ss_pred             EEEEcchhhhcCChhhHHHHHHHHHHHHHCCCcEEEecCCCHHHHhhhHHHHHhhhcCCeEEecCCCCHHHHHHHHHHHH
Confidence            888999865321  1  122111110 01355788887542         122333344688999999999999998887


Q ss_pred             CCCCCCchhHHHHHHHHHHhCC
Q 001457          328 GLPEGTKAFDRAAEEVVRQCGK  349 (1074)
Q Consensus       328 ~~~~~~~~~~~~~~~i~~~c~g  349 (1074)
                      .... ..--+++..-|++.+.|
T Consensus       285 ~~~~-~~l~~evl~~la~~~~~  305 (445)
T PRK12422        285 EALS-IRIEETALDFLIEALSS  305 (445)
T ss_pred             HHcC-CCCCHHHHHHHHHhcCC
Confidence            5221 12224556666666654

>PRK06647 DNA polymerase III subunits gamma and tau; Validated

Probab=97.37  E-value=0.0041  Score=73.45  Aligned_cols=192  Identities=13%  Similarity=0.091  Sum_probs=104.5

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--c-CCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--E-IPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~-~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +..+..+.|.+..++.+..++..+. -.+.+.++|+.|+||||+|+.+.+.  . .....   ..+....+    .+.|.
T Consensus        12 P~~f~diiGqe~iv~~L~~~i~~~~-i~hayLf~Gp~G~GKTt~Ar~lAk~L~c~~~~~~---~pC~~C~~----C~~i~   83 (563)
T PRK06647         12 PRDFNSLEGQDFVVETLKHSIESNK-IANAYIFSGPRGVGKTSSARAFARCLNCVNGPTP---MPCGECSS----CKSID   83 (563)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhccccCCCC---CCCccchH----HHHHH
Confidence            3445556678888888888887654 2456889999999999999999887  1 11100   00000000    01111


Q ss_pred             HHhccC---CCcc--hHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEec-CChhHH
Q 001457          233 RFLNTE---LEGD--VEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTS-RFKEVC  300 (1074)
Q Consensus       233 ~~l~~~---~~~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTT-R~~~v~  300 (1074)
                      ..-..+   .++.  ...+.+..+.+.+.    .+++-++|+|++..-  ..++.+...+......+.+|.+| ....+-
T Consensus        84 ~~~~~dv~~idgas~~~vddIr~l~e~~~~~p~~~~~KVvIIDEa~~Ls~~a~naLLK~LEepp~~~vfI~~tte~~kL~  163 (563)
T PRK06647         84 NDNSLDVIEIDGASNTSVQDVRQIKEEIMFPPASSRYRVYIIDEVHMLSNSAFNALLKTIEEPPPYIVFIFATTEVHKLP  163 (563)
T ss_pred             cCCCCCeEEecCcccCCHHHHHHHHHHHHhchhcCCCEEEEEEChhhcCHHHHHHHHHhhccCCCCEEEEEecCChHHhH
Confidence            100000   0000  00111112221111    256668999998753  34555544444333456666655 334443


Q ss_pred             hhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHH
Q 001457          301 DEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVI  356 (1074)
Q Consensus       301 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~  356 (1074)
                      ... .....+++.+++.++-.+.+.+.+... ..+-..+.+..|++.++|-+-.+..
T Consensus       164 ~tI~SRc~~~~f~~l~~~el~~~L~~i~~~e-gi~id~eAl~lLa~~s~GdlR~als  219 (563)
T PRK06647        164 ATIKSRCQHFNFRLLSLEKIYNMLKKVCLED-QIKYEDEALKWIAYKSTGSVRDAYT  219 (563)
T ss_pred             HHHHHhceEEEecCCCHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHcCCCHHHHHH
Confidence            222 223578999999999888887766421 1223356777899999997754433

>COG2255 RuvB Holliday junction resolvasome, helicase subunit [DNA replication, recombination, and repair]

Probab=97.34  E-value=0.014  Score=60.09  Aligned_cols=186  Identities=16%  Similarity=0.131  Sum_probs=91.3

Q ss_pred             CcccCcchHHHHHHHH---HHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          158 EFVPLKSALEVIKSVM---KLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       158 ~~~~~~~r~~~~~~l~---~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      .+..+.|.++.++++-   +.-...+..+..|.++|++|.||||||.-+.+. .-.+.    ++-........-+-.|+.
T Consensus        24 ~l~efiGQ~~vk~~L~ifI~AAk~r~e~lDHvLl~GPPGlGKTTLA~IIA~Emgvn~k----~tsGp~leK~gDlaaiLt   99 (332)
T COG2255          24 TLDEFIGQEKVKEQLQIFIKAAKKRGEALDHVLLFGPPGLGKTTLAHIIANELGVNLK----ITSGPALEKPGDLAAILT   99 (332)
T ss_pred             cHHHhcChHHHHHHHHHHHHHHHhcCCCcCeEEeeCCCCCcHHHHHHHHHHHhcCCeE----ecccccccChhhHHHHHh
Confidence            3334555555444433   333334445889999999999999999999998 43332    111111111111111222


Q ss_pred             HhccCC----Ccc--hHHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHhhccCC-
Q 001457          234 FLNTEL----EGD--VEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMEST-  306 (1074)
Q Consensus       234 ~l~~~~----~~~--~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~~~-  306 (1074)
                      .+....    ++-  ......+.+.-.+. +-+.=|++.-=   ..-..+...+++   =+=|=.|||.-.+....... 
T Consensus       100 ~Le~~DVLFIDEIHrl~~~vEE~LYpaME-Df~lDI~IG~g---p~Arsv~ldLpp---FTLIGATTr~G~lt~PLrdRF  172 (332)
T COG2255         100 NLEEGDVLFIDEIHRLSPAVEEVLYPAME-DFRLDIIIGKG---PAARSIRLDLPP---FTLIGATTRAGMLTNPLRDRF  172 (332)
T ss_pred             cCCcCCeEEEehhhhcChhHHHHhhhhhh-heeEEEEEccC---CccceEeccCCC---eeEeeeccccccccchhHHhc
Confidence            211100    000  00000011111111 12221222110   011112222222   23455799976664333222 


Q ss_pred             -CeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHH
Q 001457          307 -NYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       307 -~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~  355 (1074)
                       .+.+++.-+.+|-.++..+.|. .-...-.++.+.+|+++..|-|--+.
T Consensus       173 Gi~~rlefY~~~eL~~Iv~r~a~-~l~i~i~~~~a~eIA~rSRGTPRIAn  221 (332)
T COG2255         173 GIIQRLEFYTVEELEEIVKRSAK-ILGIEIDEEAALEIARRSRGTPRIAN  221 (332)
T ss_pred             CCeeeeecCCHHHHHHHHHHHHH-HhCCCCChHHHHHHHHhccCCcHHHH
Confidence             3678899999999999988875 11122335678999999999995433

>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=97.32  E-value=0.00084  Score=63.64  Aligned_cols=21  Identities=38%  Similarity=0.510  Sum_probs=19.9

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |.|+|++|+||||+|+.+++.
T Consensus         1 ill~G~~G~GKT~l~~~la~~   21 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQY   21 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHH
T ss_pred             CEEECcCCCCeeHHHHHHHhh
Confidence            579999999999999999998

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 ....

>PRK05707 DNA polymerase III subunit delta'; Validated

Probab=97.30  E-value=0.0062  Score=66.96  Aligned_cols=95  Identities=11%  Similarity=0.063  Sum_probs=58.4

Q ss_pred             cCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCChhH-Hhh-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCC
Q 001457          258 QKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFKEV-CDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGT  333 (1074)
Q Consensus       258 ~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~~v-~~~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~  333 (1074)
                      +++-++|+|+++.-  ...+.+...+-.-..++.+|+||.+.+. ... ......+.+.+++.+++.+.+.+....    
T Consensus       105 ~~~kv~iI~~a~~m~~~aaNaLLK~LEEPp~~~~fiL~t~~~~~ll~TI~SRc~~~~~~~~~~~~~~~~L~~~~~~----  180 (328)
T PRK05707        105 GGRKVVLIEPAEAMNRNAANALLKSLEEPSGDTVLLLISHQPSRLLPTIKSRCQQQACPLPSNEESLQWLQQALPE----  180 (328)
T ss_pred             CCCeEEEECChhhCCHHHHHHHHHHHhCCCCCeEEEEEECChhhCcHHHHhhceeeeCCCcCHHHHHHHHHHhccc----
Confidence            45555677998753  3333333222222346777777766543 322 233467999999999999888765421    


Q ss_pred             chhHHHHHHHHHHhCCChHHHHHH
Q 001457          334 KAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       334 ~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                       ...+.+..++..++|.|..+..+
T Consensus       181 -~~~~~~~~~l~la~Gsp~~A~~l  203 (328)
T PRK05707        181 -SDERERIELLTLAGGSPLRALQL  203 (328)
T ss_pred             -CChHHHHHHHHHcCCCHHHHHHH
Confidence             12344567789999999755544

>KOG4579 consensus Leucine-rich repeat (LRR) protein associated with apoptosis in muscle tissue [General function prediction only]

Probab=97.29  E-value=2.8e-05  Score=70.01  Aligned_cols=109  Identities=20%  Similarity=0.274  Sum_probs=80.5

Q ss_pred             ccEEEccCCCCCCCChh--HHhcCCCccEEEecCCccCCCCCCccC-CccCCeeeccCCCCCC-CccccCCCCccEEEee
Q 001457          533 LTTLFLQNNPFADIPNA--FFEHTREIKNLDLSSTNISSLAPSLPC-LEKLRSLHLENTHLND-ASLIREFGELEVLILK  608 (1074)
Q Consensus       533 Lr~L~l~~~~~~~~~~~--~~~~l~~L~~L~l~~~~~~~lp~~i~~-l~~Lr~L~L~~~~l~~-~~~i~~l~~L~~L~L~  608 (1074)
                      +..++|+.|.+-.+++.  -..+..+|...++++|.+.++|+.+.. .+.+..|++.+|.|++ |..+..++.|+.|+++
T Consensus        29 ~h~ldLssc~lm~i~davy~l~~~~el~~i~ls~N~fk~fp~kft~kf~t~t~lNl~~neisdvPeE~Aam~aLr~lNl~  108 (177)
T KOG4579|consen   29 LHFLDLSSCQLMYIADAVYMLSKGYELTKISLSDNGFKKFPKKFTIKFPTATTLNLANNEISDVPEELAAMPALRSLNLR  108 (177)
T ss_pred             hhhcccccchhhHHHHHHHHHhCCceEEEEecccchhhhCCHHHhhccchhhhhhcchhhhhhchHHHhhhHHhhhcccc
Confidence            34455666654444432  234566788889999999988886654 4578888999998888 8888888888888888


Q ss_pred             CCCCcccCccccCCCCCCEEeCCCCcCCCCcChh
Q 001457          609 GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPN  642 (1074)
Q Consensus       609 ~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~  642 (1074)
                      .|.+...|.-|..|.+|-.|+..++.. ..+|.+
T Consensus       109 ~N~l~~~p~vi~~L~~l~~Lds~~na~-~eid~d  141 (177)
T KOG4579|consen  109 FNPLNAEPRVIAPLIKLDMLDSPENAR-AEIDVD  141 (177)
T ss_pred             cCccccchHHHHHHHhHHHhcCCCCcc-ccCcHH
Confidence            888888888888888888888877763 444443

>PTZ00454 26S protease regulatory subunit 6B-like protein; Provisional

Probab=97.28  E-value=0.0038  Score=70.46  Aligned_cols=149  Identities=15%  Similarity=0.223  Sum_probs=81.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+-|.++|++|+|||++|+.+.+. ...|     +.+..    ..+...   ..+     .. ......+........+.
T Consensus       179 pkgvLL~GppGTGKT~LAkalA~~l~~~f-----i~i~~----s~l~~k---~~g-----e~-~~~lr~lf~~A~~~~P~  240 (398)
T PTZ00454        179 PRGVLLYGPPGTGKTMLAKAVAHHTTATF-----IRVVG----SEFVQK---YLG-----EG-PRMVRDVFRLARENAPS  240 (398)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhcCCCE-----EEEeh----HHHHHH---hcc-----hh-HHHHHHHHHHHHhcCCe
Confidence            567889999999999999999998 4443     22211    111111   111     11 11222233333346789


Q ss_pred             EEEEcCccccc------------c----ccccccCCC--CCCCCeEEEEecCChhHHh-h-c---cCCCeEeCCCCCHHH
Q 001457          262 LIILDDLWGKL------------D----LAVVGIPYG--EEHKGCKIILTSRFKEVCD-E-M---ESTNYVQVEELTDED  318 (1074)
Q Consensus       262 LlVlDdv~~~~------------~----~~~~~~~~~--~~~~gs~iivTTR~~~v~~-~-~---~~~~~~~l~~L~~~~  318 (1074)
                      +|++|+++...            .    +..+...+.  ....+..||+||...+... . .   .-+..+.++..+.++
T Consensus       241 ILfIDEID~i~~~r~~~~~~~d~~~~r~l~~LL~~ld~~~~~~~v~VI~aTN~~d~LDpAllR~GRfd~~I~~~~P~~~~  320 (398)
T PTZ00454        241 IIFIDEVDSIATKRFDAQTGADREVQRILLELLNQMDGFDQTTNVKVIMATNRADTLDPALLRPGRLDRKIEFPLPDRRQ  320 (398)
T ss_pred             EEEEECHhhhccccccccCCccHHHHHHHHHHHHHhhccCCCCCEEEEEecCCchhCCHHHcCCCcccEEEEeCCcCHHH
Confidence            99999976420            0    111111111  1224567888887655421 1 1   223568899999999


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          319 RLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       319 ~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      ...+|..+.......++  -...++++.+.|.-
T Consensus       321 R~~Il~~~~~~~~l~~d--vd~~~la~~t~g~s  351 (398)
T PTZ00454        321 KRLIFQTITSKMNLSEE--VDLEDFVSRPEKIS  351 (398)
T ss_pred             HHHHHHHHHhcCCCCcc--cCHHHHHHHcCCCC
Confidence            88888776642211111  11345566666654

>PRK05563 DNA polymerase III subunits gamma and tau; Validated

Probab=97.25  E-value=0.0077  Score=71.47  Aligned_cols=191  Identities=14%  Similarity=0.073  Sum_probs=102.5

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +..+..+.|.+...+.+.+++..+. -.+.+.++|+.|+||||+|+.+...  ..+-.      -...++.-...+.|..
T Consensus        12 P~~f~~viGq~~v~~~L~~~i~~~~-~~hayLf~Gp~GtGKTt~Ak~lAkal~c~~~~------~~~pC~~C~~C~~i~~   84 (559)
T PRK05563         12 PQTFEDVVGQEHITKTLKNAIKQGK-ISHAYLFSGPRGTGKTSAAKIFAKAVNCLNPP------DGEPCNECEICKAITN   84 (559)
T ss_pred             CCcHHhccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHHhcCCCCC------CCCCCCccHHHHHHhc
Confidence            4445567788888888888877654 2356778999999999999998776  11100      0001111111222211


Q ss_pred             HhccCC---Ccc--hHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE-ecCChhHHh
Q 001457          234 FLNTEL---EGD--VEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL-TSRFKEVCD  301 (1074)
Q Consensus       234 ~l~~~~---~~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv-TTR~~~v~~  301 (1074)
                      ....+.   +..  ...+.+..+.+...    .+++-++|+|++..-  ..+..+...+........+|+ ||....+..
T Consensus        85 g~~~dv~eidaas~~~vd~ir~i~~~v~~~p~~~~~kViIIDE~~~Lt~~a~naLLKtLEepp~~~ifIlatt~~~ki~~  164 (559)
T PRK05563         85 GSLMDVIEIDAASNNGVDEIRDIRDKVKYAPSEAKYKVYIIDEVHMLSTGAFNALLKTLEEPPAHVIFILATTEPHKIPA  164 (559)
T ss_pred             CCCCCeEEeeccccCCHHHHHHHHHHHhhCcccCCeEEEEEECcccCCHHHHHHHHHHhcCCCCCeEEEEEeCChhhCcH
Confidence            111000   000  00111222222221    356778899998743  344444333322223445554 454444432


Q ss_pred             h-ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          302 E-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       302 ~-~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      . ......+++.+++.++....+...+.... ..-..+....|++.++|-+..+
T Consensus       165 tI~SRc~~~~f~~~~~~ei~~~L~~i~~~eg-i~i~~~al~~ia~~s~G~~R~a  217 (559)
T PRK05563        165 TILSRCQRFDFKRISVEDIVERLKYILDKEG-IEYEDEALRLIARAAEGGMRDA  217 (559)
T ss_pred             HHHhHheEEecCCCCHHHHHHHHHHHHHHcC-CCCCHHHHHHHHHHcCCCHHHH
Confidence            2 22335788999999998888877664211 1222466778888888877433

>PRK08181 transposase; Validated

Probab=97.25  E-value=0.0018  Score=68.70  Aligned_cols=71  Identities=24%  Similarity=0.217  Sum_probs=43.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL  262 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L  262 (1074)
                      .-+.++|++|+|||.||..+.+. ......++|+++      .++...+.....    .    .....+.+.+.  +-=|
T Consensus       107 ~nlll~Gp~GtGKTHLa~Aia~~a~~~g~~v~f~~~------~~L~~~l~~a~~----~----~~~~~~l~~l~--~~dL  170 (269)
T PRK08181        107 ANLLLFGPPGGGKSHLAAAIGLALIENGWRVLFTRT------TDLVQKLQVARR----E----LQLESAIAKLD--KFDL  170 (269)
T ss_pred             ceEEEEecCCCcHHHHHHHHHHHHHHcCCceeeeeH------HHHHHHHHHHHh----C----CcHHHHHHHHh--cCCE
Confidence            35899999999999999999988 333344566653      444444433211    0    11122333342  4569


Q ss_pred             EEEcCccc
Q 001457          263 IILDDLWG  270 (1074)
Q Consensus       263 lVlDdv~~  270 (1074)
                      ||+||+..
T Consensus       171 LIIDDlg~  178 (269)
T PRK08181        171 LILDDLAY  178 (269)
T ss_pred             EEEecccc
Confidence            99999853

>CHL00176 ftsH cell division protein; Validated

Probab=97.21  E-value=0.003  Score=75.57  Aligned_cols=174  Identities=19%  Similarity=0.242  Sum_probs=97.3

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCC-------CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNS-------ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~-------~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~  228 (1074)
                      .++.|.+...+++.+++..+....       ...+-|.++|++|+|||++|+.+++. ...     |+.++..    ++.
T Consensus       183 ~dv~G~~~~k~~l~eiv~~lk~~~~~~~~g~~~p~gVLL~GPpGTGKT~LAralA~e~~~p-----~i~is~s----~f~  253 (638)
T CHL00176        183 RDIAGIEEAKEEFEEVVSFLKKPERFTAVGAKIPKGVLLVGPPGTGKTLLAKAIAGEAEVP-----FFSISGS----EFV  253 (638)
T ss_pred             HhccChHHHHHHHHHHHHHHhCHHHHhhccCCCCceEEEECCCCCCHHHHHHHHHHHhCCC-----eeeccHH----HHH
Confidence            445555556666777777765432       12456899999999999999999987 333     2333321    111


Q ss_pred             HHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc------------c----ccccccCCC--CCCCCeEE
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL------------D----LAVVGIPYG--EEHKGCKI  290 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~------------~----~~~~~~~~~--~~~~gs~i  290 (1074)
                      ...   .+     .. ......+.+....+.+++|++||++...            .    +..+...+.  ....+-.|
T Consensus       254 ~~~---~g-----~~-~~~vr~lF~~A~~~~P~ILfIDEID~l~~~r~~~~~~~~~e~~~~L~~LL~~~dg~~~~~~ViV  324 (638)
T CHL00176        254 EMF---VG-----VG-AARVRDLFKKAKENSPCIVFIDEIDAVGRQRGAGIGGGNDEREQTLNQLLTEMDGFKGNKGVIV  324 (638)
T ss_pred             HHh---hh-----hh-HHHHHHHHHHHhcCCCcEEEEecchhhhhcccCCCCCCcHHHHHHHHHHHhhhccccCCCCeeE
Confidence            000   00     00 1112222223334678999999996320            1    112211111  12345677


Q ss_pred             EEecCChhHHh-hc----cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCC
Q 001457          291 ILTSRFKEVCD-EM----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKL  350 (1074)
Q Consensus       291 ivTTR~~~v~~-~~----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~gl  350 (1074)
                      |.||...+... .+    .-+..+.+...+.++-.++++.++......  .......+++.+.|.
T Consensus       325 IaaTN~~~~LD~ALlRpGRFd~~I~v~lPd~~~R~~IL~~~l~~~~~~--~d~~l~~lA~~t~G~  387 (638)
T CHL00176        325 IAATNRVDILDAALLRPGRFDRQITVSLPDREGRLDILKVHARNKKLS--PDVSLELIARRTPGF  387 (638)
T ss_pred             EEecCchHhhhhhhhccccCceEEEECCCCHHHHHHHHHHHHhhcccc--hhHHHHHHHhcCCCC
Confidence            77776654422 11    123578888889999999998887532111  123456677787773

>PRK08118 topology modulation protein; Reviewed

Probab=97.19  E-value=0.0002  Score=70.61  Aligned_cols=31  Identities=35%  Similarity=0.535  Sum_probs=27.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh----cCCCCeEEE
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ----EIPFDKVIF  215 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~----~~~F~~~~w  215 (1074)
                      -|.|+|++|+||||||+.+++.    .-+||..+|
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l~~~~~~lD~l~~   37 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKLNIPVHHLDALFW   37 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHhCCCceecchhhc
Confidence            5889999999999999999998    356787776

>PRK14965 DNA polymerase III subunits gamma and tau; Provisional

Probab=97.15  E-value=0.0055  Score=73.09  Aligned_cols=193  Identities=16%  Similarity=0.144  Sum_probs=101.4

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC-CCeEEEEEecCCcCHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP-FDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~-F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +..+..+.|.+..++.+...+..+. -.+.+.++|+.|+||||+|+.+.+.  ..+ .+.       ..++.-...+.|.
T Consensus        12 P~~f~~iiGq~~v~~~L~~~i~~~~-~~hayLf~Gp~G~GKtt~A~~lak~l~c~~~~~~-------~~c~~c~~c~~i~   83 (576)
T PRK14965         12 PQTFSDLTGQEHVSRTLQNAIDTGR-VAHAFLFTGARGVGKTSTARILAKALNCEQGLTA-------EPCNVCPPCVEIT   83 (576)
T ss_pred             CCCHHHccCcHHHHHHHHHHHHcCC-CCeEEEEECCCCCCHHHHHHHHHHhhcCCCCCCC-------CCCCccHHHHHHh
Confidence            3445556677777788888877654 1356689999999999999998877  111 100       0001111111111


Q ss_pred             HHhccC---CCc--chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEE-ecCChhHH
Q 001457          233 RFLNTE---LEG--DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIIL-TSRFKEVC  300 (1074)
Q Consensus       233 ~~l~~~---~~~--~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iiv-TTR~~~v~  300 (1074)
                      ..-..+   .+.  ....+.+..+.+.+.    .+++-++|+|++..-  ...+.+...+-.....+.+|+ ||....+.
T Consensus        84 ~g~~~d~~eid~~s~~~v~~ir~l~~~~~~~p~~~~~KVvIIdev~~Lt~~a~naLLk~LEepp~~~~fIl~t~~~~kl~  163 (576)
T PRK14965         84 EGRSVDVFEIDGASNTGVDDIRELRENVKYLPSRSRYKIFIIDEVHMLSTNAFNALLKTLEEPPPHVKFIFATTEPHKVP  163 (576)
T ss_pred             cCCCCCeeeeeccCccCHHHHHHHHHHHHhccccCCceEEEEEChhhCCHHHHHHHHHHHHcCCCCeEEEEEeCChhhhh
Confidence            100000   000  000111222222221    245668899998753  233333333322233555554 55555554


Q ss_pred             hhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh-HHHHHH
Q 001457          301 DEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP-NAIVII  357 (1074)
Q Consensus       301 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP-Lai~~~  357 (1074)
                      ... .....+++++++.++....+...+.... ..-..+....|++.++|-. .|+..+
T Consensus       164 ~tI~SRc~~~~f~~l~~~~i~~~L~~i~~~eg-i~i~~~al~~la~~a~G~lr~al~~L  221 (576)
T PRK14965        164 ITILSRCQRFDFRRIPLQKIVDRLRYIADQEG-ISISDAALALVARKGDGSMRDSLSTL  221 (576)
T ss_pred             HHHHHhhhhhhcCCCCHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHcCCCHHHHHHHH
Confidence            332 2335788999999988877776554211 1223456778888888865 444444

>PRK07399 DNA polymerase III subunit delta'; Validated

Probab=97.14  E-value=0.012  Score=64.49  Aligned_cols=192  Identities=13%  Similarity=0.110  Sum_probs=103.1

Q ss_pred             cCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC--------------CCeEEEEEecCCcCH
Q 001457          161 PLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP--------------FDKVIFVRVTQTPDV  224 (1074)
Q Consensus       161 ~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~--------------F~~~~wv~vs~~~~~  224 (1074)
                      .+.|.+..++.+...+..+. -.+...++|+.|+||+++|..+...  ...              ..-..|+.-....+-
T Consensus         5 ~iiGq~~~~~~L~~~i~~~r-l~ha~Lf~G~~G~Gk~~~A~~~a~~llc~~~c~~c~~~~~~~~~hPDl~~i~p~~~~~g   83 (314)
T PRK07399          5 NLIGQPLAIELLTAAIKQNR-IAPAYLFAGPEGVGRKLAALCFIEGLLSQGSPSKNIRRRLEEGNHPDLLWVEPTYQHQG   83 (314)
T ss_pred             HhCCHHHHHHHHHHHHHhCC-CCceEEEECCCCCCHHHHHHHHHHHHcCCCCCCCcHhcccccCCCCCEEEEeccccccc
Confidence            45677777888888776654 2378999999999999999888776  211              112234321000000


Q ss_pred             HHHHHHHHHHhcc--CCCcchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCC
Q 001457          225 KRVQDEIARFLNT--ELEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRF  296 (1074)
Q Consensus       225 ~~~~~~i~~~l~~--~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~  296 (1074)
                      ..+..+-+...+.  ........+.++.+.+.+.    .+++-++|+|++..-  ...+.+...+-.-.+..=|++|++.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~~I~id~ir~i~~~l~~~p~~~~~kVvII~~ae~m~~~aaNaLLK~LEEPp~~~fILi~~~~  163 (314)
T PRK07399         84 KLITASEAEEAGLKRKAPPQIRLEQIREIKRFLSRPPLEAPRKVVVIEDAETMNEAAANALLKTLEEPGNGTLILIAPSP  163 (314)
T ss_pred             cccchhhhhhccccccccccCcHHHHHHHHHHHccCcccCCceEEEEEchhhcCHHHHHHHHHHHhCCCCCeEEEEECCh
Confidence            0000111111110  0000111222334444443    367778999998643  2233332222111223344455554


Q ss_pred             hhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          297 KEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       297 ~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      ..+...+ .....+++.++++++..+.+.+......    .......++..++|-|..+...
T Consensus       164 ~~Ll~TI~SRcq~i~f~~l~~~~~~~~L~~~~~~~~----~~~~~~~l~~~a~Gs~~~al~~  221 (314)
T PRK07399        164 ESLLPTIVSRCQIIPFYRLSDEQLEQVLKRLGDEEI----LNINFPELLALAQGSPGAAIAN  221 (314)
T ss_pred             HhCcHHHHhhceEEecCCCCHHHHHHHHHHhhcccc----chhHHHHHHHHcCCCHHHHHHH
Confidence            4443333 3347899999999999999987743111    1111357899999999655443

>COG1222 RPT1 ATP-dependent 26S proteasome regulatory subunit [Posttranslational modification, protein turnover, chaperones]

Probab=97.13  E-value=0.0091  Score=63.47  Aligned_cols=201  Identities=16%  Similarity=0.209  Sum_probs=112.3

Q ss_pred             CCCCCcccCcchHHHHHHHHHHHhc----CC-------CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCC
Q 001457          154 IPTPEFVPLKSALEVIKSVMKLLKD----NS-------ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQT  221 (1074)
Q Consensus       154 ~~~~~~~~~~~r~~~~~~l~~~l~~----~~-------~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~  221 (1074)
                      .|.-.+..+.|-++.++++-+.+.-    .+       ...+=|.+||++|.|||-||++|+++ ...|     +.|..+
T Consensus       145 ~PdvtY~dIGGL~~Qi~EirE~VELPL~~PElF~~~GI~PPKGVLLYGPPGTGKTLLAkAVA~~T~AtF-----IrvvgS  219 (406)
T COG1222         145 KPDVTYEDIGGLDEQIQEIREVVELPLKNPELFEELGIDPPKGVLLYGPPGTGKTLLAKAVANQTDATF-----IRVVGS  219 (406)
T ss_pred             CCCCChhhccCHHHHHHHHHHHhcccccCHHHHHHcCCCCCCceEeeCCCCCcHHHHHHHHHhccCceE-----EEeccH
Confidence            4455555566766666666655421    11       23677889999999999999999998 5544     555443


Q ss_pred             cCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc----------c------ccccccCCC--C
Q 001457          222 PDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL----------D------LAVVGIPYG--E  283 (1074)
Q Consensus       222 ~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~----------~------~~~~~~~~~--~  283 (1074)
                      .-+.+.       +|.      -......+.+.-+.+....|.+|.++...          +      .-++...+.  +
T Consensus       220 ElVqKY-------iGE------GaRlVRelF~lArekaPsIIFiDEIDAIg~kR~d~~t~gDrEVQRTmleLL~qlDGFD  286 (406)
T COG1222         220 ELVQKY-------IGE------GARLVRELFELAREKAPSIIFIDEIDAIGAKRFDSGTSGDREVQRTMLELLNQLDGFD  286 (406)
T ss_pred             HHHHHH-------hcc------chHHHHHHHHHHhhcCCeEEEEechhhhhcccccCCCCchHHHHHHHHHHHHhccCCC
Confidence            211111       110      01223333333446788999999886420          0      111222222  2


Q ss_pred             CCCCeEEEEecCChhHHh-----hccCCCeEeCCCCCHHHHHHHHHHhcCC--CCCCchhHHHHHHHHHHhCCCh----H
Q 001457          284 EHKGCKIILTSRFKEVCD-----EMESTNYVQVEELTDEDRLILFKKKAGL--PEGTKAFDRAAEEVVRQCGKLP----N  352 (1074)
Q Consensus       284 ~~~gs~iivTTR~~~v~~-----~~~~~~~~~l~~L~~~~~~~lf~~~a~~--~~~~~~~~~~~~~i~~~c~glP----L  352 (1074)
                      ....-|||..|--.++..     .-.-++.++++.=+.+.-.++|+-++..  -.+.-+++    .|++.|.|.-    -
T Consensus       287 ~~~nvKVI~ATNR~D~LDPALLRPGR~DRkIEfplPd~~gR~~Il~IHtrkM~l~~dvd~e----~la~~~~g~sGAdlk  362 (406)
T COG1222         287 PRGNVKVIMATNRPDILDPALLRPGRFDRKIEFPLPDEEGRAEILKIHTRKMNLADDVDLE----LLARLTEGFSGADLK  362 (406)
T ss_pred             CCCCeEEEEecCCccccChhhcCCCcccceeecCCCCHHHHHHHHHHHhhhccCccCcCHH----HHHHhcCCCchHHHH
Confidence            233568998887666522     2223467888865666666778777652  22233333    4666676654    4


Q ss_pred             HHHHHHHHHc--C-C---ChhHHHHHHHHH
Q 001457          353 AIVIIGTALR--H-K---PVREWNEAIKRK  376 (1074)
Q Consensus       353 ai~~~~~~l~--~-~---~~~~w~~~~~~l  376 (1074)
                      |+.+=|++++  . +   +.+.+..+.+..
T Consensus       363 aictEAGm~AiR~~R~~Vt~~DF~~Av~KV  392 (406)
T COG1222         363 AICTEAGMFAIRERRDEVTMEDFLKAVEKV  392 (406)
T ss_pred             HHHHHHhHHHHHhccCeecHHHHHHHHHHH
Confidence            5666666663  2 1   345555555543

>TIGR00763 lon ATP-dependent protease La

Probab=97.11  E-value=0.017  Score=71.89  Aligned_cols=48  Identities=25%  Similarity=0.367  Sum_probs=33.9

Q ss_pred             cchHHHHHHHHHHHhc----CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          163 KSALEVIKSVMKLLKD----NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       163 ~~r~~~~~~l~~~l~~----~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      .|.++.++.+.+++..    ....-+++.++|++|+|||++|+.+.+. ...|
T Consensus       323 ~G~~~~k~~i~~~~~~~~~~~~~~~~~lll~GppG~GKT~lAk~iA~~l~~~~  375 (775)
T TIGR00763       323 YGLKKVKERILEYLAVQKLRGKMKGPILCLVGPPGVGKTSLGKSIAKALNRKF  375 (775)
T ss_pred             CChHHHHHHHHHHHHHHHhhcCCCCceEEEECCCCCCHHHHHHHHHHHhcCCe
Confidence            3556666666665431    1222458999999999999999999988 5554

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.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=97.08  E-value=0.0029  Score=77.06  Aligned_cols=156  Identities=16%  Similarity=0.220  Sum_probs=88.5

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC-----CCeEEEEEecCCcCHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP-----FDKVIFVRVTQTPDVKRVQD  229 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~-----F~~~~wv~vs~~~~~~~~~~  229 (1074)
                      ..+.++.||++++.++++.|....  ..-+.++|.+|+|||++|+.+...  ...     .++.+|..     +...+  
T Consensus       183 g~~~~liGR~~ei~~~i~iL~r~~--~~n~LLvGppGvGKT~lae~la~~i~~~~vP~~l~~~~~~~l-----~~~~l--  253 (758)
T PRK11034        183 GGIDPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSL-----DIGSL--  253 (758)
T ss_pred             CCCCcCcCCCHHHHHHHHHHhccC--CCCeEEECCCCCCHHHHHHHHHHHHHhcCCCchhcCCeEEec-----cHHHH--
Confidence            334457789999999999887754  334468999999999999999877  221     24455521     11111  


Q ss_pred             HHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc----------ccccccccCCCCCCCCeEEEEecCChhH
Q 001457          230 EIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK----------LDLAVVGIPYGEEHKGCKIILTSRFKEV  299 (1074)
Q Consensus       230 ~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~----------~~~~~~~~~~~~~~~gs~iivTTR~~~v  299 (1074)
                        +.  +....+ ..+.....+.+.+...++.+|++|++...          .+...+..++... ..-+||-+|...+.
T Consensus       254 --la--G~~~~G-e~e~rl~~l~~~l~~~~~~ILfIDEIh~L~g~g~~~~g~~d~~nlLkp~L~~-g~i~vIgATt~~E~  327 (758)
T PRK11034        254 --LA--GTKYRG-DFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLSS-GKIRVIGSTTYQEF  327 (758)
T ss_pred             --hc--ccchhh-hHHHHHHHHHHHHHhcCCCEEEeccHHHHhccCCCCCcHHHHHHHHHHHHhC-CCeEEEecCChHHH
Confidence              10  111111 11233334444444456789999998642          1111122222211 23455655554442


Q ss_pred             Hhhc-------cCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          300 CDEM-------ESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       300 ~~~~-------~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ...+       ..-..+.++..+.++..+++....
T Consensus       328 ~~~~~~D~AL~rRFq~I~v~ePs~~~~~~IL~~~~  362 (758)
T PRK11034        328 SNIFEKDRALARRFQKIDITEPSIEETVQIINGLK  362 (758)
T ss_pred             HHHhhccHHHHhhCcEEEeCCCCHHHHHHHHHHHH
Confidence            1111       112478999999999999987654

>TIGR01241 FtsH_fam ATP-dependent metalloprotease FtsH

Probab=97.05  E-value=0.014  Score=68.81  Aligned_cols=149  Identities=18%  Similarity=0.184  Sum_probs=80.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+-+.++|++|+|||++|+.+.+. ...|     +.++..    ++....   .+     .. ......+.+..+...+.
T Consensus        88 ~~giLL~GppGtGKT~la~alA~~~~~~~-----~~i~~~----~~~~~~---~g-----~~-~~~l~~~f~~a~~~~p~  149 (495)
T TIGR01241        88 PKGVLLVGPPGTGKTLLAKAVAGEAGVPF-----FSISGS----DFVEMF---VG-----VG-ASRVRDLFEQAKKNAPC  149 (495)
T ss_pred             CCcEEEECCCCCCHHHHHHHHHHHcCCCe-----eeccHH----HHHHHH---hc-----cc-HHHHHHHHHHHHhcCCC
Confidence            346889999999999999999987 4333     333221    111100   00     01 11122222222335678


Q ss_pred             EEEEcCccccc----c--------c----cccccCCC--CCCCCeEEEEecCChhHH-hhc----cCCCeEeCCCCCHHH
Q 001457          262 LIILDDLWGKL----D--------L----AVVGIPYG--EEHKGCKIILTSRFKEVC-DEM----ESTNYVQVEELTDED  318 (1074)
Q Consensus       262 LlVlDdv~~~~----~--------~----~~~~~~~~--~~~~gs~iivTTR~~~v~-~~~----~~~~~~~l~~L~~~~  318 (1074)
                      +|++||++...    .        +    ..+...+.  ....+-.||.||...+.. ..+    .-+..+.++..+.++
T Consensus       150 Il~iDEid~l~~~r~~~~~~~~~~~~~~~~~lL~~~d~~~~~~~v~vI~aTn~~~~ld~al~r~gRfd~~i~i~~Pd~~~  229 (495)
T TIGR01241       150 IIFIDEIDAVGRQRGAGLGGGNDEREQTLNQLLVEMDGFGTNTGVIVIAATNRPDVLDPALLRPGRFDRQVVVDLPDIKG  229 (495)
T ss_pred             EEEEechhhhhhccccCcCCccHHHHHHHHHHHhhhccccCCCCeEEEEecCChhhcCHHHhcCCcceEEEEcCCCCHHH
Confidence            99999986421    0        1    11111111  122345667677654421 111    233578899999999


Q ss_pred             HHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          319 RLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       319 ~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      -.++|..+.......+  ......+++.+.|.-
T Consensus       230 R~~il~~~l~~~~~~~--~~~l~~la~~t~G~s  260 (495)
T TIGR01241       230 REEILKVHAKNKKLAP--DVDLKAVARRTPGFS  260 (495)
T ss_pred             HHHHHHHHHhcCCCCc--chhHHHHHHhCCCCC
Confidence            9999988775322111  122347788887743

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.

>COG3267 ExeA Type II secretory pathway, component ExeA (predicted ATPase) [Intracellular trafficking and secretion]

Probab=97.04  E-value=0.032  Score=56.84  Aligned_cols=175  Identities=18%  Similarity=0.211  Sum_probs=101.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEec-CCcCHHHHHHHHHHHhccCCCcchH---HHHHHHHHHHHHc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVT-QTPDVKRVQDEIARFLNTELEGDVE---VLRAAFLSERLKR  257 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs-~~~~~~~~~~~i~~~l~~~~~~~~~---~~~~~~l~~~l~~  257 (1074)
                      .+++.++|.-|+|||++.|..... .+  +.++=|.+. +..+...+...|+..+..+......   ......+....++
T Consensus        51 qg~~~vtGevGsGKTv~~Ral~~s~~~--d~~~~v~i~~~~~s~~~~~~ai~~~l~~~p~~~~~~~~e~~~~~L~al~~~  128 (269)
T COG3267          51 QGILAVTGEVGSGKTVLRRALLASLNE--DQVAVVVIDKPTLSDATLLEAIVADLESQPKVNVNAVLEQIDRELAALVKK  128 (269)
T ss_pred             CceEEEEecCCCchhHHHHHHHHhcCC--CceEEEEecCcchhHHHHHHHHHHHhccCccchhHHHHHHHHHHHHHHHHh
Confidence            579999999999999999955444 21  112223333 4566778888888888763221111   2334455555566


Q ss_pred             cCe-EEEEEcCcccc--ccccccccCCCCCCCCe---EEEEecC--------ChhHHhhc-cCCCeEeCCCCCHHHHHHH
Q 001457          258 QKR-VLIILDDLWGK--LDLAVVGIPYGEEHKGC---KIILTSR--------FKEVCDEM-ESTNYVQVEELTDEDRLIL  322 (1074)
Q Consensus       258 ~k~-~LlVlDdv~~~--~~~~~~~~~~~~~~~gs---~iivTTR--------~~~v~~~~-~~~~~~~l~~L~~~~~~~l  322 (1074)
                      ++| ..+++||....  +..+.++....-...++   +|+..-.        -......- ..+-.|++.|++.++.-.+
T Consensus       129 g~r~v~l~vdEah~L~~~~le~Lrll~nl~~~~~~~l~ivL~Gqp~L~~~lr~~~l~e~~~R~~ir~~l~P~~~~~t~~y  208 (269)
T COG3267         129 GKRPVVLMVDEAHDLNDSALEALRLLTNLEEDSSKLLSIVLIGQPKLRPRLRLPVLRELEQRIDIRIELPPLTEAETGLY  208 (269)
T ss_pred             CCCCeEEeehhHhhhChhHHHHHHHHHhhcccccCceeeeecCCcccchhhchHHHHhhhheEEEEEecCCcChHHHHHH
Confidence            888 99999997643  23333221111000111   2332221        11111111 1112389999999988888


Q ss_pred             HHHhcCCCCCCc--hhHHHHHHHHHHhCCChHHHHHHHH
Q 001457          323 FKKKAGLPEGTK--AFDRAAEEVVRQCGKLPNAIVIIGT  359 (1074)
Q Consensus       323 f~~~a~~~~~~~--~~~~~~~~i~~~c~glPLai~~~~~  359 (1074)
                      +..+......++  -..+....|.....|.|.+|..++.
T Consensus       209 l~~~Le~a~~~~~l~~~~a~~~i~~~sqg~P~lin~~~~  247 (269)
T COG3267         209 LRHRLEGAGLPEPLFSDDALLLIHEASQGIPRLINNLAT  247 (269)
T ss_pred             HHHHHhccCCCcccCChhHHHHHHHHhccchHHHHHHHH
Confidence            877665222222  2356678899999999999887764

>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=97.03  E-value=0.0026  Score=65.48  Aligned_cols=35  Identities=29%  Similarity=0.483  Sum_probs=29.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEe
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRV  218 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~v  218 (1074)
                      --++|+|..|+||||++..+... ...|+++++++-
T Consensus        14 fr~viIG~sGSGKT~li~~lL~~~~~~f~~I~l~t~   49 (241)
T PF04665_consen   14 FRMVIIGKSGSGKTTLIKSLLYYLRHKFDHIFLITP   49 (241)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHhhcccCCEEEEEec
Confidence            36779999999999999999988 888988877754

This is thought to be an ATPase involved in viral DNA packaging [].

>COG0593 DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair]

Probab=97.03  E-value=0.017  Score=64.15  Aligned_cols=130  Identities=22%  Similarity=0.308  Sum_probs=79.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCC--eEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHcc
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFD--KVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQ  258 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~--~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  258 (1074)
                      ....+.|||..|.|||.|++.+.+. .....  .+++++      ......+.+..+..        ...+..++..   
T Consensus       112 ~~nplfi~G~~GlGKTHLl~Aign~~~~~~~~a~v~y~~------se~f~~~~v~a~~~--------~~~~~Fk~~y---  174 (408)
T COG0593         112 AYNPLFIYGGVGLGKTHLLQAIGNEALANGPNARVVYLT------SEDFTNDFVKALRD--------NEMEKFKEKY---  174 (408)
T ss_pred             cCCcEEEECCCCCCHHHHHHHHHHHHHhhCCCceEEecc------HHHHHHHHHHHHHh--------hhHHHHHHhh---
Confidence            3678999999999999999999999 44443  344443      23333444333321        1222333332   


Q ss_pred             CeEEEEEcCcccc---cccc-ccccCCCC-CCCCeEEEEecCCh---------hHHhhccCCCeEeCCCCCHHHHHHHHH
Q 001457          259 KRVLIILDDLWGK---LDLA-VVGIPYGE-EHKGCKIILTSRFK---------EVCDEMESTNYVQVEELTDEDRLILFK  324 (1074)
Q Consensus       259 k~~LlVlDdv~~~---~~~~-~~~~~~~~-~~~gs~iivTTR~~---------~v~~~~~~~~~~~l~~L~~~~~~~lf~  324 (1074)
                      .-=++++||++..   +.|+ ++...|+. ...|-.||+|++..         .+...+...-++++.+.+.+....++.
T Consensus       175 ~~dlllIDDiq~l~gk~~~qeefFh~FN~l~~~~kqIvltsdr~P~~l~~~~~rL~SR~~~Gl~~~I~~Pd~e~r~aiL~  254 (408)
T COG0593         175 SLDLLLIDDIQFLAGKERTQEEFFHTFNALLENGKQIVLTSDRPPKELNGLEDRLRSRLEWGLVVEIEPPDDETRLAILR  254 (408)
T ss_pred             ccCeeeechHhHhcCChhHHHHHHHHHHHHHhcCCEEEEEcCCCchhhccccHHHHHHHhceeEEeeCCCCHHHHHHHHH
Confidence            2237889999753   2222 22222221 11244899998532         234445555789999999999999998


Q ss_pred             HhcC
Q 001457          325 KKAG  328 (1074)
Q Consensus       325 ~~a~  328 (1074)
                      +++.
T Consensus       255 kka~  258 (408)
T COG0593         255 KKAE  258 (408)
T ss_pred             HHHH
Confidence            8775

>KOG0731 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.0044  Score=73.31  Aligned_cols=180  Identities=16%  Similarity=0.126  Sum_probs=108.7

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCC-------CceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNS-------ISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~-------~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~  228 (1074)
                      ..++.|.+.-.+++.+++..|..++       .-++=+.++|++|+|||-||++++..    ..+-|+++|.+.=++.  
T Consensus       310 FkDVAG~deAK~El~E~V~fLKNP~~Y~~lGAKiPkGvLL~GPPGTGKTLLAKAiAGE----AgVPF~svSGSEFvE~--  383 (774)
T KOG0731|consen  310 FKDVAGVDEAKEELMEFVKFLKNPEQYQELGAKIPKGVLLVGPPGTGKTLLAKAIAGE----AGVPFFSVSGSEFVEM--  383 (774)
T ss_pred             cccccCcHHHHHHHHHHHHHhcCHHHHHHcCCcCcCceEEECCCCCcHHHHHHHHhcc----cCCceeeechHHHHHH--
Confidence            3455566667777888888887653       23677889999999999999999987    2233566665421111  


Q ss_pred             HHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc-----------------cccccccCCCCCC--CCeE
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL-----------------DLAVVGIPYGEEH--KGCK  289 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-----------------~~~~~~~~~~~~~--~gs~  289 (1074)
                            +...     ...+...+...-+....+.|.+|+++...                 .+.++........  .+--
T Consensus       384 ------~~g~-----~asrvr~lf~~ar~~aP~iifideida~~~~r~G~~~~~~~~e~e~tlnQll~emDgf~~~~~vi  452 (774)
T KOG0731|consen  384 ------FVGV-----GASRVRDLFPLARKNAPSIIFIDEIDAVGRKRGGKGTGGGQDEREQTLNQLLVEMDGFETSKGVI  452 (774)
T ss_pred             ------hccc-----chHHHHHHHHHhhccCCeEEEecccccccccccccccCCCChHHHHHHHHHHHHhcCCcCCCcEE
Confidence                  1100     02233444444445678899999876431                 1222222111111  2234


Q ss_pred             EEEecCChhHHhh-----ccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHH
Q 001457          290 IILTSRFKEVCDE-----MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       290 iivTTR~~~v~~~-----~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLa  353 (1074)
                      ++-+|...++.+.     -.-++.+.+..=+.....++|.-++....-..+..++++ |+...-|.+=|
T Consensus       453 ~~a~tnr~d~ld~allrpGRfdr~i~i~~p~~~~r~~i~~~h~~~~~~~~e~~dl~~-~a~~t~gf~ga  520 (774)
T KOG0731|consen  453 VLAATNRPDILDPALLRPGRFDRQIQIDLPDVKGRASILKVHLRKKKLDDEDVDLSK-LASLTPGFSGA  520 (774)
T ss_pred             EEeccCCccccCHHhcCCCccccceeccCCchhhhHHHHHHHhhccCCCcchhhHHH-HHhcCCCCcHH
Confidence            4446766666221     123367788888888999999988874333345566666 88888887744

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=97.00  E-value=0.0093  Score=74.98  Aligned_cols=157  Identities=17%  Similarity=0.210  Sum_probs=87.5

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCC------CCeEEEEEecCCcCHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIP------FDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~------F~~~~wv~vs~~~~~~~~~  228 (1074)
                      ...+.++.||++++..++..|....  ..-+.++|.+|+|||++|+.+... ...      .+..+|..     +...+.
T Consensus       169 ~~~~~~~igr~~ei~~~~~~l~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~~~~p~~l~~~~~~~l-----~~~~l~  241 (852)
T TIGR03346       169 EGKLDPVIGRDEEIRRTIQVLSRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVNGDVPESLKNKRLLAL-----DMGALI  241 (852)
T ss_pred             CCCCCcCCCcHHHHHHHHHHHhcCC--CCceEEEcCCCCCHHHHHHHHHHHHhccCCchhhcCCeEEEe-----eHHHHh
Confidence            3445567889999999999887665  345568999999999999998887 221      12333321     111111


Q ss_pred             HHHHHHhccCCCcchHHHHHHHHHHHHH-ccCeEEEEEcCccccc---------cccccccCCCCCCCCeEEEEecCChh
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERLK-RQKRVLIILDDLWGKL---------DLAVVGIPYGEEHKGCKIILTSRFKE  298 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~---------~~~~~~~~~~~~~~gs~iivTTR~~~  298 (1074)
                      .      +....+.. ......+.+.+. .+++.+|++|++..-.         +...+..+.... ..-++|-+|..++
T Consensus       242 a------~~~~~g~~-e~~l~~~l~~~~~~~~~~ILfIDEih~l~~~g~~~~~~d~~~~Lk~~l~~-g~i~~IgaTt~~e  313 (852)
T TIGR03346       242 A------GAKYRGEF-EERLKAVLNEVTKSEGQIILFIDELHTLVGAGKAEGAMDAGNMLKPALAR-GELHCIGATTLDE  313 (852)
T ss_pred             h------cchhhhhH-HHHHHHHHHHHHhcCCCeEEEeccHHHhhcCCCCcchhHHHHHhchhhhc-CceEEEEeCcHHH
Confidence            0      10111111 223333333332 2468999999987431         111222222211 1235555555443


Q ss_pred             HHhh-------ccCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          299 VCDE-------MESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       299 v~~~-------~~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ....       ...-.++.++..+.++..+++....
T Consensus       314 ~r~~~~~d~al~rRf~~i~v~~p~~~~~~~iL~~~~  349 (852)
T TIGR03346       314 YRKYIEKDAALERRFQPVFVDEPTVEDTISILRGLK  349 (852)
T ss_pred             HHHHhhcCHHHHhcCCEEEeCCCCHHHHHHHHHHHH
Confidence            3111       1122467899899999999987654

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.

>KOG1909 consensus Ran GTPase-activating protein [RNA processing and modification; Nuclear structure; Signal transduction mechanisms]

Probab=97.00  E-value=0.00019  Score=75.37  Aligned_cols=126  Identities=24%  Similarity=0.281  Sum_probs=57.2

Q ss_pred             CCCcEEeeccCCcccCCC------CCCCCCccEEEccCCCCCCC----ChhHHhcCCCccEEEecCCccC-----CCCCC
Q 001457          509 QNCEKLSLMDGNVTALPD------QPKCPRLTTLFLQNNPFADI----PNAFFEHTREIKNLDLSSTNIS-----SLAPS  573 (1074)
Q Consensus       509 ~~~~~L~l~~~~~~~l~~------~~~~~~Lr~L~l~~~~~~~~----~~~~~~~l~~L~~L~l~~~~~~-----~lp~~  573 (1074)
                      +++|.+....|.+..-+.      ...++.|..+.++.|.+..-    ....|..+++|++|||.+|.++     .+...
T Consensus       157 ~~Lrv~i~~rNrlen~ga~~~A~~~~~~~~leevr~~qN~I~~eG~~al~eal~~~~~LevLdl~DNtft~egs~~Laka  236 (382)
T KOG1909|consen  157 PKLRVFICGRNRLENGGATALAEAFQSHPTLEEVRLSQNGIRPEGVTALAEALEHCPHLEVLDLRDNTFTLEGSVALAKA  236 (382)
T ss_pred             cceEEEEeeccccccccHHHHHHHHHhccccceEEEecccccCchhHHHHHHHHhCCcceeeecccchhhhHHHHHHHHH
Confidence            345555555554433221      12335555555555553221    1123455566666666666554     12223


Q ss_pred             ccCCccCCeeeccCCCCCC--Cccc-----cCCCCccEEEeeCCCCc-----ccCccccCCCCCCEEeCCCCc
Q 001457          574 LPCLEKLRSLHLENTHLND--ASLI-----REFGELEVLILKGSRIV-----ELPNGIGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       574 i~~l~~Lr~L~L~~~~l~~--~~~i-----~~l~~L~~L~L~~~~i~-----~lp~~i~~L~~L~~L~l~~~~  634 (1074)
                      ++.+++||.|++++|.++.  ...+     ...++|++|.+.+|.|+     .+-..+...+.|..|++++|.
T Consensus       237 L~s~~~L~El~l~dcll~~~Ga~a~~~al~~~~p~L~vl~l~gNeIt~da~~~la~~~~ek~dL~kLnLngN~  309 (382)
T KOG1909|consen  237 LSSWPHLRELNLGDCLLENEGAIAFVDALKESAPSLEVLELAGNEITRDAALALAACMAEKPDLEKLNLNGNR  309 (382)
T ss_pred             hcccchheeecccccccccccHHHHHHHHhccCCCCceeccCcchhHHHHHHHHHHHHhcchhhHHhcCCccc
Confidence            4455556666666665544  1111     12345555555555443     112223334445555555544

>PRK12608 transcription termination factor Rho; Provisional

Probab=97.00  E-value=0.004  Score=68.14  Aligned_cols=100  Identities=14%  Similarity=0.105  Sum_probs=64.2

Q ss_pred             HHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCe-EEEEEecCC-cCHHHHHHHHHHHhccCCCcchHH
Q 001457          170 KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDK-VIFVRVTQT-PDVKRVQDEIARFLNTELEGDVEV  245 (1074)
Q Consensus       170 ~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~-~~wv~vs~~-~~~~~~~~~i~~~l~~~~~~~~~~  245 (1074)
                      .++++.+..=..+. -+.|+|.+|+|||||++.+.+.  .++-+. ++|+.+.+. ..+.++.+.+...+..........
T Consensus       121 ~RvID~l~PiGkGQ-R~LIvG~pGtGKTTLl~~la~~i~~~~~dv~~vv~lIgER~~EV~df~~~i~~~Vvast~de~~~  199 (380)
T PRK12608        121 MRVVDLVAPIGKGQ-RGLIVAPPRAGKTVLLQQIAAAVAANHPEVHLMVLLIDERPEEVTDMRRSVKGEVYASTFDRPPD  199 (380)
T ss_pred             HhhhhheeecCCCc-eEEEECCCCCCHHHHHHHHHHHHHhcCCCceEEEEEecCCCCCHHHHHHHHhhhEEeecCCCCHH
Confidence            34666665422223 4589999999999999999988  444454 467777654 467888888887766543222211


Q ss_pred             H------HH-HHHHHHHHccCeEEEEEcCccc
Q 001457          246 L------RA-AFLSERLKRQKRVLIILDDLWG  270 (1074)
Q Consensus       246 ~------~~-~~l~~~l~~~k~~LlVlDdv~~  270 (1074)
                      .      .. .....+...+++.+||+|++..
T Consensus       200 ~~~~v~~~~~~~Ae~f~~~GkdVVLvlDsltr  231 (380)
T PRK12608        200 EHIRVAELVLERAKRLVEQGKDVVILLDSLTR  231 (380)
T ss_pred             HHHHHHHHHHHHHHHHHHcCCCEEEEEeCcHH
Confidence            1      11 2222222368999999999864

>PRK08116 hypothetical protein; Validated

Probab=96.93  E-value=0.0015  Score=69.88  Aligned_cols=100  Identities=25%  Similarity=0.212  Sum_probs=56.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL  262 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L  262 (1074)
                      ..+.++|..|+|||.||..+++. ..+...+++++      ..+++..+.........     .....+.+.+. +- =|
T Consensus       115 ~gl~l~G~~GtGKThLa~aia~~l~~~~~~v~~~~------~~~ll~~i~~~~~~~~~-----~~~~~~~~~l~-~~-dl  181 (268)
T PRK08116        115 VGLLLWGSVGTGKTYLAACIANELIEKGVPVIFVN------FPQLLNRIKSTYKSSGK-----EDENEIIRSLV-NA-DL  181 (268)
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEE------HHHHHHHHHHHHhcccc-----ccHHHHHHHhc-CC-CE
Confidence            45889999999999999999999 33344566765      34455555444332111     11122334443 22 38


Q ss_pred             EEEcCccc--cccccc--cccCCCC-CCCCeEEEEecCC
Q 001457          263 IILDDLWG--KLDLAV--VGIPYGE-EHKGCKIILTSRF  296 (1074)
Q Consensus       263 lVlDdv~~--~~~~~~--~~~~~~~-~~~gs~iivTTR~  296 (1074)
                      |||||+..  ..+|..  +..-+.. -..|..+||||..
T Consensus       182 LviDDlg~e~~t~~~~~~l~~iin~r~~~~~~~IiTsN~  220 (268)
T PRK08116        182 LILDDLGAERDTEWAREKVYNIIDSRYRKGLPTIVTTNL  220 (268)
T ss_pred             EEEecccCCCCCHHHHHHHHHHHHHHHHCCCCEEEECCC
Confidence            99999943  334432  2111111 1235679999863

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.89  E-value=0.012  Score=73.55  Aligned_cols=155  Identities=16%  Similarity=0.224  Sum_probs=85.7

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCC-----CCeEE-EEEecCCcCHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP-----FDKVI-FVRVTQTPDVKRVQ  228 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~-----F~~~~-wv~vs~~~~~~~~~  228 (1074)
                      ..+.++.||++++..++..|....  ..-+.++|.+|+||||+|+.+...  .+.     .+..+ ++.++.      +.
T Consensus       175 ~~l~~vigr~~ei~~~i~iL~r~~--~~n~lL~G~pGvGKT~l~~~la~~i~~~~vp~~l~~~~~~~l~l~~------l~  246 (857)
T PRK10865        175 GKLDPVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLALDMGA------LV  246 (857)
T ss_pred             CCCCcCCCCHHHHHHHHHHHhcCC--cCceEEECCCCCCHHHHHHHHHHHhhcCCCchhhCCCEEEEEehhh------hh
Confidence            445567899999999999887765  445669999999999999999887  211     12233 232221      11


Q ss_pred             HHHHHHhccCCCcchHHHHHHHHHHHH-HccCeEEEEEcCccccc---------cccccccCCCCCCCCeEEEEecCChh
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERL-KRQKRVLIILDDLWGKL---------DLAVVGIPYGEEHKGCKIILTSRFKE  298 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l-~~~k~~LlVlDdv~~~~---------~~~~~~~~~~~~~~gs~iivTTR~~~  298 (1074)
                      .      +....+.. +.....+.+.+ ..+++.+|++|++....         +-..+..|.... ..-++|-+|...+
T Consensus       247 a------g~~~~g~~-e~~lk~~~~~~~~~~~~~ILfIDEih~l~~~~~~~~~~d~~~~lkp~l~~-g~l~~IgaTt~~e  318 (857)
T PRK10865        247 A------GAKYRGEF-EERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALAR-GELHCVGATTLDE  318 (857)
T ss_pred             h------ccchhhhh-HHHHHHHHHHHHHcCCCeEEEEecHHHhccCCCCccchhHHHHhcchhhc-CCCeEEEcCCCHH
Confidence            0      00011111 22223333332 23578999999986431         112222222221 1346666555444


Q ss_pred             HHh------hc-cCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          299 VCD------EM-ESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       299 v~~------~~-~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ...      .. ..-..+.+..-+.++...++....
T Consensus       319 ~r~~~~~d~al~rRf~~i~v~eP~~~~~~~iL~~l~  354 (857)
T PRK10865        319 YRQYIEKDAALERRFQKVFVAEPSVEDTIAILRGLK  354 (857)
T ss_pred             HHHHhhhcHHHHhhCCEEEeCCCCHHHHHHHHHHHh
Confidence            311      11 111356666668899998886654

>TIGR00602 rad24 checkpoint protein rad24

Probab=96.88  E-value=0.0041  Score=73.75  Aligned_cols=53  Identities=25%  Similarity=0.260  Sum_probs=39.9

Q ss_pred             CCCCCcccCcchHHHHHHHHHHHhcCC---CceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          154 IPTPEFVPLKSALEVIKSVMKLLKDNS---ISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       154 ~~~~~~~~~~~r~~~~~~l~~~l~~~~---~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+..+..+.+.++.++++..++....   ...+++.|+|++|+||||+++.+...
T Consensus        78 yrP~~ldel~~~~~ki~~l~~~l~~~~~~~~~~~illL~GP~GsGKTTl~~~la~~  133 (637)
T TIGR00602        78 YKPETQHELAVHKKKIEEVETWLKAQVLENAPKRILLITGPSGCGKSTTIKILSKE  133 (637)
T ss_pred             hCCCCHHHhcCcHHHHHHHHHHHHhcccccCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            334445556677888888888876532   12468999999999999999999987

This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).

>COG0466 Lon ATP-dependent Lon protease, bacterial type [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.084  Score=61.60  Aligned_cols=155  Identities=14%  Similarity=0.203  Sum_probs=86.5

Q ss_pred             cchHHHHHHHHHHHhc----CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhcc
Q 001457          163 KSALEVIKSVMKLLKD----NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNT  237 (1074)
Q Consensus       163 ~~r~~~~~~l~~~l~~----~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  237 (1074)
                      .|-++.++.|++.|.-    ++-.-+++.+||++|+|||+|++.++.- .+.|   +-+++.+--|..+|-..=-..+| 
T Consensus       326 YGLekVKeRIlEyLAV~~l~~~~kGpILcLVGPPGVGKTSLgkSIA~al~Rkf---vR~sLGGvrDEAEIRGHRRTYIG-  401 (782)
T COG0466         326 YGLEKVKERILEYLAVQKLTKKLKGPILCLVGPPGVGKTSLGKSIAKALGRKF---VRISLGGVRDEAEIRGHRRTYIG-  401 (782)
T ss_pred             cCchhHHHHHHHHHHHHHHhccCCCcEEEEECCCCCCchhHHHHHHHHhCCCE---EEEecCccccHHHhccccccccc-
Confidence            3567778888887632    2222479999999999999999999998 6555   23455555554444321111111 


Q ss_pred             CCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc------------------ccccccccCCC-CCCCCeEEEE-ecC-C
Q 001457          238 ELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK------------------LDLAVVGIPYG-EEHKGCKIIL-TSR-F  296 (1074)
Q Consensus       238 ~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~------------------~~~~~~~~~~~-~~~~gs~iiv-TTR-~  296 (1074)
                          ..+-...+.+.+.  ..+.-+++||.|+.-                  ++=..|...+. ..--=|+|++ ||- +
T Consensus       402 ----amPGrIiQ~mkka--~~~NPv~LLDEIDKm~ss~rGDPaSALLEVLDPEQN~~F~DhYLev~yDLS~VmFiaTANs  475 (782)
T COG0466         402 ----AMPGKIIQGMKKA--GVKNPVFLLDEIDKMGSSFRGDPASALLEVLDPEQNNTFSDHYLEVPYDLSKVMFIATANS  475 (782)
T ss_pred             ----cCChHHHHHHHHh--CCcCCeEEeechhhccCCCCCChHHHHHhhcCHhhcCchhhccccCccchhheEEEeecCc
Confidence                1111122222222  357889999988642                  11111111100 0011244443 332 2


Q ss_pred             hh-H-HhhccCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          297 KE-V-CDEMESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       297 ~~-v-~~~~~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      -+ + +.-++...++++.+-+++|-.++-+++.
T Consensus       476 l~tIP~PLlDRMEiI~lsgYt~~EKl~IAk~~L  508 (782)
T COG0466         476 LDTIPAPLLDRMEVIRLSGYTEDEKLEIAKRHL  508 (782)
T ss_pred             cccCChHHhcceeeeeecCCChHHHHHHHHHhc
Confidence            22 2 2334555799999999999888877765

>KOG0730 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.85  E-value=0.045  Score=63.06  Aligned_cols=150  Identities=18%  Similarity=0.200  Sum_probs=77.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCe
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  260 (1074)
                      ..+-|..+|++|+||||+|+.+.+. ...|     +.|+...    +    ..    .+-++++... ..+.+.-+.--.
T Consensus       467 ppkGVLlyGPPGC~KT~lAkalAne~~~nF-----lsvkgpE----L----~s----k~vGeSEr~i-r~iF~kAR~~aP  528 (693)
T KOG0730|consen  467 PPKGVLLYGPPGCGKTLLAKALANEAGMNF-----LSVKGPE----L----FS----KYVGESERAI-REVFRKARQVAP  528 (693)
T ss_pred             CCceEEEECCCCcchHHHHHHHhhhhcCCe-----eeccCHH----H----HH----HhcCchHHHH-HHHHHHHhhcCC
Confidence            3678899999999999999999998 6666     3333221    0    00    0111122111 111111112355


Q ss_pred             EEEEEcCcccccc-------------ccccccCCCCCCCCeEEEE---ecCChhHH-hhcc---CCCeEeCCCCCHHHHH
Q 001457          261 VLIILDDLWGKLD-------------LAVVGIPYGEEHKGCKIIL---TSRFKEVC-DEME---STNYVQVEELTDEDRL  320 (1074)
Q Consensus       261 ~LlVlDdv~~~~~-------------~~~~~~~~~~~~~gs~iiv---TTR~~~v~-~~~~---~~~~~~l~~L~~~~~~  320 (1074)
                      ++|.||.++....             +..+...+........|+|   |-|...+- ..+.   .++.+.++.=+.+...
T Consensus       529 ~IiFfDEiDsi~~~R~g~~~~v~~RVlsqLLtEmDG~e~~k~V~ViAATNRpd~ID~ALlRPGRlD~iiyVplPD~~aR~  608 (693)
T KOG0730|consen  529 CIIFFDEIDALAGSRGGSSSGVTDRVLSQLLTEMDGLEALKNVLVIAATNRPDMIDPALLRPGRLDRIIYVPLPDLEARL  608 (693)
T ss_pred             eEEehhhHHhHhhccCCCccchHHHHHHHHHHHcccccccCcEEEEeccCChhhcCHHHcCCcccceeEeecCccHHHHH
Confidence            7788887754210             1111111111111222332   44444442 1223   4467778777888888


Q ss_pred             HHHHHhcCCCC--CCchhHHHH--------HHHHHHhCC
Q 001457          321 ILFKKKAGLPE--GTKAFDRAA--------EEVVRQCGK  349 (1074)
Q Consensus       321 ~lf~~~a~~~~--~~~~~~~~~--------~~i~~~c~g  349 (1074)
                      ++|+.++....  +.-++++++        .+|+..|.+
T Consensus       609 ~Ilk~~~kkmp~~~~vdl~~La~~T~g~SGAel~~lCq~  647 (693)
T KOG0730|consen  609 EILKQCAKKMPFSEDVDLEELAQATEGYSGAEIVAVCQE  647 (693)
T ss_pred             HHHHHHHhcCCCCccccHHHHHHHhccCChHHHHHHHHH
Confidence            99999886322  223445543        355555554

>PF05673 DUF815: Protein of unknown function (DUF815); InterPro: IPR008533 This domain consists of several bacterial proteins of unknown function

Probab=96.79  E-value=0.036  Score=56.76  Aligned_cols=24  Identities=29%  Similarity=0.639  Sum_probs=21.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -.-+.++|..|+|||++++.+.+.
T Consensus        52 annvLL~G~rGtGKSSlVkall~~   75 (249)
T PF05673_consen   52 ANNVLLWGARGTGKSSLVKALLNE   75 (249)
T ss_pred             CcceEEecCCCCCHHHHHHHHHHH
Confidence            446678999999999999999987

>TIGR02237 recomb_radB DNA repair and recombination protein RadB

Probab=96.79  E-value=0.0081  Score=62.14  Aligned_cols=47  Identities=21%  Similarity=0.319  Sum_probs=37.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHH
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQD  229 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~  229 (1074)
                      .-+++.|+|.+|+|||++|.++... ......++|++... ++..++.+
T Consensus        11 ~g~i~~i~G~~GsGKT~l~~~~~~~~~~~g~~v~yi~~e~-~~~~rl~~   58 (209)
T TIGR02237        11 RGTITQIYGPPGSGKTNICMILAVNAARQGKKVVYIDTEG-LSPERFKQ   58 (209)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCC-CCHHHHHH
Confidence            3579999999999999999998877 44457889999876 66655544

This family consists exclusively of archaeal RadB protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239) and DMC1 (TIGR02238), and archaeal RadA (TIGR02236).

>PRK08769 DNA polymerase III subunit delta'; Validated

Probab=96.78  E-value=0.047  Score=59.51  Aligned_cols=171  Identities=13%  Similarity=0.143  Sum_probs=91.6

Q ss_pred             HHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCC----------------eEEEEEecCCcCHHHH
Q 001457          167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFD----------------KVIFVRVTQTPDVKRV  227 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~----------------~~~wv~vs~~~~~~~~  227 (1074)
                      ...+.+...+..+. -...+.++|+.|+||+|+|..+...   .....                -..||.......    
T Consensus        11 ~~~~~l~~~~~~~r-l~HA~Lf~Gp~G~GK~~lA~~lA~~LlC~~~~~~~~c~~c~~~~~g~HPD~~~i~~~p~~~----   85 (319)
T PRK08769         11 RAYDQTVAALDAGR-LGHGLLICGPEGLGKRAVALALAEHVLASGPDPAAAQRTRQLIAAGTHPDLQLVSFIPNRT----   85 (319)
T ss_pred             HHHHHHHHHHHcCC-cceeEeeECCCCCCHHHHHHHHHHHHhCCCCCCCCcchHHHHHhcCCCCCEEEEecCCCcc----
Confidence            44556666665544 2346889999999999999988876   21111                011221000000    


Q ss_pred             HHHHHHHhccCCCcchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCC-hhHH
Q 001457          228 QDEIARFLNTELEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRF-KEVC  300 (1074)
Q Consensus       228 ~~~i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~-~~v~  300 (1074)
                              +.........+.+..+.+.+.    .+++-++|+|+++.-  ..-..+...+-.-..++.+|++|.+ ..+.
T Consensus        86 --------~~k~~~~I~idqIR~l~~~~~~~p~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~~~fiL~~~~~~~lL  157 (319)
T PRK08769         86 --------GDKLRTEIVIEQVREISQKLALTPQYGIAQVVIVDPADAINRAACNALLKTLEEPSPGRYLWLISAQPARLP  157 (319)
T ss_pred             --------cccccccccHHHHHHHHHHHhhCcccCCcEEEEeccHhhhCHHHHHHHHHHhhCCCCCCeEEEEECChhhCc
Confidence                    000000001122223333332    356778999998753  2222222222222346666666654 3343


Q ss_pred             hhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          301 DEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       301 ~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      ..+ .....+.+.+++.+++.+.+.+. +  .  +  ...+..++..++|.|+.+..+
T Consensus       158 pTIrSRCq~i~~~~~~~~~~~~~L~~~-~--~--~--~~~a~~~~~l~~G~p~~A~~~  208 (319)
T PRK08769        158 ATIRSRCQRLEFKLPPAHEALAWLLAQ-G--V--S--ERAAQEALDAARGHPGLAAQW  208 (319)
T ss_pred             hHHHhhheEeeCCCcCHHHHHHHHHHc-C--C--C--hHHHHHHHHHcCCCHHHHHHH
Confidence            332 23367899999999998888654 2  1  1  223667899999999866543

>PRK07261 topology modulation protein; Provisional

Probab=96.75  E-value=0.0038  Score=61.94  Aligned_cols=31  Identities=29%  Similarity=0.563  Sum_probs=24.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh----cCCCCeEEE
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ----EIPFDKVIF  215 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~----~~~F~~~~w  215 (1074)
                      .|.|+|++|+||||||+.+...    .-+.|...|
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~~~~~~i~~D~~~~   36 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQHYNCPVLHLDTLHF   36 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhCCCeEecCCEEe
Confidence            4899999999999999999876    224455555

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=96.74  E-value=0.00056  Score=69.43  Aligned_cols=18  Identities=22%  Similarity=0.385  Sum_probs=8.7

Q ss_pred             cCCccCCeeeccCCCCCC
Q 001457          575 PCLEKLRSLHLENTHLND  592 (1074)
Q Consensus       575 ~~l~~Lr~L~L~~~~l~~  592 (1074)
                      ..+++|++|++++|+|+.
T Consensus        88 e~~P~l~~l~ls~Nki~~  105 (260)
T KOG2739|consen   88 EKAPNLKVLNLSGNKIKD  105 (260)
T ss_pred             hhCCceeEEeecCCcccc
Confidence            334555555555555443

>PHA00729 NTP-binding motif containing protein

Probab=96.74  E-value=0.0078  Score=61.32  Aligned_cols=34  Identities=24%  Similarity=0.416  Sum_probs=27.2

Q ss_pred             HHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          171 SVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       171 ~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .++..+...+  ...|.|.|.+|+||||||..+.+.
T Consensus         7 ~~~~~l~~~~--f~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729          7 KIVSAYNNNG--FVSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             HHHHHHhcCC--eEEEEEECCCCCCHHHHHHHHHHH
Confidence            4455555555  567899999999999999999876

>KOG2004 consensus Mitochondrial ATP-dependent protease PIM1/LON [Posttranslational modification, protein turnover, chaperones]

Probab=96.70  E-value=0.0076  Score=69.40  Aligned_cols=96  Identities=19%  Similarity=0.332  Sum_probs=61.0

Q ss_pred             cchHHHHHHHHHHHhcC----CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhcc
Q 001457          163 KSALEVIKSVMKLLKDN----SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNT  237 (1074)
Q Consensus       163 ~~r~~~~~~l~~~l~~~----~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  237 (1074)
                      .|.++.++.+++.+.-.    ...-+++..+|++|+|||++|+.|+.- .+.|   +-++|.+-.|..+|-..=-..+| 
T Consensus       414 Ygm~dVKeRILEfiAV~kLrgs~qGkIlCf~GPPGVGKTSI~kSIA~ALnRkF---fRfSvGG~tDvAeIkGHRRTYVG-  489 (906)
T KOG2004|consen  414 YGMEDVKERILEFIAVGKLRGSVQGKILCFVGPPGVGKTSIAKSIARALNRKF---FRFSVGGMTDVAEIKGHRRTYVG-  489 (906)
T ss_pred             cchHHHHHHHHHHHHHHhhcccCCCcEEEEeCCCCCCcccHHHHHHHHhCCce---EEEeccccccHHhhcccceeeec-
Confidence            46778888888887432    234579999999999999999999988 4443   23566776666665322111111 


Q ss_pred             CCCcchHHHHHHHHHHHHH--ccCeEEEEEcCccc
Q 001457          238 ELEGDVEVLRAAFLSERLK--RQKRVLIILDDLWG  270 (1074)
Q Consensus       238 ~~~~~~~~~~~~~l~~~l~--~~k~~LlVlDdv~~  270 (1074)
                          ...-    .+.+.|+  .-..-|+.+|.|+.
T Consensus       490 ----AMPG----kiIq~LK~v~t~NPliLiDEvDK  516 (906)
T KOG2004|consen  490 ----AMPG----KIIQCLKKVKTENPLILIDEVDK  516 (906)
T ss_pred             ----cCCh----HHHHHHHhhCCCCceEEeehhhh
Confidence                1111    2333333  24677899999864

>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=96.68  E-value=0.013  Score=57.56  Aligned_cols=133  Identities=18%  Similarity=0.215  Sum_probs=68.7

Q ss_pred             hHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCC------------------CCeEEEEEecCC--
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIP------------------FDKVIFVRVTQT--  221 (1074)
Q Consensus       165 r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~------------------F~~~~wv~vs~~--  221 (1074)
                      .++.++.+.+.+..+. -...+.++|..|+||+|+|..+...   ...                  .....|+.-...  
T Consensus         2 q~~~~~~L~~~~~~~~-l~ha~L~~G~~g~gk~~~a~~~a~~ll~~~~~~~~c~~c~~c~~~~~~~~~d~~~~~~~~~~~   80 (162)
T PF13177_consen    2 QEEIIELLKNLIKSGR-LPHALLFHGPSGSGKKTLALAFARALLCSNPNEDPCGECRSCRRIEEGNHPDFIIIKPDKKKK   80 (162)
T ss_dssp             -HHHHHHHHHHHHCTC---SEEEEECSTTSSHHHHHHHHHHHHC-TT-CTT--SSSHHHHHHHTT-CTTEEEEETTTSSS
T ss_pred             cHHHHHHHHHHHHcCC-cceeEEEECCCCCCHHHHHHHHHHHHcCCCCCCCCCCCCHHHHHHHhccCcceEEEecccccc
Confidence            3455566666665554 2346899999999999999998877   221                  222333332221  


Q ss_pred             -cCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCChh
Q 001457          222 -PDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFKE  298 (1074)
Q Consensus       222 -~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~~  298 (1074)
                       ..+.++. ++...+....               . .+++=++|+||++.-  +....+...+-....++++|++|++.+
T Consensus        81 ~i~i~~ir-~i~~~~~~~~---------------~-~~~~KviiI~~ad~l~~~a~NaLLK~LEepp~~~~fiL~t~~~~  143 (162)
T PF13177_consen   81 SIKIDQIR-EIIEFLSLSP---------------S-EGKYKVIIIDEADKLTEEAQNALLKTLEEPPENTYFILITNNPS  143 (162)
T ss_dssp             SBSHHHHH-HHHHHCTSS----------------T-TSSSEEEEEETGGGS-HHHHHHHHHHHHSTTTTEEEEEEES-GG
T ss_pred             hhhHHHHH-HHHHHHHHHH---------------h-cCCceEEEeehHhhhhHHHHHHHHHHhcCCCCCEEEEEEECChH
Confidence             2222221 2222221110               0 256778999999863  344444333333345888888888765


Q ss_pred             H-Hhh-ccCCCeEeCCCCC
Q 001457          299 V-CDE-MESTNYVQVEELT  315 (1074)
Q Consensus       299 v-~~~-~~~~~~~~l~~L~  315 (1074)
                      - ... ......+.+.+++
T Consensus       144 ~il~TI~SRc~~i~~~~ls  162 (162)
T PF13177_consen  144 KILPTIRSRCQVIRFRPLS  162 (162)
T ss_dssp             GS-HHHHTTSEEEEE----
T ss_pred             HChHHHHhhceEEecCCCC
Confidence            3 222 2233466666553

...

>PRK10787 DNA-binding ATP-dependent protease La; Provisional

Probab=96.67  E-value=0.03  Score=69.05  Aligned_cols=156  Identities=14%  Similarity=0.195  Sum_probs=81.6

Q ss_pred             CcchHHHHHHHHHHHhc----CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhc
Q 001457          162 LKSALEVIKSVMKLLKD----NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLN  236 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~----~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~  236 (1074)
                      ..|.++.++.++.++..    +...-.++.++|++|+||||+|+.+... ...|-.   ++.+...+...+...-....+
T Consensus       324 ~~g~~~vK~~i~~~l~~~~~~~~~~g~~i~l~GppG~GKTtl~~~ia~~l~~~~~~---i~~~~~~d~~~i~g~~~~~~g  400 (784)
T PRK10787        324 HYGLERVKDRILEYLAVQSRVNKIKGPILCLVGPPGVGKTSLGQSIAKATGRKYVR---MALGGVRDEAEIRGHRRTYIG  400 (784)
T ss_pred             ccCHHHHHHHHHHHHHHHHhcccCCCceEEEECCCCCCHHHHHHHHHHHhCCCEEE---EEcCCCCCHHHhccchhccCC
Confidence            44677777888877642    1122468999999999999999999987 444422   333443333333221111111


Q ss_pred             cCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccccc------ccccccCC---------------CCCCCCeEEEEecC
Q 001457          237 TELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLD------LAVVGIPY---------------GEEHKGCKIILTSR  295 (1074)
Q Consensus       237 ~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~------~~~~~~~~---------------~~~~~gs~iivTTR  295 (1074)
                       ...    ......+.+.  ....-++++|+++....      .+.+...+               +..-.+.-+|.||.
T Consensus       401 -~~~----G~~~~~l~~~--~~~~~villDEidk~~~~~~g~~~~aLlevld~~~~~~~~d~~~~~~~dls~v~~i~TaN  473 (784)
T PRK10787        401 -SMP----GKLIQKMAKV--GVKNPLFLLDEIDKMSSDMRGDPASALLEVLDPEQNVAFSDHYLEVDYDLSDVMFVATSN  473 (784)
T ss_pred             -CCC----cHHHHHHHhc--CCCCCEEEEEChhhcccccCCCHHHHHHHHhccccEEEEecccccccccCCceEEEEcCC
Confidence             111    1111112111  12345789999864311      01111111               11123445555665


Q ss_pred             ChhHHhh-ccCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          296 FKEVCDE-MESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       296 ~~~v~~~-~~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ...+... .+...++++.+++++|-.++.+++.
T Consensus       474 ~~~i~~aLl~R~~ii~~~~~t~eek~~Ia~~~L  506 (784)
T PRK10787        474 SMNIPAPLLDRMEVIRLSGYTEDEKLNIAKRHL  506 (784)
T ss_pred             CCCCCHHHhcceeeeecCCCCHHHHHHHHHHhh
Confidence            5443221 1223578899999988888777665

>PRK08058 DNA polymerase III subunit delta'; Validated

Probab=96.66  E-value=0.043  Score=60.83  Aligned_cols=154  Identities=14%  Similarity=0.101  Sum_probs=78.8

Q ss_pred             hHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC--
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL--  239 (1074)
Q Consensus       165 r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~--  239 (1074)
                      .+..++.+...+..+. -.....++|+.|+||||+|+.+.+.   ....+..       .++.-...+.+...-..+.  
T Consensus        11 q~~~~~~L~~~~~~~~-l~ha~Lf~G~~G~gk~~~a~~la~~l~c~~~~~~~-------~cg~C~~c~~~~~~~hpD~~~   82 (329)
T PRK08058         11 QPVVVKMLQNSIAKNR-LSHAYLFEGAKGTGKKATALWLAKSLFCLERNGVE-------PCGTCTNCKRIDSGNHPDVHL   82 (329)
T ss_pred             HHHHHHHHHHHHHcCC-CCceEEEECCCCCCHHHHHHHHHHHHCCCCCCCCC-------CCCcCHHHHHHhcCCCCCEEE
Confidence            5555666666665544 2456799999999999999998776   2111100       0000000000100000000  


Q ss_pred             ---Cc-chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCChh-HHhhc-cCCC
Q 001457          240 ---EG-DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFKE-VCDEM-ESTN  307 (1074)
Q Consensus       240 ---~~-~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~~-v~~~~-~~~~  307 (1074)
                         ++ ....+.+..+.+.+.    .+++=++|+|++..-  ...+.+...+.....++.+|.+|.+.. +.... ....
T Consensus        83 i~~~~~~i~id~ir~l~~~~~~~~~~~~~kvviI~~a~~~~~~a~NaLLK~LEEPp~~~~~Il~t~~~~~ll~TIrSRc~  162 (329)
T PRK08058         83 VAPDGQSIKKDQIRYLKEEFSKSGVESNKKVYIIEHADKMTASAANSLLKFLEEPSGGTTAILLTENKHQILPTILSRCQ  162 (329)
T ss_pred             eccccccCCHHHHHHHHHHHhhCCcccCceEEEeehHhhhCHHHHHHHHHHhcCCCCCceEEEEeCChHhCcHHHHhhce
Confidence               00 000111222222221    245667899998653  223333333333345677777776543 33322 2336


Q ss_pred             eEeCCCCCHHHHHHHHHHh
Q 001457          308 YVQVEELTDEDRLILFKKK  326 (1074)
Q Consensus       308 ~~~l~~L~~~~~~~lf~~~  326 (1074)
                      .+++.++++++..+.+.+.
T Consensus       163 ~i~~~~~~~~~~~~~L~~~  181 (329)
T PRK08058        163 VVEFRPLPPESLIQRLQEE  181 (329)
T ss_pred             eeeCCCCCHHHHHHHHHHc
Confidence            8999999999998877653

>KOG2982 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.60  E-value=0.00042  Score=70.84  Aligned_cols=83  Identities=27%  Similarity=0.306  Sum_probs=46.3

Q ss_pred             CCCCccEEEccCCCCCCCCh--hHHhcCCCccEEEecCCccCCCCCCc-cCCccCCeeeccCCCCCC---CccccCCCCc
Q 001457          529 KCPRLTTLFLQNNPFADIPN--AFFEHTREIKNLDLSSTNISSLAPSL-PCLEKLRSLHLENTHLND---ASLIREFGEL  602 (1074)
Q Consensus       529 ~~~~Lr~L~l~~~~~~~~~~--~~~~~l~~L~~L~l~~~~~~~lp~~i-~~l~~Lr~L~L~~~~l~~---~~~i~~l~~L  602 (1074)
                      .+..++.|+|.+|.++....  .++.++++|++|+++.|.+.....++ -.+.+|++|-|.++.+..   -..+..++.+
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            45566666666666554322  23456666777777766654333333 245566666666666544   3444555555


Q ss_pred             cEEEeeCCC
Q 001457          603 EVLILKGSR  611 (1074)
Q Consensus       603 ~~L~L~~~~  611 (1074)
                      +.|.++.|+
T Consensus       149 telHmS~N~  157 (418)
T KOG2982|consen  149 TELHMSDNS  157 (418)
T ss_pred             hhhhhccch
Confidence            555555553

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.58  E-value=0.00012  Score=73.90  Aligned_cols=100  Identities=25%  Similarity=0.239  Sum_probs=53.1

Q ss_pred             CCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCCCccCCccCCeeeccCCCCCCCccccCCCCccEEEeeC
Q 001457          530 CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKG  609 (1074)
Q Consensus       530 ~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~  609 (1074)
                      +.+++.|++.+|.+.++.-  ..+|+.|+||.||-|+|+.+                       ..+..|++|+.|+|+.
T Consensus        18 l~~vkKLNcwg~~L~DIsi--c~kMp~lEVLsLSvNkIssL-----------------------~pl~rCtrLkElYLRk   72 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISI--CEKMPLLEVLSLSVNKISSL-----------------------APLQRCTRLKELYLRK   72 (388)
T ss_pred             HHHhhhhcccCCCccHHHH--HHhcccceeEEeeccccccc-----------------------hhHHHHHHHHHHHHHh
Confidence            3445555555655554432  34555555555555555544                       3333444444444444


Q ss_pred             CCCcccC--ccccCCCCCCEEeCCCCcCCCCcChh----hhcCCCCcCEEE
Q 001457          610 SRIVELP--NGIGTVSNLKLLDLSNNLFLQVIPPN----VISKLSQLEELY  654 (1074)
Q Consensus       610 ~~i~~lp--~~i~~L~~L~~L~l~~~~~~~~~p~~----~i~~L~~L~~L~  654 (1074)
                      |.|..+.  ..+.++++|+.|-|..|...+.-+.+    ++.-|++|+.|+
T Consensus        73 N~I~sldEL~YLknlpsLr~LWL~ENPCc~~ag~nYR~~VLR~LPnLkKLD  123 (388)
T KOG2123|consen   73 NCIESLDELEYLKNLPSLRTLWLDENPCCGEAGQNYRRKVLRVLPNLKKLD  123 (388)
T ss_pred             cccccHHHHHHHhcCchhhhHhhccCCcccccchhHHHHHHHHcccchhcc
Confidence            4444332  23566777777777776655444432    355567776665

>PRK06090 DNA polymerase III subunit delta'; Validated

Probab=96.56  E-value=0.19  Score=54.89  Aligned_cols=173  Identities=9%  Similarity=0.046  Sum_probs=91.0

Q ss_pred             HHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC------
Q 001457          168 VIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL------  239 (1074)
Q Consensus       168 ~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~------  239 (1074)
                      ..+.+...+..+. -...+-++|+.|+||+++|+.+...  ..+-+.       ..++.-...+.+...-..+.      
T Consensus        11 ~~~~l~~~~~~~r-l~hA~L~~G~~G~Gk~~lA~~~a~~llC~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~p~   82 (319)
T PRK06090         11 VWQNWKAGLDAGR-IPGALLLQSDEGLGVESLVELFSRALLCQNYQS-------EACGFCHSCELMQSGNHPDLHVIKPE   82 (319)
T ss_pred             HHHHHHHHHHcCC-cceeEeeECCCCCCHHHHHHHHHHHHcCCCCCC-------CCCCCCHHHHHHHcCCCCCEEEEecC
Confidence            3445555554443 2457889999999999999998776  111000       00000000111111000000      


Q ss_pred             -C-cchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCCh-hHHhhc-cCCCeE
Q 001457          240 -E-GDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFK-EVCDEM-ESTNYV  309 (1074)
Q Consensus       240 -~-~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~-~~~~~~  309 (1074)
                       . .....+.+..+.+.+.    .+++=++|+|+++.-  ...+.+...+-.-..++.+|.+|.+. .+...+ .....+
T Consensus        83 ~~~~~I~vdqiR~l~~~~~~~~~~~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTI~SRCq~~  162 (319)
T PRK06090         83 KEGKSITVEQIRQCNRLAQESSQLNGYRLFVIEPADAMNESASNALLKTLEEPAPNCLFLLVTHNQKRLLPTIVSRCQQW  162 (319)
T ss_pred             cCCCcCCHHHHHHHHHHHhhCcccCCceEEEecchhhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhcceeE
Confidence             0 0001122222333331    355668888988753  33333333332223456666665554 444333 334689


Q ss_pred             eCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHH
Q 001457          310 QVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       310 ~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      .+.++++++..+.+.+.-.     +    .+..++..++|.|+.+..+
T Consensus       163 ~~~~~~~~~~~~~L~~~~~-----~----~~~~~l~l~~G~p~~A~~~  201 (319)
T PRK06090        163 VVTPPSTAQAMQWLKGQGI-----T----VPAYALKLNMGSPLKTLAM  201 (319)
T ss_pred             eCCCCCHHHHHHHHHHcCC-----c----hHHHHHHHcCCCHHHHHHH
Confidence            9999999999888865421     1    1356789999999876544

>PRK06871 DNA polymerase III subunit delta'; Validated

Probab=96.52  E-value=0.095  Score=57.29  Aligned_cols=173  Identities=8%  Similarity=0.076  Sum_probs=92.6

Q ss_pred             HHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC-----
Q 001457          168 VIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL-----  239 (1074)
Q Consensus       168 ~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~-----  239 (1074)
                      ..+.+...+..+. -...+.+.|+.|+||+++|+.+...   ......       ..++.-...+.+...-..+.     
T Consensus        10 ~~~~l~~~~~~~r-l~HA~Lf~G~~G~GK~~lA~~~A~~llC~~~~~~-------~~Cg~C~sC~~~~~g~HPD~~~i~p   81 (325)
T PRK06871         10 TYQQITQAFQQGL-GHHALLFKADSGLGTEQLIRALAQWLMCQTPQGD-------QPCGQCHSCHLFQAGNHPDFHILEP   81 (325)
T ss_pred             HHHHHHHHHHcCC-cceeEEeECCCCCCHHHHHHHHHHHHcCCCCCCC-------CCCCCCHHHHHHhcCCCCCEEEEcc
Confidence            3445556655544 2357779999999999999998877   221110       00111111111111000000     


Q ss_pred             -Cc-chHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCCh-hHHhhc-cCCCeE
Q 001457          240 -EG-DVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFK-EVCDEM-ESTNYV  309 (1074)
Q Consensus       240 -~~-~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~-~~~~~~  309 (1074)
                       ++ ....+.+..+.+.+.    .+++=++|+|+++.-  .....+...+-.-..++.+|++|.+. .+...+ .....+
T Consensus        82 ~~~~~I~id~iR~l~~~~~~~~~~g~~KV~iI~~a~~m~~~AaNaLLKtLEEPp~~~~fiL~t~~~~~llpTI~SRC~~~  161 (325)
T PRK06871         82 IDNKDIGVDQVREINEKVSQHAQQGGNKVVYIQGAERLTEAAANALLKTLEEPRPNTYFLLQADLSAALLPTIYSRCQTW  161 (325)
T ss_pred             ccCCCCCHHHHHHHHHHHhhccccCCceEEEEechhhhCHHHHHHHHHHhcCCCCCeEEEEEECChHhCchHHHhhceEE
Confidence             00 001222233333332    367778889998753  23333332222223466677776654 444332 334689


Q ss_pred             eCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHH
Q 001457          310 QVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       310 ~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai  354 (1074)
                      .+.++++++..+.+.+....   .   ...+...+..++|.|+.+
T Consensus       162 ~~~~~~~~~~~~~L~~~~~~---~---~~~~~~~~~l~~g~p~~A  200 (325)
T PRK06871        162 LIHPPEEQQALDWLQAQSSA---E---ISEILTALRINYGRPLLA  200 (325)
T ss_pred             eCCCCCHHHHHHHHHHHhcc---C---hHHHHHHHHHcCCCHHHH
Confidence            99999999999888776421   1   123566788999999643

>PRK09183 transposase/IS protein; Provisional

Probab=96.49  E-value=0.0059  Score=64.99  Aligned_cols=23  Identities=30%  Similarity=0.416  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+.|+|++|+|||+||..+.+.
T Consensus       103 ~~v~l~Gp~GtGKThLa~al~~~  125 (259)
T PRK09183        103 ENIVLLGPSGVGKTHLAIALGYE  125 (259)
T ss_pred             CeEEEEeCCCCCHHHHHHHHHHH
Confidence            46789999999999999999877

>CHL00195 ycf46 Ycf46; Provisional

Probab=96.49  E-value=0.022  Score=65.99  Aligned_cols=151  Identities=13%  Similarity=0.126  Sum_probs=79.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+-|.++|++|+|||.+|+.+.+. ...|   +-++.+      .+.        ....+.++. ....+.+..+...++
T Consensus       259 pkGILL~GPpGTGKTllAkaiA~e~~~~~---~~l~~~------~l~--------~~~vGese~-~l~~~f~~A~~~~P~  320 (489)
T CHL00195        259 PRGLLLVGIQGTGKSLTAKAIANDWQLPL---LRLDVG------KLF--------GGIVGESES-RMRQMIRIAEALSPC  320 (489)
T ss_pred             CceEEEECCCCCcHHHHHHHHHHHhCCCE---EEEEhH------Hhc--------ccccChHHH-HHHHHHHHHHhcCCc
Confidence            467889999999999999999988 4333   112211      111        011111221 222222333346889


Q ss_pred             EEEEcCccccc----cc----------cccccCCCCCCCCeEEEEecCChhH-Hhhc----cCCCeEeCCCCCHHHHHHH
Q 001457          262 LIILDDLWGKL----DL----------AVVGIPYGEEHKGCKIILTSRFKEV-CDEM----ESTNYVQVEELTDEDRLIL  322 (1074)
Q Consensus       262 LlVlDdv~~~~----~~----------~~~~~~~~~~~~gs~iivTTR~~~v-~~~~----~~~~~~~l~~L~~~~~~~l  322 (1074)
                      +|++|+++..-    ..          ..+...+.....+--||.||...+- -..+    .-+..+.++.-+.++-.++
T Consensus       321 IL~IDEID~~~~~~~~~~d~~~~~rvl~~lL~~l~~~~~~V~vIaTTN~~~~Ld~allR~GRFD~~i~v~lP~~~eR~~I  400 (489)
T CHL00195        321 ILWIDEIDKAFSNSESKGDSGTTNRVLATFITWLSEKKSPVFVVATANNIDLLPLEILRKGRFDEIFFLDLPSLEEREKI  400 (489)
T ss_pred             EEEehhhhhhhccccCCCCchHHHHHHHHHHHHHhcCCCceEEEEecCChhhCCHHHhCCCcCCeEEEeCCcCHHHHHHH
Confidence            99999987421    00          0011111111223446667765442 1111    2345788888899999999


Q ss_pred             HHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          323 FKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       323 f~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      |..+.........-......+++.+.|.-
T Consensus       401 l~~~l~~~~~~~~~~~dl~~La~~T~GfS  429 (489)
T CHL00195        401 FKIHLQKFRPKSWKKYDIKKLSKLSNKFS  429 (489)
T ss_pred             HHHHHhhcCCCcccccCHHHHHhhcCCCC
Confidence            98877522111100112345666666644

>cd01123 Rad51_DMC1_radA Rad51_DMC1_radA,B

Probab=96.48  E-value=0.014  Score=61.81  Aligned_cols=87  Identities=23%  Similarity=0.269  Sum_probs=54.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh---cCC----CCeEEEEEecCCcCHHHHHHHHHHHhccCCC-----------cchH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ---EIP----FDKVIFVRVTQTPDVKRVQDEIARFLNTELE-----------GDVE  244 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~---~~~----F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----------~~~~  244 (1074)
                      -.++.|+|.+|+||||+|.+++-.   ...    ...++|++..+.++..++. ++++..+....           ...+
T Consensus        19 g~i~~i~G~~GsGKT~l~~~l~~~~~~~~~~~g~~~~viyi~~e~~~~~~rl~-~~~~~~~~~~~~~~~~i~~~~~~~~~   97 (235)
T cd01123          19 GSITEIFGEFGSGKTQLCHQLAVTVQLPIELGGLEGKAVYIDTEGTFRPERLV-QIAERFGLDPEEVLDNIYVARAYNSD   97 (235)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHeeCccccCCCCccEEEEeCCCCcCHHHHH-HHHHHhccChHhHhcCEEEEecCCHH
Confidence            579999999999999999998754   221    3688999988877765543 33333322110           0111


Q ss_pred             --HHHHHHHHHHHHcc-CeEEEEEcCccc
Q 001457          245 --VLRAAFLSERLKRQ-KRVLIILDDLWG  270 (1074)
Q Consensus       245 --~~~~~~l~~~l~~~-k~~LlVlDdv~~  270 (1074)
                        ......+.+.+.+. +--+||+|.+..
T Consensus        98 ~l~~~l~~l~~~l~~~~~~~liVIDSis~  126 (235)
T cd01123          98 HQLQLLEELEAILIESSRIKLVIVDSVTA  126 (235)
T ss_pred             HHHHHHHHHHHHHhhcCCeeEEEEeCcHH
Confidence              22234444445444 677888888753

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 .

>PRK10865 protein disaggregation chaperone; Provisional

Probab=96.44  E-value=0.019  Score=71.83  Aligned_cols=57  Identities=19%  Similarity=0.244  Sum_probs=36.6

Q ss_pred             cchHHHHHHHHHHHhc-------CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEec
Q 001457          163 KSALEVIKSVMKLLKD-------NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVT  219 (1074)
Q Consensus       163 ~~r~~~~~~l~~~l~~-------~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs  219 (1074)
                      .|.+..++.+...+..       .+....++.++|+.|+|||++|+.+.+. ...-...+.++++
T Consensus       571 iGQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~Lf~Gp~G~GKT~lA~aLa~~l~~~~~~~i~id~s  635 (857)
T PRK10865        571 IGQNEAVEAVSNAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELCKALANFMFDSDDAMVRIDMS  635 (857)
T ss_pred             eCCHHHHHHHHHHHHHHHhcccCCCCCCceEEEECCCCCCHHHHHHHHHHHhhcCCCcEEEEEhH
Confidence            3566666666665532       1112357899999999999999999876 2222334455544

>TIGR02640 gas_vesic_GvpN gas vesicle protein GvpN

Probab=96.43  E-value=0.063  Score=57.47  Aligned_cols=56  Identities=21%  Similarity=0.331  Sum_probs=37.0

Q ss_pred             HHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHH
Q 001457          166 LEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       166 ~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~  228 (1074)
                      .+.++.++..+..+.    -|.+.|.+|+|||++|+.+... ..   ..++++.....+..+++
T Consensus         8 ~~l~~~~l~~l~~g~----~vLL~G~~GtGKT~lA~~la~~lg~---~~~~i~~~~~~~~~dll   64 (262)
T TIGR02640         8 KRVTSRALRYLKSGY----PVHLRGPAGTGKTTLAMHVARKRDR---PVMLINGDAELTTSDLV   64 (262)
T ss_pred             HHHHHHHHHHHhcCC----eEEEEcCCCCCHHHHHHHHHHHhCC---CEEEEeCCccCCHHHHh
Confidence            344556666665543    5568999999999999999875 32   23455665555555444

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).

>PF10443 RNA12: RNA12 protein; InterPro: IPR018850 Mitochondrial escape protein 2 (also known as RNA12) plays a role in maintaining the mitochondrial genome and in controlling mtDNA escape [, ]

Probab=96.43  E-value=0.3  Score=54.39  Aligned_cols=191  Identities=14%  Similarity=0.190  Sum_probs=116.1

Q ss_pred             hHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHH-HHHHhhcCCCCeEEEEEecCC---cCHHHHHHHHHHHhcc---
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLM-KQVMKQEIPFDKVIFVRVTQT---PDVKRVQDEIARFLNT---  237 (1074)
Q Consensus       165 r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa-~~v~~~~~~F~~~~wv~vs~~---~~~~~~~~~i~~~l~~---  237 (1074)
                      |.+.+++|-.||.+..  -..|.|.|+-|+||+.|+ .++..++.+   +..+++.+-   -+-..++..++.++|-   
T Consensus         1 R~e~~~~L~~wL~e~~--~TFIvV~GPrGSGK~elV~d~~L~~r~~---vL~IDC~~i~~ar~D~~~I~~lA~qvGY~Pv   75 (431)
T PF10443_consen    1 RKEAIEQLKSWLNENP--NTFIVVQGPRGSGKRELVMDHVLKDRKN---VLVIDCDQIVKARGDAAFIKNLASQVGYFPV   75 (431)
T ss_pred             CchHHHHHHHHHhcCC--CeEEEEECCCCCCccHHHHHHHHhCCCC---EEEEEChHhhhccChHHHHHHHHHhcCCCcc
Confidence            4567888889998887  679999999999999999 777776332   667766542   2334455555555431   


Q ss_pred             --------------------CCC---cchHHHHHH-------HHHH-------------------HHH--ccCeEEEEEc
Q 001457          238 --------------------ELE---GDVEVLRAA-------FLSE-------------------RLK--RQKRVLIILD  266 (1074)
Q Consensus       238 --------------------~~~---~~~~~~~~~-------~l~~-------------------~l~--~~k~~LlVlD  266 (1074)
                                          ...   ...+.+...       .|++                   +++  ..+|-+||+|
T Consensus        76 Fsw~nSiss~IDLa~qGltGqKaGfSes~e~Ql~~IL~~t~~ALr~ial~~~~~~~~~~~l~e~~yl~~hPe~~PVVVId  155 (431)
T PF10443_consen   76 FSWMNSISSFIDLAVQGLTGQKAGFSESLETQLKKILQTTATALRDIALSNRKKDDKDANLKEEDYLEAHPERRPVVVID  155 (431)
T ss_pred             hHHHHHHHHHHHHHHhhccccccCCCCChHHHHHHHHHHHHHHHHHHHHHhhhccccccccCchhhhhhCCccCCEEEEc
Confidence                                111   111111111       1111                   000  1237899999


Q ss_pred             Ccccc-----------ccccccccCCCCCCCCeEEEEecCChhHH----hhccCC--CeEeCCCCCHHHHHHHHHHhcCC
Q 001457          267 DLWGK-----------LDLAVVGIPYGEEHKGCKIILTSRFKEVC----DEMEST--NYVQVEELTDEDRLILFKKKAGL  329 (1074)
Q Consensus       267 dv~~~-----------~~~~~~~~~~~~~~~gs~iivTTR~~~v~----~~~~~~--~~~~l~~L~~~~~~~lf~~~a~~  329 (1074)
                      +.-..           .+|......    .+=..||++|-+....    +.+...  +.+.|.-.+++.|.++...+...
T Consensus       156 nF~~k~~~~~~iy~~laeWAa~Lv~----~nIAHVIFlT~dv~~~k~LskaLPn~vf~tI~L~Das~~~Ak~yV~~~L~~  231 (431)
T PF10443_consen  156 NFLHKAEENDFIYDKLAEWAASLVQ----NNIAHVIFLTDDVSYSKPLSKALPNRVFKTISLSDASPESAKQYVLSQLDE  231 (431)
T ss_pred             chhccCcccchHHHHHHHHHHHHHh----cCccEEEEECCCCchhhhHHHhCCCCceeEEeecCCCHHHHHHHHHHHhcc
Confidence            97543           234432211    2345788888765553    334332  57889999999999999887752


Q ss_pred             CCCC-------------------chhHHHHHHHHHHhCCChHHHHHHHHHHcCC
Q 001457          330 PEGT-------------------KAFDRAAEEVVRQCGKLPNAIVIIGTALRHK  364 (1074)
Q Consensus       330 ~~~~-------------------~~~~~~~~~i~~~c~glPLai~~~~~~l~~~  364 (1074)
                      ....                   .....-....++..||==.-+..+++.++.-
T Consensus       232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~eld~~i~~LGGRltDLe~lvrRiksG  285 (431)
T PF10443_consen  232 DTEDSSDSKESNEQNKNDKSAENEKDLAELDECIEPLGGRLTDLEFLVRRIKSG  285 (431)
T ss_pred             cccccccccccccccccccccccccchHHHHHHHHHcCCcHHHHHHHHHHHHcC
Confidence            2100                   1233445667778888878888888888653

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 [].

>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=96.42  E-value=0.0025  Score=59.38  Aligned_cols=22  Identities=36%  Similarity=0.604  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ||+|+|++|+||||+|+.+.+.
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999999986

...

>PRK06526 transposase; Provisional

Probab=96.40  E-value=0.0028  Score=66.93  Aligned_cols=24  Identities=25%  Similarity=0.241  Sum_probs=21.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..-+.++|++|+|||+||..+...
T Consensus        98 ~~nlll~Gp~GtGKThLa~al~~~  121 (254)
T PRK06526         98 KENVVFLGPPGTGKTHLAIGLGIR  121 (254)
T ss_pred             CceEEEEeCCCCchHHHHHHHHHH
Confidence            346899999999999999999888

>PRK12377 putative replication protein; Provisional

Probab=96.39  E-value=0.014  Score=61.09  Aligned_cols=72  Identities=22%  Similarity=0.251  Sum_probs=46.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      ...+.++|.+|+|||+||..+.+. ......++++++.      +++..+-.....   ...    ...+.+.+  .+--
T Consensus       101 ~~~l~l~G~~GtGKThLa~AIa~~l~~~g~~v~~i~~~------~l~~~l~~~~~~---~~~----~~~~l~~l--~~~d  165 (248)
T PRK12377        101 CTNFVFSGKPGTGKNHLAAAIGNRLLAKGRSVIVVTVP------DVMSRLHESYDN---GQS----GEKFLQEL--CKVD  165 (248)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHHHHcCCCeEEEEHH------HHHHHHHHHHhc---cch----HHHHHHHh--cCCC
Confidence            467899999999999999999999 4444456777653      344444333211   111    11233444  3678


Q ss_pred             EEEEcCcc
Q 001457          262 LIILDDLW  269 (1074)
Q Consensus       262 LlVlDdv~  269 (1074)
                      |||+||+.
T Consensus       166 LLiIDDlg  173 (248)
T PRK12377        166 LLVLDEIG  173 (248)
T ss_pred             EEEEcCCC
Confidence            99999994

>PRK07952 DNA replication protein DnaC; Validated

Probab=96.32  E-value=0.022  Score=59.57  Aligned_cols=91  Identities=13%  Similarity=0.210  Sum_probs=52.2

Q ss_pred             HHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHH
Q 001457          167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEV  245 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~  245 (1074)
                      ..+..+.+...........+.++|.+|+|||+||..+.+. ...-..++++++      .++...+-.....  ....  
T Consensus        83 ~al~~a~~~~~~~~~~~~~~~l~G~~GtGKThLa~aia~~l~~~g~~v~~it~------~~l~~~l~~~~~~--~~~~--  152 (244)
T PRK07952         83 NALSKARQYVEEFDGNIASFIFSGKPGTGKNHLAAAICNELLLRGKSVLIITV------ADIMSAMKDTFSN--SETS--  152 (244)
T ss_pred             HHHHHHHHHHHhhccCCceEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEH------HHHHHHHHHHHhh--cccc--
Confidence            3444544444332222457899999999999999999999 333345666643      4444444333210  0111  


Q ss_pred             HHHHHHHHHHHccCeEEEEEcCcccc
Q 001457          246 LRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       246 ~~~~~l~~~l~~~k~~LlVlDdv~~~  271 (1074)
                        ...+.+.+.  +.=+||+||+...
T Consensus       153 --~~~~l~~l~--~~dlLvIDDig~~  174 (244)
T PRK07952        153 --EEQLLNDLS--NVDLLVIDEIGVQ  174 (244)
T ss_pred             --HHHHHHHhc--cCCEEEEeCCCCC
Confidence              122334453  4558889998643

>KOG0991 consensus Replication factor C, subunit RFC2 [Replication, recombination and repair]

Probab=96.31  E-value=0.0073  Score=59.81  Aligned_cols=100  Identities=16%  Similarity=0.230  Sum_probs=61.0

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cC-CCCeEEEEEecCCcCHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EI-PFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~-~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      +..+..++|.++.++.+--...+++  .+-+.|.||+|+||||-+..+.+.  .. .-+.+.-.+.|+.-.+.-+...|-
T Consensus        23 P~~l~dIVGNe~tv~rl~via~~gn--mP~liisGpPG~GKTTsi~~LAr~LLG~~~ke~vLELNASdeRGIDvVRn~IK  100 (333)
T KOG0991|consen   23 PSVLQDIVGNEDTVERLSVIAKEGN--MPNLIISGPPGTGKTTSILCLARELLGDSYKEAVLELNASDERGIDVVRNKIK  100 (333)
T ss_pred             chHHHHhhCCHHHHHHHHHHHHcCC--CCceEeeCCCCCchhhHHHHHHHHHhChhhhhHhhhccCccccccHHHHHHHH
Confidence            3334456677777776655555555  888999999999999988887776  32 334555566666554444333332


Q ss_pred             HHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  271 (1074)
                      .-...              +-.+-.++.-.||||..++-
T Consensus       101 ~FAQ~--------------kv~lp~grhKIiILDEADSM  125 (333)
T KOG0991|consen  101 MFAQK--------------KVTLPPGRHKIIILDEADSM  125 (333)
T ss_pred             HHHHh--------------hccCCCCceeEEEeeccchh
Confidence            11100              00111367778899988764

>TIGR02012 tigrfam_recA protein RecA

Probab=96.31  E-value=0.013  Score=63.51  Aligned_cols=83  Identities=20%  Similarity=0.277  Sum_probs=55.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC------cchHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE------GDVEVLRAAFLSERL  255 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~~~l  255 (1074)
                      -+++-|+|++|+||||||.++... ...-..++||+..+.++..     .+++++.+.+      ....++....+...+
T Consensus        55 G~iteI~G~~GsGKTtLaL~~~~~~~~~g~~v~yId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~~~~~li  129 (321)
T TIGR02012        55 GRIIEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV-----YARKLGVDIDNLLVSQPDTGEQALEIAETLV  129 (321)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEEcccchhHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHHh
Confidence            579999999999999999998777 4444667899887766653     3444443211      112233344444444


Q ss_pred             HccCeEEEEEcCccc
Q 001457          256 KRQKRVLIILDDLWG  270 (1074)
Q Consensus       256 ~~~k~~LlVlDdv~~  270 (1074)
                      +.+.--+||+|.|-.
T Consensus       130 ~~~~~~lIVIDSv~a  144 (321)
T TIGR02012       130 RSGAVDIIVVDSVAA  144 (321)
T ss_pred             hccCCcEEEEcchhh
Confidence            456778999998753

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.

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=96.29  E-value=0.056  Score=67.22  Aligned_cols=149  Identities=16%  Similarity=0.191  Sum_probs=81.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+-|.++|++|+|||++|+.+.+. ...|     +.++..    ++    +..    .-+.++ .....+.+........
T Consensus       487 ~~giLL~GppGtGKT~lakalA~e~~~~f-----i~v~~~----~l----~~~----~vGese-~~i~~~f~~A~~~~p~  548 (733)
T TIGR01243       487 PKGVLLFGPPGTGKTLLAKAVATESGANF-----IAVRGP----EI----LSK----WVGESE-KAIREIFRKARQAAPA  548 (733)
T ss_pred             CceEEEECCCCCCHHHHHHHHHHhcCCCE-----EEEehH----HH----hhc----ccCcHH-HHHHHHHHHHHhcCCE
Confidence            456889999999999999999998 5443     333221    11    111    111222 2223333333346789


Q ss_pred             EEEEcCccccc--------c------ccccccCCC--CCCCCeEEEEecCChhHHh-hc----cCCCeEeCCCCCHHHHH
Q 001457          262 LIILDDLWGKL--------D------LAVVGIPYG--EEHKGCKIILTSRFKEVCD-EM----ESTNYVQVEELTDEDRL  320 (1074)
Q Consensus       262 LlVlDdv~~~~--------~------~~~~~~~~~--~~~~gs~iivTTR~~~v~~-~~----~~~~~~~l~~L~~~~~~  320 (1074)
                      +|++|+++...        .      ...+...+.  ....+--||.||...+... .+    .-+..+.++..+.++-.
T Consensus       549 iifiDEid~l~~~r~~~~~~~~~~~~~~~lL~~ldg~~~~~~v~vI~aTn~~~~ld~allRpgRfd~~i~v~~Pd~~~R~  628 (733)
T TIGR01243       549 IIFFDEIDAIAPARGARFDTSVTDRIVNQLLTEMDGIQELSNVVVIAATNRPDILDPALLRPGRFDRLILVPPPDEEARK  628 (733)
T ss_pred             EEEEEChhhhhccCCCCCCccHHHHHHHHHHHHhhcccCCCCEEEEEeCCChhhCCHhhcCCCccceEEEeCCcCHHHHH
Confidence            99999986420        0      011111111  1123455666776555421 11    23467889999999999


Q ss_pred             HHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          321 ILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       321 ~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      ++|+.+.......+.  .-...+++.+.|.-
T Consensus       629 ~i~~~~~~~~~~~~~--~~l~~la~~t~g~s  657 (733)
T TIGR01243       629 EIFKIHTRSMPLAED--VDLEELAEMTEGYT  657 (733)
T ss_pred             HHHHHHhcCCCCCcc--CCHHHHHHHcCCCC
Confidence            999776542221111  11345667777654

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.

>PRK08939 primosomal protein DnaI; Reviewed

Probab=96.28  E-value=0.0085  Score=65.20  Aligned_cols=115  Identities=13%  Similarity=0.201  Sum_probs=65.7

Q ss_pred             chHHHHHHHHHHHhcCC--CceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC
Q 001457          164 SALEVIKSVMKLLKDNS--ISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL  239 (1074)
Q Consensus       164 ~r~~~~~~l~~~l~~~~--~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~  239 (1074)
                      ++........+++..-.  ...+-+.++|..|+|||.||..+++.  ...+ .+.|++++      .++.++....... 
T Consensus       135 ~~~~~~~~~~~fi~~~~~~~~~~gl~L~G~~G~GKThLa~Aia~~l~~~g~-~v~~~~~~------~l~~~lk~~~~~~-  206 (306)
T PRK08939        135 DRLDALMAALDFLEAYPPGEKVKGLYLYGDFGVGKSYLLAAIANELAKKGV-SSTLLHFP------EFIRELKNSISDG-  206 (306)
T ss_pred             HHHHHHHHHHHHHHHhhccCCCCeEEEECCCCCCHHHHHHHHHHHHHHcCC-CEEEEEHH------HHHHHHHHHHhcC-
Confidence            34444555555554321  12467899999999999999999999  4333 35566543      4555554443211 


Q ss_pred             CcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccc--cccCC-CCC-CCCeEEEEecC
Q 001457          240 EGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAV--VGIPY-GEE-HKGCKIILTSR  295 (1074)
Q Consensus       240 ~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~--~~~~~-~~~-~~gs~iivTTR  295 (1074)
                         .    .....+.+  .+-=||||||+...  ..|..  +...+ ... ..+-.+|+||-
T Consensus       207 ---~----~~~~l~~l--~~~dlLiIDDiG~e~~s~~~~~~ll~~Il~~R~~~~~~ti~TSN  259 (306)
T PRK08939        207 ---S----VKEKIDAV--KEAPVLMLDDIGAEQMSSWVRDEVLGVILQYRMQEELPTFFTSN  259 (306)
T ss_pred             ---c----HHHHHHHh--cCCCEEEEecCCCccccHHHHHHHHHHHHHHHHHCCCeEEEECC
Confidence               1    12223334  36779999998643  45532  32222 111 13456788885

>TIGR02639 ClpA ATP-dependent Clp protease ATP-binding subunit clpA

Probab=96.25  E-value=0.014  Score=72.15  Aligned_cols=101  Identities=18%  Similarity=0.305  Sum_probs=54.5

Q ss_pred             cchHHHHHHHHHHHhcC-------CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHH
Q 001457          163 KSALEVIKSVMKLLKDN-------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       163 ~~r~~~~~~l~~~l~~~-------~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~  234 (1074)
                      .|.++.++.+...+...       .....++.++|+.|+|||+||+.+... ..   ..+.++.++-.+..    .+.+.
T Consensus       457 ~GQ~~ai~~l~~~i~~~~~g~~~~~~p~~~~lf~Gp~GvGKT~lA~~la~~l~~---~~~~~d~se~~~~~----~~~~l  529 (731)
T TIGR02639       457 FGQDEAIDSLVSSIKRSRAGLGNPNKPVGSFLFTGPTGVGKTELAKQLAEALGV---HLERFDMSEYMEKH----TVSRL  529 (731)
T ss_pred             eCcHHHHHHHHHHHHHHhcCCCCCCCCceeEEEECCCCccHHHHHHHHHHHhcC---CeEEEeCchhhhcc----cHHHH
Confidence            34556666666665421       112457899999999999999999887 32   23555554422211    11122


Q ss_pred             hccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc
Q 001457          235 LNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       235 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  271 (1074)
                      ++.... ....+....+.+.++....-+|+||+++..
T Consensus       530 ig~~~g-yvg~~~~~~l~~~~~~~p~~VvllDEieka  565 (731)
T TIGR02639       530 IGAPPG-YVGFEQGGLLTEAVRKHPHCVLLLDEIEKA  565 (731)
T ss_pred             hcCCCC-CcccchhhHHHHHHHhCCCeEEEEechhhc
Confidence            222111 000111223444444445679999999753

>KOG0741 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=96.23  E-value=0.17  Score=56.68  Aligned_cols=156  Identities=21%  Similarity=0.234  Sum_probs=90.5

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHH----HHHHH
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFL----SERLK  256 (1074)
Q Consensus       181 ~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l----~~~l~  256 (1074)
                      .....+.+.|++|+|||+||..+... ..|..+=-++-      +++            -+.++......+    ....+
T Consensus       536 s~lvSvLl~Gp~~sGKTaLAA~iA~~-S~FPFvKiiSp------e~m------------iG~sEsaKc~~i~k~F~DAYk  596 (744)
T KOG0741|consen  536 SPLVSVLLEGPPGSGKTALAAKIALS-SDFPFVKIISP------EDM------------IGLSESAKCAHIKKIFEDAYK  596 (744)
T ss_pred             CcceEEEEecCCCCChHHHHHHHHhh-cCCCeEEEeCh------HHc------------cCccHHHHHHHHHHHHHHhhc
Confidence            34678889999999999999999876 44553332221      110            111222222222    22333


Q ss_pred             ccCeEEEEEcCccccccccccccCC---------------CCCCCCeEEEEecCChhHHhhccCC----CeEeCCCCCH-
Q 001457          257 RQKRVLIILDDLWGKLDLAVVGIPY---------------GEEHKGCKIILTSRFKEVCDEMEST----NYVQVEELTD-  316 (1074)
Q Consensus       257 ~~k~~LlVlDdv~~~~~~~~~~~~~---------------~~~~~gs~iivTTR~~~v~~~~~~~----~~~~l~~L~~-  316 (1074)
                       ..--.||+||+...-+|-.++..+               |+.++.--|+-||....|...|+-.    ..|.++.++. 
T Consensus       597 -S~lsiivvDdiErLiD~vpIGPRfSN~vlQaL~VllK~~ppkg~kLli~~TTS~~~vL~~m~i~~~F~~~i~Vpnl~~~  675 (744)
T KOG0741|consen  597 -SPLSIIVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKQPPKGRKLLIFGTTSRREVLQEMGILDCFSSTIHVPNLTTG  675 (744)
T ss_pred             -CcceEEEEcchhhhhcccccCchhhHHHHHHHHHHhccCCCCCceEEEEecccHHHHHHHcCHHHhhhheeecCccCch
Confidence             466789999998776766543221               2222233455577778887777543    5788988887 


Q ss_pred             HHHHHHHHHhc-CCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHH
Q 001457          317 EDRLILFKKKA-GLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTAL  361 (1074)
Q Consensus       317 ~~~~~lf~~~a-~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l  361 (1074)
                      ++..+.++..- |   .+...+.++.+...+|  +-..|+.+-.++
T Consensus       676 ~~~~~vl~~~n~f---sd~~~~~~~~~~~~~~--~~vgIKklL~li  716 (744)
T KOG0741|consen  676 EQLLEVLEELNIF---SDDEVRAIAEQLLSKK--VNVGIKKLLMLI  716 (744)
T ss_pred             HHHHHHHHHccCC---CcchhHHHHHHHhccc--cchhHHHHHHHH
Confidence            67777776542 2   2334455666676666  233444444443

>cd00983 recA RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.20  E-value=0.013  Score=63.70  Aligned_cols=82  Identities=23%  Similarity=0.285  Sum_probs=54.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC------cchHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE------GDVEVLRAAFLSERL  255 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~~~l  255 (1074)
                      -+++-|+|++|+||||||.+++.. ...-..++||+..+.++..     .+++++.+.+      ....++....+...+
T Consensus        55 G~iteI~Gp~GsGKTtLal~~~~~~~~~g~~~vyId~E~~~~~~-----~a~~lGvd~~~l~v~~p~~~eq~l~i~~~li  129 (325)
T cd00983          55 GRIIEIYGPESSGKTTLALHAIAEAQKLGGTVAFIDAEHALDPV-----YAKKLGVDLDNLLISQPDTGEQALEIADSLV  129 (325)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCCEEEECccccHHHH-----HHHHcCCCHHHheecCCCCHHHHHHHHHHHH
Confidence            569999999999999999998776 4445678899988777653     3344443211      112233344444444


Q ss_pred             HccCeEEEEEcCcc
Q 001457          256 KRQKRVLIILDDLW  269 (1074)
Q Consensus       256 ~~~k~~LlVlDdv~  269 (1074)
                      +.+.--+||+|-|-
T Consensus       130 ~s~~~~lIVIDSva  143 (325)
T cd00983         130 RSGAVDLIVVDSVA  143 (325)
T ss_pred             hccCCCEEEEcchH
Confidence            45677899999875

RecA couples ATP hydrolysis to DNA strand exchange.

>PRK09354 recA recombinase A; Provisional

Probab=96.17  E-value=0.014  Score=63.74  Aligned_cols=83  Identities=19%  Similarity=0.268  Sum_probs=56.6

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC------cchHHHHHHHHHHH
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE------GDVEVLRAAFLSER  254 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~~~  254 (1074)
                      .-+++-|+|++|+||||||.++... ...-..++||+..+.++..     .+++++.+.+      ....++....+...
T Consensus        59 ~G~IteI~G~~GsGKTtLal~~~~~~~~~G~~~~yId~E~s~~~~-----~a~~lGvdld~lli~qp~~~Eq~l~i~~~l  133 (349)
T PRK09354         59 RGRIVEIYGPESSGKTTLALHAIAEAQKAGGTAAFIDAEHALDPV-----YAKKLGVDIDNLLVSQPDTGEQALEIADTL  133 (349)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchHHH-----HHHHcCCCHHHeEEecCCCHHHHHHHHHHH
Confidence            3579999999999999999998777 4445678899988877753     3445543321      11223334444455


Q ss_pred             HHccCeEEEEEcCcc
Q 001457          255 LKRQKRVLIILDDLW  269 (1074)
Q Consensus       255 l~~~k~~LlVlDdv~  269 (1074)
                      ++.++--+||+|-|-
T Consensus       134 i~s~~~~lIVIDSva  148 (349)
T PRK09354        134 VRSGAVDLIVVDSVA  148 (349)
T ss_pred             hhcCCCCEEEEeChh
Confidence            555677899999875

>cd01393 recA_like RecA is a bacterial enzyme which has roles in homologous recombination, DNA repair, and the induction of the SOS response

Probab=96.16  E-value=0.037  Score=58.07  Aligned_cols=46  Identities=26%  Similarity=0.396  Sum_probs=36.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCC------CeEEEEEecCCcCHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPF------DKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F------~~~~wv~vs~~~~~~~~~  228 (1074)
                      -.++.|+|.+|+|||++|.++... ...-      ..++|++....++..++.
T Consensus        19 g~v~~I~G~~GsGKT~l~~~ia~~~~~~~~~~g~~~~v~yi~~e~~~~~~rl~   71 (226)
T cd01393          19 GRITEIFGEFGSGKTQLCLQLAVEAQLPGELGGLEGKVVYIDTEGAFRPERLV   71 (226)
T ss_pred             CcEEEEeCCCCCChhHHHHHHHHHhhcccccCCCcceEEEEecCCCCCHHHHH
Confidence            569999999999999999998766 3333      567899988777765554

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.

>PRK05541 adenylylsulfate kinase; Provisional

Probab=96.14  E-value=0.014  Score=58.44  Aligned_cols=35  Identities=29%  Similarity=0.536  Sum_probs=29.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVR  217 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~  217 (1074)
                      ..+|.++|+.|+||||+|+.++.. ...+...+++.
T Consensus         7 ~~~I~i~G~~GsGKst~a~~l~~~l~~~~~~~~~~~   42 (176)
T PRK05541          7 GYVIWITGLAGSGKTTIAKALYERLKLKYSNVIYLD   42 (176)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEe
Confidence            469999999999999999999998 65666666653

>TIGR03345 VI_ClpV1 type VI secretion ATPase, ClpV1 family

Probab=96.13  E-value=0.011  Score=73.66  Aligned_cols=104  Identities=13%  Similarity=0.252  Sum_probs=55.2

Q ss_pred             CcchHHHHHHHHHHHhc-------CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKD-------NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~-------~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +.|.++.++.+.+.+..       ......++.++|+.|+|||.+|+.+... -+.....+-++++.-.+.    ..+.+
T Consensus       568 v~GQ~~Av~~v~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKT~lA~~La~~l~~~~~~~~~~dmse~~~~----~~~~~  643 (852)
T TIGR03345       568 VIGQDHALEAIAERIRTARAGLEDPRKPLGVFLLVGPSGVGKTETALALAELLYGGEQNLITINMSEFQEA----HTVSR  643 (852)
T ss_pred             EcChHHHHHHHHHHHHHHhcCCCCCCCCceEEEEECCCCCCHHHHHHHHHHHHhCCCcceEEEeHHHhhhh----hhhcc
Confidence            34666777777766532       2223568999999999999999988776 222222233333221111    11111


Q ss_pred             HhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccc
Q 001457          234 FLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWG  270 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  270 (1074)
                      -+|... +.........+.+.++.....+|+||++..
T Consensus       644 l~g~~~-gyvg~~~~g~L~~~v~~~p~svvllDEiek  679 (852)
T TIGR03345       644 LKGSPP-GYVGYGEGGVLTEAVRRKPYSVVLLDEVEK  679 (852)
T ss_pred             ccCCCC-CcccccccchHHHHHHhCCCcEEEEechhh
Confidence            122211 110001112344445456778999999974

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.

>COG1223 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=96.07  E-value=0.077  Score=53.77  Aligned_cols=149  Identities=20%  Similarity=0.299  Sum_probs=83.7

Q ss_pred             CcchHHHHH---HHHHHHhcCC----CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          162 LKSALEVIK---SVMKLLKDNS----ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       162 ~~~r~~~~~---~l~~~l~~~~----~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +.|.++.+.   -|++.|.+.+    =..+-|..+|++|.|||.+|+.+.+. +-.|     +.|..    .+++.   +
T Consensus       123 ViGqEeAK~kcrli~~yLenPe~Fg~WAPknVLFyGppGTGKTm~Akalane~kvp~-----l~vka----t~liG---e  190 (368)
T COG1223         123 VIGQEEAKRKCRLIMEYLENPERFGDWAPKNVLFYGPPGTGKTMMAKALANEAKVPL-----LLVKA----TELIG---E  190 (368)
T ss_pred             hhchHHHHHHHHHHHHHhhChHHhcccCcceeEEECCCCccHHHHHHHHhcccCCce-----EEech----HHHHH---H
Confidence            445444432   3455565432    14788999999999999999999998 4333     22211    12211   1


Q ss_pred             HhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc----------cc----ccccccCCC--CCCCCeEEEEecCCh
Q 001457          234 FLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK----------LD----LAVVGIPYG--EEHKGCKIILTSRFK  297 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~----------~~----~~~~~~~~~--~~~~gs~iivTTR~~  297 (1074)
                      ..|      .....+..+.++-...-.|++.+|.++-.          .+    .+.+...+.  ..+.|-..|..|...
T Consensus       191 hVG------dgar~Ihely~rA~~~aPcivFiDE~DAiaLdRryQelRGDVsEiVNALLTelDgi~eneGVvtIaaTN~p  264 (368)
T COG1223         191 HVG------DGARRIHELYERARKAAPCIVFIDELDAIALDRRYQELRGDVSEIVNALLTELDGIKENEGVVTIAATNRP  264 (368)
T ss_pred             Hhh------hHHHHHHHHHHHHHhcCCeEEEehhhhhhhhhhhHHHhcccHHHHHHHHHHhccCcccCCceEEEeecCCh
Confidence            111      11334455555555567899999987532          01    111211111  123466666666665


Q ss_pred             hHHh-hccCC--CeEeCCCCCHHHHHHHHHHhcC
Q 001457          298 EVCD-EMEST--NYVQVEELTDEDRLILFKKKAG  328 (1074)
Q Consensus       298 ~v~~-~~~~~--~~~~l~~L~~~~~~~lf~~~a~  328 (1074)
                      +... ...+.  .-|+..--+++|-.+++..++.
T Consensus       265 ~~LD~aiRsRFEeEIEF~LP~~eEr~~ile~y~k  298 (368)
T COG1223         265 ELLDPAIRSRFEEEIEFKLPNDEERLEILEYYAK  298 (368)
T ss_pred             hhcCHHHHhhhhheeeeeCCChHHHHHHHHHHHH
Confidence            5532 22222  3566666788888888888875

>PRK06696 uridine kinase; Validated

Probab=96.06  E-value=0.0092  Score=62.30  Aligned_cols=42  Identities=19%  Similarity=0.246  Sum_probs=33.2

Q ss_pred             hHHHHHHHHHHHhc-CCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          165 ALEVIKSVMKLLKD-NSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       165 r~~~~~~l~~~l~~-~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |.+.+++|.+.+.. ......+|+|.|.+|+||||+|+.+...
T Consensus         3 ~~~~~~~la~~~~~~~~~~~~iI~I~G~sgsGKSTlA~~L~~~   45 (223)
T PRK06696          3 RKQLIKELAEHILTLNLTRPLRVAIDGITASGKTTFADELAEE   45 (223)
T ss_pred             HHHHHHHHHHHHHHhCCCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            55666777776643 2234789999999999999999999987

>KOG0734 consensus AAA+-type ATPase containing the peptidase M41 domain [Posttranslational modification, protein turnover, chaperones]

Probab=96.05  E-value=0.018  Score=63.98  Aligned_cols=50  Identities=22%  Similarity=0.312  Sum_probs=40.5

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCC-------CceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNS-------ISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~-------~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+.-|.+.-.++++++++.|.+..       .=.+=|.++|++|.|||-|||+|...
T Consensus       304 ~dVkG~DEAK~ELeEiVefLkdP~kftrLGGKLPKGVLLvGPPGTGKTlLARAvAGE  360 (752)
T KOG0734|consen  304 EDVKGVDEAKQELEEIVEFLKDPTKFTRLGGKLPKGVLLVGPPGTGKTLLARAVAGE  360 (752)
T ss_pred             ccccChHHHHHHHHHHHHHhcCcHHhhhccCcCCCceEEeCCCCCchhHHHHHhhcc
Confidence            344566667788999999998764       12567889999999999999999987

>KOG2035 consensus Replication factor C, subunit RFC3 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=96.04  E-value=0.15  Score=52.39  Aligned_cols=223  Identities=14%  Similarity=0.224  Sum_probs=114.0

Q ss_pred             cCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-------cCCCCeEEEEEecCC----------c-
Q 001457          161 PLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-------EIPFDKVIFVRVTQT----------P-  222 (1074)
Q Consensus       161 ~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-------~~~F~~~~wv~vs~~----------~-  222 (1074)
                      .+.++++....+......++  .+...++|+.|.||-|.+..+.++       +-.-+...|.+-|..          + 
T Consensus        14 ~l~~~~e~~~~Lksl~~~~d--~PHll~yGPSGaGKKTrimclL~elYG~gveklki~~~t~~tpS~kklEistvsS~yH   91 (351)
T KOG2035|consen   14 ELIYHEELANLLKSLSSTGD--FPHLLVYGPSGAGKKTRIMCLLRELYGVGVEKLKIETRTFTTPSKKKLEISTVSSNYH   91 (351)
T ss_pred             hcccHHHHHHHHHHhcccCC--CCeEEEECCCCCCchhhHHHHHHHHhCCCchheeeeeEEEecCCCceEEEEEecccce
Confidence            34555555555555444444  889999999999999977665555       333445556543332          1 


Q ss_pred             ----------CHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEE-EEEcCcccc--ccccccccCCCCCCCCeE
Q 001457          223 ----------DVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL-IILDDLWGK--LDLAVVGIPYGEEHKGCK  289 (1074)
Q Consensus       223 ----------~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L-lVlDdv~~~--~~~~~~~~~~~~~~~gs~  289 (1074)
                                .-+-+.++++++......          +.-  +..+.|= +|+..+++-  +.-..++.....-...+|
T Consensus        92 lEitPSDaG~~DRvViQellKevAQt~q----------ie~--~~qr~fKvvvi~ead~LT~dAQ~aLRRTMEkYs~~~R  159 (351)
T KOG2035|consen   92 LEITPSDAGNYDRVVIQELLKEVAQTQQ----------IET--QGQRPFKVVVINEADELTRDAQHALRRTMEKYSSNCR  159 (351)
T ss_pred             EEeChhhcCcccHHHHHHHHHHHHhhcc----------hhh--ccccceEEEEEechHhhhHHHHHHHHHHHHHHhcCce
Confidence                      123344444444332111          000  0123343 344444331  211122111111123556


Q ss_pred             EEEecCC-hhHHhhccC-CCeEeCCCCCHHHHHHHHHHhcCCC-CCCchhHHHHHHHHHHhCCCh-HHHHHHHHHHc--C
Q 001457          290 IILTSRF-KEVCDEMES-TNYVQVEELTDEDRLILFKKKAGLP-EGTKAFDRAAEEVVRQCGKLP-NAIVIIGTALR--H  363 (1074)
Q Consensus       290 iivTTR~-~~v~~~~~~-~~~~~l~~L~~~~~~~lf~~~a~~~-~~~~~~~~~~~~i~~~c~glP-Lai~~~~~~l~--~  363 (1074)
                      +|+.-.+ ..+...... .-.+++...+++|-...+++.+... -.-|  .+++.+|+++++|.- -|+-++ ..++  +
T Consensus       160 lIl~cns~SriIepIrSRCl~iRvpaps~eeI~~vl~~v~~kE~l~lp--~~~l~rIa~kS~~nLRrAllml-E~~~~~n  236 (351)
T KOG2035|consen  160 LILVCNSTSRIIEPIRSRCLFIRVPAPSDEEITSVLSKVLKKEGLQLP--KELLKRIAEKSNRNLRRALLML-EAVRVNN  236 (351)
T ss_pred             EEEEecCcccchhHHhhheeEEeCCCCCHHHHHHHHHHHHHHhcccCc--HHHHHHHHHHhcccHHHHHHHH-HHHHhcc
Confidence            6654221 112111222 2467899999999999998877521 2222  789999999999854 333332 2221  1


Q ss_pred             -----C----ChhHHHHHHHHHhhCCCCCCCCchHHHHHHHHHhhcCC
Q 001457          364 -----K----PVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQL  402 (1074)
Q Consensus       364 -----~----~~~~w~~~~~~l~~~~~~~~~~~~~~~~~~l~~sy~~L  402 (1074)
                           +    +.-+|+-++.+.......+  ..++.+..+-..=|+-|
T Consensus       237 ~~~~a~~~~i~~~dWe~~i~e~a~~i~~e--Qs~~~L~~vR~~LYeLL  282 (351)
T KOG2035|consen  237 EPFTANSQVIPKPDWEIYIQEIARVILKE--QSPAKLLEVRGRLYELL  282 (351)
T ss_pred             ccccccCCCCCCccHHHHHHHHHHHHHhc--cCHHHHHHHHHHHHHHH
Confidence                 1    3568998888655433221  11255555555555544

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=96.01  E-value=0.15  Score=58.69  Aligned_cols=84  Identities=21%  Similarity=0.232  Sum_probs=44.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCC-CCeEEEEEecCCcC--HHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIP-FDKVIFVRVTQTPD--VKRVQDEIARFLNTELEGDVEVLRAAFLSERLKR  257 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~-F~~~~wv~vs~~~~--~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  257 (1074)
                      -.+|+|+|.+|+||||++.++...  ..+ ...+..++.. .+.  ..+.++...+.++................+.+. 
T Consensus       350 G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtD-tyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~-  427 (559)
T PRK12727        350 GGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTD-TQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLR-  427 (559)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecc-cccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhc-
Confidence            469999999999999999888776  222 2345555542 222  122222333333332222222222222333332 


Q ss_pred             cCeEEEEEcCcc
Q 001457          258 QKRVLIILDDLW  269 (1074)
Q Consensus       258 ~k~~LlVlDdv~  269 (1074)
                       ..=+|++|..-
T Consensus       428 -~~DLVLIDTaG  438 (559)
T PRK12727        428 -DYKLVLIDTAG  438 (559)
T ss_pred             -cCCEEEecCCC
Confidence             35578888753

>PRK09361 radB DNA repair and recombination protein RadB; Provisional

Probab=96.01  E-value=0.045  Score=57.33  Aligned_cols=44  Identities=27%  Similarity=0.364  Sum_probs=35.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRV  227 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~  227 (1074)
                      -.++.|+|.+|+|||++|.++... ...-..++|++.. .++..++
T Consensus        23 g~i~~i~G~~GsGKT~l~~~la~~~~~~~~~v~yi~~e-~~~~~r~   67 (225)
T PRK09361         23 GTITQIYGPPGSGKTNICLQLAVEAAKNGKKVIYIDTE-GLSPERF   67 (225)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEECC-CCCHHHH
Confidence            569999999999999999998877 3344678899887 5555544

>cd01133 F1-ATPase_beta F1 ATP synthase beta subunit, nucleotide-binding domain

Probab=96.00  E-value=0.042  Score=57.93  Aligned_cols=88  Identities=18%  Similarity=0.342  Sum_probs=54.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCC-CeEEEEEecCCc-CHHHHHHHHHHHhcc-------CCCcchHH------HH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPF-DKVIFVRVTQTP-DVKRVQDEIARFLNT-------ELEGDVEV------LR  247 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F-~~~~wv~vs~~~-~~~~~~~~i~~~l~~-------~~~~~~~~------~~  247 (1074)
                      .-++|.|.+|+||||||+.+++. +.+| +.++++-+.+.. .+.++.+++...-..       ....++..      ..
T Consensus        70 Qr~~If~~~G~GKTtLa~~i~~~i~~~~~~~~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~~~~~  149 (274)
T cd01133          70 GKIGLFGGAGVGKTVLIMELINNIAKAHGGYSVFAGVGERTREGNDLYHEMKESGVLSKTALVYGQMNEPPGARARVALT  149 (274)
T ss_pred             CEEEEecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHH
Confidence            46899999999999999999998 5555 456677776654 345555555432111       01111111      11


Q ss_pred             HHHHHHHHH-c-cCeEEEEEcCcccc
Q 001457          248 AAFLSERLK-R-QKRVLIILDDLWGK  271 (1074)
Q Consensus       248 ~~~l~~~l~-~-~k~~LlVlDdv~~~  271 (1074)
                      +-.+-+++. + ++.+|+|+||+-..
T Consensus       150 a~~~AEyfr~~~g~~Vl~~~Dsltr~  175 (274)
T cd01133         150 GLTMAEYFRDEEGQDVLLFIDNIFRF  175 (274)
T ss_pred             HHHHHHHHHHhcCCeEEEEEeChhHH
Confidence            223445553 3 89999999998643

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.

>TIGR03346 chaperone_ClpB ATP-dependent chaperone ClpB

Probab=96.00  E-value=0.02  Score=72.00  Aligned_cols=105  Identities=19%  Similarity=0.277  Sum_probs=56.5

Q ss_pred             CcchHHHHHHHHHHHhcC-------CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKDN-------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~-------~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +.|.+..++.+...+...       .....++.++|+.|+|||++|+.+... ...-...+.++.+.-.+...+    .+
T Consensus       567 v~GQ~~av~~v~~~i~~~~~gl~~~~~p~~~~Lf~Gp~GvGKt~lA~~La~~l~~~~~~~i~~d~s~~~~~~~~----~~  642 (852)
T TIGR03346       567 VVGQDEAVEAVSDAIRRSRAGLSDPNRPIGSFLFLGPTGVGKTELAKALAEFLFDDEDAMVRIDMSEYMEKHSV----AR  642 (852)
T ss_pred             cCCChHHHHHHHHHHHHHhccCCCCCCCCeEEEEEcCCCCCHHHHHHHHHHHhcCCCCcEEEEechhhcccchH----HH
Confidence            446667777777766431       112457889999999999999999987 332334455555543221111    11


Q ss_pred             HhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc
Q 001457          234 FLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  271 (1074)
                      -++... +.........+.+.++.....+|+||++...
T Consensus       643 l~g~~~-g~~g~~~~g~l~~~v~~~p~~vlllDeieka  679 (852)
T TIGR03346       643 LIGAPP-GYVGYEEGGQLTEAVRRKPYSVVLFDEVEKA  679 (852)
T ss_pred             hcCCCC-CccCcccccHHHHHHHcCCCcEEEEeccccC
Confidence            122111 1000000122334443334458999999753

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.

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=95.97  E-value=0.034  Score=54.72  Aligned_cols=39  Identities=33%  Similarity=0.482  Sum_probs=30.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcC
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPD  223 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~  223 (1074)
                      ++.|+|.+|+||||+++.+... ...-..++|++......
T Consensus         1 ~~~i~G~~G~GKT~l~~~i~~~~~~~~~~v~~~~~e~~~~   40 (165)
T cd01120           1 LILVFGPTGSGKTTLALQLALNIATKGGKVVYVDIEEEIE   40 (165)
T ss_pred             CeeEeCCCCCCHHHHHHHHHHHHHhcCCEEEEEECCcchH
Confidence            4789999999999999999888 44446677887766543

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.

>PRK04132 replication factor C small subunit; Provisional

Probab=95.96  E-value=0.1  Score=64.11  Aligned_cols=149  Identities=9%  Similarity=0.078  Sum_probs=89.1

Q ss_pred             CCCCcHHHHHHHHHhh--cCCC-CeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcC
Q 001457          191 SGGIGKTTLMKQVMKQ--EIPF-DKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDD  267 (1074)
Q Consensus       191 ~gG~GKTtLa~~v~~~--~~~F-~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDd  267 (1074)
                      +.++||||+|+.++++  ...+ ..++-++.|+...+..+ +++++.+.....              +...+.-++|+|+
T Consensus       574 Ph~lGKTT~A~ala~~l~g~~~~~~~lElNASd~rgid~I-R~iIk~~a~~~~--------------~~~~~~KVvIIDE  638 (846)
T PRK04132        574 PTVLHNTTAALALARELFGENWRHNFLELNASDERGINVI-REKVKEFARTKP--------------IGGASFKIIFLDE  638 (846)
T ss_pred             CCcccHHHHHHHHHHhhhcccccCeEEEEeCCCcccHHHH-HHHHHHHHhcCC--------------cCCCCCEEEEEEC
Confidence            7899999999999988  3333 24567777765555433 333332211000              0012567999999


Q ss_pred             cccc--ccccccccCCCCCCCCeEEEEecCCh-hHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHH
Q 001457          268 LWGK--LDLAVVGIPYGEEHKGCKIILTSRFK-EVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEV  343 (1074)
Q Consensus       268 v~~~--~~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i  343 (1074)
                      ++.-  +..+.+...+-.....+++|.+|.+. .+.... .....+++.+++.++-.+.+...+.... ..-..+....|
T Consensus       639 aD~Lt~~AQnALLk~lEep~~~~~FILi~N~~~kIi~tIrSRC~~i~F~~ls~~~i~~~L~~I~~~Eg-i~i~~e~L~~I  717 (846)
T PRK04132        639 ADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAIFRFRPLRDEDIAKRLRYIAENEG-LELTEEGLQAI  717 (846)
T ss_pred             cccCCHHHHHHHHHHhhCCCCCeEEEEEeCChhhCchHHhhhceEEeCCCCCHHHHHHHHHHHHHhcC-CCCCHHHHHHH
Confidence            9864  34444433332223456666655543 333332 2236899999999998888776654211 11225678899


Q ss_pred             HHHhCCChHHHH
Q 001457          344 VRQCGKLPNAIV  355 (1074)
Q Consensus       344 ~~~c~glPLai~  355 (1074)
                      ++.++|-+-.+.
T Consensus       718 a~~s~GDlR~AI  729 (846)
T PRK04132        718 LYIAEGDMRRAI  729 (846)
T ss_pred             HHHcCCCHHHHH
Confidence            999999884433

>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=95.94  E-value=0.029  Score=56.82  Aligned_cols=57  Identities=19%  Similarity=0.313  Sum_probs=38.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecC-CcCHHHHHHHHHHHhccCC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTEL  239 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~~  239 (1074)
                      .+||.++|+.|+||||.+.+++.. ..+-..+..++... .....+-++..++.++...
T Consensus         1 p~vi~lvGptGvGKTTt~aKLAa~~~~~~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~   59 (196)
T PF00448_consen    1 PKVIALVGPTGVGKTTTIAKLAARLKLKGKKVALISADTYRIGAVEQLKTYAEILGVPF   59 (196)
T ss_dssp             SEEEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEESTSSTHHHHHHHHHHHHHTEEE
T ss_pred             CEEEEEECCCCCchHhHHHHHHHHHhhccccceeecCCCCCccHHHHHHHHHHHhcccc
Confidence            369999999999999877776666 33344566776542 2245566777788887653

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>TIGR01243 CDC48 AAA family ATPase, CDC48 subfamily

Probab=95.94  E-value=0.069  Score=66.42  Aligned_cols=173  Identities=12%  Similarity=0.141  Sum_probs=87.3

Q ss_pred             cccCcchHHHHHHHHHHHhc---C-------C-CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHH
Q 001457          159 FVPLKSALEVIKSVMKLLKD---N-------S-ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKR  226 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l~~---~-------~-~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~  226 (1074)
                      +..+.|.++.++++.+.+.-   .       . ...+-|.++|++|+||||+|+.+++. ...|     +.++..    .
T Consensus       177 ~~di~G~~~~~~~l~~~i~~~~~~~~~~~~~gi~~~~giLL~GppGtGKT~laraia~~~~~~~-----i~i~~~----~  247 (733)
T TIGR01243       177 YEDIGGLKEAKEKIREMVELPMKHPELFEHLGIEPPKGVLLYGPPGTGKTLLAKAVANEAGAYF-----ISINGP----E  247 (733)
T ss_pred             HHHhcCHHHHHHHHHHHHHHHhhCHHHHHhcCCCCCceEEEECCCCCChHHHHHHHHHHhCCeE-----EEEecH----H
Confidence            33455777766666555421   0       0 12457889999999999999999988 4333     222221    1


Q ss_pred             HHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc-------------cccccccCCCC-CCCCeEEEE
Q 001457          227 VQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL-------------DLAVVGIPYGE-EHKGCKIIL  292 (1074)
Q Consensus       227 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~-------------~~~~~~~~~~~-~~~gs~iiv  292 (1074)
                      +.    ..    ..+.. ......+.+........+|++|+++...             ....+...+.. ...+..++|
T Consensus       248 i~----~~----~~g~~-~~~l~~lf~~a~~~~p~il~iDEid~l~~~r~~~~~~~~~~~~~~Ll~~ld~l~~~~~vivI  318 (733)
T TIGR01243       248 IM----SK----YYGES-EERLREIFKEAEENAPSIIFIDEIDAIAPKREEVTGEVEKRVVAQLLTLMDGLKGRGRVIVI  318 (733)
T ss_pred             Hh----cc----cccHH-HHHHHHHHHHHHhcCCcEEEeehhhhhcccccCCcchHHHHHHHHHHHHhhccccCCCEEEE
Confidence            11    00    01111 1122223333333567899999986421             01112111111 112333444


Q ss_pred             -ecCChh-HHhhc----cCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          293 -TSRFKE-VCDEM----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       293 -TTR~~~-v~~~~----~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                       ||.... +...+    .-...+.+...+.++-.+++..........+  ......+++.+.|.-
T Consensus       319 ~atn~~~~ld~al~r~gRfd~~i~i~~P~~~~R~~Il~~~~~~~~l~~--d~~l~~la~~t~G~~  381 (733)
T TIGR01243       319 GATNRPDALDPALRRPGRFDREIVIRVPDKRARKEILKVHTRNMPLAE--DVDLDKLAEVTHGFV  381 (733)
T ss_pred             eecCChhhcCHHHhCchhccEEEEeCCcCHHHHHHHHHHHhcCCCCcc--ccCHHHHHHhCCCCC
Confidence             554332 21111    1234677888888888888876553211111  122456777887765

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.

>COG2812 DnaX DNA polymerase III, gamma/tau subunits [DNA replication, recombination, and repair]

Probab=95.92  E-value=0.058  Score=62.05  Aligned_cols=188  Identities=15%  Similarity=0.119  Sum_probs=104.4

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +..|..+.|.+...+.|...+..+. -..--...|+-|+||||+||-+..-  ..+     | .....++.-...+.|..
T Consensus        12 P~~F~evvGQe~v~~~L~nal~~~r-i~hAYlfsG~RGvGKTt~Ari~AkalNC~~-----~-~~~ePC~~C~~Ck~I~~   84 (515)
T COG2812          12 PKTFDDVVGQEHVVKTLSNALENGR-IAHAYLFSGPRGVGKTTIARILAKALNCEN-----G-PTAEPCGKCISCKEINE   84 (515)
T ss_pred             cccHHHhcccHHHHHHHHHHHHhCc-chhhhhhcCCCCcCchhHHHHHHHHhcCCC-----C-CCCCcchhhhhhHhhhc
Confidence            3444455677777777777776554 2345667899999999999988876  111     0 11112222222233322


Q ss_pred             HhccC---CCcc--hHHHHHHHHHHHHH----ccCeEEEEEcCcc--ccccccccccCCCCCCCCeEEEEe-cCChhH-H
Q 001457          234 FLNTE---LEGD--VEVLRAAFLSERLK----RQKRVLIILDDLW--GKLDLAVVGIPYGEEHKGCKIILT-SRFKEV-C  300 (1074)
Q Consensus       234 ~l~~~---~~~~--~~~~~~~~l~~~l~----~~k~~LlVlDdv~--~~~~~~~~~~~~~~~~~gs~iivT-TR~~~v-~  300 (1074)
                      .-..+   .+..  ...+....+.+...    .+|-=+.|+|+|.  +...|..+...+-.-...-+.|.. |-...+ .
T Consensus        85 g~~~DviEiDaASn~gVddiR~i~e~v~y~P~~~ryKVyiIDEvHMLS~~afNALLKTLEEPP~hV~FIlATTe~~Kip~  164 (515)
T COG2812          85 GSLIDVIEIDAASNTGVDDIREIIEKVNYAPSEGRYKVYIIDEVHMLSKQAFNALLKTLEEPPSHVKFILATTEPQKIPN  164 (515)
T ss_pred             CCcccchhhhhhhccChHHHHHHHHHhccCCccccceEEEEecHHhhhHHHHHHHhcccccCccCeEEEEecCCcCcCch
Confidence            20000   0111  11233344444443    3666788999987  345566554444333345555554 444444 3


Q ss_pred             hhccCCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCCh
Q 001457          301 DEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       301 ~~~~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      ......+.|.++.++.++-...+...+.. ......++...-|++..+|..
T Consensus       165 TIlSRcq~f~fkri~~~~I~~~L~~i~~~-E~I~~e~~aL~~ia~~a~Gs~  214 (515)
T COG2812         165 TILSRCQRFDFKRLDLEEIAKHLAAILDK-EGINIEEDALSLIARAAEGSL  214 (515)
T ss_pred             hhhhccccccccCCCHHHHHHHHHHHHHh-cCCccCHHHHHHHHHHcCCCh
Confidence            33445578999999999888887777652 222333455666777777744

>KOG2739 consensus Leucine-rich acidic nuclear protein [Cell cycle control, cell division, chromosome partitioning; General function prediction only]

Probab=95.92  E-value=0.0051  Score=62.68  Aligned_cols=82  Identities=33%  Similarity=0.439  Sum_probs=59.7

Q ss_pred             cCCCcEEeeccCCcccCCCCCCCCCccEEEccCCC--CC-CCChhHHhcCCCccEEEecCCccCCCC--CCccCCccCCe
Q 001457          508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNP--FA-DIPNAFFEHTREIKNLDLSSTNISSLA--PSLPCLEKLRS  582 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~--~~-~~~~~~~~~l~~L~~L~l~~~~~~~lp--~~i~~l~~Lr~  582 (1074)
                      +..+..+++.+..++.+...+.+++|+.|.++.|.  .. .++.. ..++++|++|++++|++..+.  ..+..+.+|..
T Consensus        42 ~~~le~ls~~n~gltt~~~~P~Lp~LkkL~lsdn~~~~~~~l~vl-~e~~P~l~~l~ls~Nki~~lstl~pl~~l~nL~~  120 (260)
T KOG2739|consen   42 FVELELLSVINVGLTTLTNFPKLPKLKKLELSDNYRRVSGGLEVL-AEKAPNLKVLNLSGNKIKDLSTLRPLKELENLKS  120 (260)
T ss_pred             ccchhhhhhhccceeecccCCCcchhhhhcccCCcccccccceeh-hhhCCceeEEeecCCccccccccchhhhhcchhh
Confidence            56778888888888888888899999999999994  22 33332 356799999999999987531  23455566666


Q ss_pred             eeccCCCC
Q 001457          583 LHLENTHL  590 (1074)
Q Consensus       583 L~L~~~~l  590 (1074)
                      |++.+|..
T Consensus       121 Ldl~n~~~  128 (260)
T KOG2739|consen  121 LDLFNCSV  128 (260)
T ss_pred             hhcccCCc
Confidence            66666653

>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=95.90  E-value=0.33  Score=54.14  Aligned_cols=39  Identities=23%  Similarity=0.496  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhcCC-CceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          168 VIKSVMKLLKDNS-ISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       168 ~~~~l~~~l~~~~-~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+.+.+.+.+.+ ....+|+|.|.=|+||||+.+++.+.
T Consensus         4 ~a~~la~~I~~~~~~~~~~IgL~G~WGsGKSs~l~~l~~~   43 (325)
T PF07693_consen    4 YAKALAEIIKNPDSDDPFVIGLYGEWGSGKSSFLNMLKEE   43 (325)
T ss_pred             HHHHHHHHHhccCCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3455556665543 44789999999999999999999988

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 [].

>TIGR02858 spore_III_AA stage III sporulation protein AA

Probab=95.88  E-value=0.045  Score=58.28  Aligned_cols=128  Identities=15%  Similarity=0.122  Sum_probs=68.8

Q ss_pred             HHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEE---EecCCcCHHHHHHHHH--HHh--ccCCCcc
Q 001457          170 KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV---RVTQTPDVKRVQDEIA--RFL--NTELEGD  242 (1074)
Q Consensus       170 ~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv---~vs~~~~~~~~~~~i~--~~l--~~~~~~~  242 (1074)
                      +.++..+.... ...-++|+|..|+|||||.+.+...-......+++   .|.......++...+.  .+.  +...+..
T Consensus        99 ~~~l~~l~~~~-~~~~~~i~g~~g~GKttl~~~l~~~~~~~~G~i~~~g~~v~~~d~~~ei~~~~~~~~q~~~~~r~~v~  177 (270)
T TIGR02858        99 DKLLPYLVRNN-RVLNTLIISPPQCGKTTLLRDLARILSTGISQLGLRGKKVGIVDERSEIAGCVNGVPQHDVGIRTDVL  177 (270)
T ss_pred             HHHHHHHHhCC-CeeEEEEEcCCCCCHHHHHHHHhCccCCCCceEEECCEEeecchhHHHHHHHhccccccccccccccc
Confidence            34444444322 25789999999999999999999872222334443   2211111222221110  010  1100100


Q ss_pred             hHHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhHHh
Q 001457          243 VEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCD  301 (1074)
Q Consensus       243 ~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~  301 (1074)
                      ........+...+....+-++++|.+-..+.+..+...+   ..|..||+||-...+..
T Consensus       178 ~~~~k~~~~~~~i~~~~P~villDE~~~~e~~~~l~~~~---~~G~~vI~ttH~~~~~~  233 (270)
T TIGR02858       178 DGCPKAEGMMMLIRSMSPDVIVVDEIGREEDVEALLEAL---HAGVSIIATAHGRDVED  233 (270)
T ss_pred             ccchHHHHHHHHHHhCCCCEEEEeCCCcHHHHHHHHHHH---hCCCEEEEEechhHHHH
Confidence            111112234444444578899999988776665554433   24778999998766643

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.

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=95.87  E-value=0.16  Score=61.00  Aligned_cols=104  Identities=17%  Similarity=0.210  Sum_probs=58.1

Q ss_pred             CcchHHHHHHHHHHHhc-------CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKD-------NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~-------~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +.|.++.++.+.+.+..       ....+.+...+|+.|+|||-||+.+... -+.=+..+-++.|+-....    .+.+
T Consensus       493 ViGQd~AV~avs~aIrraRaGL~dp~rPigsFlF~GPTGVGKTELAkaLA~~Lfg~e~aliR~DMSEy~EkH----sVSr  568 (786)
T COG0542         493 VIGQDEAVEAVSDAIRRARAGLGDPNRPIGSFLFLGPTGVGKTELAKALAEALFGDEQALIRIDMSEYMEKH----SVSR  568 (786)
T ss_pred             eeChHHHHHHHHHHHHHHhcCCCCCCCCceEEEeeCCCcccHHHHHHHHHHHhcCCCccceeechHHHHHHH----HHHH
Confidence            44667777777776642       2234678889999999999999998876 2211334444444321111    1222


Q ss_pred             HhccCCCcchHHHHHHHHHHHHHccCeE-EEEEcCcccc
Q 001457          234 FLNTELEGDVEVLRAAFLSERLKRQKRV-LIILDDLWGK  271 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~-LlVlDdv~~~  271 (1074)
                      -+|........++ -..|-+..+ .++| +|.||+|...
T Consensus       569 LIGaPPGYVGyee-GG~LTEaVR-r~PySViLlDEIEKA  605 (786)
T COG0542         569 LIGAPPGYVGYEE-GGQLTEAVR-RKPYSVILLDEIEKA  605 (786)
T ss_pred             HhCCCCCCceecc-ccchhHhhh-cCCCeEEEechhhhc
Confidence            3332221111111 234445554 4666 7778999753

>PRK07667 uridine kinase; Provisional

Probab=95.87  E-value=0.018  Score=58.50  Aligned_cols=38  Identities=21%  Similarity=0.401  Sum_probs=30.6

Q ss_pred             HHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          169 IKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       169 ~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++.+++.+........+|+|.|.+|+||||+|+.+...
T Consensus         3 ~~~~~~~~~~~~~~~~iIgI~G~~gsGKStla~~L~~~   40 (193)
T PRK07667          3 TNELINIMKKHKENRFILGIDGLSRSGKTTFVANLKEN   40 (193)
T ss_pred             HHHHHHHHHhcCCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34566666555555689999999999999999999887

>PRK06835 DNA replication protein DnaC; Validated

Probab=95.86  E-value=0.017  Score=63.41  Aligned_cols=35  Identities=29%  Similarity=0.321  Sum_probs=27.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEe
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRV  218 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~v  218 (1074)
                      .-+.++|..|+|||+||..+.+. ...-..++|+++
T Consensus       184 ~~Lll~G~~GtGKThLa~aIa~~l~~~g~~V~y~t~  219 (329)
T PRK06835        184 ENLLFYGNTGTGKTFLSNCIAKELLDRGKSVIYRTA  219 (329)
T ss_pred             CcEEEECCCCCcHHHHHHHHHHHHHHCCCeEEEEEH
Confidence            67999999999999999999998 222235667764

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=95.85  E-value=0.15  Score=58.11  Aligned_cols=94  Identities=19%  Similarity=0.339  Sum_probs=56.1

Q ss_pred             cccCcchHHHHHHHHHHH---hcCC-------CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHH
Q 001457          159 FVPLKSALEVIKSVMKLL---KDNS-------ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRV  227 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l---~~~~-------~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~  227 (1074)
                      |..+.|.+..+.++.+++   ...+       ...+=|.++|++|+|||.||+.+.++ .-.|     +.++..      
T Consensus       189 f~diGG~d~~~~el~~li~~i~~Pe~~~~lGv~PprGvLlHGPPGCGKT~lA~AiAgel~vPf-----~~isAp------  257 (802)
T KOG0733|consen  189 FSDIGGLDKTLAELCELIIHIKHPEVFSSLGVRPPRGVLLHGPPGCGKTSLANAIAGELGVPF-----LSISAP------  257 (802)
T ss_pred             hhhccChHHHHHHHHHHHHHhcCchhHhhcCCCCCCceeeeCCCCccHHHHHHHHhhhcCCce-----Eeecch------
Confidence            444556666666555544   3322       12567889999999999999999998 4443     334332      


Q ss_pred             HHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccc
Q 001457          228 QDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWG  270 (1074)
Q Consensus       228 ~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  270 (1074)
                        +|+...    .+.++ +.+..+.+.-...-.+++++|+++-
T Consensus       258 --eivSGv----SGESE-kkiRelF~~A~~~aPcivFiDeIDA  293 (802)
T KOG0733|consen  258 --EIVSGV----SGESE-KKIRELFDQAKSNAPCIVFIDEIDA  293 (802)
T ss_pred             --hhhccc----CcccH-HHHHHHHHHHhccCCeEEEeecccc
Confidence              122221    12222 2333344444457899999999864

>KOG0735 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.82  E-value=0.053  Score=62.67  Aligned_cols=148  Identities=17%  Similarity=0.093  Sum_probs=81.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCc--CHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHcc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP--DVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQ  258 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~  258 (1074)
                      ..-|.|.|..|+|||+||+.+++.  +...-++.+|+++.-.  ....+++.+-.                ...+.+. .
T Consensus       431 ~~~Ill~G~~GsGKT~L~kal~~~~~k~~~~hv~~v~Cs~l~~~~~e~iQk~l~~----------------vfse~~~-~  493 (952)
T KOG0735|consen  431 HGNILLNGPKGSGKTNLVKALFDYYSKDLIAHVEIVSCSTLDGSSLEKIQKFLNN----------------VFSEALW-Y  493 (952)
T ss_pred             cccEEEeCCCCCCHhHHHHHHHHHhccccceEEEEEechhccchhHHHHHHHHHH----------------HHHHHHh-h
Confidence            457899999999999999999999  6666667777776432  23333322221                1223333 5


Q ss_pred             CeEEEEEcCcccc--------ccccc-----------cccCCCCCCCCeE--EEEecCChhHHh-hc----cCCCeEeCC
Q 001457          259 KRVLIILDDLWGK--------LDLAV-----------VGIPYGEEHKGCK--IILTSRFKEVCD-EM----ESTNYVQVE  312 (1074)
Q Consensus       259 k~~LlVlDdv~~~--------~~~~~-----------~~~~~~~~~~gs~--iivTTR~~~v~~-~~----~~~~~~~l~  312 (1074)
                      .+-+|||||++..        .+|..           +...  ....+.+  +|.|.....-.. ..    --+.+..+.
T Consensus       494 ~PSiIvLDdld~l~~~s~~e~~q~~~~~~rla~flnqvi~~--y~~~~~~ia~Iat~qe~qtl~~~L~s~~~Fq~~~~L~  571 (952)
T KOG0735|consen  494 APSIIVLDDLDCLASASSNENGQDGVVSERLAAFLNQVIKI--YLKRNRKIAVIATGQELQTLNPLLVSPLLFQIVIALP  571 (952)
T ss_pred             CCcEEEEcchhhhhccCcccCCcchHHHHHHHHHHHHHHHH--HHccCcEEEEEEechhhhhcChhhcCccceEEEEecC
Confidence            7889999998631        12221           1111  1223444  444544333211 11    112466788


Q ss_pred             CCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCC
Q 001457          313 ELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKL  350 (1074)
Q Consensus       313 ~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~gl  350 (1074)
                      .+...+-.++++............ ....-+..+|+|.
T Consensus       572 ap~~~~R~~IL~~~~s~~~~~~~~-~dLd~ls~~TEGy  608 (952)
T KOG0735|consen  572 APAVTRRKEILTTIFSKNLSDITM-DDLDFLSVKTEGY  608 (952)
T ss_pred             CcchhHHHHHHHHHHHhhhhhhhh-HHHHHHHHhcCCc
Confidence            888888777766555311111111 2222277778773

>CHL00095 clpC Clp protease ATP binding subunit

Probab=95.82  E-value=0.029  Score=70.44  Aligned_cols=105  Identities=18%  Similarity=0.256  Sum_probs=55.5

Q ss_pred             CcchHHHHHHHHHHHhc-------CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKD-------NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~-------~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +.|.++.++.+...+..       ......++.++|+.|+|||+||+.+.+. -..-...+-++.+.-.+...+    .+
T Consensus       511 v~GQ~~ai~~l~~~i~~~~~gl~~~~~p~~~~lf~Gp~GvGKt~lA~~LA~~l~~~~~~~~~~d~s~~~~~~~~----~~  586 (821)
T CHL00095        511 IIGQDEAVVAVSKAIRRARVGLKNPNRPIASFLFSGPTGVGKTELTKALASYFFGSEDAMIRLDMSEYMEKHTV----SK  586 (821)
T ss_pred             CcChHHHHHHHHHHHHHHhhcccCCCCCceEEEEECCCCCcHHHHHHHHHHHhcCCccceEEEEchhccccccH----HH
Confidence            44667777777766642       1112456779999999999999999876 222233444444432221111    11


Q ss_pred             HhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc
Q 001457          234 FLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  271 (1074)
                      -++... +.........+.+.+......+|+||++...
T Consensus       587 l~g~~~-gyvg~~~~~~l~~~~~~~p~~VvllDeieka  623 (821)
T CHL00095        587 LIGSPP-GYVGYNEGGQLTEAVRKKPYTVVLFDEIEKA  623 (821)
T ss_pred             hcCCCC-cccCcCccchHHHHHHhCCCeEEEECChhhC
Confidence            122111 0000011123444554334468899999753

>PRK06921 hypothetical protein; Provisional

Probab=95.75  E-value=0.033  Score=59.51  Aligned_cols=36  Identities=25%  Similarity=0.313  Sum_probs=28.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCC-CCeEEEEEe
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIP-FDKVIFVRV  218 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~-F~~~~wv~v  218 (1074)
                      ...+.++|..|+|||+||..+.+. ... -..++|++.
T Consensus       117 ~~~l~l~G~~G~GKThLa~aia~~l~~~~g~~v~y~~~  154 (266)
T PRK06921        117 KNSIALLGQPGSGKTHLLTAAANELMRKKGVPVLYFPF  154 (266)
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHHHhhhcCceEEEEEH
Confidence            467899999999999999999998 332 345677764

>KOG0744 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.74  E-value=0.032  Score=58.31  Aligned_cols=24  Identities=33%  Similarity=0.486  Sum_probs=23.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|+|.++|++|.|||+|.+.++++
T Consensus       177 NRliLlhGPPGTGKTSLCKaLaQk  200 (423)
T KOG0744|consen  177 NRLILLHGPPGTGKTSLCKALAQK  200 (423)
T ss_pred             eeEEEEeCCCCCChhHHHHHHHHh
Confidence            589999999999999999999998

>TIGR02238 recomb_DMC1 meiotic recombinase Dmc1

Probab=95.73  E-value=0.075  Score=58.08  Aligned_cols=54  Identities=24%  Similarity=0.274  Sum_probs=41.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh---c----CCCCeEEEEEecCCcCHHHHHHHHHHHhcc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ---E----IPFDKVIFVRVTQTPDVKRVQDEIARFLNT  237 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~---~----~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  237 (1074)
                      -+++-|+|.+|+|||+++.+++-.   .    ..=..++||+....|+..++. ++++.++.
T Consensus        96 G~iteI~G~~GsGKTql~lqla~~~~~~~~~gg~~~~vvYIdtE~~f~~eRi~-~~a~~~g~  156 (313)
T TIGR02238        96 MSITEVFGEFRCGKTQLSHTLCVTAQLPREMGGGNGKVAYIDTEGTFRPDRIR-AIAERFGV  156 (313)
T ss_pred             CeEEEEECCCCCCcCHHHHHHHHHHhcchhhcCCCCeEEEEEcCCCCCHHHHH-HHHHHcCC
Confidence            579999999999999999886543   1    122478999999999888875 45666654

This model describes DMC1, a subfamily of a larger family of DNA repair and recombination proteins. It is eukaryotic only and most closely related to eukaryotic RAD51. It also resembles archaeal RadA (TIGR02236) and RadB (TIGR02237) and bacterial RecA (TIGR02012). It has been characterized for human as a recombinase active only in meiosis.

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=95.72  E-value=0.052  Score=52.63  Aligned_cols=33  Identities=33%  Similarity=0.521  Sum_probs=26.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      ..+.++|++|.||||+.+.+|...+.=.+.+|+
T Consensus        29 ef~fl~GpSGAGKSTllkLi~~~e~pt~G~i~~   61 (223)
T COG2884          29 EFVFLTGPSGAGKSTLLKLIYGEERPTRGKILV   61 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhhcCCCceEEE
Confidence            489999999999999999999883333445555

>PRK07993 DNA polymerase III subunit delta'; Validated

Probab=95.71  E-value=0.34  Score=53.57  Aligned_cols=175  Identities=11%  Similarity=0.055  Sum_probs=92.9

Q ss_pred             HHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC----
Q 001457          167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL----  239 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~----  239 (1074)
                      ...+.+...+..+. -...+.+.|+.|+||+|+|..+...   ....+..       .++.-.-.+.+...-..+.    
T Consensus         9 ~~~~~l~~~~~~~r-l~HA~Lf~G~~G~Gk~~lA~~~A~~LlC~~~~~~~-------~Cg~C~sC~~~~~g~HPD~~~i~   80 (334)
T PRK07993          9 PDYEQLVGSYQAGR-GHHALLIQALPGMGDDALIYALSRWLMCQQPQGHK-------SCGHCRGCQLMQAGTHPDYYTLT   80 (334)
T ss_pred             HHHHHHHHHHHcCC-cceEEeeECCCCCCHHHHHHHHHHHHcCCCCCCCC-------CCCCCHHHHHHHcCCCCCEEEEe
Confidence            34556666665554 2457789999999999999988776   1111100       0000000011100000000    


Q ss_pred             -C---cchHHHHHHHHHHHHH----ccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCCh-hHHhh-ccCCC
Q 001457          240 -E---GDVEVLRAAFLSERLK----RQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFK-EVCDE-MESTN  307 (1074)
Q Consensus       240 -~---~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~-~v~~~-~~~~~  307 (1074)
                       +   .....+.+..+.+.+.    .+++=++|+|+++.-  ..-..+...+-.-..++-+|.+|.+. .+... .+...
T Consensus        81 p~~~~~~I~idqiR~l~~~~~~~~~~g~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~lLpTIrSRCq  160 (334)
T PRK07993         81 PEKGKSSLGVDAVREVTEKLYEHARLGGAKVVWLPDAALLTDAAANALLKTLEEPPENTWFFLACREPARLLATLRSRCR  160 (334)
T ss_pred             cccccccCCHHHHHHHHHHHhhccccCCceEEEEcchHhhCHHHHHHHHHHhcCCCCCeEEEEEECChhhChHHHHhccc
Confidence             0   0011222233333332    367778999998753  23333322222223466666666654 44433 23346


Q ss_pred             eEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHH
Q 001457          308 YVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       308 ~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~  355 (1074)
                      .+.+.++++++..+.+.+..+    .+  .+.+..++..++|.|..+.
T Consensus       161 ~~~~~~~~~~~~~~~L~~~~~----~~--~~~a~~~~~la~G~~~~Al  202 (334)
T PRK07993        161 LHYLAPPPEQYALTWLSREVT----MS--QDALLAALRLSAGAPGAAL  202 (334)
T ss_pred             cccCCCCCHHHHHHHHHHccC----CC--HHHHHHHHHHcCCCHHHHH
Confidence            789999999999887765432    11  2336788999999996443

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=95.66  E-value=0.0035  Score=63.47  Aligned_cols=83  Identities=24%  Similarity=0.343  Sum_probs=43.4

Q ss_pred             hcCCCccEEEecCCccC-----CCCCCccCCccCCeeeccCCCCC---C---------CccccCCCCccEEEeeCCCCc-
Q 001457          552 EHTREIKNLDLSSTNIS-----SLAPSLPCLEKLRSLHLENTHLN---D---------ASLIREFGELEVLILKGSRIV-  613 (1074)
Q Consensus       552 ~~l~~L~~L~l~~~~~~-----~lp~~i~~l~~Lr~L~L~~~~l~---~---------~~~i~~l~~L~~L~L~~~~i~-  613 (1074)
                      ..+..+..++||+|.|.     .+...|.+-++|+..++++-...   +         .+.+-+|++|++.+|+.|-+. 
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            34667778888888765     22234455567777777654311   1         122344555555555555433 


Q ss_pred             ccCc----cccCCCCCCEEeCCCCc
Q 001457          614 ELPN----GIGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       614 ~lp~----~i~~L~~L~~L~l~~~~  634 (1074)
                      +.|+    .|..-+.|.||.+++|.
T Consensus       107 ~~~e~L~d~is~~t~l~HL~l~NnG  131 (388)
T COG5238         107 EFPEELGDLISSSTDLVHLKLNNNG  131 (388)
T ss_pred             ccchHHHHHHhcCCCceeEEeecCC
Confidence            2222    23444555555555543

>PF01695 IstB_IS21: IstB-like ATP binding protein; InterPro: IPR002611 Proteins in this entry contain an ATP/GTP binding P-loop motif

Probab=95.63  E-value=0.021  Score=56.96  Aligned_cols=71  Identities=30%  Similarity=0.353  Sum_probs=42.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCe
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  260 (1074)
                      ..-+.++|..|+|||.||..+.+.  ... ..+.|+++      .+++..+-..    .....    ...+.+.+.  +-
T Consensus        47 ~~~l~l~G~~G~GKThLa~ai~~~~~~~g-~~v~f~~~------~~L~~~l~~~----~~~~~----~~~~~~~l~--~~  109 (178)
T PF01695_consen   47 GENLILYGPPGTGKTHLAVAIANEAIRKG-YSVLFITA------SDLLDELKQS----RSDGS----YEELLKRLK--RV  109 (178)
T ss_dssp             --EEEEEESTTSSHHHHHHHHHHHHHHTT---EEEEEH------HHHHHHHHCC----HCCTT----HCHHHHHHH--TS
T ss_pred             CeEEEEEhhHhHHHHHHHHHHHHHhccCC-cceeEeec------Cceecccccc----ccccc----hhhhcCccc--cc
Confidence            456999999999999999999988  433 34566653      3444444321    11111    122334443  45


Q ss_pred             EEEEEcCccc
Q 001457          261 VLIILDDLWG  270 (1074)
Q Consensus       261 ~LlVlDdv~~  270 (1074)
                      =||||||+-.
T Consensus       110 dlLilDDlG~  119 (178)
T PF01695_consen  110 DLLILDDLGY  119 (178)
T ss_dssp             SCEEEETCTS
T ss_pred             cEecccccce
Confidence            6888999864

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.

>COG0470 HolB ATPase involved in DNA replication [DNA replication, recombination, and repair]

Probab=95.63  E-value=0.059  Score=60.18  Aligned_cols=134  Identities=15%  Similarity=0.155  Sum_probs=74.7

Q ss_pred             chHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-c--C-------------------CCCeEEEEEecCC
Q 001457          164 SALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-E--I-------------------PFDKVIFVRVTQT  221 (1074)
Q Consensus       164 ~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~--~-------------------~F~~~~wv~vs~~  221 (1074)
                      +.+....++..+..........+.++|++|+||||+|..+.+. .  .                   ....+..++-++.
T Consensus         5 ~~~~~~~~l~~~~~~~~~~~halL~~Gp~G~Gktt~a~~lA~~l~~~~~~~~~~~~~~~~~~~~~~~~~~d~lel~~s~~   84 (325)
T COG0470           5 PWQEAVKRLLVQALESGRLPHALLFYGPPGVGKTTAALALAKELLCENPTGLLPCGHCRSCKLIPAGNHPDFLELNPSDL   84 (325)
T ss_pred             cchhHHHHHHHHHHhcCCCCceeeeeCCCCCCHHHHHHHHHHHHhCCCcccCCcccchhhhhHHhhcCCCceEEeccccc
Confidence            4456666777777644322345999999999999999999887 1  1                   1233445554444


Q ss_pred             cC---HHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCC
Q 001457          222 PD---VKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRF  296 (1074)
Q Consensus       222 ~~---~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~  296 (1074)
                      ..   ..+..+++.+.......                .++.-++++|+++.-  +.-..+...+-.....+++|++|..
T Consensus        85 ~~~~i~~~~vr~~~~~~~~~~~----------------~~~~kviiidead~mt~~A~nallk~lEep~~~~~~il~~n~  148 (325)
T COG0470          85 RKIDIIVEQVRELAEFLSESPL----------------EGGYKVVIIDEADKLTEDAANALLKTLEEPPKNTRFILITND  148 (325)
T ss_pred             CCCcchHHHHHHHHHHhccCCC----------------CCCceEEEeCcHHHHhHHHHHHHHHHhccCCCCeEEEEEcCC
Confidence            33   23333444433321110                267889999999864  2223332222233456778877763


Q ss_pred             -hhHHhhcc-CCCeEeCCC
Q 001457          297 -KEVCDEME-STNYVQVEE  313 (1074)
Q Consensus       297 -~~v~~~~~-~~~~~~l~~  313 (1074)
                       ..+...+. ....+++.+
T Consensus       149 ~~~il~tI~SRc~~i~f~~  167 (325)
T COG0470         149 PSKILPTIRSRCQRIRFKP  167 (325)
T ss_pred             hhhccchhhhcceeeecCC
Confidence             33332222 224566666

>PRK06964 DNA polymerase III subunit delta'; Validated

Probab=95.61  E-value=0.46  Score=52.45  Aligned_cols=91  Identities=12%  Similarity=0.111  Sum_probs=55.3

Q ss_pred             cCeEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCC-hhHHhhc-cCCCeEeCCCCCHHHHHHHHHHhcCCCCCC
Q 001457          258 QKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRF-KEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGT  333 (1074)
Q Consensus       258 ~k~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~-~~v~~~~-~~~~~~~l~~L~~~~~~~lf~~~a~~~~~~  333 (1074)
                      +++=++|+|+++.-  ...+.+...+-.-.+++.+|.+|.+ ..+...+ .....+.+.+++.++..+.+.+. +  .  
T Consensus       131 ~~~kV~iI~~ae~m~~~AaNaLLKtLEEPp~~t~fiL~t~~~~~LLpTI~SRcq~i~~~~~~~~~~~~~L~~~-~--~--  205 (342)
T PRK06964        131 GGARVVVLYPAEALNVAAANALLKTLEEPPPGTVFLLVSARIDRLLPTILSRCRQFPMTVPAPEAAAAWLAAQ-G--V--  205 (342)
T ss_pred             CCceEEEEechhhcCHHHHHHHHHHhcCCCcCcEEEEEECChhhCcHHHHhcCEEEEecCCCHHHHHHHHHHc-C--C--
Confidence            56668888998753  3344443333333346655555554 4444332 33368999999999999888765 2  1  


Q ss_pred             chhHHHHHHHHHHhCCChHHHHHH
Q 001457          334 KAFDRAAEEVVRQCGKLPNAIVII  357 (1074)
Q Consensus       334 ~~~~~~~~~i~~~c~glPLai~~~  357 (1074)
                      +.    ...++..++|.|..+..+
T Consensus       206 ~~----~~~~l~~~~Gsp~~Al~~  225 (342)
T PRK06964        206 AD----ADALLAEAGGAPLAALAL  225 (342)
T ss_pred             Ch----HHHHHHHcCCCHHHHHHH
Confidence            11    123577889999755444

>PF08423 Rad51: Rad51; InterPro: IPR013632 This domain is found at the C terminus of the DNA repair and recombination protein Rad51

Probab=95.59  E-value=0.1  Score=55.39  Aligned_cols=86  Identities=27%  Similarity=0.252  Sum_probs=53.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh---c----CCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC-----------cc--
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ---E----IPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE-----------GD--  242 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~---~----~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~-----------~~--  242 (1074)
                      -.|+=|+|.+|+|||.|+-+++-.   .    +.=..++|++....|...++. +|++..+.+.+           ..  
T Consensus        38 g~itEi~G~~gsGKTql~l~l~~~~~l~~~~~g~~~~vvyidTe~~f~~~Rl~-~i~~~~~~~~~~~l~~I~v~~~~~~~  116 (256)
T PF08423_consen   38 GSITEIVGESGSGKTQLCLQLAVNVQLPEEIGGLGGKVVYIDTEGTFSPERLQ-QIAERFGLDPEEILDNIFVIRVFDLE  116 (256)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHTTSGGCTTSSSSEEEEEESSSSS-HHHHH-HHHHHTTS-HHHHHHTEEEEE-SSHH
T ss_pred             CcEEEEEEecccccchHHHHHHHHhhcccccccCCCceEEEeCCCCCCHHHHH-HHhhccccccchhhhceeeeecCCHH
Confidence            359999999999999999877644   1    122468999999999988875 46665432211           00  


Q ss_pred             hHHHHHHHHHHHHHccCeEEEEEcCcc
Q 001457          243 VEVLRAAFLSERLKRQKRVLIILDDLW  269 (1074)
Q Consensus       243 ~~~~~~~~l~~~l~~~k~~LlVlDdv~  269 (1074)
                      .-......+...+...+=-|||+|.+-
T Consensus       117 ~l~~~L~~l~~~l~~~~ikLIVIDSIa  143 (256)
T PF08423_consen  117 ELLELLEQLPKLLSESKIKLIVIDSIA  143 (256)
T ss_dssp             HHHHHHHHHHHHHHHSCEEEEEEETSS
T ss_pred             HHHHHHHHHHhhccccceEEEEecchH
Confidence            111222333344444566788888874

It is critical for DNA binding []. Rad51 is a homologue of the bacterial RecA protein. Rad51 and RecA share a core ATPase domain.; PDB: 2ZUC_A 2Z43_C 2ZUD_B 2DFL_A 2ZUB_A 2BKE_A 2KZ3_A 2CVH_B 2CVF_B 1SZP_D ....

>PLN00020 ribulose bisphosphate carboxylase/oxygenase activase -RuBisCO activase (RCA); Provisional

Probab=95.59  E-value=0.051  Score=58.99  Aligned_cols=29  Identities=31%  Similarity=0.454  Sum_probs=25.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      ..+.++|+|++|+|||.+|+.+++. ...|
T Consensus       147 ~PlgllL~GPPGcGKTllAraiA~elg~~~  176 (413)
T PLN00020        147 VPLILGIWGGKGQGKSFQCELVFKKMGIEP  176 (413)
T ss_pred             CCeEEEeeCCCCCCHHHHHHHHHHHcCCCe
Confidence            3689999999999999999999999 4443

>COG0464 SpoVK ATPases of the AAA+ class [Posttranslational modification, protein turnover, chaperones]

Probab=95.59  E-value=0.18  Score=59.81  Aligned_cols=129  Identities=21%  Similarity=0.187  Sum_probs=73.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+.+-++|++|.|||.||++|.+. +.+|-.+.+-.+..                 ..-+.++... ..+...-+....+
T Consensus       276 ~~giLl~GpPGtGKT~lAkava~~~~~~fi~v~~~~l~s-----------------k~vGesek~i-r~~F~~A~~~~p~  337 (494)
T COG0464         276 PKGVLLYGPPGTGKTLLAKAVALESRSRFISVKGSELLS-----------------KWVGESEKNI-RELFEKARKLAPS  337 (494)
T ss_pred             CCeeEEECCCCCCHHHHHHHHHhhCCCeEEEeeCHHHhc-----------------cccchHHHHH-HHHHHHHHcCCCc
Confidence            568999999999999999999997 56653332211111                 1111222222 2222222246889


Q ss_pred             EEEEcCccccccc-------------cccccCCC--CCCCCeEEEEecCChhHHh-hc----cCCCeEeCCCCCHHHHHH
Q 001457          262 LIILDDLWGKLDL-------------AVVGIPYG--EEHKGCKIILTSRFKEVCD-EM----ESTNYVQVEELTDEDRLI  321 (1074)
Q Consensus       262 LlVlDdv~~~~~~-------------~~~~~~~~--~~~~gs~iivTTR~~~v~~-~~----~~~~~~~l~~L~~~~~~~  321 (1074)
                      .|.+|+++..-.+             .++...+.  ....+..||-||-...... .+    .-+..+.+..-+.++..+
T Consensus       338 iiFiDEiDs~~~~r~~~~~~~~~r~~~~lL~~~d~~e~~~~v~vi~aTN~p~~ld~a~lR~gRfd~~i~v~~pd~~~r~~  417 (494)
T COG0464         338 IIFIDEIDSLASGRGPSEDGSGRRVVGQLLTELDGIEKAEGVLVIAATNRPDDLDPALLRPGRFDRLIYVPLPDLEERLE  417 (494)
T ss_pred             EEEEEchhhhhccCCCCCchHHHHHHHHHHHHhcCCCccCceEEEecCCCccccCHhhcccCccceEeecCCCCHHHHHH
Confidence            9999998753211             11222221  1222334555555444322 11    224578899999999999


Q ss_pred             HHHHhcCC
Q 001457          322 LFKKKAGL  329 (1074)
Q Consensus       322 lf~~~a~~  329 (1074)
                      .|+.+..+
T Consensus       418 i~~~~~~~  425 (494)
T COG0464         418 IFKIHLRD  425 (494)
T ss_pred             HHHHHhcc
Confidence            99998863

>KOG1969 consensus DNA replication checkpoint protein CHL12/CTF18 [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=95.58  E-value=0.037  Score=64.22  Aligned_cols=74  Identities=23%  Similarity=0.364  Sum_probs=51.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHH-HccCe
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERL-KRQKR  260 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l-~~~k~  260 (1074)
                      .-+|.-++|++|+||||||+-|+.+.++  .++=|+.|+.-+...+-..|...+...              ..+ ..++.
T Consensus       325 ~kKilLL~GppGlGKTTLAHViAkqaGY--sVvEINASDeRt~~~v~~kI~~avq~~--------------s~l~adsrP  388 (877)
T KOG1969|consen  325 PKKILLLCGPPGLGKTTLAHVIAKQAGY--SVVEINASDERTAPMVKEKIENAVQNH--------------SVLDADSRP  388 (877)
T ss_pred             ccceEEeecCCCCChhHHHHHHHHhcCc--eEEEecccccccHHHHHHHHHHHHhhc--------------cccccCCCc
Confidence            4689999999999999999999987322  366788888777766665555443211              011 02577


Q ss_pred             EEEEEcCcccc
Q 001457          261 VLIILDDLWGK  271 (1074)
Q Consensus       261 ~LlVlDdv~~~  271 (1074)
                      .-+|+|.++-.
T Consensus       389 ~CLViDEIDGa  399 (877)
T KOG1969|consen  389 VCLVIDEIDGA  399 (877)
T ss_pred             ceEEEecccCC
Confidence            77888988753

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=95.53  E-value=0.016  Score=54.38  Aligned_cols=30  Identities=30%  Similarity=0.424  Sum_probs=24.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCe
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDK  212 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~  212 (1074)
                      ..-|+|.|++|+||||+++.+.+.  ...|..
T Consensus         5 ~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kv   36 (179)
T COG1618           5 AMKIFITGRPGVGKTTLVLKIAEKLREKGYKV   36 (179)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHhcCcee
Confidence            346899999999999999999988  444653

>cd01394 radB RadB

Probab=95.52  E-value=0.1  Score=54.39  Aligned_cols=41  Identities=24%  Similarity=0.323  Sum_probs=32.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPD  223 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~  223 (1074)
                      -.++.|.|.+|+||||+|.++... ...-..++|++....+.
T Consensus        19 g~i~~i~G~~GsGKT~l~~~~a~~~~~~g~~v~yi~~e~~~~   60 (218)
T cd01394          19 GTVTQVYGPPGTGKTNIAIQLAVETAGQGKKVAYIDTEGLSS   60 (218)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEECCCCCH
Confidence            579999999999999999998877 33345678887655553

The archaeal protein radB shares similarity radA, the archaeal functional homologue to the bacterial RecA. The precise function of radB is unclear.

>KOG2123 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.51  E-value=0.00064  Score=68.90  Aligned_cols=80  Identities=28%  Similarity=0.350  Sum_probs=67.8

Q ss_pred             cCCCcEEeeccCCcccCCCCCCCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCC--CccCCccCCeeec
Q 001457          508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP--SLPCLEKLRSLHL  585 (1074)
Q Consensus       508 ~~~~~~L~l~~~~~~~l~~~~~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~--~i~~l~~Lr~L~L  585 (1074)
                      +.+++.|+..++.++.+.--.+++.|++|.|+-|.++.+.+  |..|++|+.|.|..|.|..+-+  .+.++++||.|.|
T Consensus        18 l~~vkKLNcwg~~L~DIsic~kMp~lEVLsLSvNkIssL~p--l~rCtrLkElYLRkN~I~sldEL~YLknlpsLr~LWL   95 (388)
T KOG2123|consen   18 LENVKKLNCWGCGLDDISICEKMPLLEVLSLSVNKISSLAP--LQRCTRLKELYLRKNCIESLDELEYLKNLPSLRTLWL   95 (388)
T ss_pred             HHHhhhhcccCCCccHHHHHHhcccceeEEeeccccccchh--HHHHHHHHHHHHHhcccccHHHHHHHhcCchhhhHhh
Confidence            45667788888888887766789999999999999998876  7899999999999999887754  5678899999999


Q ss_pred             cCCC
Q 001457          586 ENTH  589 (1074)
Q Consensus       586 ~~~~  589 (1074)
                      ..|.
T Consensus        96 ~ENP   99 (388)
T KOG2123|consen   96 DENP   99 (388)
T ss_pred             ccCC
Confidence            8876

>smart00763 AAA_PrkA PrkA AAA domain

Probab=95.50  E-value=0.015  Score=63.59  Aligned_cols=45  Identities=20%  Similarity=0.282  Sum_probs=36.4

Q ss_pred             CcchHHHHHHHHHHHhcC----CCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          162 LKSALEVIKSVMKLLKDN----SISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~----~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.|.++.++++++++...    +...+++.++|++|+||||||+.+.+.
T Consensus        53 ~~G~~~~i~~lv~~l~~~a~g~~~~r~il~L~GPPGsGKStla~~La~~  101 (361)
T smart00763       53 FFGMEEAIERFVNYFKSAAQGLEERKQILYLLGPVGGGKSSLVECLKRG  101 (361)
T ss_pred             ccCcHHHHHHHHHHHHHHHhcCCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            556777888888887542    224689999999999999999999887

This is a family of PrkA bacterial and archaeal serine kinases approximately 630 residues long. This is the N-terminal AAA domain.

>PF05659 RPW8: Arabidopsis broad-spectrum mildew resistance protein RPW8; InterPro: IPR008808 This entry represents the RPW8 domain found in several broad-spectrum mildew resistance proteins from Arabidopsis thaliana and other dicots

Probab=95.46  E-value=0.16  Score=48.26  Aligned_cols=112  Identities=12%  Similarity=0.118  Sum_probs=75.4

Q ss_pred             hHHHHHHHhHhhHHHHhhhhhhhhHHHhhchhhcccchHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcchHHHHHHHHHH
Q 001457            5 WVLSTLSNTAGSGLSCILERLWNPVERQIIYLVRYGSNIGAFRERARDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQ   84 (1074)
Q Consensus         5 mae~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~i~~~l~~a~~~~~~~~~~~~~Wl~~   84 (1074)
                      .||-+++++++++++.+...+.....+    ...       .+.-+++|.+++..|.-++++.+.-+...+..-+.=+++
T Consensus         2 ~~eL~~gaalG~~~~eLlk~v~~~~~k----~~~-------fk~~l~~L~sTl~~i~P~i~eI~~~~~eld~~~~ee~e~   70 (147)
T PF05659_consen    2 IAELVGGAALGAVFGELLKAVIDASKK----SLS-------FKSILKRLESTLESIIPIIKEIDKLNVELDRPRQEEIER   70 (147)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHH----HHh-------hhhHHHHHHHHHHHhhhHHHHHHHHhhhcCCchhHHHHH
Confidence            467777777788877777766653322    222       345566777777777777777666544344444667888


Q ss_pred             HHHHHHHHHHHHHHhhcccCccccccCChhhhhhhcHHHHHHHHHHHHH
Q 001457           85 TIQYEMDVELLEEKIQKSEGRCHTWHLDWRKRHQLSRVATKKTVEIIEH  133 (1074)
Q Consensus        85 ~~~~~~d~ed~~d~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~~~  133 (1074)
                      +.+...+++++++.+..-.+      .++...+..+++|+++.+.+...
T Consensus        71 L~~~L~~g~~LV~k~sk~~r------~n~~kk~~y~~Ki~~le~~l~~f  113 (147)
T PF05659_consen   71 LKELLEKGKELVEKCSKVRR------WNLYKKPRYARKIEELEESLRRF  113 (147)
T ss_pred             HHHHHHHHHHHHHHhccccH------HHHHhhHhHHHHHHHHHHHHHHH
Confidence            99999999999987754322      23455667788888888887765

Plant disease resistance (R) genes control the recognition of specific pathogens and activate subsequent defence responses. The R protein-mediated defences typically involve a rapid, localized necrosis, or hypersensitive response (HR), at the site of infection, and the localised formation of antimicrobial chemicals and proteins that restrict growth of the pathogen. The A. thaliana locus Resistance to Powdery Mildew 8 (RPW8) contains two naturally polymorphic, dominant R genes: RPW8.1 and RPW8.2, which individually control resistance to a broad range of powdery mildew pathogens. They induce localised, salicylic acid-dependent defences similar to those induced by R genes that control specific resistance. Apparently, broad-spectrum resistance mediated by RPW8 uses the same mechanisms as specific resistance [, ]. RPW8.1 and RPW8.2 share similarity with an ~150 amino acid module forming the N terminus of a group of disease resistance proteins, which have a nucleotide-binding site (NBS) and leucine-rich repeats (LRRs) [, ]. The RPW8 domain sequences contain a predicted N-terminal transmembrane (TM) region or possibly a signal peptide, and a coiled-coil (CC) motif [].

>PRK10733 hflB ATP-dependent metalloprotease; Reviewed

Probab=95.46  E-value=0.09  Score=63.89  Aligned_cols=127  Identities=18%  Similarity=0.230  Sum_probs=69.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL  262 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L  262 (1074)
                      +-|.++|++|+||||+|+.+.+. ...|     +.++..    .+.. +.  .+     .... ....+.+......+++
T Consensus       186 ~gill~G~~G~GKt~~~~~~a~~~~~~f-----~~is~~----~~~~-~~--~g-----~~~~-~~~~~f~~a~~~~P~I  247 (644)
T PRK10733        186 KGVLMVGPPGTGKTLLAKAIAGEAKVPF-----FTISGS----DFVE-MF--VG-----VGAS-RVRDMFEQAKKAAPCI  247 (644)
T ss_pred             CcEEEECCCCCCHHHHHHHHHHHcCCCE-----EEEehH----HhHH-hh--hc-----ccHH-HHHHHHHHHHhcCCcE
Confidence            35899999999999999999987 4443     222221    1110 00  00     0111 1112222223357789


Q ss_pred             EEEcCccccc------------cc----cccccCCC--CCCCCeEEEEecCChhHHhh-c----cCCCeEeCCCCCHHHH
Q 001457          263 IILDDLWGKL------------DL----AVVGIPYG--EEHKGCKIILTSRFKEVCDE-M----ESTNYVQVEELTDEDR  319 (1074)
Q Consensus       263 lVlDdv~~~~------------~~----~~~~~~~~--~~~~gs~iivTTR~~~v~~~-~----~~~~~~~l~~L~~~~~  319 (1074)
                      |++|+++...            ..    ..+...+.  ....+.-||.||...+.... .    .-++.+.+..-+.++-
T Consensus       248 ifIDEiD~l~~~r~~~~~g~~~~~~~~ln~lL~~mdg~~~~~~vivIaaTN~p~~lD~Al~RpgRfdr~i~v~~Pd~~~R  327 (644)
T PRK10733        248 IFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGR  327 (644)
T ss_pred             EEehhHhhhhhccCCCCCCCchHHHHHHHHHHHhhhcccCCCCeeEEEecCChhhcCHHHhCCcccceEEEcCCCCHHHH
Confidence            9999986531            01    11111111  11234556667876665221 1    2246778888888888


Q ss_pred             HHHHHHhcC
Q 001457          320 LILFKKKAG  328 (1074)
Q Consensus       320 ~~lf~~~a~  328 (1074)
                      .+++..+..
T Consensus       328 ~~Il~~~~~  336 (644)
T PRK10733        328 EQILKVHMR  336 (644)
T ss_pred             HHHHHHHhh
Confidence            888887775

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=95.45  E-value=0.11  Score=57.35  Aligned_cols=100  Identities=23%  Similarity=0.207  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHhcCC--CceeEEEEEcCCCCcHHH-HHHHHHhh--cCCCCeEEEEEecCCcC--HHHHHHHHHHHhccCC
Q 001457          167 EVIKSVMKLLKDNS--ISINIIGVYGSGGIGKTT-LMKQVMKQ--EIPFDKVIFVRVTQTPD--VKRVQDEIARFLNTEL  239 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~--~~~~vi~I~G~gG~GKTt-La~~v~~~--~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~~~~  239 (1074)
                      +....+..++.++-  ..-+||.+||+.|+|||| ||+..+.-  ...=..+..|+.. +|.  ..+-++.-++-++.+.
T Consensus       185 ~~l~~~~~~~~~~~~~~~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtD-tYRIGA~EQLk~Ya~im~vp~  263 (407)
T COG1419         185 EKLRKLLLSLIENLIVEQKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTD-TYRIGAVEQLKTYADIMGVPL  263 (407)
T ss_pred             HHHHHHHHhhccccccccCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEec-cchhhHHHHHHHHHHHhCCce
Confidence            44455555555441  126899999999999985 77776655  2333456677653 332  3333444555566555


Q ss_pred             CcchHHHHHHHHHHHHHccCeEEEEEcCcc
Q 001457          240 EGDVEVLRAAFLSERLKRQKRVLIILDDLW  269 (1074)
Q Consensus       240 ~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  269 (1074)
                      ....+......-...++ ++ =+|.+|-+-
T Consensus       264 ~vv~~~~el~~ai~~l~-~~-d~ILVDTaG  291 (407)
T COG1419         264 EVVYSPKELAEAIEALR-DC-DVILVDTAG  291 (407)
T ss_pred             EEecCHHHHHHHHHHhh-cC-CEEEEeCCC
Confidence            43333222222233332 23 345556543

>KOG0739 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.42  E-value=0.28  Score=50.82  Aligned_cols=71  Identities=24%  Similarity=0.270  Sum_probs=48.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCe
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  260 (1074)
                      ..+-|.++|++|.||+.||++|... ..     .|.+||...-+.+-+       |      ..+.+...|.+.-+++|.
T Consensus       165 PwrgiLLyGPPGTGKSYLAKAVATEAnS-----TFFSvSSSDLvSKWm-------G------ESEkLVknLFemARe~kP  226 (439)
T KOG0739|consen  165 PWRGILLYGPPGTGKSYLAKAVATEANS-----TFFSVSSSDLVSKWM-------G------ESEKLVKNLFEMARENKP  226 (439)
T ss_pred             cceeEEEeCCCCCcHHHHHHHHHhhcCC-----ceEEeehHHHHHHHh-------c------cHHHHHHHHHHHHHhcCC
Confidence            3678999999999999999999988 32     345666542222211       1      123445555555556899


Q ss_pred             EEEEEcCccc
Q 001457          261 VLIILDDLWG  270 (1074)
Q Consensus       261 ~LlVlDdv~~  270 (1074)
                      -+|.+|.|+.
T Consensus       227 SIIFiDEiDs  236 (439)
T KOG0739|consen  227 SIIFIDEIDS  236 (439)
T ss_pred             cEEEeehhhh
Confidence            9999999874

>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=95.40  E-value=0.052  Score=58.74  Aligned_cols=83  Identities=19%  Similarity=0.257  Sum_probs=52.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC------cchHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE------GDVEVLRAAFLSERL  255 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~~~l  255 (1074)
                      -+++-|+|..|+||||||..+... .+.-..++||+....++...     ++.+|.+.+      ....++....+.+.+
T Consensus        53 G~ivEi~G~~ssGKttLaL~~ia~~q~~g~~~a~ID~e~~ld~~~-----a~~lGvdl~rllv~~P~~~E~al~~~e~li  127 (322)
T PF00154_consen   53 GRIVEIYGPESSGKTTLALHAIAEAQKQGGICAFIDAEHALDPEY-----AESLGVDLDRLLVVQPDTGEQALWIAEQLI  127 (322)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHTT-EEEEEESSS---HHH-----HHHTT--GGGEEEEE-SSHHHHHHHHHHHH
T ss_pred             CceEEEeCCCCCchhhhHHHHHHhhhcccceeEEecCcccchhhH-----HHhcCccccceEEecCCcHHHHHHHHHHHh
Confidence            469999999999999999998877 44456789999888776644     344444322      122233444555555


Q ss_pred             HccCeEEEEEcCccc
Q 001457          256 KRQKRVLIILDDLWG  270 (1074)
Q Consensus       256 ~~~k~~LlVlDdv~~  270 (1074)
                      +.+.--++|+|-|-.
T Consensus       128 rsg~~~lVVvDSv~a  142 (322)
T PF00154_consen  128 RSGAVDLVVVDSVAA  142 (322)
T ss_dssp             HTTSESEEEEE-CTT
T ss_pred             hcccccEEEEecCcc
Confidence            666667899998754

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 ....

>PLN03187 meiotic recombination protein DMC1 homolog; Provisional

Probab=95.34  E-value=0.14  Score=56.47  Aligned_cols=56  Identities=21%  Similarity=0.199  Sum_probs=42.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh---c---C-CCCeEEEEEecCCcCHHHHHHHHHHHhccC
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ---E---I-PFDKVIFVRVTQTPDVKRVQDEIARFLNTE  238 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~---~---~-~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~  238 (1074)
                      .-+++-|+|.+|+|||+|+.+++-.   .   . .-..++||+....|+..++.+ +++.++.+
T Consensus       125 ~G~ItEI~G~~GsGKTql~lqlav~~qlp~~~gg~~~~vvyIdTE~tF~peRl~~-ia~~~g~d  187 (344)
T PLN03187        125 TRCITEAFGEFRSGKTQLAHTLCVTTQLPTEMGGGNGKVAYIDTEGTFRPDRIVP-IAERFGMD  187 (344)
T ss_pred             CCeEEEEecCCCCChhHHHHHHHHHHhcchhhCCCCceEEEEEcCCCCCHHHHHH-HHHHcCCC
Confidence            3578899999999999999887533   1   1 125789999999999888754 56666543

>COG1484 DnaC DNA replication protein [DNA replication, recombination, and repair]

Probab=95.33  E-value=0.05  Score=57.57  Aligned_cols=73  Identities=22%  Similarity=0.255  Sum_probs=46.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      ..-+.++|.+|+|||.||.++.+. .+.--.+.++++      .++..++......   +    .....+.+.+  .+-=
T Consensus       105 ~~nl~l~G~~G~GKThLa~Ai~~~l~~~g~sv~f~~~------~el~~~Lk~~~~~---~----~~~~~l~~~l--~~~d  169 (254)
T COG1484         105 GENLVLLGPPGVGKTHLAIAIGNELLKAGISVLFITA------PDLLSKLKAAFDE---G----RLEEKLLREL--KKVD  169 (254)
T ss_pred             CCcEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEEH------HHHHHHHHHHHhc---C----chHHHHHHHh--hcCC
Confidence            567899999999999999999999 422234556653      4455555544332   1    1122333334  2556


Q ss_pred             EEEEcCccc
Q 001457          262 LIILDDLWG  270 (1074)
Q Consensus       262 LlVlDdv~~  270 (1074)
                      ||||||+-.
T Consensus       170 lLIiDDlG~  178 (254)
T COG1484         170 LLIIDDIGY  178 (254)
T ss_pred             EEEEecccC
Confidence            899999864

>PRK06547 hypothetical protein; Provisional

Probab=95.33  E-value=0.024  Score=56.05  Aligned_cols=33  Identities=24%  Similarity=0.311  Sum_probs=26.4

Q ss_pred             HHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          172 VMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       172 l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +...+....  ..+|+|.|.+|+||||+|+.+...
T Consensus         6 ~~~~~~~~~--~~~i~i~G~~GsGKTt~a~~l~~~   38 (172)
T PRK06547          6 IAARLCGGG--MITVLIDGRSGSGKTTLAGALAAR   38 (172)
T ss_pred             HHHHhhcCC--CEEEEEECCCCCCHHHHHHHHHHH
Confidence            334444444  789999999999999999999876

>TIGR01359 UMP_CMP_kin_fam UMP-CMP kinase family

Probab=95.33  E-value=0.039  Score=55.66  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ||.|+|++|+||||+|+.+...
T Consensus         1 ~i~i~G~pGsGKst~a~~la~~   22 (183)
T TIGR01359         1 VVFVLGGPGSGKGTQCAKIVEN   22 (183)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999876

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.

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.30  E-value=0.056  Score=59.99  Aligned_cols=84  Identities=14%  Similarity=0.257  Sum_probs=48.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCC--CeEEEEEecCCc--CHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPF--DKVIFVRVTQTP--DVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKR  257 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F--~~~~wv~vs~~~--~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~  257 (1074)
                      -.++.++|+.|+||||++.++... ...+  ..+..++. +.+  ...+-++...+.++..................+. 
T Consensus       137 g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~-D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~-  214 (374)
T PRK14722        137 GGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTT-DSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELR-  214 (374)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec-ccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhc-
Confidence            469999999999999999999887 3333  34555553 333  3444555556666654432222111222223342 


Q ss_pred             cCeEEEEEcCcc
Q 001457          258 QKRVLIILDDLW  269 (1074)
Q Consensus       258 ~k~~LlVlDdv~  269 (1074)
                       ++-+|++|..-
T Consensus       215 -~~DlVLIDTaG  225 (374)
T PRK14722        215 -NKHMVLIDTIG  225 (374)
T ss_pred             -CCCEEEEcCCC
Confidence             34566689864

>TIGR03877 thermo_KaiC_1 KaiC domain protein, Ph0284 family

Probab=95.28  E-value=0.14  Score=54.06  Aligned_cols=48  Identities=19%  Similarity=0.269  Sum_probs=35.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHH
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEI  231 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i  231 (1074)
                      .-.++.|.|.+|+|||++|.++... -..-..++||+...  +..++.+.+
T Consensus        20 ~gs~~lI~G~pGsGKT~la~~~l~~~~~~ge~~lyvs~ee--~~~~i~~~~   68 (237)
T TIGR03877        20 ERNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGIYVALEE--HPVQVRRNM   68 (237)
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHHHcCCcEEEEEeeC--CHHHHHHHH
Confidence            3579999999999999999987665 33346788888765  445555543

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.

>PRK11034 clpA ATP-dependent Clp protease ATP-binding subunit; Provisional

Probab=95.27  E-value=0.04  Score=67.38  Aligned_cols=101  Identities=16%  Similarity=0.282  Sum_probs=54.4

Q ss_pred             cchHHHHHHHHHHHhc-------CCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHH
Q 001457          163 KSALEVIKSVMKLLKD-------NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       163 ~~r~~~~~~l~~~l~~-------~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~  234 (1074)
                      .|.++.++.+...+..       .......+.++|++|+|||++|+.+... ...   .+.++.+.-....    .+.+-
T Consensus       461 iGQ~~ai~~l~~~i~~~~~gl~~~~kp~~~~Lf~GP~GvGKT~lAk~LA~~l~~~---~i~id~se~~~~~----~~~~L  533 (758)
T PRK11034        461 FGQDKAIEALTEAIKMSRAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKALGIE---LLRFDMSEYMERH----TVSRL  533 (758)
T ss_pred             eCcHHHHHHHHHHHHHHhccccCCCCCcceEEEECCCCCCHHHHHHHHHHHhCCC---cEEeechhhcccc----cHHHH
Confidence            4566667777666642       1122457899999999999999999877 322   2344444322111    11122


Q ss_pred             hccCCCcchHHHHHHHHHHHHHccCeEEEEEcCcccc
Q 001457          235 LNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       235 l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~  271 (1074)
                      +|... +.........+.+.+......+|+||++...
T Consensus       534 iG~~~-gyvg~~~~g~L~~~v~~~p~sVlllDEieka  569 (758)
T PRK11034        534 IGAPP-GYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  569 (758)
T ss_pred             cCCCC-CcccccccchHHHHHHhCCCcEEEeccHhhh
Confidence            22211 1100011122334444345679999999753

>PTZ00301 uridine kinase; Provisional

Probab=95.27  E-value=0.022  Score=58.24  Aligned_cols=24  Identities=29%  Similarity=0.693  Sum_probs=22.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|+|.|.+|+||||||+.+.+.
T Consensus         3 ~~iIgIaG~SgSGKTTla~~l~~~   26 (210)
T PTZ00301          3 CTVIGISGASGSGKSSLSTNIVSE   26 (210)
T ss_pred             CEEEEEECCCcCCHHHHHHHHHHH
Confidence            579999999999999999999877

>KOG2228 consensus Origin recognition complex, subunit 4 [Replication, recombination and repair]

Probab=95.27  E-value=0.24  Score=52.50  Aligned_cols=146  Identities=23%  Similarity=0.234  Sum_probs=83.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCC-eEEEEEecCCcCH-HHHHHHHHHHhccCCCc-----chHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFD-KVIFVRVTQTPDV-KRVQDEIARFLNTELEG-----DVEVLRAAFLSERL  255 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~-~~~wv~vs~~~~~-~~~~~~i~~~l~~~~~~-----~~~~~~~~~l~~~l  255 (1074)
                      -.-|.|+|+.|.|||+|.-.+..+.+.|. ...-|...+.... +-.++.|.+|+..+...     .+-.+....+.+.|
T Consensus        49 snsviiigprgsgkT~li~~~Ls~~q~~~E~~l~v~Lng~~~~dk~al~~I~rql~~e~~~~~k~~gsfte~l~~lL~~L  128 (408)
T KOG2228|consen   49 SNSVIIIGPRGSGKTILIDTRLSDIQENGENFLLVRLNGELQTDKIALKGITRQLALELNRIVKSFGSFTENLSKLLEAL  128 (408)
T ss_pred             CCceEEEccCCCCceEeeHHHHhhHHhcCCeEEEEEECccchhhHHHHHHHHHHHHHHHhhhheeecccchhHHHHHHHH
Confidence            34677899999999999988777733343 3334445544333 23456666665432211     11133344555555


Q ss_pred             H-----ccCeEEEEEcCccccc----c--c-cccccCCCCCCCCeEEEEecCChhH-------HhhccCCCeEeCCCCCH
Q 001457          256 K-----RQKRVLIILDDLWGKL----D--L-AVVGIPYGEEHKGCKIILTSRFKEV-------CDEMESTNYVQVEELTD  316 (1074)
Q Consensus       256 ~-----~~k~~LlVlDdv~~~~----~--~-~~~~~~~~~~~~gs~iivTTR~~~v-------~~~~~~~~~~~l~~L~~  316 (1074)
                      +     .+-+++.|+|.++---    +  + .-+-..-....+-+-|-+|||-.-.       -..+....++-++.++-
T Consensus       129 ~~~~~~t~~~ViFIldEfDlf~~h~rQtllYnlfDisqs~r~Piciig~Ttrld~lE~LEKRVKSRFshr~I~m~~~~~l  208 (408)
T KOG2228|consen  129 KKGDETTSGKVIFILDEFDLFAPHSRQTLLYNLFDISQSARAPICIIGVTTRLDILELLEKRVKSRFSHRVIFMLPSLPL  208 (408)
T ss_pred             hcCCCCCCceEEEEeehhhccccchhhHHHHHHHHHHhhcCCCeEEEEeeccccHHHHHHHHHHhhcccceeeccCCCCh
Confidence            4     2446888888776321    1  1 1111111134567889999996543       22233334667788888


Q ss_pred             HHHHHHHHHhcC
Q 001457          317 EDRLILFKKKAG  328 (1074)
Q Consensus       317 ~~~~~lf~~~a~  328 (1074)
                      ++...++++...
T Consensus       209 ~~yv~l~r~ll~  220 (408)
T KOG2228|consen  209 GDYVDLYRKLLS  220 (408)
T ss_pred             HHHHHHHHHHhc
Confidence            888888877764

>KOG0743 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=95.25  E-value=1.4  Score=49.20  Aligned_cols=169  Identities=17%  Similarity=0.189  Sum_probs=85.9

Q ss_pred             HHHHHHHHHHHhcCC-------CceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccC
Q 001457          166 LEVIKSVMKLLKDNS-------ISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTE  238 (1074)
Q Consensus       166 ~~~~~~l~~~l~~~~-------~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~  238 (1074)
                      ++.++++.+.+...+       .=-|=-.++|++|.||||++.+++|. -.||.+- +..+...+-.+            
T Consensus       211 ~~I~~Dl~~F~k~k~~YkrvGkawKRGYLLYGPPGTGKSS~IaAmAn~-L~ydIyd-LeLt~v~~n~d------------  276 (457)
T KOG0743|consen  211 ERIIDDLDDFIKGKDFYKRVGKAWKRGYLLYGPPGTGKSSFIAAMANY-LNYDIYD-LELTEVKLDSD------------  276 (457)
T ss_pred             HHHHHHHHHHHhcchHHHhcCcchhccceeeCCCCCCHHHHHHHHHhh-cCCceEE-eeeccccCcHH------------
Confidence            344555555555443       11345678999999999999999986 2233221 22222111111            


Q ss_pred             CCcchHHHHHHHHHHHHH-ccCeEEEEEcCcccccc-----------cc---------ccccCCC--CCCC-CeEEE-Ee
Q 001457          239 LEGDVEVLRAAFLSERLK-RQKRVLIILDDLWGKLD-----------LA---------VVGIPYG--EEHK-GCKII-LT  293 (1074)
Q Consensus       239 ~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~~~-----------~~---------~~~~~~~--~~~~-gs~ii-vT  293 (1074)
                                  |++.|. ...|-+||+.|++-.-+           .+         -+...+.  +... +=||| .|
T Consensus       277 ------------Lr~LL~~t~~kSIivIEDIDcs~~l~~~~~~~~~~~~~~~~~VTlSGLLNfiDGlwSscg~ERIivFT  344 (457)
T KOG0743|consen  277 ------------LRHLLLATPNKSILLIEDIDCSFDLRERRKKKKENFEGDLSRVTLSGLLNFLDGLWSSCGDERIIVFT  344 (457)
T ss_pred             ------------HHHHHHhCCCCcEEEEeecccccccccccccccccccCCcceeehHHhhhhhccccccCCCceEEEEe
Confidence                        222221 24566777777753211           11         0111111  1122 22554 57


Q ss_pred             cCChhHHh--hcc---CCCeEeCCCCCHHHHHHHHHHhcCCCCCCchhHHHHHHHHHHhCCChHHHHHHH-HHHcCC
Q 001457          294 SRFKEVCD--EME---STNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIG-TALRHK  364 (1074)
Q Consensus       294 TR~~~v~~--~~~---~~~~~~l~~L~~~~~~~lf~~~a~~~~~~~~~~~~~~~i~~~c~glPLai~~~~-~~l~~~  364 (1074)
                      |-..+-..  .+.   -+-.+.+.--+.+....||..+.+...+++-..+    |.+.-.|.-+.=..+| .+|..+
T Consensus       345 TNh~EkLDPALlRpGRmDmhI~mgyCtf~~fK~La~nYL~~~~~h~L~~e----ie~l~~~~~~tPA~V~e~lm~~~  417 (457)
T KOG0743|consen  345 TNHKEKLDPALLRPGRMDMHIYMGYCTFEAFKTLASNYLGIEEDHRLFDE----IERLIEETEVTPAQVAEELMKNK  417 (457)
T ss_pred             cCChhhcCHhhcCCCcceeEEEcCCCCHHHHHHHHHHhcCCCCCcchhHH----HHHHhhcCccCHHHHHHHHhhcc
Confidence            77665521  111   2246788999999999999999874333443344    4444444433333333 344544

>PRK04301 radA DNA repair and recombination protein RadA; Validated

Probab=95.22  E-value=0.15  Score=56.32  Aligned_cols=54  Identities=24%  Similarity=0.396  Sum_probs=40.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cC--C----CCeEEEEEecCCcCHHHHHHHHHHHhc
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EI--P----FDKVIFVRVTQTPDVKRVQDEIARFLN  236 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~--~----F~~~~wv~vs~~~~~~~~~~~i~~~l~  236 (1074)
                      .-.++-|+|.+|+|||+++.++.-. ..  .    =..++||+..+.++..++.+ +++.++
T Consensus       101 ~g~vtei~G~~GsGKT~l~~~~~~~~~~~~~~gg~~~~~~yi~te~~f~~~rl~~-~~~~~g  161 (317)
T PRK04301        101 TQSITEFYGEFGSGKTQICHQLAVNVQLPEEKGGLEGKAVYIDTEGTFRPERIEQ-MAEALG  161 (317)
T ss_pred             CCcEEEEECCCCCCHhHHHHHHHHHhccccccCCCCceEEEEeCCCCcCHHHHHH-HHHHcC
Confidence            3579999999999999999988765 11  1    14789999999888877654 444444

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=95.19  E-value=0.13  Score=56.77  Aligned_cols=24  Identities=33%  Similarity=0.583  Sum_probs=22.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .++|+++|++|+||||++..+...
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~  264 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQ  264 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHH
Confidence            579999999999999999998877

>PRK08533 flagellar accessory protein FlaH; Reviewed

Probab=95.18  E-value=0.1  Score=54.58  Aligned_cols=46  Identities=15%  Similarity=0.190  Sum_probs=32.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEI  231 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i  231 (1074)
                      -.++.|.|.+|+||||+|.++...  ++. ..++|++...  +..++.+.+
T Consensus        24 g~~~~i~G~~G~GKTtl~~~~~~~~~~~g-~~~~yi~~e~--~~~~~~~~~   71 (230)
T PRK08533         24 GSLILIEGDESTGKSILSQRLAYGFLQNG-YSVSYVSTQL--TTTEFIKQM   71 (230)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHhCC-CcEEEEeCCC--CHHHHHHHH
Confidence            459999999999999998766555  333 4556776333  445666665

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=95.15  E-value=0.05  Score=52.89  Aligned_cols=33  Identities=27%  Similarity=0.479  Sum_probs=26.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQ  220 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~  220 (1074)
                      -.++.|.|++|+|||||+++++.+.     .++++||.
T Consensus         4 G~l~vlsgPSG~GKsTl~k~L~~~~-----~l~~SVS~   36 (191)
T COG0194           4 GLLIVLSGPSGVGKSTLVKALLEDD-----KLRFSVSA   36 (191)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhhc-----CeEEEEEe
Confidence            3588999999999999999999873     34455553

>PF00485 PRK: Phosphoribulokinase / Uridine kinase family; InterPro: IPR006083 Phosphoribulokinase (PRK) 2

Probab=95.15  E-value=0.016  Score=59.11  Aligned_cols=22  Identities=50%  Similarity=0.776  Sum_probs=21.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ||+|.|.+|+||||+|+.+...
T Consensus         1 IIgI~G~sgSGKTTla~~L~~~   22 (194)
T PF00485_consen    1 IIGIAGPSGSGKTTLAKRLAQI   22 (194)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999988

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 ....

>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=95.14  E-value=0.026  Score=54.06  Aligned_cols=34  Identities=29%  Similarity=0.286  Sum_probs=27.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVR  217 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~  217 (1074)
                      .||-|.|.+|+||||||+.+... ...-..+.+++
T Consensus         3 ~vIwltGlsGsGKtTlA~~L~~~L~~~g~~~~~LD   37 (156)
T PF01583_consen    3 FVIWLTGLSGSGKTTLARALERRLFARGIKVYLLD   37 (156)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHHHHHTTS-EEEEE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEec
Confidence            58999999999999999999998 44445566664

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 ....

>KOG0728 consensus 26S proteasome regulatory complex, ATPase RPT6 [Posttranslational modification, protein turnover, chaperones]

Probab=95.12  E-value=0.28  Score=49.35  Aligned_cols=129  Identities=21%  Similarity=0.258  Sum_probs=71.1

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      ..+-+.++|++|.|||-||+.|+++    ..+-|+.||...-+.+.+.+=.+             ....+.---+..-.-
T Consensus       180 QPKGvlLygppgtGktLlaraVahh----t~c~firvsgselvqk~igegsr-------------mvrelfvmarehaps  242 (404)
T KOG0728|consen  180 QPKGVLLYGPPGTGKTLLARAVAHH----TDCTFIRVSGSELVQKYIGEGSR-------------MVRELFVMAREHAPS  242 (404)
T ss_pred             CCcceEEecCCCCchhHHHHHHHhh----cceEEEEechHHHHHHHhhhhHH-------------HHHHHHHHHHhcCCc
Confidence            3567889999999999999999976    34556888875333222211110             111111111134667


Q ss_pred             EEEEcCccccc----------c------ccccccCCC--CCCCCeEEEEecCChhHHh-----hccCCCeEeCCCCCHHH
Q 001457          262 LIILDDLWGKL----------D------LAVVGIPYG--EEHKGCKIILTSRFKEVCD-----EMESTNYVQVEELTDED  318 (1074)
Q Consensus       262 LlVlDdv~~~~----------~------~~~~~~~~~--~~~~gs~iivTTR~~~v~~-----~~~~~~~~~l~~L~~~~  318 (1074)
                      .|..|.+++..          +      .-++...+.  ...++-|||..|..-++..     .-..++.++.++-+++.
T Consensus       243 iifmdeidsigs~r~e~~~ggdsevqrtmlellnqldgfeatknikvimatnridild~allrpgridrkiefp~p~e~a  322 (404)
T KOG0728|consen  243 IIFMDEIDSIGSSRVESGSGGDSEVQRTMLELLNQLDGFEATKNIKVIMATNRIDILDPALLRPGRIDRKIEFPPPNEEA  322 (404)
T ss_pred             eEeeecccccccccccCCCCccHHHHHHHHHHHHhccccccccceEEEEeccccccccHhhcCCCcccccccCCCCCHHH
Confidence            77788776421          0      001111111  1234567777765554421     12234567778877777


Q ss_pred             HHHHHHHhc
Q 001457          319 RLILFKKKA  327 (1074)
Q Consensus       319 ~~~lf~~~a  327 (1074)
                      -.++++-+.
T Consensus       323 r~~ilkihs  331 (404)
T KOG0728|consen  323 RLDILKIHS  331 (404)
T ss_pred             HHHHHHHhh
Confidence            777776554

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=95.11  E-value=0.67  Score=53.00  Aligned_cols=53  Identities=23%  Similarity=0.196  Sum_probs=34.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcC--HHHHHHHHHHHhcc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPD--VKRVQDEIARFLNT  237 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~~  237 (1074)
                      ..+|.++|.+|+||||.|..++..  +..+ .++.|+.. .+.  ..+.++.++.+++.
T Consensus        95 p~vI~lvG~~GsGKTTtaakLA~~L~~~g~-kV~lV~~D-~~R~aa~eQL~~la~~~gv  151 (437)
T PRK00771         95 PQTIMLVGLQGSGKTTTAAKLARYFKKKGL-KVGLVAAD-TYRPAAYDQLKQLAEKIGV  151 (437)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHHcCC-eEEEecCC-CCCHHHHHHHHHHHHHcCC
Confidence            679999999999999999998877  3333 33444432 222  23445555666554

>COG1102 Cmk Cytidylate kinase [Nucleotide transport and metabolism]

Probab=95.10  E-value=0.029  Score=52.80  Aligned_cols=44  Identities=27%  Similarity=0.426  Sum_probs=34.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL  239 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~  239 (1074)
                      +|.|.|++|+||||+|+.+.++ .-.|     |      +.-.++++|++..|...
T Consensus         2 ~ItIsG~pGsG~TTva~~lAe~~gl~~-----v------saG~iFR~~A~e~gmsl   46 (179)
T COG1102           2 VITISGLPGSGKTTVARELAEHLGLKL-----V------SAGTIFREMARERGMSL   46 (179)
T ss_pred             EEEeccCCCCChhHHHHHHHHHhCCce-----e------eccHHHHHHHHHcCCCH
Confidence            7899999999999999999988 3222     1      23468889998887654

>COG0468 RecA RecA/RadA recombinase [DNA replication, recombination, and repair]

Probab=95.10  E-value=0.098  Score=55.47  Aligned_cols=87  Identities=24%  Similarity=0.274  Sum_probs=55.6

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHH-hc---cCCCcchH--HHHHHHHHH
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARF-LN---TELEGDVE--VLRAAFLSE  253 (1074)
Q Consensus       181 ~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~-l~---~~~~~~~~--~~~~~~l~~  253 (1074)
                      +.-+++=|+|+.|+||||+|.+++-. ...-..++|++.-+.+++..+.. ++.. +.   .......+  ...++.+..
T Consensus        58 ~~g~ItEiyG~~gsGKT~lal~~~~~aq~~g~~a~fIDtE~~l~p~r~~~-l~~~~~d~l~v~~~~~~e~q~~i~~~~~~  136 (279)
T COG0468          58 PRGRITEIYGPESSGKTTLALQLVANAQKPGGKAAFIDTEHALDPERAKQ-LGVDLLDNLLVSQPDTGEQQLEIAEKLAR  136 (279)
T ss_pred             ccceEEEEecCCCcchhhHHHHHHHHhhcCCCeEEEEeCCCCCCHHHHHH-HHHhhhcceeEecCCCHHHHHHHHHHHHH
Confidence            34689999999999999999997776 55555899999999998877643 3333 22   11111111  222233333


Q ss_pred             HHHccCeEEEEEcCcc
Q 001457          254 RLKRQKRVLIILDDLW  269 (1074)
Q Consensus       254 ~l~~~k~~LlVlDdv~  269 (1074)
                      ... .+--|||+|-|-
T Consensus       137 ~~~-~~i~LvVVDSva  151 (279)
T COG0468         137 SGA-EKIDLLVVDSVA  151 (279)
T ss_pred             hcc-CCCCEEEEecCc
Confidence            322 136788888774

>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=95.05  E-value=0.019  Score=46.99  Aligned_cols=22  Identities=41%  Similarity=0.705  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +|+|.|..|+||||+|+.+.+.
T Consensus         1 ~i~i~G~~gsGKst~~~~l~~~   22 (69)
T cd02019           1 IIAITGGSGSGKSTVAKKLAEQ   22 (69)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998875

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.

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.05  E-value=0.0036  Score=60.99  Aligned_cols=72  Identities=18%  Similarity=0.191  Sum_probs=52.3

Q ss_pred             CcccCCceEEEecccccccccccccccccccCccEEEEeeccCcceeecccchhhcccCccccccccccccccccccccc
Q 001457          919 PMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSV  998 (1074)
Q Consensus       919 ~~~~~~L~~L~l~~C~~L~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c~~L~~i  998 (1074)
                      +..+++++.|.+.+|..+.+....-..+-.++|+.|+|++|+.+++-.-        ..+..|++|+.|.|.+++.....
T Consensus       121 L~~l~~i~~l~l~~ck~~dD~~L~~l~~~~~~L~~L~lsgC~rIT~~GL--------~~L~~lknLr~L~l~~l~~v~~~  192 (221)
T KOG3864|consen  121 LRDLRSIKSLSLANCKYFDDWCLERLGGLAPSLQDLDLSGCPRITDGGL--------ACLLKLKNLRRLHLYDLPYVANL  192 (221)
T ss_pred             HhccchhhhheeccccchhhHHHHHhcccccchheeeccCCCeechhHH--------HHHHHhhhhHHHHhcCchhhhch
Confidence            3456888999999999988875433344568889999999988775421        35667888888888887765443

>PTZ00035 Rad51 protein; Provisional

Probab=95.05  E-value=0.2  Score=55.46  Aligned_cols=55  Identities=22%  Similarity=0.242  Sum_probs=40.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-c------CCCCeEEEEEecCCcCHHHHHHHHHHHhcc
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-E------IPFDKVIFVRVTQTPDVKRVQDEIARFLNT  237 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~------~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  237 (1074)
                      .-.++.|+|.+|+|||||+..++-. .      ..=..++||+....++..++ .++++.++.
T Consensus       117 ~G~iteI~G~~GsGKT~l~~~l~~~~qlp~~~gg~~g~vvyIdtE~~f~~eri-~~ia~~~g~  178 (337)
T PTZ00035        117 TGSITELFGEFRTGKTQLCHTLCVTCQLPIEQGGGEGKVLYIDTEGTFRPERI-VQIAERFGL  178 (337)
T ss_pred             CCeEEEEECCCCCchhHHHHHHHHHhccccccCCCCceEEEEEccCCCCHHHH-HHHHHHhCC
Confidence            3579999999999999999988754 2      12245679998888877774 445555543

>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=95.03  E-value=0.018  Score=54.20  Aligned_cols=21  Identities=43%  Similarity=0.721  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |+|.|.+|+||||+|+.+...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998765

...

>PRK13949 shikimate kinase; Provisional

Probab=95.03  E-value=0.12  Score=51.15  Aligned_cols=22  Identities=41%  Similarity=0.424  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -|.|+|++|+||||+++.+...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999987

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=95.00  E-value=0.035  Score=52.78  Aligned_cols=37  Identities=19%  Similarity=0.426  Sum_probs=28.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecC
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQ  220 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~  220 (1074)
                      ++|.|+|..|+|||||++.+.+.  ++.+...+..+...
T Consensus         1 pvv~VvG~~~sGKTTl~~~Li~~l~~~g~~v~~ik~~~~   39 (140)
T PF03205_consen    1 PVVQVVGPKNSGKTTLIRKLINELKRRGYRVAVIKHTDH   39 (140)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHHHHHHTT--EEEEEE-ST
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHhHcCCceEEEEEccC
Confidence            48999999999999999999999  67777666776655

>TIGR02236 recomb_radA DNA repair and recombination protein RadA

Probab=94.96  E-value=0.23  Score=54.89  Aligned_cols=53  Identities=23%  Similarity=0.331  Sum_probs=40.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cC------CCCeEEEEEecCCcCHHHHHHHHHHHhc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EI------PFDKVIFVRVTQTPDVKRVQDEIARFLN  236 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~------~F~~~~wv~vs~~~~~~~~~~~i~~~l~  236 (1074)
                      -.++-|+|.+|+||||++.+++-. ..      .-..++||+....++..++. ++++.++
T Consensus        95 g~i~ei~G~~g~GKT~l~~~~~~~~~~~~~~g~~~~~~~yi~te~~f~~~rl~-~~~~~~g  154 (310)
T TIGR02236        95 QAITEVFGEFGSGKTQICHQLAVNVQLPEEKGGLGGKAVYIDTENTFRPERIM-QMAEARG  154 (310)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHhcCCcccCCCcceEEEEECCCCCCHHHHH-HHHHHcC
Confidence            579999999999999999988765 21      11378999999888887765 4444444

This family consists exclusively of archaeal RadA protein, a homolog of bacterial RecA (TIGR02012), eukaryotic RAD51 (TIGR02239), and archaeal RadB (TIGR02237). This protein is involved in DNA repair and recombination. The member from Pyrococcus horikoshii contains an intein.

>KOG0736 consensus Peroxisome assembly factor 2 containing the AAA+-type ATPase domain [Posttranslational modification, protein turnover, chaperones]

Probab=94.96  E-value=0.14  Score=60.05  Aligned_cols=99  Identities=23%  Similarity=0.308  Sum_probs=63.0

Q ss_pred             CCCCCcccCcchHHHHHHHHHHHhc---------CC-CceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCc
Q 001457          154 IPTPEFVPLKSALEVIKSVMKLLKD---------NS-ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTP  222 (1074)
Q Consensus       154 ~~~~~~~~~~~r~~~~~~l~~~l~~---------~~-~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~  222 (1074)
                      .|.-...++.|-++.+.+|++.+.-         .. ....=|.++|++|.|||-+|++|+.. .-     .|++|-+. 
T Consensus       666 IPnV~WdDVGGLeevK~eIldTIqlPL~hpeLfssglrkRSGILLYGPPGTGKTLlAKAVATEcsL-----~FlSVKGP-  739 (953)
T KOG0736|consen  666 IPNVSWDDVGGLEEVKTEILDTIQLPLKHPELFSSGLRKRSGILLYGPPGTGKTLLAKAVATECSL-----NFLSVKGP-  739 (953)
T ss_pred             CCccchhcccCHHHHHHHHHHHhcCcccChhhhhccccccceeEEECCCCCchHHHHHHHHhhcee-----eEEeecCH-
Confidence            4444444566788888888876532         11 12457889999999999999999987 33     34666554 


Q ss_pred             CHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccc
Q 001457          223 DVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWG  270 (1074)
Q Consensus       223 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~  270 (1074)
                         ++++.-+        ++++ +-...+.++-+..+.|+|.||.+++
T Consensus       740 ---ELLNMYV--------GqSE-~NVR~VFerAR~A~PCVIFFDELDS  775 (953)
T KOG0736|consen  740 ---ELLNMYV--------GQSE-ENVREVFERARSAAPCVIFFDELDS  775 (953)
T ss_pred             ---HHHHHHh--------cchH-HHHHHHHHHhhccCCeEEEeccccc
Confidence               2222111        1222 2233444455567999999999875

>cd01121 Sms Sms (bacterial radA) DNA repair protein

Probab=94.95  E-value=0.071  Score=59.68  Aligned_cols=85  Identities=24%  Similarity=0.255  Sum_probs=50.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcc--hHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD--VEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~~k  259 (1074)
                      -.++.|.|.+|+|||||+.++... ...-..++|++..+.  ..++. .-++.++...+..  ......+.+.+.+...+
T Consensus        82 GslvLI~G~pG~GKStLllq~a~~~a~~g~~VlYvs~EEs--~~qi~-~Ra~rlg~~~~~l~l~~e~~le~I~~~i~~~~  158 (372)
T cd01121          82 GSVILIGGDPGIGKSTLLLQVAARLAKRGGKVLYVSGEES--PEQIK-LRADRLGISTENLYLLAETNLEDILASIEELK  158 (372)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHHHHhcCCeEEEEECCcC--HHHHH-HHHHHcCCCcccEEEEccCcHHHHHHHHHhcC
Confidence            469999999999999999999877 333356778876443  33322 2234454322110  00112233444444456


Q ss_pred             eEEEEEcCccc
Q 001457          260 RVLIILDDLWG  270 (1074)
Q Consensus       260 ~~LlVlDdv~~  270 (1074)
                      .-+||+|.+..
T Consensus       159 ~~lVVIDSIq~  169 (372)
T cd01121         159 PDLVIIDSIQT  169 (372)
T ss_pred             CcEEEEcchHH
Confidence            67788888743

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.

>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=94.95  E-value=0.082  Score=54.77  Aligned_cols=38  Identities=26%  Similarity=0.330  Sum_probs=27.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh-cC-CC-CeEEEEEecCCc
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ-EI-PF-DKVIFVRVTQTP  222 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~-~~-~F-~~~~wv~vs~~~  222 (1074)
                      +|+|.|.+|+||||+|+.+... .. .. ..+..++...-+
T Consensus         1 IigI~G~sGSGKTTla~~L~~~l~~~~~~~~v~vi~~D~f~   41 (220)
T cd02025           1 IIGIAGSVAVGKSTTARVLQALLSRWPDHPNVELITTDGFL   41 (220)
T ss_pred             CEEeeCCCCCCHHHHHHHHHHHHhhcCCCCcEEEEecCccc
Confidence            5899999999999999999887 32 12 234455554443

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>TIGR03499 FlhF flagellar biosynthetic protein FlhF

Probab=94.95  E-value=0.09  Score=56.84  Aligned_cols=37  Identities=24%  Similarity=0.365  Sum_probs=27.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cC-CCCeEEEEEec
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EI-PFDKVIFVRVT  219 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~-~F~~~~wv~vs  219 (1074)
                      .++|+|+|++|+||||++..+...  .. .-..+..|+..
T Consensus       194 ~~vi~~vGptGvGKTTt~~kLa~~~~~~~g~~~V~li~~D  233 (282)
T TIGR03499       194 GGVIALVGPTGVGKTTTLAKLAARFVLEHGNKKVALITTD  233 (282)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHcCCCeEEEEECC
Confidence            569999999999999999988776  22 11345556543

>TIGR02239 recomb_RAD51 DNA repair protein RAD51

Probab=94.93  E-value=0.21  Score=54.78  Aligned_cols=55  Identities=20%  Similarity=0.181  Sum_probs=40.0

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh---c----CCCCeEEEEEecCCcCHHHHHHHHHHHhcc
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ---E----IPFDKVIFVRVTQTPDVKRVQDEIARFLNT  237 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~---~----~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  237 (1074)
                      .-.++.|+|.+|+|||||+..++..   .    ..-..++|++..+.+...++ .++++.++.
T Consensus        95 ~g~i~~i~G~~g~GKT~l~~~~~~~~~~~~~~Gg~~~~vvyIdtE~~f~~~Rl-~~ia~~~~~  156 (316)
T TIGR02239        95 TGSITEIFGEFRTGKTQLCHTLAVTCQLPIDQGGGEGKALYIDTEGTFRPERL-LAIAERYGL  156 (316)
T ss_pred             CCeEEEEECCCCCCcCHHHHHHHHHHhhhhhcCCCCceEEEEECCCCCCHHHH-HHHHHHcCC
Confidence            3579999999999999999987653   1    11246799998888887764 445555543

This eukaryotic sequence family consists of RAD51, a protein involved in DNA homologous recombination and repair. It is similar in sequence the exclusively meiotic recombinase DMC1 (TIGR02238), to archaeal families RadA (TIGR02236) and RadB (TIGR02237), and to bacterial RecA (TIGR02012).

>PRK04328 hypothetical protein; Provisional

Probab=94.92  E-value=0.14  Score=54.25  Aligned_cols=39  Identities=18%  Similarity=0.264  Sum_probs=31.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQT  221 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~  221 (1074)
                      -.++.|.|.+|+|||++|.++... -..-..++|++..+.
T Consensus        23 gs~ili~G~pGsGKT~l~~~fl~~~~~~ge~~lyis~ee~   62 (249)
T PRK04328         23 RNVVLLSGGPGTGKSIFSQQFLWNGLQMGEPGVYVALEEH   62 (249)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEEeeCC
Confidence            569999999999999999987665 333467889887664

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=94.91  E-value=1  Score=51.10  Aligned_cols=24  Identities=33%  Similarity=0.339  Sum_probs=21.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|.++|..|+||||+|.++...
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~  123 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYY  123 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999888766

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.

>PRK06067 flagellar accessory protein FlaH; Validated

Probab=94.91  E-value=0.15  Score=53.69  Aligned_cols=85  Identities=20%  Similarity=0.244  Sum_probs=52.5

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC--------------------
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE--------------------  240 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~--------------------  240 (1074)
                      .-.++.|+|.+|+||||+|.++... ..+=..++|++..+.  ..++.+++ .+++-...                    
T Consensus        24 ~g~~~~i~G~~GsGKt~l~~~~~~~~~~~g~~~~y~~~e~~--~~~~~~~~-~~~g~~~~~~~~~g~l~i~~~~~~~~~~  100 (234)
T PRK06067         24 FPSLILIEGDHGTGKSVLSQQFVYGALKQGKKVYVITTENT--SKSYLKQM-ESVKIDISDFFLWGYLRIFPLNTEGFEW  100 (234)
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHHHHhCCCEEEEEEcCCC--HHHHHHHH-HHCCCChhHHHhCCCceEEecccccccc
Confidence            3579999999999999999998655 333457889988654  34555543 22321111                    


Q ss_pred             -cchHHHHHHHHHHHHHccCeEEEEEcCcc
Q 001457          241 -GDVEVLRAAFLSERLKRQKRVLIILDDLW  269 (1074)
Q Consensus       241 -~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  269 (1074)
                       ..........+.+.+...+.-++|+|.+-
T Consensus       101 ~~~~~~~ll~~l~~~i~~~~~~~iviDs~t  130 (234)
T PRK06067        101 NSTLANKLLELIIEFIKSKREDVIIIDSLT  130 (234)
T ss_pred             CcchHHHHHHHHHHHHHhcCCCEEEEecHH
Confidence             01113344555555543455678888765

>PLN03186 DNA repair protein RAD51 homolog; Provisional

Probab=94.91  E-value=0.2  Score=55.26  Aligned_cols=54  Identities=22%  Similarity=0.226  Sum_probs=41.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh---c----CCCCeEEEEEecCCcCHHHHHHHHHHHhcc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ---E----IPFDKVIFVRVTQTPDVKRVQDEIARFLNT  237 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~---~----~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  237 (1074)
                      -.++-|+|.+|+|||++|..++-.   .    ..-..++||+....|...++. +|++.++.
T Consensus       123 g~i~~i~G~~g~GKT~l~~~l~~~~~~~~~~gg~~g~vlyIdtE~~f~~eRl~-qia~~~~~  183 (342)
T PLN03186        123 GSITEIYGEFRTGKTQLCHTLCVTCQLPLDQGGGEGKAMYIDTEGTFRPQRLI-QIAERFGL  183 (342)
T ss_pred             ceEEEEECCCCCCccHHHHHHHHHhhcchhhCCCCceEEEEECCCCccHHHHH-HHHHHcCC
Confidence            568999999999999999877644   1    122378999999999888764 55666554

>cd01131 PilT Pilus retraction ATPase PilT

Probab=94.88  E-value=0.03  Score=57.14  Aligned_cols=109  Identities=13%  Similarity=0.151  Sum_probs=57.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHH-HHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVK-RVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~-~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      .+|.|+|+.|+||||+++.+... .......+++- .+..... .-...+..+-.  . +.......+.++..+. ...=
T Consensus         2 GlilI~GptGSGKTTll~~ll~~~~~~~~~~i~t~-e~~~E~~~~~~~~~i~q~~--v-g~~~~~~~~~i~~aLr-~~pd   76 (198)
T cd01131           2 GLVLVTGPTGSGKSTTLAAMIDYINKNKTHHILTI-EDPIEFVHESKRSLINQRE--V-GLDTLSFENALKAALR-QDPD   76 (198)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHhhhcCCcEEEEE-cCCccccccCccceeeecc--c-CCCccCHHHHHHHHhc-CCcC
Confidence            47899999999999999988877 43444444432 2211100 00001111100  0 0011123344555554 3566


Q ss_pred             EEEEcCccccccccccccCCCCCCCCeEEEEecCChhHH
Q 001457          262 LIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVC  300 (1074)
Q Consensus       262 LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~  300 (1074)
                      .|++|++.+.+........   ...|-.++.|+-..++.
T Consensus        77 ~ii~gEird~e~~~~~l~~---a~~G~~v~~t~Ha~~~~  112 (198)
T cd01131          77 VILVGEMRDLETIRLALTA---AETGHLVMSTLHTNSAA  112 (198)
T ss_pred             EEEEcCCCCHHHHHHHHHH---HHcCCEEEEEecCCcHH
Confidence            8999999876654432222   12355677777655543

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.

>COG2607 Predicted ATPase (AAA+ superfamily) [General function prediction only]

Probab=94.87  E-value=0.11  Score=52.29  Aligned_cols=116  Identities=15%  Similarity=0.227  Sum_probs=61.8

Q ss_pred             CCCcccCcchHHHH-HHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVI-KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~-~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      -..++|++...+.+ +.-...+.+-.  ---|.+||.-|+||++|++++.+. ....-..+=  |.+.            
T Consensus        59 L~~l~Gvd~qk~~L~~NT~~F~~G~p--ANnVLLwGaRGtGKSSLVKA~~~e~~~~glrLVE--V~k~------------  122 (287)
T COG2607          59 LADLVGVDRQKEALVRNTEQFAEGLP--ANNVLLWGARGTGKSSLVKALLNEYADEGLRLVE--VDKE------------  122 (287)
T ss_pred             HHHHhCchHHHHHHHHHHHHHHcCCc--ccceEEecCCCCChHHHHHHHHHHHHhcCCeEEE--EcHH------------
Confidence            34455554333332 22233333333  346779999999999999999998 443333222  2221            


Q ss_pred             HhccCCCcchHHHHHHHHHHHHH-ccCeEEEEEcCcccc---ccccccccCCCC---CCCCeEEEEecCCh
Q 001457          234 FLNTELEGDVEVLRAAFLSERLK-RQKRVLIILDDLWGK---LDLAVVGIPYGE---EHKGCKIILTSRFK  297 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l~-~~k~~LlVlDdv~~~---~~~~~~~~~~~~---~~~gs~iivTTR~~  297 (1074)
                                +-.....|.+.|+ ...||+|..||..-+   +....++..+..   +.+...++..|.++
T Consensus       123 ----------dl~~Lp~l~~~Lr~~~~kFIlFcDDLSFe~gd~~yK~LKs~LeG~ve~rP~NVl~YATSNR  183 (287)
T COG2607         123 ----------DLATLPDLVELLRARPEKFILFCDDLSFEEGDDAYKALKSALEGGVEGRPANVLFYATSNR  183 (287)
T ss_pred             ----------HHhhHHHHHHHHhcCCceEEEEecCCCCCCCchHHHHHHHHhcCCcccCCCeEEEEEecCC
Confidence                      1111223333343 478999999998633   334455444432   22334455555544

>PRK04296 thymidine kinase; Provisional

Probab=94.87  E-value=0.037  Score=55.97  Aligned_cols=109  Identities=15%  Similarity=0.111  Sum_probs=60.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCc---chHHHHHHHHHHHHHccC
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEG---DVEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~---~~~~~~~~~l~~~l~~~k  259 (1074)
                      .++.|+|..|.||||+|.....+ ..+-..++.+.  ..++.......++++++.....   ....+....+.+  ..++
T Consensus         3 ~i~litG~~GsGKTT~~l~~~~~~~~~g~~v~i~k--~~~d~~~~~~~i~~~lg~~~~~~~~~~~~~~~~~~~~--~~~~   78 (190)
T PRK04296          3 KLEFIYGAMNSGKSTELLQRAYNYEERGMKVLVFK--PAIDDRYGEGKVVSRIGLSREAIPVSSDTDIFELIEE--EGEK   78 (190)
T ss_pred             EEEEEECCCCCHHHHHHHHHHHHHHHcCCeEEEEe--ccccccccCCcEecCCCCcccceEeCChHHHHHHHHh--hCCC
Confidence            47889999999999999998887 33333333331  2223233344456666543322   112233333333  2345


Q ss_pred             eEEEEEcCcccc--ccccccccCCCCCCCCeEEEEecCChh
Q 001457          260 RVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRFKE  298 (1074)
Q Consensus       260 ~~LlVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~~~  298 (1074)
                      .-+||+|.+.--  ++..++...+  ...|..||+|.++.+
T Consensus        79 ~dvviIDEaq~l~~~~v~~l~~~l--~~~g~~vi~tgl~~~  117 (190)
T PRK04296         79 IDCVLIDEAQFLDKEQVVQLAEVL--DDLGIPVICYGLDTD  117 (190)
T ss_pred             CCEEEEEccccCCHHHHHHHHHHH--HHcCCeEEEEecCcc
Confidence            568999998532  2222221111  234788999988743

>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=94.86  E-value=0.093  Score=53.10  Aligned_cols=44  Identities=18%  Similarity=0.231  Sum_probs=30.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHH
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~  230 (1074)
                      ++.|.|.+|+|||++|.++... -..=..++|++....  ...+.+.
T Consensus         1 ~~li~G~~G~GKT~l~~~~~~~~~~~g~~v~~~s~e~~--~~~~~~~   45 (187)
T cd01124           1 STLLSGGPGTGKTTFALQFLYAGLARGEPGLYVTLEES--PEELIEN   45 (187)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHHHHCCCcEEEEECCCC--HHHHHHH
Confidence            3679999999999999998777 222255778876543  4444433

A related protein is found in archaea.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=94.86  E-value=0.096  Score=52.21  Aligned_cols=22  Identities=32%  Similarity=0.422  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++.++|++|+||||+++.+...
T Consensus         2 ~~~~~G~~G~GKTt~~~~la~~   23 (173)
T cd03115           2 VILLVGLQGVGKTTTAAKLALY   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999999887

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.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=94.85  E-value=0.043  Score=54.44  Aligned_cols=22  Identities=41%  Similarity=0.593  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|.|.|.+|+||||+|+.+.+.
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999988

>PRK13531 regulatory ATPase RavA; Provisional

Probab=94.84  E-value=0.067  Score=60.80  Aligned_cols=41  Identities=15%  Similarity=0.187  Sum_probs=36.0

Q ss_pred             CcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          162 LKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.|+++.++.++..+..+.    -|.|.|++|+|||++|+.+...
T Consensus        22 i~gre~vI~lll~aalag~----hVLL~GpPGTGKT~LAraLa~~   62 (498)
T PRK13531         22 LYERSHAIRLCLLAALSGE----SVFLLGPPGIAKSLIARRLKFA   62 (498)
T ss_pred             ccCcHHHHHHHHHHHccCC----CEEEECCCChhHHHHHHHHHHH
Confidence            6689999999888887665    6889999999999999999986

>KOG0733 consensus Nuclear AAA ATPase (VCP subfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.84  E-value=0.08  Score=60.24  Aligned_cols=149  Identities=18%  Similarity=0.260  Sum_probs=85.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      ..=|.+||++|+|||-||++|+|. +.+|     ++|-+.    +++..-.        + ..+..+..+.++-+..-.|
T Consensus       545 PsGvLL~GPPGCGKTLlAKAVANEag~NF-----isVKGP----ELlNkYV--------G-ESErAVR~vFqRAR~saPC  606 (802)
T KOG0733|consen  545 PSGVLLCGPPGCGKTLLAKAVANEAGANF-----ISVKGP----ELLNKYV--------G-ESERAVRQVFQRARASAPC  606 (802)
T ss_pred             CCceEEeCCCCccHHHHHHHHhhhccCce-----EeecCH----HHHHHHh--------h-hHHHHHHHHHHHhhcCCCe
Confidence            557889999999999999999999 7666     555543    2222111        1 1123344555555567899


Q ss_pred             EEEEcCcccc-------ccc------cccccCCC--CCCCCeEEEEecCChhHHh-h-c---cCCCeEeCCCCCHHHHHH
Q 001457          262 LIILDDLWGK-------LDL------AVVGIPYG--EEHKGCKIILTSRFKEVCD-E-M---ESTNYVQVEELTDEDRLI  321 (1074)
Q Consensus       262 LlVlDdv~~~-------~~~------~~~~~~~~--~~~~gs~iivTTR~~~v~~-~-~---~~~~~~~l~~L~~~~~~~  321 (1074)
                      +|.||.++..       ..|      .++..-+.  ....|--||-.|.-.++.. . .   .-++..-+..-+.+|-..
T Consensus       607 VIFFDEiDaL~p~R~~~~s~~s~RvvNqLLtElDGl~~R~gV~viaATNRPDiIDpAiLRPGRlDk~LyV~lPn~~eR~~  686 (802)
T KOG0733|consen  607 VIFFDEIDALVPRRSDEGSSVSSRVVNQLLTELDGLEERRGVYVIAATNRPDIIDPAILRPGRLDKLLYVGLPNAEERVA  686 (802)
T ss_pred             EEEecchhhcCcccCCCCchhHHHHHHHHHHHhcccccccceEEEeecCCCcccchhhcCCCccCceeeecCCCHHHHHH
Confidence            9999998642       111      12222222  1234666666665555521 1 1   123455666667788888


Q ss_pred             HHHHhcCC--CC--CCchhHHHHHHHHHHhCCCh
Q 001457          322 LFKKKAGL--PE--GTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       322 lf~~~a~~--~~--~~~~~~~~~~~i~~~c~glP  351 (1074)
                      +++.....  ..  ..-++.++|+.  .+|.|.-
T Consensus       687 ILK~~tkn~k~pl~~dVdl~eia~~--~~c~gft  718 (802)
T KOG0733|consen  687 ILKTITKNTKPPLSSDVDLDEIARN--TKCEGFT  718 (802)
T ss_pred             HHHHHhccCCCCCCcccCHHHHhhc--ccccCCc
Confidence            88777652  11  12245555543  3555543

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=94.84  E-value=0.14  Score=50.46  Aligned_cols=23  Identities=22%  Similarity=0.466  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+++|+|..|.|||||++.+...
T Consensus        28 e~~~i~G~nGsGKSTLl~~l~G~   50 (166)
T cd03223          28 DRLLITGPSGTGKSSLFRALAGL   50 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC
Confidence            48999999999999999999887

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

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=94.81  E-value=0.32  Score=57.04  Aligned_cols=23  Identities=35%  Similarity=0.629  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..|+|+|+.|+|||||.+.+...
T Consensus       349 ~riaiiG~NG~GKSTLlk~l~g~  371 (530)
T COG0488         349 DRIAIVGPNGAGKSTLLKLLAGE  371 (530)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhh
Confidence            47999999999999999999766

>KOG0729 consensus 26S proteasome regulatory complex, ATPase RPT1 [Posttranslational modification, protein turnover, chaperones]

Probab=94.81  E-value=0.2  Score=50.88  Aligned_cols=28  Identities=29%  Similarity=0.424  Sum_probs=24.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      .+-|..+|++|.|||-+|++|.|+ ...|
T Consensus       211 pkgvllygppgtgktl~aravanrtdacf  239 (435)
T KOG0729|consen  211 PKGVLLYGPPGTGKTLCARAVANRTDACF  239 (435)
T ss_pred             CCceEEeCCCCCchhHHHHHHhcccCceE
Confidence            567889999999999999999998 4444

>COG0572 Udk Uridine kinase [Nucleotide transport and metabolism]

Probab=94.77  E-value=0.038  Score=55.65  Aligned_cols=28  Identities=39%  Similarity=0.655  Sum_probs=24.7

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCC
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIP  209 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~  209 (1074)
                      .+.+|||.|.+|+||||+|+.++.. +..
T Consensus         7 ~~iiIgIaG~SgSGKTTva~~l~~~~~~~   35 (218)
T COG0572           7 KVIIIGIAGGSGSGKTTVAKELSEQLGVE   35 (218)
T ss_pred             ceEEEEEeCCCCCCHHHHHHHHHHHhCcC
Confidence            3689999999999999999999988 444

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=94.77  E-value=0.024  Score=54.46  Aligned_cols=22  Identities=41%  Similarity=0.628  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +|.++|++|+||||+|+.+...
T Consensus         1 lii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    1 LIILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999999876

...

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.75  E-value=0.072  Score=50.03  Aligned_cols=78  Identities=15%  Similarity=0.370  Sum_probs=29.8

Q ss_pred             CCCCccEEEccCCCCCCCChhHHhcCCCccEEEecCCccCCCCC-CccCCccCCeeeccCCCCCC--CccccCCCCccEE
Q 001457          529 KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVL  605 (1074)
Q Consensus       529 ~~~~Lr~L~l~~~~~~~~~~~~~~~l~~L~~L~l~~~~~~~lp~-~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L  605 (1074)
                      ++.+|+.+.+.. .+..+....|.++..|+.+.+.++ +..++. .+..+.+|+.+.+.+ .+..  ...+..+.+|+.+
T Consensus        10 ~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~~~~l~~i   86 (129)
T PF13306_consen   10 NCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSNCTNLKNI   86 (129)
T ss_dssp             T-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT-TTECEE
T ss_pred             CCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-ccccccccccccccccccc
Confidence            344555555543 344455555555555555555543 444433 344444555555543 2221  2233334445555


Q ss_pred             EeeC
Q 001457          606 ILKG  609 (1074)
Q Consensus       606 ~L~~  609 (1074)
                      ++..
T Consensus        87 ~~~~   90 (129)
T PF13306_consen   87 DIPS   90 (129)
T ss_dssp             EETT
T ss_pred             ccCc
Confidence            4433

>TIGR00235 udk uridine kinase

Probab=94.72  E-value=0.028  Score=57.95  Aligned_cols=24  Identities=42%  Similarity=0.632  Sum_probs=22.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|+|+|++|+||||||+.+...
T Consensus         6 g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         6 GIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             eEEEEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999999999877

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK05480 uridine/cytidine kinase; Provisional

Probab=94.70  E-value=0.028  Score=58.12  Aligned_cols=24  Identities=38%  Similarity=0.613  Sum_probs=22.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|+|.|.+|+||||||+.+...
T Consensus         6 ~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          6 PIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999999886

>cd02027 APSK Adenosine 5'-phosphosulfate kinase (APSK) catalyzes the phosphorylation of adenosine 5'-phosphosulfate to form 3'-phosphoadenosine 5'-phosphosulfate (PAPS)

Probab=94.69  E-value=0.19  Score=48.60  Aligned_cols=22  Identities=27%  Similarity=0.510  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ||.|+|.+|+||||+|+.+...
T Consensus         1 ~i~i~G~~GsGKSTla~~L~~~   22 (149)
T cd02027           1 VIWLTGLSGSGKSTIARALEEK   22 (149)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            5789999999999999999887

The end-product PAPS is a biologically "activated" sulfate form important for the assimilation of inorganic sulfate.

>PRK08233 hypothetical protein; Provisional

Probab=94.69  E-value=0.026  Score=56.87  Aligned_cols=24  Identities=33%  Similarity=0.476  Sum_probs=22.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|+|.|.+|+||||+|+.+...
T Consensus         3 ~~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          3 TKIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhh
Confidence            479999999999999999999876

>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=94.68  E-value=0.014  Score=35.37  Aligned_cols=21  Identities=29%  Similarity=0.574  Sum_probs=13.3

Q ss_pred             CccEEEeeCCCCcccCccccC
Q 001457          601 ELEVLILKGSRIVELPNGIGT  621 (1074)
Q Consensus       601 ~L~~L~L~~~~i~~lp~~i~~  621 (1074)
                      +|++|||++|+++.+|.++++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            466666666666666665544

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 ....

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=94.65  E-value=0.056  Score=53.21  Aligned_cols=112  Identities=18%  Similarity=0.171  Sum_probs=56.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecC--CcCHHHHHHHHHHHhccCCCcchH-HHHHHHHHHHHHccCe
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQ--TPDVKRVQDEIARFLNTELEGDVE-VLRAAFLSERLKRQKR  260 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~--~~~~~~~~~~i~~~l~~~~~~~~~-~~~~~~l~~~l~~~k~  260 (1074)
                      .+++|+|..|.|||||.+.+..........+++.-..  ..+..+..+   +.++.... -+. +...-.+-..+. .++
T Consensus        27 e~~~l~G~nGsGKSTLl~~i~G~~~~~~G~v~~~g~~~~~~~~~~~~~---~~i~~~~q-LS~G~~qrl~laral~-~~p  101 (163)
T cd03216          27 EVHALLGENGAGKSTLMKILSGLYKPDSGEILVDGKEVSFASPRDARR---AGIAMVYQ-LSVGERQMVEIARALA-RNA  101 (163)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCeEEEECCEECCcCCHHHHHh---cCeEEEEe-cCHHHHHHHHHHHHHh-cCC
Confidence            4999999999999999999988733445555553111  111111111   11111110 111 122222333343 477


Q ss_pred             EEEEEcCcccccc---ccccccCCCC-CCCCeEEEEecCChhHH
Q 001457          261 VLIILDDLWGKLD---LAVVGIPYGE-EHKGCKIILTSRFKEVC  300 (1074)
Q Consensus       261 ~LlVlDdv~~~~~---~~~~~~~~~~-~~~gs~iivTTR~~~v~  300 (1074)
                      -++++|+--+.-+   .+.+...+.. ...|..||++|.+.+..
T Consensus       102 ~illlDEP~~~LD~~~~~~l~~~l~~~~~~~~tiii~sh~~~~~  145 (163)
T cd03216         102 RLLILDEPTAALTPAEVERLFKVIRRLRAQGVAVIFISHRLDEV  145 (163)
T ss_pred             CEEEEECCCcCCCHHHHHHHHHHHHHHHHCCCEEEEEeCCHHHH
Confidence            8899998654311   1112111111 12366788888876643

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.

>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=94.65  E-value=0.13  Score=51.67  Aligned_cols=115  Identities=18%  Similarity=0.265  Sum_probs=59.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEE---ecCCcCHHHHHH------HHHHHhccCC------CcchH-HHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVR---VTQTPDVKRVQD------EIARFLNTEL------EGDVE-VLR  247 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~---vs~~~~~~~~~~------~i~~~l~~~~------~~~~~-~~~  247 (1074)
                      .+++|+|..|+|||||++.+........+.+++.   +.. .+......      ++++.++...      ..-+. +..
T Consensus        26 ~~~~l~G~nGsGKStLl~~i~G~~~~~~G~v~~~g~~~~~-~~~~~~~~~i~~~~q~l~~~gl~~~~~~~~~~LS~G~~q  104 (180)
T cd03214          26 EIVGILGPNGAGKSTLLKTLAGLLKPSSGEILLDGKDLAS-LSPKELARKIAYVPQALELLGLAHLADRPFNELSGGERQ  104 (180)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCcEEEECCEECCc-CCHHHHHHHHhHHHHHHHHcCCHhHhcCCcccCCHHHHH
Confidence            5999999999999999999998733344444442   221 12222221      1344443221      11111 112


Q ss_pred             HHHHHHHHHccCeEEEEEcCcccccc---ccccccCCCC--CCCCeEEEEecCChhHH
Q 001457          248 AAFLSERLKRQKRVLIILDDLWGKLD---LAVVGIPYGE--EHKGCKIILTSRFKEVC  300 (1074)
Q Consensus       248 ~~~l~~~l~~~k~~LlVlDdv~~~~~---~~~~~~~~~~--~~~gs~iivTTR~~~v~  300 (1074)
                      .-.+-..+. ..+-++++|+--..-+   .+.+...+..  ...|..||++|.+.+..
T Consensus       105 rl~laral~-~~p~llllDEP~~~LD~~~~~~~~~~l~~~~~~~~~tiii~sh~~~~~  161 (180)
T cd03214         105 RVLLARALA-QEPPILLLDEPTSHLDIAHQIELLELLRRLARERGKTVVMVLHDLNLA  161 (180)
T ss_pred             HHHHHHHHh-cCCCEEEEeCCccCCCHHHHHHHHHHHHHHHHhcCCEEEEEeCCHHHH
Confidence            222333443 4778999998653311   1222111111  11256788888876654

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.

>TIGR03574 selen_PSTK L-seryl-tRNA(Sec) kinase, archaeal

Probab=94.63  E-value=0.079  Score=56.41  Aligned_cols=22  Identities=36%  Similarity=0.605  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|.++|++|+||||+|+.+...
T Consensus         1 LIvl~G~pGSGKST~a~~La~~   22 (249)
T TIGR03574         1 LIILTGLPGVGKSTFSKELAKK   22 (249)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHH
Confidence            3789999999999999999887

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.

>PF13306 LRR_5: Leucine rich repeats (6 copies); PDB: 3ZYJ_A 3V47_B 3V44_A 3ZYN_A 3ZYO_A 3SB4_A

Probab=94.62  E-value=0.071  Score=50.05  Aligned_cols=106  Identities=18%  Similarity=0.358  Sum_probs=58.4

Q ss_pred             CChhHHhcCCCccEEEecCCccCCCCC-CccCCccCCeeeccCCCCCC--CccccCCCCccEEEeeCCCCcccCcc-ccC
Q 001457          546 IPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPNG-IGT  621 (1074)
Q Consensus       546 ~~~~~~~~l~~L~~L~l~~~~~~~lp~-~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~~~~i~~lp~~-i~~  621 (1074)
                      ++...|.++..|+.+.+.. .+..++. .+..+.+|+.+.+.++ +..  ...+..+.+|+.+.+.. .+..++.. +..
T Consensus         3 i~~~~F~~~~~l~~i~~~~-~~~~I~~~~F~~~~~l~~i~~~~~-~~~i~~~~F~~~~~l~~i~~~~-~~~~i~~~~F~~   79 (129)
T PF13306_consen    3 IGNNAFYNCSNLESITFPN-TIKKIGENAFSNCTSLKSINFPNN-LTSIGDNAFSNCKSLESITFPN-NLKSIGDNAFSN   79 (129)
T ss_dssp             E-TTTTTT-TT--EEEETS-T--EE-TTTTTT-TT-SEEEESST-TSCE-TTTTTT-TT-EEEEETS-TT-EE-TTTTTT
T ss_pred             ECHHHHhCCCCCCEEEECC-CeeEeChhhccccccccccccccc-ccccceeeeecccccccccccc-cccccccccccc
Confidence            4566788888899988875 4666655 5777778888888775 555  44566777788888865 45555544 445


Q ss_pred             CCCCCEEeCCCCcCCCCcChhhhcCCCCcCEEEccC
Q 001457          622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN  657 (1074)
Q Consensus       622 L~~L~~L~l~~~~~~~~~p~~~i~~L~~L~~L~l~~  657 (1074)
                      +++|+.+++..+  ...++...+.+. +|+.+.+..
T Consensus        80 ~~~l~~i~~~~~--~~~i~~~~f~~~-~l~~i~~~~  112 (129)
T PF13306_consen   80 CTNLKNIDIPSN--ITEIGSSSFSNC-NLKEINIPS  112 (129)
T ss_dssp             -TTECEEEETTT---BEEHTTTTTT--T--EEE-TT
T ss_pred             cccccccccCcc--ccEEchhhhcCC-CceEEEECC
Confidence            778888877553  345555556666 777776544

>KOG0652 consensus 26S proteasome regulatory complex, ATPase RPT5 [Posttranslational modification, protein turnover, chaperones]

Probab=94.62  E-value=0.69  Score=46.95  Aligned_cols=59  Identities=19%  Similarity=0.285  Sum_probs=43.3

Q ss_pred             ccCCCCCcccCcchHHHHHHHHHHHhcC----C-------CceeEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          152 RSIPTPEFVPLKSALEVIKSVMKLLKDN----S-------ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       152 ~~~~~~~~~~~~~r~~~~~~l~~~l~~~----~-------~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      ...|+..+..+.|-++.++++++.+--.    +       ...+-|..+|++|.|||-+|++...+ ...|
T Consensus       163 DekPtE~YsDiGGldkQIqELvEAiVLpmth~ekF~~lgi~pPKGvLmYGPPGTGKTlmARAcAaqT~aTF  233 (424)
T KOG0652|consen  163 DEKPTEQYSDIGGLDKQIQELVEAIVLPMTHKEKFENLGIRPPKGVLMYGPPGTGKTLMARACAAQTNATF  233 (424)
T ss_pred             ccCCcccccccccHHHHHHHHHHHhccccccHHHHHhcCCCCCCceEeeCCCCCcHHHHHHHHHHhccchH
Confidence            4456677777778888888888776321    0       12567889999999999999998877 4444

>KOG1514 consensus Origin recognition complex, subunit 1, and related proteins [Replication, recombination and repair]

Probab=94.60  E-value=1.3  Score=51.91  Aligned_cols=192  Identities=16%  Similarity=0.152  Sum_probs=106.9

Q ss_pred             CcchHHHHHHHHHHHhc---CCCceeEEEEEcCCCCcHHHHHHHHHhh------cCCCCe--EEEEEecCCcCHHHHHHH
Q 001457          162 LKSALEVIKSVMKLLKD---NSISINIIGVYGSGGIGKTTLMKQVMKQ------EIPFDK--VIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~---~~~~~~vi~I~G~gG~GKTtLa~~v~~~------~~~F~~--~~wv~vs~~~~~~~~~~~  230 (1074)
                      ..+|+.+..+|-..+..   +...-+.+-|.|.+|+|||..++.|.+.      ++.-..  .+.|+.-.-....++...
T Consensus       398 LpcRe~E~~~I~~f~~~~i~~~~~g~~mYIsGvPGtGKT~tV~~Vm~~Lq~~s~~~e~p~f~yveINgm~l~~~~~~Y~~  477 (767)
T KOG1514|consen  398 LPCRENEFSEIEDFLRSFISDQGLGSCMYISGVPGTGKTATVLEVMKELQTSSAQKELPKFDYVEINGLRLASPREIYEK  477 (767)
T ss_pred             ccchhHHHHHHHHHHHhhcCCCCCceeEEEecCCCCCceehHHHHHHHHHHHHhhcCCCCccEEEEcceeecCHHHHHHH
Confidence            44677777777766532   2223459999999999999999999985      222222  334444455568899999


Q ss_pred             HHHHhccCCCcchHHHHHHHHHHHHH----ccCeEEEEEcCcccc-----ccccccccCCC-CCCCCeEEEEecCChhH-
Q 001457          231 IARFLNTELEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGK-----LDLAVVGIPYG-EEHKGCKIILTSRFKEV-  299 (1074)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~l~~~l~----~~k~~LlVlDdv~~~-----~~~~~~~~~~~-~~~~gs~iivTTR~~~v-  299 (1074)
                      |...+......+  ......|..++.    ..+.++|++|+++.-     +.+..|   |. ...++||++|.+=.... 
T Consensus       478 I~~~lsg~~~~~--~~al~~L~~~f~~~k~~~~~~VvLiDElD~Lvtr~QdVlYn~---fdWpt~~~sKLvvi~IaNTmd  552 (767)
T KOG1514|consen  478 IWEALSGERVTW--DAALEALNFRFTVPKPKRSTTVVLIDELDILVTRSQDVLYNI---FDWPTLKNSKLVVIAIANTMD  552 (767)
T ss_pred             HHHhcccCcccH--HHHHHHHHHhhccCCCCCCCEEEEeccHHHHhcccHHHHHHH---hcCCcCCCCceEEEEeccccc
Confidence            999887543322  223334444443    357788999987532     222222   11 34568888776532111 


Q ss_pred             ----------HhhccCCCeEeCCCCCHHHHHHHHHHhcCC--CCCCchhHHHHHHHHHHhCCChHHHHHHHH
Q 001457          300 ----------CDEMESTNYVQVEELTDEDRLILFKKKAGL--PEGTKAFDRAAEEVVRQCGKLPNAIVIIGT  359 (1074)
Q Consensus       300 ----------~~~~~~~~~~~l~~L~~~~~~~lf~~~a~~--~~~~~~~~~~~~~i~~~c~glPLai~~~~~  359 (1074)
                                +..++- ..+...+-+.++-.++......+  .......+=++++++..-|..-.|+.+.-+
T Consensus       553 lPEr~l~nrvsSRlg~-tRi~F~pYth~qLq~Ii~~RL~~~~~f~~~aielvarkVAavSGDaRraldic~R  623 (767)
T KOG1514|consen  553 LPERLLMNRVSSRLGL-TRICFQPYTHEQLQEIISARLKGLDAFENKAIELVARKVAAVSGDARRALDICRR  623 (767)
T ss_pred             CHHHHhccchhhhccc-eeeecCCCCHHHHHHHHHHhhcchhhcchhHHHHHHHHHHhccccHHHHHHHHHH
Confidence                      111111 34566666666666665544431  112233344455555544444444444333

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=94.58  E-value=0.21  Score=53.56  Aligned_cols=85  Identities=18%  Similarity=0.212  Sum_probs=46.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHH--HHHHHHHHHhccCCC-----cchHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVK--RVQDEIARFLNTELE-----GDVEVLRAAFLSER  254 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~--~~~~~i~~~l~~~~~-----~~~~~~~~~~l~~~  254 (1074)
                      .++|.++|++|+||||.+..+... ...-..+.+++.. .+...  +-+...++..+....     ..........+...
T Consensus        72 ~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D-~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~~  150 (272)
T TIGR00064        72 PNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGD-TFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQKA  150 (272)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCC-CCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHHH
Confidence            689999999999999999888776 3332345555543 33332  223334455443211     11112222333333


Q ss_pred             HHccCeEEEEEcCcc
Q 001457          255 LKRQKRVLIILDDLW  269 (1074)
Q Consensus       255 l~~~k~~LlVlDdv~  269 (1074)
                      .. ...=++++|-.-
T Consensus       151 ~~-~~~D~ViIDT~G  164 (272)
T TIGR00064       151 KA-RNIDVVLIDTAG  164 (272)
T ss_pred             HH-CCCCEEEEeCCC
Confidence            32 344567778653

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.

>PRK06762 hypothetical protein; Provisional

Probab=94.57  E-value=0.03  Score=55.41  Aligned_cols=24  Identities=38%  Similarity=0.591  Sum_probs=21.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|.|+|++|+||||+|+.+.+.
T Consensus         2 ~~li~i~G~~GsGKST~A~~L~~~   25 (166)
T PRK06762          2 TTLIIIRGNSGSGKTTIAKQLQER   25 (166)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999999876

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=94.57  E-value=0.038  Score=57.00  Aligned_cols=23  Identities=30%  Similarity=0.426  Sum_probs=20.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~  205 (1074)
                      .+++.|+|+.|.||||+.+.+..
T Consensus        29 ~~~~~itGpNg~GKStlLk~i~~   51 (213)
T cd03281          29 PSIMVITGPNSSGKSVYLKQVAL   51 (213)
T ss_pred             ceEEEEECCCCCChHHHHHHHHH
Confidence            48899999999999999999874

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

>PRK14974 cell division protein FtsY; Provisional

Probab=94.56  E-value=0.17  Score=55.65  Aligned_cols=54  Identities=24%  Similarity=0.237  Sum_probs=34.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCH--HHHHHHHHHHhccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDV--KRVQDEIARFLNTE  238 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~--~~~~~~i~~~l~~~  238 (1074)
                      ..+|.++|++|+||||++..++..  ...+ .++.+. .+.+..  .+-++..+..++..
T Consensus       140 ~~vi~~~G~~GvGKTTtiakLA~~l~~~g~-~V~li~-~Dt~R~~a~eqL~~~a~~lgv~  197 (336)
T PRK14974        140 PVVIVFVGVNGTGKTTTIAKLAYYLKKNGF-SVVIAA-GDTFRAGAIEQLEEHAERLGVK  197 (336)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHHcCC-eEEEec-CCcCcHHHHHHHHHHHHHcCCc
Confidence            679999999999999988888776  3334 333443 233322  23344556666543

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

Probab=94.51  E-value=0.13  Score=58.89  Aligned_cols=123  Identities=21%  Similarity=0.306  Sum_probs=65.2

Q ss_pred             HHHHHHHhcCCCceeEEEEEcCCCCcHHH-HHHHHHhhcCCCCeEEEEEecCCcC--HHHHHHHHHHHhccCCCc-----
Q 001457          170 KSVMKLLKDNSISINIIGVYGSGGIGKTT-LMKQVMKQEIPFDKVIFVRVTQTPD--VKRVQDEIARFLNTELEG-----  241 (1074)
Q Consensus       170 ~~l~~~l~~~~~~~~vi~I~G~gG~GKTt-La~~v~~~~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~~~~~~-----  241 (1074)
                      +++++.+.++.    ||.|+|-.|+|||| ||+.+|.+.-.=.+  -|-+.+.-.  ...+.+.+++.++.....     
T Consensus       362 ~~ll~~ir~n~----vvvivgETGSGKTTQl~QyL~edGY~~~G--mIGcTQPRRvAAiSVAkrVa~EM~~~lG~~VGYs  435 (1042)
T KOG0924|consen  362 DQLLSVIRENQ----VVVIVGETGSGKTTQLAQYLYEDGYADNG--MIGCTQPRRVAAISVAKRVAEEMGVTLGDTVGYS  435 (1042)
T ss_pred             HHHHHHHhhCc----EEEEEecCCCCchhhhHHHHHhcccccCC--eeeecCchHHHHHHHHHHHHHHhCCccccccceE
Confidence            45666665554    99999999999997 88888887211122  233444433  344556666666432211     


Q ss_pred             -----chHHH-------HHHHHHHHHHc---cCeEEEEEcCcccccc----c-cccccCCCCCCCCeEEEEecCChhH
Q 001457          242 -----DVEVL-------RAAFLSERLKR---QKRVLIILDDLWGKLD----L-AVVGIPYGEEHKGCKIILTSRFKEV  299 (1074)
Q Consensus       242 -----~~~~~-------~~~~l~~~l~~---~k~~LlVlDdv~~~~~----~-~~~~~~~~~~~~gs~iivTTR~~~v  299 (1074)
                           .+...       .--.|++.|+.   .|=-.||+|...+...    + .-++..+ .....-|+|||+-.-+.
T Consensus       436 IRFEdvT~~~T~IkymTDGiLLrEsL~d~~L~kYSviImDEAHERslNtDilfGllk~~l-arRrdlKliVtSATm~a  512 (1042)
T KOG0924|consen  436 IRFEDVTSEDTKIKYMTDGILLRESLKDRDLDKYSVIIMDEAHERSLNTDILFGLLKKVL-ARRRDLKLIVTSATMDA  512 (1042)
T ss_pred             EEeeecCCCceeEEEeccchHHHHHhhhhhhhheeEEEechhhhcccchHHHHHHHHHHH-HhhccceEEEeeccccH
Confidence                 00000       01123333321   3556788898865421    1 1111121 22346799999865443

>PRK09270 nucleoside triphosphate hydrolase domain-containing protein; Reviewed

Probab=94.48  E-value=0.18  Score=52.93  Aligned_cols=26  Identities=31%  Similarity=0.454  Sum_probs=23.7

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       181 ~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ....+|+|.|.+|+|||||++.+...
T Consensus        31 ~~~~iigi~G~~GsGKTTl~~~L~~~   56 (229)
T PRK09270         31 QRRTIVGIAGPPGAGKSTLAEFLEAL   56 (229)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34789999999999999999999987

>PRK08699 DNA polymerase III subunit delta'; Validated

Probab=94.46  E-value=0.32  Score=53.59  Aligned_cols=24  Identities=29%  Similarity=0.325  Sum_probs=21.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ...+.++|+.|+||||+|+.+...
T Consensus        21 ~hA~Lf~G~~G~GK~~la~~~a~~   44 (325)
T PRK08699         21 PNAWLFAGKKGIGKTAFARFAAQA   44 (325)
T ss_pred             ceEEEeECCCCCCHHHHHHHHHHH
Confidence            457889999999999999998876

>TIGR03878 thermo_KaiC_2 KaiC domain protein, AF_0795 family

Probab=94.44  E-value=0.18  Score=53.78  Aligned_cols=38  Identities=24%  Similarity=0.387  Sum_probs=30.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ  220 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~  220 (1074)
                      -.++.|.|.+|+||||+|.++... ...=..++|++...
T Consensus        36 gs~~lI~G~pGtGKT~l~~qf~~~~a~~Ge~vlyis~Ee   74 (259)
T TIGR03878        36 YSVINITGVSDTGKSLMVEQFAVTQASRGNPVLFVTVES   74 (259)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHHHHhCCCcEEEEEecC
Confidence            569999999999999999997666 33345778888764

This KaiC domain-containing protein family occurs sporadically across a broad taxonomic range (Euryarchaeota, Aquificae, Dictyoglomi, Epsilonproteobacteria, and Firmicutes), but exclusively in thermophiles.

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=94.41  E-value=0.11  Score=52.19  Aligned_cols=23  Identities=30%  Similarity=0.554  Sum_probs=21.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+++|+|..|+|||||++.+...
T Consensus        29 e~~~i~G~nGsGKStLl~~l~G~   51 (178)
T cd03247          29 EKIALLGRSGSGKSTLLQLLTGD   51 (178)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcc
Confidence            48999999999999999999887

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.

>TIGR00554 panK_bact pantothenate kinase, bacterial type

Probab=94.37  E-value=0.16  Score=54.58  Aligned_cols=41  Identities=22%  Similarity=0.132  Sum_probs=28.2

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCC--CeEEEEEecCCc
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPF--DKVIFVRVTQTP  222 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F--~~~~wv~vs~~~  222 (1074)
                      ...+|||.|..|+||||+|+.+..- ....  ..+..++...-.
T Consensus        61 ~p~IIGIaG~~GSGKSTlar~L~~ll~~~~~~g~V~vi~~D~f~  104 (290)
T TIGR00554        61 IPYIISIAGSVAVGKSTTARILQALLSRWPEHRKVELITTDGFL  104 (290)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHhhcCCCCceEEEeccccc
Confidence            3679999999999999999887655 3211  234455544433

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.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.36  E-value=0.14  Score=57.25  Aligned_cols=24  Identities=25%  Similarity=0.385  Sum_probs=21.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..++.++|++|+||||++.++...
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~  246 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAK  246 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999998765

>PRK15455 PrkA family serine protein kinase; Provisional

Probab=94.33  E-value=0.056  Score=62.26  Aligned_cols=45  Identities=18%  Similarity=0.274  Sum_probs=36.9

Q ss_pred             CcchHHHHHHHHHHHh----cCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          162 LKSALEVIKSVMKLLK----DNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~----~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.|.++.++++++.+.    .-+..-+++.++|++|+||||||+.+.+-
T Consensus        78 ~yGlee~ieriv~~l~~Aa~gl~~~~~IL~LvGPpG~GKSsLa~~la~~  126 (644)
T PRK15455         78 FYGMEEAIEQIVSYFRHAAQGLEEKKQILYLLGPVGGGKSSLAERLKSL  126 (644)
T ss_pred             ccCcHHHHHHHHHHHHHHHHhcCCCCceEEEecCCCCCchHHHHHHHHH
Confidence            5677888999888772    22334689999999999999999999988

>PRK03839 putative kinase; Provisional

Probab=94.32  E-value=0.034  Score=55.86  Aligned_cols=22  Identities=41%  Similarity=0.705  Sum_probs=20.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|.|.|++|+||||+|+.+++.
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5889999999999999999987

>COG1428 Deoxynucleoside kinases [Nucleotide transport and metabolism]

Probab=94.32  E-value=0.075  Score=52.77  Aligned_cols=47  Identities=23%  Similarity=0.362  Sum_probs=32.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      ..+|+|-||-|+||||||+.+.++ +  |. .++-.+.+++=......++-
T Consensus         4 ~~~IvI~G~IG~GKSTLa~~La~~l~--~~-~~~E~vednp~L~~FY~d~~   51 (216)
T COG1428           4 AMVIVIEGMIGAGKSTLAQALAEHLG--FK-VFYELVEDNPFLDLFYEDPE   51 (216)
T ss_pred             ccEEEEecccccCHHHHHHHHHHHhC--Cc-eeeecccCChHHHHHHHhHH
Confidence            468999999999999999999988 3  22 33344555544444444443

>PF00006 ATP-synt_ab: ATP synthase alpha/beta family, nucleotide-binding domain This Pfam entry corresponds to chains a,b,c,d,e and f; InterPro: IPR000194 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane

Probab=94.30  E-value=0.2  Score=51.32  Aligned_cols=86  Identities=24%  Similarity=0.433  Sum_probs=52.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCC-cCHHHHHHHHHHHhcc-------CCCcchHHHH------HH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQT-PDVKRVQDEIARFLNT-------ELEGDVEVLR------AA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~~-------~~~~~~~~~~------~~  249 (1074)
                      .-++|.|.+|+|||+|+..+.+... -+.++++-+.+. ..+.++.+++...-..       ....++...+      .-
T Consensus        16 qr~~I~g~~g~GKt~Ll~~i~~~~~-~d~~V~~~iGer~~Ev~~~~~~~~~~~~~~~t~vv~~t~~~~~~~r~~~~~~a~   94 (215)
T PF00006_consen   16 QRIGIFGGAGVGKTVLLQEIANNQD-ADVVVYALIGERGREVTEFIEELKGEGALERTVVVAATSDEPPAARYRAPYTAL   94 (215)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHHCT-TTEEEEEEESECHHHHHHHHHHHHHTTGGGGEEEEEEETTS-HHHHHHHHHHHH
T ss_pred             CEEEEEcCcccccchhhHHHHhccc-ccceeeeeccccchhHHHHHHHHhhcccccccccccccchhhHHHHhhhhccch
Confidence            4688999999999999999998832 344588888765 3455666555432110       1111111111      11


Q ss_pred             HHHHHHH-ccCeEEEEEcCccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWG  270 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~  270 (1074)
                      .+-+++. +++..|+++||+..
T Consensus        95 t~AEyfrd~G~dVlli~Dsltr  116 (215)
T PF00006_consen   95 TIAEYFRDQGKDVLLIIDSLTR  116 (215)
T ss_dssp             HHHHHHHHTTSEEEEEEETHHH
T ss_pred             hhhHHHhhcCCceeehhhhhHH
Confidence            2233332 58999999999853

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 ....

>cd00561 CobA_CobO_BtuR ATP:corrinoid adenosyltransferase BtuR/CobO/CobP

Probab=94.29  E-value=0.18  Score=48.68  Aligned_cols=115  Identities=20%  Similarity=0.216  Sum_probs=59.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEE--EEEecCCcCHHHHHHHHH----HHhccCC--C-cchH------HH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVI--FVRVTQTPDVKRVQDEIA----RFLNTEL--E-GDVE------VL  246 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~--wv~vs~~~~~~~~~~~i~----~~l~~~~--~-~~~~------~~  246 (1074)
                      ..|-|++..|.||||+|-...-+  ...+...+  |+.-.....-..++..+-    .+.+...  . ....      ..
T Consensus         3 G~i~vy~g~G~Gkt~~a~g~~~ra~~~g~~v~~vQFlKg~~~~gE~~~l~~l~~v~~~~~g~~~~~~~~~~~~~~~~a~~   82 (159)
T cd00561           3 GLIQVYTGNGKGKTTAALGLALRALGHGYRVGVVQFLKGGWKYGELKALERLPNIEIHRMGRGFFWTTENDEEDIAAAAE   82 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEEeCCCCccCHHHHHHhCCCcEEEECCCCCccCCCChHHHHHHHHH
Confidence            47888999999999999887777  33333322  232221223333333320    0001100  0 1111      11


Q ss_pred             HHHHHHHHHHccCeEEEEEcCcccc-----ccccccccCCCCCCCCeEEEEecCChh
Q 001457          247 RAAFLSERLKRQKRVLIILDDLWGK-----LDLAVVGIPYGEEHKGCKIILTSRFKE  298 (1074)
Q Consensus       247 ~~~~l~~~l~~~k~~LlVlDdv~~~-----~~~~~~~~~~~~~~~gs~iivTTR~~~  298 (1074)
                      .....++.+..+.-=|+|||++-..     .+.+++...+.....+.-||+|.|+..
T Consensus        83 ~~~~a~~~~~~~~~dLlVLDEi~~a~~~gli~~~~v~~ll~~rp~~~evIlTGr~~p  139 (159)
T cd00561          83 GWAFAKEAIASGEYDLVILDEINYALGYGLLDVEEVVDLLKAKPEDLELVLTGRNAP  139 (159)
T ss_pred             HHHHHHHHHhcCCCCEEEEechHhHhhCCCCCHHHHHHHHHcCCCCCEEEEECCCCC
Confidence            2233344444566779999997543     222333333333445778999999754

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.

>PRK09519 recA DNA recombination protein RecA; Reviewed

Probab=94.29  E-value=0.14  Score=62.10  Aligned_cols=82  Identities=16%  Similarity=0.246  Sum_probs=56.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC------cchHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE------GDVEVLRAAFLSERL  255 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~------~~~~~~~~~~l~~~l  255 (1074)
                      -+++-|+|.+|+||||||.++... ...-..++|++..+.++.     ..+++++.+.+      ....+.....+.+.+
T Consensus        60 GsiteI~G~~GsGKTtLal~~~~~a~~~G~~v~yId~E~t~~~-----~~A~~lGvDl~~llv~~~~~~E~~l~~i~~lv  134 (790)
T PRK09519         60 GRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDP-----DYAKKLGVDTDSLLVSQPDTGEQALEIADMLI  134 (790)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCcEEEECCccchhH-----HHHHHcCCChhHeEEecCCCHHHHHHHHHHHh
Confidence            579999999999999999886665 333366899998887774     36666765432      122233444455555


Q ss_pred             HccCeEEEEEcCcc
Q 001457          256 KRQKRVLIILDDLW  269 (1074)
Q Consensus       256 ~~~k~~LlVlDdv~  269 (1074)
                      +.++--|||+|.+.
T Consensus       135 ~~~~~~LVVIDSI~  148 (790)
T PRK09519        135 RSGALDIVVIDSVA  148 (790)
T ss_pred             hcCCCeEEEEcchh
Confidence            55677789999875

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=94.28  E-value=0.12  Score=51.25  Aligned_cols=33  Identities=27%  Similarity=0.506  Sum_probs=25.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      .+++|+|..|.|||||.+.+..-.....+.+++
T Consensus        29 ~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~~   61 (171)
T cd03228          29 EKVAIVGPSGSGKSTLLKLLLRLYDPTSGEILI   61 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEE
Confidence            599999999999999999998872233444443

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.

>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=94.26  E-value=0.044  Score=58.40  Aligned_cols=23  Identities=35%  Similarity=0.299  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.|.|+|.+|+||||+|+.+...
T Consensus         2 pLiil~G~P~SGKTt~a~~L~~~   24 (270)
T PF08433_consen    2 PLIILCGLPCSGKTTRAKELKKY   24 (270)
T ss_dssp             -EEEEE--TTSSHHHHHHHHHHH
T ss_pred             EEEEEEcCCCCcHHHHHHHHHHH
Confidence            47899999999999999999987

The Elongator complex has histone acetyltransferase activity. ; PDB: 3ADB_B 3ADC_B 3A4M_B 3A4N_B 3AM1_A 3A4L_B 3ADD_A.

>PRK00625 shikimate kinase; Provisional

Probab=94.23  E-value=0.038  Score=54.65  Aligned_cols=22  Identities=32%  Similarity=0.306  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|.++||+|+||||+++.+.+.
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4889999999999999999887

>PRK06002 fliI flagellum-specific ATP synthase; Validated

Probab=94.21  E-value=0.15  Score=57.73  Aligned_cols=87  Identities=21%  Similarity=0.335  Sum_probs=48.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHh-----cc-CCCcchHH------HHHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFL-----NT-ELEGDVEV------LRAAFL  251 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l-----~~-~~~~~~~~------~~~~~l  251 (1074)
                      ..++|+|..|+|||||++.+.........++++.-....++.++........     .. .....+..      ..+-.+
T Consensus       166 qri~I~G~SGsGKTTLL~~Ia~l~~pd~gvv~liGergrev~e~~~~~l~~~r~rtI~vV~qsd~~~~~r~~~~~~a~~i  245 (450)
T PRK06002        166 QRIGIFAGSGVGKSTLLAMLARADAFDTVVIALVGERGREVREFLEDTLADNLKKAVAVVATSDESPMMRRLAPLTATAI  245 (450)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCCCeeeeeecccCCccHHHHhHHHHHHhhCCeEEEEEcCCCCHHHHHHHHHHHHHH
Confidence            4899999999999999998876633333444443223344444444333322     11 01111111      112233


Q ss_pred             HHHHH-ccCeEEEEEcCccc
Q 001457          252 SERLK-RQKRVLIILDDLWG  270 (1074)
Q Consensus       252 ~~~l~-~~k~~LlVlDdv~~  270 (1074)
                      -+++. .++.+|+++||+-.
T Consensus       246 AEyfrd~G~~Vll~~DslTr  265 (450)
T PRK06002        246 AEYFRDRGENVLLIVDSVTR  265 (450)
T ss_pred             HHHHHHcCCCEEEeccchHH
Confidence            34442 58999999999864

>PF14532 Sigma54_activ_2: Sigma-54 interaction domain; PDB: 3CO5_B 3N70_H

Probab=94.19  E-value=0.013  Score=55.91  Aligned_cols=23  Identities=22%  Similarity=0.388  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .-|.|+|..|+||+++|+.++..
T Consensus        22 ~pvli~GE~GtGK~~~A~~lh~~   44 (138)
T PF14532_consen   22 SPVLITGEPGTGKSLLARALHRY   44 (138)
T ss_dssp             S-EEEECCTTSSHHHHHHCCHHT
T ss_pred             CcEEEEcCCCCCHHHHHHHHHhh
Confidence            46789999999999999999888

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=94.18  E-value=0.081  Score=49.28  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=22.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -.+|.+.|.-|+||||+++.+...
T Consensus        22 ~~~i~l~G~lGaGKTtl~~~l~~~   45 (133)
T TIGR00150        22 GTVVLLKGDLGAGKTTLVQGLLQG   45 (133)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            348999999999999999999987

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.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=94.18  E-value=0.039  Score=55.96  Aligned_cols=24  Identities=29%  Similarity=0.466  Sum_probs=22.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .++|.|+|++|+||||+|+.+...
T Consensus         3 ~~ii~i~G~~GsGKsTl~~~l~~~   26 (188)
T TIGR01360         3 CKIIFIVGGPGSGKGTQCEKIVEK   26 (188)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            679999999999999999999865

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.

>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]

Probab=94.14  E-value=0.17  Score=55.26  Aligned_cols=84  Identities=23%  Similarity=0.271  Sum_probs=54.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcc--hHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD--VEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~~k  259 (1074)
                      -.+|.|-|-+|+|||||.-++..+ ...- .+.||+-.+  +..++ +--+++++...+..  ..+-..+.+.+.+.+.+
T Consensus        93 Gs~iLIgGdPGIGKSTLLLQva~~lA~~~-~vLYVsGEE--S~~Qi-klRA~RL~~~~~~l~l~aEt~~e~I~~~l~~~~  168 (456)
T COG1066          93 GSVILIGGDPGIGKSTLLLQVAARLAKRG-KVLYVSGEE--SLQQI-KLRADRLGLPTNNLYLLAETNLEDIIAELEQEK  168 (456)
T ss_pred             ccEEEEccCCCCCHHHHHHHHHHHHHhcC-cEEEEeCCc--CHHHH-HHHHHHhCCCccceEEehhcCHHHHHHHHHhcC
Confidence            359999999999999999999998 3222 677776443  33333 23355665433211  11233445556666678


Q ss_pred             eEEEEEcCccc
Q 001457          260 RVLIILDDLWG  270 (1074)
Q Consensus       260 ~~LlVlDdv~~  270 (1074)
                      .-++|+|-+..
T Consensus       169 p~lvVIDSIQT  179 (456)
T COG1066         169 PDLVVIDSIQT  179 (456)
T ss_pred             CCEEEEeccce
Confidence            99999998854

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.14  E-value=0.2  Score=55.12  Aligned_cols=86  Identities=20%  Similarity=0.125  Sum_probs=48.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCc-CHHHHHHHHHHHhccCCCc-chHHHHHHHHHHHHH-cc
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTELEG-DVEVLRAAFLSERLK-RQ  258 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~l~-~~  258 (1074)
                      .++|.++|+.|+||||++..+... ...-..+.+|+..... ...+-++..++.++..... .........+ +.+. .+
T Consensus       206 ~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al-~~l~~~~  284 (407)
T PRK12726        206 HRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAV-QYMTYVN  284 (407)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHH-HHHHhcC
Confidence            679999999999999999888876 2222346666654321 2244455555555543321 1222332222 2232 12


Q ss_pred             CeEEEEEcCcc
Q 001457          259 KRVLIILDDLW  269 (1074)
Q Consensus       259 k~~LlVlDdv~  269 (1074)
                      ..=+|++|-.-
T Consensus       285 ~~D~VLIDTAG  295 (407)
T PRK12726        285 CVDHILIDTVG  295 (407)
T ss_pred             CCCEEEEECCC
Confidence            44667778654

>PRK04040 adenylate kinase; Provisional

Probab=94.12  E-value=0.042  Score=55.29  Aligned_cols=24  Identities=29%  Similarity=0.677  Sum_probs=22.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|+|+|++|+||||+++.+...
T Consensus         2 ~~~i~v~G~pG~GKtt~~~~l~~~   25 (188)
T PRK04040          2 MKVVVVTGVPGVGKTTVLNKALEK   25 (188)
T ss_pred             CeEEEEEeCCCCCHHHHHHHHHHH
Confidence            368999999999999999999887

>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=94.10  E-value=0.12  Score=50.62  Aligned_cols=111  Identities=20%  Similarity=0.254  Sum_probs=57.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCc--CHHHHHHHHHHHhccCCCc-chHHHHHHHHHHHHHccCe
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTP--DVKRVQDEIARFLNTELEG-DVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~--~~~~~~~~i~~~l~~~~~~-~~~~~~~~~l~~~l~~~k~  260 (1074)
                      .+++|+|..|.|||||++.+...-......+++.-....  .....    ...++....- ..+..+. .+...+. ...
T Consensus        26 ~~~~i~G~nGsGKStll~~l~g~~~~~~G~i~~~~~~~~~~~~~~~----~~~i~~~~qlS~G~~~r~-~l~~~l~-~~~   99 (157)
T cd00267          26 EIVALVGPNGSGKSTLLRAIAGLLKPTSGEILIDGKDIAKLPLEEL----RRRIGYVPQLSGGQRQRV-ALARALL-LNP   99 (157)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCccEEEECCEEcccCCHHHH----HhceEEEeeCCHHHHHHH-HHHHHHh-cCC
Confidence            599999999999999999998873334555555322111  11111    1111111000 1112222 2333343 467


Q ss_pred             EEEEEcCccccc------cccccccCCCCCCCCeEEEEecCChhHHhh
Q 001457          261 VLIILDDLWGKL------DLAVVGIPYGEEHKGCKIILTSRFKEVCDE  302 (1074)
Q Consensus       261 ~LlVlDdv~~~~------~~~~~~~~~~~~~~gs~iivTTR~~~v~~~  302 (1074)
                      -++++|+....-      .+.++...+..  .+..||++|.+.+....
T Consensus       100 ~i~ilDEp~~~lD~~~~~~l~~~l~~~~~--~~~tii~~sh~~~~~~~  145 (157)
T cd00267         100 DLLLLDEPTSGLDPASRERLLELLRELAE--EGRTVIIVTHDPELAEL  145 (157)
T ss_pred             CEEEEeCCCcCCCHHHHHHHHHHHHHHHH--CCCEEEEEeCCHHHHHH
Confidence            889999865431      12121112111  25678888877766543

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.

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=94.09  E-value=0.4  Score=53.85  Aligned_cols=83  Identities=11%  Similarity=0.137  Sum_probs=47.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-c----CCCCeEEEEEecCCcCH--HHHHHHHHHHhccCCCcchH-HHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-E----IPFDKVIFVRVTQTPDV--KRVQDEIARFLNTELEGDVE-VLRAAFLSER  254 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~----~~F~~~~wv~vs~~~~~--~~~~~~i~~~l~~~~~~~~~-~~~~~~l~~~  254 (1074)
                      .++|.++|+.|+||||.+..+... .    .+-..+..+++. .+..  ..-++..++.++.+...... ......+. .
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~D-t~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~-~  251 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITID-NYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEIT-Q  251 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEecc-CccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHH-H
Confidence            579999999999999999888766 2    122344455544 3333  22344555556554322222 22222222 2


Q ss_pred             HHccCeEEEEEcCcc
Q 001457          255 LKRQKRVLIILDDLW  269 (1074)
Q Consensus       255 l~~~k~~LlVlDdv~  269 (1074)
                      +  .+.=+|++|..-
T Consensus       252 ~--~~~DlVLIDTaG  264 (388)
T PRK12723        252 S--KDFDLVLVDTIG  264 (388)
T ss_pred             h--CCCCEEEEcCCC
Confidence            2  345678888764

>PTZ00088 adenylate kinase 1; Provisional

Probab=94.08  E-value=0.049  Score=56.53  Aligned_cols=22  Identities=32%  Similarity=0.579  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -|.|.|++|+||||+|+.+...
T Consensus         8 rIvl~G~PGsGK~T~a~~La~~   29 (229)
T PTZ00088          8 KIVLFGAPGVGKGTFAEILSKK   29 (229)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3889999999999999999876

>COG0542 clpA ATP-binding subunits of Clp protease and DnaK/DnaJ chaperones [Posttranslational modification, protein turnover, chaperones]

Probab=94.05  E-value=0.25  Score=59.51  Aligned_cols=156  Identities=16%  Similarity=0.199  Sum_probs=89.0

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCC-----CeEEEEEecCCcCHHHHHH
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPF-----DKVIFVRVTQTPDVKRVQD  229 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F-----~~~~wv~vs~~~~~~~~~~  229 (1074)
                      ..+.++.||++++..+++.|.....+.+|  ++|.+|+|||++|.-++.+  .+.-     +..++.            -
T Consensus       167 gklDPvIGRd~EI~r~iqIL~RR~KNNPv--LiGEpGVGKTAIvEGLA~rIv~g~VP~~L~~~~i~s------------L  232 (786)
T COG0542         167 GKLDPVIGRDEEIRRTIQILSRRTKNNPV--LVGEPGVGKTAIVEGLAQRIVNGDVPESLKDKRIYS------------L  232 (786)
T ss_pred             CCCCCCcChHHHHHHHHHHHhccCCCCCe--EecCCCCCHHHHHHHHHHHHhcCCCCHHHcCCEEEE------------e
Confidence            44556789999999999999766544444  6899999999988777766  2221     112221            0


Q ss_pred             HHHH-HhccCCCcchHHHHHHHHHHHHHccCeEEEEEcCccccc--------ccc--ccccCCCCCCCCeEEEEecCChh
Q 001457          230 EIAR-FLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL--------DLA--VVGIPYGEEHKGCKIILTSRFKE  298 (1074)
Q Consensus       230 ~i~~-~l~~~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~--------~~~--~~~~~~~~~~~gs~iivTTR~~~  298 (1074)
                      ++.. ..|....+ .-+++...+.+.++..++..+.+|.+....        ..+  .+..|-...+.--.|-.||-++.
T Consensus       233 D~g~LvAGakyRG-eFEeRlk~vl~ev~~~~~vILFIDEiHtiVGAG~~~G~a~DAaNiLKPaLARGeL~~IGATT~~EY  311 (786)
T COG0542         233 DLGSLVAGAKYRG-EFEERLKAVLKEVEKSKNVILFIDEIHTIVGAGATEGGAMDAANLLKPALARGELRCIGATTLDEY  311 (786)
T ss_pred             cHHHHhccccccC-cHHHHHHHHHHHHhcCCCeEEEEechhhhcCCCcccccccchhhhhHHHHhcCCeEEEEeccHHHH
Confidence            1111 11222222 224555666666665569999999876421        122  12222112222224555665443


Q ss_pred             H------HhhccCCCeEeCCCCCHHHHHHHHHHhc
Q 001457          299 V------CDEMESTNYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       299 v------~~~~~~~~~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      -      +.-...-+.+.+..-+.+++..+++...
T Consensus       312 Rk~iEKD~AL~RRFQ~V~V~EPs~e~ti~ILrGlk  346 (786)
T COG0542         312 RKYIEKDAALERRFQKVLVDEPSVEDTIAILRGLK  346 (786)
T ss_pred             HHHhhhchHHHhcCceeeCCCCCHHHHHHHHHHHH
Confidence            2      1111222578889999999998886554

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=94.02  E-value=0.062  Score=54.52  Aligned_cols=32  Identities=22%  Similarity=0.466  Sum_probs=25.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIF  215 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~w  215 (1074)
                      .+++|+|..|+|||||++.+..- +..++.+.|
T Consensus        34 e~lgivGeSGsGKSTL~r~l~Gl~~p~~G~I~~   66 (252)
T COG1124          34 ETLGIVGESGSGKSTLARLLAGLEKPSSGSILL   66 (252)
T ss_pred             CEEEEEcCCCCCHHHHHHHHhcccCCCCceEEE
Confidence            48999999999999999999887 444444444

>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=93.96  E-value=0.1  Score=55.88  Aligned_cols=85  Identities=22%  Similarity=0.367  Sum_probs=48.9

Q ss_pred             HHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHH
Q 001457          169 IKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVL  246 (1074)
Q Consensus       169 ~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~  246 (1074)
                      ...+++.+....   +-|.++|+.|+|||++++.....  ...| ...-++.+...+...+++.+-..+.... +.    
T Consensus        22 ~~~ll~~l~~~~---~pvLl~G~~GtGKT~li~~~l~~l~~~~~-~~~~~~~s~~Tts~~~q~~ie~~l~k~~-~~----   92 (272)
T PF12775_consen   22 YSYLLDLLLSNG---RPVLLVGPSGTGKTSLIQNFLSSLDSDKY-LVITINFSAQTTSNQLQKIIESKLEKRR-GR----   92 (272)
T ss_dssp             HHHHHHHHHHCT---EEEEEESSTTSSHHHHHHHHHHCSTTCCE-EEEEEES-TTHHHHHHHHCCCTTECECT-TE----
T ss_pred             HHHHHHHHHHcC---CcEEEECCCCCchhHHHHhhhccCCcccc-ceeEeeccCCCCHHHHHHHHhhcEEcCC-CC----
Confidence            345666666554   45689999999999999998876  2222 2344566655444444332211111100 00    


Q ss_pred             HHHHHHHHH--HccCeEEEEEcCcc
Q 001457          247 RAAFLSERL--KRQKRVLIILDDLW  269 (1074)
Q Consensus       247 ~~~~l~~~l--~~~k~~LlVlDdv~  269 (1074)
                             .+  ..+|+.++.+||+.
T Consensus        93 -------~~gP~~~k~lv~fiDDlN  110 (272)
T PF12775_consen   93 -------VYGPPGGKKLVLFIDDLN  110 (272)
T ss_dssp             -------EEEEESSSEEEEEEETTT
T ss_pred             -------CCCCCCCcEEEEEecccC
Confidence                   00  13788899999985

>PRK05439 pantothenate kinase; Provisional

Probab=93.96  E-value=0.35  Score=52.39  Aligned_cols=26  Identities=31%  Similarity=0.354  Sum_probs=23.1

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       181 ~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ...-+|+|.|.+|+||||+|+.+...
T Consensus        84 ~~~~iIgIaG~~gsGKSTla~~L~~~  109 (311)
T PRK05439         84 KVPFIIGIAGSVAVGKSTTARLLQAL  109 (311)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34679999999999999999998776

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=93.93  E-value=0.071  Score=52.19  Aligned_cols=23  Identities=39%  Similarity=0.525  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.|.+.|.+|+||||+|+.+...
T Consensus         2 pLiIlTGyPgsGKTtfakeLak~   24 (261)
T COG4088           2 PLIILTGYPGSGKTTFAKELAKE   24 (261)
T ss_pred             ceEEEecCCCCCchHHHHHHHHH
Confidence            46788999999999999998877

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=93.92  E-value=5  Score=44.81  Aligned_cols=55  Identities=20%  Similarity=0.186  Sum_probs=37.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcC--HHHHHHHHHHHhccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPD--VKRVQDEIARFLNTE  238 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~~~  238 (1074)
                      ..||-.+|.-|.||||-|-++.+. ++ ....+-+...+.+.  ..+-++.++.+.+.+
T Consensus       100 P~vImmvGLQGsGKTTt~~KLA~~lkk-~~~kvllVaaD~~RpAA~eQL~~La~q~~v~  157 (451)
T COG0541         100 PTVILMVGLQGSGKTTTAGKLAKYLKK-KGKKVLLVAADTYRPAAIEQLKQLAEQVGVP  157 (451)
T ss_pred             CeEEEEEeccCCChHhHHHHHHHHHHH-cCCceEEEecccCChHHHHHHHHHHHHcCCc
Confidence            679999999999999999888887 44 44444444444443  334455666666543

>cd00544 CobU Adenosylcobinamide kinase / adenosylcobinamide phosphate guanyltransferase (CobU)

Probab=93.92  E-value=0.18  Score=49.62  Aligned_cols=82  Identities=20%  Similarity=0.190  Sum_probs=46.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHcc-CeEEE
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQ-KRVLI  263 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~-k~~Ll  263 (1074)
                      ++.|.|.+|+|||++|.++...  ....++|+.-.+.++. ++...|.+............+....+.+.+... +.-.|
T Consensus         1 ~~li~G~~~sGKS~~a~~~~~~--~~~~~~y~at~~~~d~-em~~rI~~H~~~R~~~w~t~E~~~~l~~~l~~~~~~~~V   77 (169)
T cd00544           1 IILVTGGARSGKSRFAERLAAE--LGGPVTYIATAEAFDD-EMAERIARHRKRRPAHWRTIETPRDLVSALKELDPGDVV   77 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHHHh--cCCCeEEEEccCcCCH-HHHHHHHHHHHhCCCCceEeecHHHHHHHHHhcCCCCEE
Confidence            3679999999999999998765  2246778877776654 344444332211122222222233344444321 33479


Q ss_pred             EEcCcc
Q 001457          264 ILDDLW  269 (1074)
Q Consensus       264 VlDdv~  269 (1074)
                      ++|.+.
T Consensus        78 LIDclt   83 (169)
T cd00544          78 LIDCLT   83 (169)
T ss_pred             EEEcHh
Confidence            999863

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.

>COG4608 AppF ABC-type oligopeptide transport system, ATPase component [Amino acid transport and metabolism]

Probab=93.91  E-value=0.21  Score=51.98  Aligned_cols=120  Identities=18%  Similarity=0.201  Sum_probs=63.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecC-----CcCHHHHHHHHHHHhccCCC------cc-hHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ-----TPDVKRVQDEIARFLNTELE------GD-VEVLRAA  249 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~-----~~~~~~~~~~i~~~l~~~~~------~~-~~~~~~~  249 (1074)
                      -.+++|||-+|+||||+++.+..- +-....+.| .-.+     .....+-..++++..+...+      .. +--++..
T Consensus        39 ge~~glVGESG~GKSTlgr~i~~L~~pt~G~i~f-~g~~i~~~~~~~~~~~v~elL~~Vgl~~~~~~ryPhelSGGQrQR  117 (268)
T COG4608          39 GETLGLVGESGCGKSTLGRLILGLEEPTSGEILF-EGKDITKLSKEERRERVLELLEKVGLPEEFLYRYPHELSGGQRQR  117 (268)
T ss_pred             CCEEEEEecCCCCHHHHHHHHHcCcCCCCceEEE-cCcchhhcchhHHHHHHHHHHHHhCCCHHHhhcCCcccCchhhhh
Confidence            359999999999999999999987 333333333 2111     12233344555665553221      11 1111111


Q ss_pred             -HHHHHHHccCeEEEEEcCcccccc------ccccccCCCCCCCCeEEEEecCChhHHhhccC
Q 001457          250 -FLSERLKRQKRVLIILDDLWGKLD------LAVVGIPYGEEHKGCKIILTSRFKEVCDEMES  305 (1074)
Q Consensus       250 -~l~~~l~~~k~~LlVlDdv~~~~~------~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~~  305 (1074)
                       .+...+. -+.-++|.|.--+.-+      .-.+...+ ....|-..+..|-+-.|+..+..
T Consensus       118 i~IARALa-l~P~liV~DEpvSaLDvSiqaqIlnLL~dl-q~~~~lt~lFIsHDL~vv~~isd  178 (268)
T COG4608         118 IGIARALA-LNPKLIVADEPVSALDVSVQAQILNLLKDL-QEELGLTYLFISHDLSVVRYISD  178 (268)
T ss_pred             HHHHHHHh-hCCcEEEecCchhhcchhHHHHHHHHHHHH-HHHhCCeEEEEEEEHHhhhhhcc
Confidence             2233343 5888999997543211      11111111 11235667788877777665543

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.90  E-value=0.33  Score=58.75  Aligned_cols=83  Identities=17%  Similarity=0.189  Sum_probs=47.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCC-CeEEEEEecCCcC--HHHHHHHHHHHhccCCCcc-hHHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPF-DKVIFVRVTQTPD--VKRVQDEIARFLNTELEGD-VEVLRAAFLSERLK  256 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F-~~~~wv~vs~~~~--~~~~~~~i~~~l~~~~~~~-~~~~~~~~l~~~l~  256 (1074)
                      -+||+++|+.|+||||.+.++...  ..+. ..+..++. +.+.  ..+-++...+.++...... ........+ +.+.
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~-Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al-~~~~  262 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTT-DSFRIGALEQLRIYGRILGVPVHAVKDAADLRFAL-AALG  262 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecC-cccchHHHHHHHHHHHhCCCCccccCCHHHHHHHH-HHhc
Confidence            469999999999999988888766  2222 34455543 3333  3445555566666543321 222332233 3343


Q ss_pred             ccCeEEEEEcCcc
Q 001457          257 RQKRVLIILDDLW  269 (1074)
Q Consensus       257 ~~k~~LlVlDdv~  269 (1074)
                       ++ =+|++|-.-
T Consensus       263 -~~-D~VLIDTAG  273 (767)
T PRK14723        263 -DK-HLVLIDTVG  273 (767)
T ss_pred             -CC-CEEEEeCCC
Confidence             33 477778654

>PRK12597 F0F1 ATP synthase subunit beta; Provisional

Probab=93.88  E-value=0.22  Score=56.95  Aligned_cols=87  Identities=21%  Similarity=0.388  Sum_probs=56.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchH------HHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVE------VLR  247 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~------~~~  247 (1074)
                      .-++|.|.+|+|||||+.++...  +.+-+.++++-+.+.. .+.++..++...-...       ....+.      ...
T Consensus       144 QR~gIfa~~G~GKt~Ll~~~~~~~~~~~~dv~V~~liGER~rEv~ef~~~~~~~~~l~rsvvv~atsd~~~~~R~~a~~~  223 (461)
T PRK12597        144 GKTGLFGGAGVGKTVLMMELIFNISKQHSGSSVFAGVGERSREGHELYHEMKESGVLDKTVMVYGQMNEPPGARMRVVLT  223 (461)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhhCCCEEEEEcCCcchHHHHHHHHHHHhcCCcceeEEEecCCCCCHHHHHHHHHH
Confidence            47899999999999999998887  4566888888776543 3455555554421110       111111      112


Q ss_pred             HHHHHHHHH-c-cCeEEEEEcCccc
Q 001457          248 AAFLSERLK-R-QKRVLIILDDLWG  270 (1074)
Q Consensus       248 ~~~l~~~l~-~-~k~~LlVlDdv~~  270 (1074)
                      +..+-+++. . ++++|+++|++-.
T Consensus       224 a~tiAEyfrd~~G~~VLl~~DslTR  248 (461)
T PRK12597        224 GLTIAEYLRDEEKEDVLLFIDNIFR  248 (461)
T ss_pred             HHHHHHHHHHhcCCceEEEeccchH
Confidence            234455554 3 7999999999854

>cd02024 NRK1 Nicotinamide riboside kinase (NRK) is an enzyme involved in the metabolism of nicotinamide adenine dinucleotide (NAD+)

Probab=93.87  E-value=0.041  Score=54.93  Aligned_cols=22  Identities=41%  Similarity=0.596  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +|+|.|.+|+||||+|+.+...
T Consensus         1 ii~i~G~sgsGKTtla~~l~~~   22 (187)
T cd02024           1 IVGISGVTNSGKTTLAKLLQRI   22 (187)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999886

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.

>PF13481 AAA_25: AAA domain; PDB: 1G8Y_J 1OLO_A 1NLF_C

Probab=93.83  E-value=0.25  Score=50.19  Aligned_cols=38  Identities=29%  Similarity=0.540  Sum_probs=26.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh---cCCC--------CeEEEEEecCC
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ---EIPF--------DKVIFVRVTQT  221 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~---~~~F--------~~~~wv~vs~~  221 (1074)
                      .++.|+|.+|+||||++..+...   ...|        ..+.|++....
T Consensus        33 ~l~~i~g~~g~GKT~~~~~l~~~~~~g~~~~g~~~~~~~~Vl~i~~E~~   81 (193)
T PF13481_consen   33 ELTLIAGPPGSGKTTLALQLAAALATGRPFLGELPPRPGRVLYISLEDS   81 (193)
T ss_dssp             SEEEEEECSTSSHHHHHHHHHHHHHT---TT---------EEEEESSS-
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHhCCccCCcccccCceEEEEeccCC
Confidence            48899999999999999998877   2222        35678776665

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=93.81  E-value=0.042  Score=56.23  Aligned_cols=22  Identities=45%  Similarity=0.848  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +|+|.|.+|+||||+|+.+...
T Consensus         1 iigi~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           1 IIGIAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998775

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.

>PTZ00494 tuzin-like protein; Provisional

Probab=93.80  E-value=3.5  Score=45.92  Aligned_cols=161  Identities=14%  Similarity=0.203  Sum_probs=88.4

Q ss_pred             cccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccC
Q 001457          159 FVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTE  238 (1074)
Q Consensus       159 ~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~  238 (1074)
                      ++..+..+..+.+++..+...  ..+++.+.|.-|.||++|.+......+  -..++|.|..+.|   -++.|.+.++.+
T Consensus       373 ~V~R~~eE~~vRqvL~qld~a--HPRIvV~TG~~GcGKSslcRsAvrkE~--~paV~VDVRg~ED---tLrsVVKALgV~  445 (664)
T PTZ00494        373 EVRREDEEALVRSVLTQMAPS--HPRIVALAGGSGGGRCVPCRRAVRVEG--VALVHVDVGGTED---TLRSVVRALGVS  445 (664)
T ss_pred             ccchhhHHHHHHHHHhhccCC--CCcEEEEecCCCCCchHHHHHHHHHcC--CCeEEEEecCCcc---hHHHHHHHhCCC
Confidence            343333344455555554443  389999999999999999998877622  2467888887654   466788888765


Q ss_pred             CC---cchHHHHHHHHHHHH--HccCeEEEEEcCcccccccccc---ccCCCCCCCCeEEEEecCChhHHhhc---cCCC
Q 001457          239 LE---GDVEVLRAAFLSERL--KRQKRVLIILDDLWGKLDLAVV---GIPYGEEHKGCKIILTSRFKEVCDEM---ESTN  307 (1074)
Q Consensus       239 ~~---~~~~~~~~~~l~~~l--~~~k~~LlVlDdv~~~~~~~~~---~~~~~~~~~gs~iivTTR~~~v~~~~---~~~~  307 (1074)
                      .-   ++.-+-..+.....-  ..++.-+||+-= .+...+..+   ...+.....-|.|++----+.+....   ..-.
T Consensus       446 nve~CGDlLdFI~ea~~~A~~~~~g~~P~lVlkL-REGssL~RVYnE~vaLacDrRlCHvv~EVplESLT~~n~~LPRLD  524 (664)
T PTZ00494        446 NVEVCGDLLGFVEEAMRGATVKASDGVPFLVMRL-REGSDLGRVYGEVVSLVSDCQACHIVLAVPMKALTPLNVSSRRLD  524 (664)
T ss_pred             ChhhhccHHHHHHHHHHHHHHhcCCCCCEEEEEe-ccCCcHHHHHHHHHHHHccchhheeeeechHhhhchhhccCccce
Confidence            32   222111111111111  146667777731 111111100   01222333456666654444332111   1124


Q ss_pred             eEeCCCCCHHHHHHHHHHhc
Q 001457          308 YVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       308 ~~~l~~L~~~~~~~lf~~~a  327 (1074)
                      .|.++.++..+|.+.-....
T Consensus       525 Fy~VPnFSr~QAf~YtqH~l  544 (664)
T PTZ00494        525 FYCIPPFSRRQAFAYAEHTL  544 (664)
T ss_pred             eEecCCcCHHHHHHHHhccc
Confidence            78899999999988765544

>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=93.79  E-value=0.058  Score=53.97  Aligned_cols=22  Identities=41%  Similarity=0.767  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +|+|.|.+|+||||+|+.+...
T Consensus         1 ii~i~G~sgsGKttla~~l~~~   22 (179)
T cd02028           1 VVGIAGPSGSGKTTFAKKLSNQ   22 (179)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999887

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK).

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=93.75  E-value=0.12  Score=52.17  Aligned_cols=39  Identities=28%  Similarity=0.584  Sum_probs=27.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh--cCC-CCeEEEEEecCCcCH
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ--EIP-FDKVIFVRVTQTPDV  224 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~--~~~-F~~~~wv~vs~~~~~  224 (1074)
                      .|+|+|-||+||||+|......  .++ |+ +.=|+...+++.
T Consensus         2 kIaI~GKGG~GKTtiaalll~~l~~~~~~~-VLvVDaDpd~nL   43 (255)
T COG3640           2 KIAITGKGGVGKTTIAALLLKRLLSKGGYN-VLVVDADPDSNL   43 (255)
T ss_pred             eEEEecCCCccHHHHHHHHHHHHHhcCCce-EEEEeCCCCCCh
Confidence            6899999999999999986665  333 43 334555555543

>PF07726 AAA_3: ATPase family associated with various cellular activities (AAA); InterPro: IPR011703 This entry includes some of the AAA proteins not detected by the IPR003959 from INTERPRO model

Probab=93.71  E-value=0.037  Score=50.50  Aligned_cols=26  Identities=35%  Similarity=0.597  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh-cCCCC
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ-EIPFD  211 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~-~~~F~  211 (1074)
                      |-|+|.+|+||||+|+.+... ...|.
T Consensus         2 vLleg~PG~GKT~la~~lA~~~~~~f~   28 (131)
T PF07726_consen    2 VLLEGVPGVGKTTLAKALARSLGLSFK   28 (131)
T ss_dssp             EEEES---HHHHHHHHHHHHHTT--EE
T ss_pred             EeeECCCccHHHHHHHHHHHHcCCcee
Confidence            679999999999999999998 76664

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.

>PRK06851 hypothetical protein; Provisional

Probab=93.70  E-value=1.1  Score=49.65  Aligned_cols=39  Identities=28%  Similarity=0.348  Sum_probs=32.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQT  221 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~  221 (1074)
                      -+++.|.|.+|+||||++++++..  .+.++..++-|-+.+
T Consensus       214 ~~~~~i~G~pG~GKstl~~~i~~~a~~~G~~v~~~hC~~dP  254 (367)
T PRK06851        214 KNRYFLKGRPGTGKSTMLKKIAKAAEERGFDVEVYHCGFDP  254 (367)
T ss_pred             ceEEEEeCCCCCcHHHHHHHHHHHHHhCCCeEEEEeCCCCC
Confidence            578999999999999999999998  667777776665444

>PF00625 Guanylate_kin: Guanylate kinase; InterPro: IPR008144 Guanylate kinase (2

Probab=93.68  E-value=0.078  Score=53.40  Aligned_cols=37  Identities=27%  Similarity=0.401  Sum_probs=30.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEec
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVT  219 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs  219 (1074)
                      .++|.|+|+.|+|||||++.+... ...|...++.+-.
T Consensus         2 ~r~ivl~Gpsg~GK~~l~~~L~~~~~~~~~~~v~~TTR   39 (183)
T PF00625_consen    2 RRPIVLVGPSGSGKSTLAKRLIQEFPDKFGRVVSHTTR   39 (183)
T ss_dssp             SSEEEEESSTTSSHHHHHHHHHHHSTTTEEEEEEEESS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhcccccccceeeccc
Confidence            478999999999999999999998 7788666665543

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 ....

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.66  E-value=0.22  Score=57.10  Aligned_cols=37  Identities=22%  Similarity=0.415  Sum_probs=27.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-c--CCCCeEEEEEec
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-E--IPFDKVIFVRVT  219 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~--~~F~~~~wv~vs  219 (1074)
                      -+++.++|++|+||||++..+... .  ..-..+..|+..
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D  260 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLD  260 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECC
Confidence            359999999999999988887665 3  233456667653

>PF06745 KaiC: KaiC; InterPro: IPR014774 This entry represents a domain within bacterial and archaeal proteins, most of which are hypothetical

Probab=93.66  E-value=0.12  Score=54.23  Aligned_cols=84  Identities=20%  Similarity=0.241  Sum_probs=49.0

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC--------------C------
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL--------------E------  240 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~--------------~------  240 (1074)
                      -.++.|.|.+|+|||++|.++...  ++.=..++||+...+.  .++.+.+. .++-+.              .      
T Consensus        19 gs~~li~G~~GsGKT~l~~q~l~~~~~~~ge~vlyvs~ee~~--~~l~~~~~-s~g~d~~~~~~~g~l~~~d~~~~~~~~   95 (226)
T PF06745_consen   19 GSVVLISGPPGSGKTTLALQFLYNGLKNFGEKVLYVSFEEPP--EELIENMK-SFGWDLEEYEDSGKLKIIDAFPERIGW   95 (226)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHHT--EEEEESSS-H--HHHHHHHH-TTTS-HHHHHHTTSEEEEESSGGGST-
T ss_pred             CcEEEEEeCCCCCcHHHHHHHHHHhhhhcCCcEEEEEecCCH--HHHHHHHH-HcCCcHHHHhhcCCEEEEecccccccc
Confidence            469999999999999999986655  3313567888876543  44444432 222110              0      


Q ss_pred             -cchHHHHHHHHHHHHHccCeEEEEEcCcc
Q 001457          241 -GDVEVLRAAFLSERLKRQKRVLIILDDLW  269 (1074)
Q Consensus       241 -~~~~~~~~~~l~~~l~~~k~~LlVlDdv~  269 (1074)
                       ..........+.+.++..+...+|+|.+.
T Consensus        96 ~~~~~~~l~~~i~~~i~~~~~~~vVIDsls  125 (226)
T PF06745_consen   96 SPNDLEELLSKIREAIEELKPDRVVIDSLS  125 (226)
T ss_dssp             TSCCHHHHHHHHHHHHHHHTSSEEEEETHH
T ss_pred             cccCHHHHHHHHHHHHHhcCCCEEEEECHH
Confidence             11223444555555554455788888764

More than one copy is sometimes found in each protein in this entry. These include KaiC, which is one of the Kai proteins among which direct protein-protein association may be a critical process in the generation of circadian rhythms in cyanobacteria []. The circadian clock protein KaiC, is encoded in the kaiABC operon that controls circadian rhythms and may be universal in Cyanobacteria. Each member contains two copies of this domain, which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor. RadA/Sms is a highly conserved eubacterial protein that shares sequence similarity with both RecA strand transferase and lon protease. The RadA/Sms family are probable ATP-dependent proteases involved in both DNA repair and degradation of proteins, peptides, glycopeptides. They are classified in as non-peptidase homologues and unassigned peptidases in MEROPS peptidase family S16 (lon protease family, clan SJ). RadA/Sms is involved in recombination and recombinational repair, most likely involving the stabilisation or processing of branched DNA molecules or blocked replication forks because of its genetic redundancy with RecG and RuvABC [].; PDB: 2W0M_A 2ZTS_C 4DUG_B 3K0E_B 3K09_B 3S1A_E 3JZM_E 2GBL_B 3DVL_A 1TF7_C ....

>PRK06217 hypothetical protein; Validated

Probab=93.64  E-value=0.057  Score=54.41  Aligned_cols=22  Identities=32%  Similarity=0.451  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|.|.|.+|+||||+|+++...
T Consensus         3 ~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          3 RIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999988

>PRK05022 anaerobic nitric oxide reductase transcription regulator; Provisional

Probab=93.62  E-value=0.66  Score=55.04  Aligned_cols=60  Identities=10%  Similarity=0.166  Sum_probs=38.3

Q ss_pred             CcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCC
Q 001457          162 LKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQT  221 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~  221 (1074)
                      +.|....+.++.+.+..-...-.-|.|+|..|+|||++|+.++.. ...-...+.|+++.-
T Consensus       189 iig~s~~~~~~~~~i~~~a~~~~pVlI~Ge~GtGK~~~A~~ih~~s~r~~~p~v~v~c~~~  249 (509)
T PRK05022        189 MIGQSPAMQQLKKEIEVVAASDLNVLILGETGVGKELVARAIHAASPRADKPLVYLNCAAL  249 (509)
T ss_pred             eeecCHHHHHHHHHHHHHhCCCCcEEEECCCCccHHHHHHHHHHhCCcCCCCeEEEEcccC
Confidence            344555555555555432222457889999999999999999988 322234455665543

>cd01135 V_A-ATPase_B V/A-type ATP synthase (non-catalytic) subunit B

Probab=93.55  E-value=0.46  Score=50.16  Aligned_cols=88  Identities=25%  Similarity=0.293  Sum_probs=56.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-c----CCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchHH-----
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-E----IPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVEV-----  245 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~----~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~-----  245 (1074)
                      .-++|.|-.|+|||+|+.++.++ .    .+-+.++++-+.+.. .+.++..++...-..+       ...++..     
T Consensus        70 QR~gIfgg~GvGKt~L~~~i~~~~~~~~~~~~~v~V~~~IGeR~rev~e~~~~~~~~~~l~~tv~v~~t~~~~~~~r~~a  149 (276)
T cd01135          70 QKIPIFSGSGLPHNELAAQIARQAGVVGEEENFAVVFAAMGITMEDARFFKDDFEETGALERVVLFLNLANDPTIERIIT  149 (276)
T ss_pred             CEEEeecCCCCChhHHHHHHHHhhhccccCCCCEEEEEEeccccHHHHHHHHHhhhcCCcceEEEEEecCCCCHHHHHHH
Confidence            36799999999999999998877 2    235788999888764 4556665554431110       0111111     


Q ss_pred             -HHHHHHHHHHH-c-cCeEEEEEcCcccc
Q 001457          246 -LRAAFLSERLK-R-QKRVLIILDDLWGK  271 (1074)
Q Consensus       246 -~~~~~l~~~l~-~-~k~~LlVlDdv~~~  271 (1074)
                       ...-.+-+++. + ++++|+++||+-..
T Consensus       150 ~~~a~aiAEyfrd~~g~~VLl~~D~ltr~  178 (276)
T cd01135         150 PRMALTTAEYLAYEKGKHVLVILTDMTNY  178 (276)
T ss_pred             HHHHHHHHHHHHhccCCeEEEEEcChhHH
Confidence             11233455554 2 79999999998654

These ATPases couple ATP hydrolysis to the build up of a H+ gradient, but V-type ATPases do not catalyze the reverse reaction. The Vacuolar (V-type) ATPase is found in the membranes of vacuoles, the golgi apparatus and in other coated vesicles in eukaryotes. Archaea have a protein which is similar in sequence to V-ATPases, but functions like an F-ATPase (called A-ATPase). A similar protein is also found in a few bacteria. This subfamily consists of the non-catalytic beta subunit.

>PF00910 RNA_helicase: RNA helicase; InterPro: IPR000605 Helicases have been classified in 5 superfamilies (SF1-SF5)

Probab=93.55  E-value=0.051  Score=49.06  Aligned_cols=21  Identities=52%  Similarity=0.858  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |-|+|.+|+|||++|+.+..+
T Consensus         1 I~i~G~~G~GKS~l~~~l~~~   21 (107)
T PF00910_consen    1 IWIYGPPGIGKSTLAKELAKD   21 (107)
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999998877

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

>PF00560 LRR_1: Leucine Rich Repeat; InterPro: IPR001611 Leucine-rich repeats (LRR) consist of 2-45 motifs of 20-30 amino acids in length that generally folds into an arc or horseshoe shape []

Probab=93.55  E-value=0.038  Score=33.43  Aligned_cols=21  Identities=33%  Similarity=0.570  Sum_probs=14.1

Q ss_pred             CccEEEecCCccCCCCCCccC
Q 001457          556 EIKNLDLSSTNISSLAPSLPC  576 (1074)
Q Consensus       556 ~L~~L~l~~~~~~~lp~~i~~  576 (1074)
                      +|++||+++|.++.+|+++++
T Consensus         1 ~L~~Ldls~n~l~~ip~~~~~   21 (22)
T PF00560_consen    1 NLEYLDLSGNNLTSIPSSFSN   21 (22)
T ss_dssp             TESEEEETSSEESEEGTTTTT
T ss_pred             CccEEECCCCcCEeCChhhcC
Confidence            367777777777777766544

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 ....

>TIGR02655 circ_KaiC circadian clock protein KaiC

Probab=93.51  E-value=0.39  Score=56.48  Aligned_cols=84  Identities=17%  Similarity=0.175  Sum_probs=51.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCc----------------chHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEG----------------DVEV  245 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~----------------~~~~  245 (1074)
                      -.++.|.|.+|+|||||+.++... .++-..++|++..++  ..++.+.+ +.++.+...                ....
T Consensus       263 gs~~li~G~~G~GKt~l~~~f~~~~~~~ge~~~y~s~eEs--~~~i~~~~-~~lg~~~~~~~~~g~l~~~~~~p~~~~~~  339 (484)
T TIGR02655       263 DSIILATGATGTGKTLLVSKFLENACANKERAILFAYEES--RAQLLRNA-YSWGIDFEEMEQQGLLKIICAYPESAGLE  339 (484)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEEeeCC--HHHHHHHH-HHcCCChHHHhhCCcEEEEEcccccCChH
Confidence            569999999999999999998887 333456777765554  45555553 444432110                1113


Q ss_pred             HHHHHHHHHHHccCeEEEEEcCcc
Q 001457          246 LRAAFLSERLKRQKRVLIILDDLW  269 (1074)
Q Consensus       246 ~~~~~l~~~l~~~k~~LlVlDdv~  269 (1074)
                      ..+..+.+.+...+.-.+|+|.+.
T Consensus       340 ~~~~~i~~~i~~~~~~~vvIDsi~  363 (484)
T TIGR02655       340 DHLQIIKSEIADFKPARIAIDSLS  363 (484)
T ss_pred             HHHHHHHHHHHHcCCCEEEEcCHH
Confidence            344555555544455566777663

Members of this family are the circadian clock protein KaiC, part of the kaiABC operon that controls circadian rhythm. It may be universal in Cyanobacteria. Each member has two copies of the KaiC domain (Pfam model pfam06745), which is also found in other proteins. KaiC performs autophosphorylation and acts as its own transcriptional repressor.

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=93.51  E-value=0.06  Score=54.03  Aligned_cols=23  Identities=35%  Similarity=0.523  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+++|+|++|+||||+++.+...
T Consensus         2 ~~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         2 RLIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            47899999999999999999876

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.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=93.50  E-value=0.43  Score=54.95  Aligned_cols=55  Identities=16%  Similarity=0.234  Sum_probs=33.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCC--CCeEEEEEecCCcC--HHHHHHHHHHHhccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIP--FDKVIFVRVTQTPD--VKRVQDEIARFLNTE  238 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~--F~~~~wv~vs~~~~--~~~~~~~i~~~l~~~  238 (1074)
                      -+|++++|+.|+||||.+.++... ...  -..+..|+.. .+.  ..+-++..++..+..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~D-t~RigA~EQLr~~AeilGVp  315 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTD-SYRIGGHEQLRIYGKILGVP  315 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCC-ccchhHHHHHHHHHHHhCCC
Confidence            369999999999999999998876 222  2234555433 332  233344445555443

>PRK11823 DNA repair protein RadA; Provisional

Probab=93.48  E-value=0.19  Score=58.10  Aligned_cols=84  Identities=20%  Similarity=0.276  Sum_probs=48.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcc--hHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD--VEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~~k  259 (1074)
                      -.++.|.|.+|+|||||+.++... ...-..++|++..+.  ...+.. -++.++.+.+..  ........+.+.++..+
T Consensus        80 Gs~~lI~G~pG~GKTtL~lq~a~~~a~~g~~vlYvs~Ees--~~qi~~-ra~rlg~~~~~l~~~~e~~l~~i~~~i~~~~  156 (446)
T PRK11823         80 GSVVLIGGDPGIGKSTLLLQVAARLAAAGGKVLYVSGEES--ASQIKL-RAERLGLPSDNLYLLAETNLEAILATIEEEK  156 (446)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEEEcccc--HHHHHH-HHHHcCCChhcEEEeCCCCHHHHHHHHHhhC
Confidence            469999999999999999999887 322346788876543  333322 244454321110  00011223333443345


Q ss_pred             eEEEEEcCcc
Q 001457          260 RVLIILDDLW  269 (1074)
Q Consensus       260 ~~LlVlDdv~  269 (1074)
                      .-+||+|.+.
T Consensus       157 ~~lVVIDSIq  166 (446)
T PRK11823        157 PDLVVIDSIQ  166 (446)
T ss_pred             CCEEEEechh
Confidence            5678888764

>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=93.45  E-value=0.04  Score=56.50  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~  205 (1074)
                      .+++|+|..|.||||+.+.+..
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~   51 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGL   51 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHH
Confidence            6999999999999999999984

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

>TIGR01069 mutS2 MutS2 family protein

Probab=93.44  E-value=0.066  Score=65.97  Aligned_cols=186  Identities=17%  Similarity=0.135  Sum_probs=86.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCcCHHHHHHHHHHHhccCC----CcchHHHHHHHHHHHHH-c
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFLNTEL----EGDVEVLRAAFLSERLK-R  257 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~----~~~~~~~~~~~l~~~l~-~  257 (1074)
                      .++++|+|+.|.||||+.+.+....-....-.+|.+..... ..++.++...++...    ...+-......+...+. .
T Consensus       322 ~~~liItGpNg~GKSTlLK~i~~~~l~aq~G~~Vpa~~~~~-~~~~d~i~~~i~~~~si~~~LStfS~~m~~~~~il~~~  400 (771)
T TIGR01069       322 KRVLAITGPNTGGKTVTLKTLGLLALMFQSGIPIPANEHSE-IPYFEEIFADIGDEQSIEQNLSTFSGHMKNISAILSKT  400 (771)
T ss_pred             ceEEEEECCCCCCchHHHHHHHHHHHHHHhCCCccCCcccc-ccchhheeeecChHhHHhhhhhHHHHHHHHHHHHHHhc
Confidence            47999999999999999999865500000000111111000 000111111111000    00000111112222221 1


Q ss_pred             cCeEEEEEcCcccccc---cccc----ccCCCCCCCCeEEEEecCChhHHhhccCC-Ce--EeCCCCCHHHHHHHHHHhc
Q 001457          258 QKRVLIILDDLWGKLD---LAVV----GIPYGEEHKGCKIILTSRFKEVCDEMEST-NY--VQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       258 ~k~~LlVlDdv~~~~~---~~~~----~~~~~~~~~gs~iivTTR~~~v~~~~~~~-~~--~~l~~L~~~~~~~lf~~~a  327 (1074)
                      ..+-|+++|..-...+   -..+    ...+.  ..|+.+|+||...++....... .+  ..+. ++. +... |.-+.
T Consensus       401 ~~~sLvLlDE~g~GtD~~eg~ala~aiLe~l~--~~g~~viitTH~~eL~~~~~~~~~v~~~~~~-~d~-~~l~-p~Ykl  475 (771)
T TIGR01069       401 TENSLVLFDELGAGTDPDEGSALAISILEYLL--KQNAQVLITTHYKELKALMYNNEGVENASVL-FDE-ETLS-PTYKL  475 (771)
T ss_pred             CCCcEEEecCCCCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhcCCCCeEEeEEE-EcC-CCCc-eEEEE
Confidence            4789999999875422   1112    11221  2478999999998874332211 11  1111 111 1000 10011


Q ss_pred             CCCCCCchhHHHHHHHHHHhCCChHHHHHHHHHHcCCChhHHHHHHHHHhh
Q 001457          328 GLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKA  378 (1074)
Q Consensus       328 ~~~~~~~~~~~~~~~i~~~c~glPLai~~~~~~l~~~~~~~w~~~~~~l~~  378 (1074)
                      -...  + -...|-.|++++ |+|-.+.--|..+-.....+.+.++..+..
T Consensus       476 ~~G~--~-g~S~a~~iA~~~-Glp~~ii~~A~~~~~~~~~~~~~li~~L~~  522 (771)
T TIGR01069       476 LKGI--P-GESYAFEIAQRY-GIPHFIIEQAKTFYGEFKEEINVLIEKLSA  522 (771)
T ss_pred             CCCC--C-CCcHHHHHHHHh-CcCHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            0111  1 134578888877 888888888877765545566666666543

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.

>cd00227 CPT Chloramphenicol (Cm) phosphotransferase (CPT)

Probab=93.44  E-value=0.063  Score=53.63  Aligned_cols=23  Identities=22%  Similarity=0.407  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++|.+.|++|+||||+|+.+...
T Consensus         3 ~~i~l~G~~gsGKst~a~~l~~~   25 (175)
T cd00227           3 RIIILNGGSSAGKSSIARALQSV   25 (175)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999877

Cm-inactivating enzyme; modifies the primary (C-3) hydroxyl of the antibiotic. Related structurally to shikimate kinase II.

>PRK13765 ATP-dependent protease Lon; Provisional

Probab=93.42  E-value=0.16  Score=60.81  Aligned_cols=78  Identities=12%  Similarity=0.105  Sum_probs=56.4

Q ss_pred             CCCcccCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       156 ~~~~~~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      +..+..+.|.++.++.+...+...    +.+.++|.+|+||||+|+.+.+.  ..+|+..+|..- ...+...+++.++.
T Consensus        27 ~~~~~~vigq~~a~~~L~~~~~~~----~~~l~~G~~G~GKttla~~l~~~l~~~~~~~~~~~~n-p~~~~~~~~~~v~~  101 (637)
T PRK13765         27 ERLIDQVIGQEHAVEVIKKAAKQR----RHVMMIGSPGTGKSMLAKAMAELLPKEELQDILVYPN-PEDPNNPKIRTVPA  101 (637)
T ss_pred             cccHHHcCChHHHHHHHHHHHHhC----CeEEEECCCCCcHHHHHHHHHHHcChHhHHHheEeeC-CCcchHHHHHHHHH
Confidence            334445667777777766666554    36889999999999999999988  556677888654 44467777778777


Q ss_pred             HhccC
Q 001457          234 FLNTE  238 (1074)
Q Consensus       234 ~l~~~  238 (1074)
                      ++|..
T Consensus       102 ~~G~~  106 (637)
T PRK13765        102 GKGKQ  106 (637)
T ss_pred             hcCHH
Confidence            66643

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=93.40  E-value=0.35  Score=54.77  Aligned_cols=55  Identities=18%  Similarity=0.243  Sum_probs=33.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcC--HHHHHHHHHHHhccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPD--VKRVQDEIARFLNTE  238 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~--~~~~~~~i~~~l~~~  238 (1074)
                      -.+|+++|..|+||||++..+...   ....+.+..+.. +.+.  ..+-+...++.++..
T Consensus       191 g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~-d~~rigalEQL~~~a~ilGvp  250 (420)
T PRK14721        191 GGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTT-DSYRIGGHEQLRIYGKLLGVS  250 (420)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEec-CCcchhHHHHHHHHHHHcCCc
Confidence            469999999999999999887765   222234444443 2232  223344445555544

>cd01125 repA Hexameric Replicative Helicase RepA

Probab=93.39  E-value=0.35  Score=51.12  Aligned_cols=22  Identities=23%  Similarity=0.468  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +..|+|++|+||||||..+.-.
T Consensus         3 ~~ll~g~~G~GKS~lal~la~~   24 (239)
T cd01125           3 VSALVAPGGTGKSSLLLVLALA   24 (239)
T ss_pred             eeEEEcCCCCCHHHHHHHHHHH
Confidence            5678999999999999998765

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.

>TIGR03305 alt_F1F0_F1_bet alternate F1F0 ATPase, F1 subunit beta

Probab=93.35  E-value=0.29  Score=55.55  Aligned_cols=88  Identities=17%  Similarity=0.321  Sum_probs=56.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchH------HHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVE------VLR  247 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~------~~~  247 (1074)
                      .-++|.|.+|+|||+|+.++...  +.+-+.++|+-+.+.. .+.++.+++...-...       ....+.      ...
T Consensus       139 Qr~~Ifg~~G~GKt~l~~~~~~~~~~~~~~v~V~~~iGeR~rEv~e~~~~~~~~~~l~rtvvv~~ts~~~~~~r~~~~~~  218 (449)
T TIGR03305       139 GKAGLFGGAGVGKTVLLTEMIHNMVGQHQGVSIFCGIGERCREGEELYREMKEAGVLDNTVMVFGQMNEPPGARFRVGHT  218 (449)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHhhccccceEEEEEeCCCCCHHHHHHHHHH
Confidence            46899999999999999998776  3445788898887654 3455555554421110       111111      112


Q ss_pred             HHHHHHHHH--ccCeEEEEEcCcccc
Q 001457          248 AAFLSERLK--RQKRVLIILDDLWGK  271 (1074)
Q Consensus       248 ~~~l~~~l~--~~k~~LlVlDdv~~~  271 (1074)
                      +-.+-+++.  .++++|+++||+-..
T Consensus       219 a~tiAEyfrd~~G~~VLl~~DslTR~  244 (449)
T TIGR03305       219 ALTMAEYFRDDEKQDVLLLIDNIFRF  244 (449)
T ss_pred             HHHHHHHHHHhcCCceEEEecChHHH
Confidence            234556664  379999999998653

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.

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=93.35  E-value=0.065  Score=50.88  Aligned_cols=22  Identities=36%  Similarity=0.807  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|+|+|+.|+|||||++.+...
T Consensus         1 ~i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           1 LIVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             CEEEECCCCCCHHHHHHHHHhc
Confidence            3789999999999999999976

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.

>cd01122 GP4d_helicase GP4d_helicase is a homohexameric 5'-3' helicases

Probab=93.35  E-value=0.52  Score=50.95  Aligned_cols=49  Identities=18%  Similarity=0.223  Sum_probs=35.4

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~  234 (1074)
                      .++.|.|.+|+||||++.++...  ..+=..++|++....  ..++...+...
T Consensus        31 ~~~~i~g~~G~GKT~l~~~~~~~~~~~~g~~vl~iS~E~~--~~~~~~r~~~~   81 (271)
T cd01122          31 ELIILTAGTGVGKTTFLREYALDLITQHGVRVGTISLEEP--VVRTARRLLGQ   81 (271)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHHHHhcCceEEEEEcccC--HHHHHHHHHHH
Confidence            48889999999999999998777  332356788877653  45555555443

Helicases couple NTP hydrolysis to the unwinding of nucleic acid duplexes into their component strands.

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=93.34  E-value=0.65  Score=50.96  Aligned_cols=24  Identities=33%  Similarity=0.482  Sum_probs=22.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|+++|++|+||||++..+...
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~  137 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHK  137 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            679999999999999999998887

>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=93.33  E-value=0.12  Score=50.97  Aligned_cols=41  Identities=20%  Similarity=0.222  Sum_probs=32.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-c-CCCCeEEEEEecCCcC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-E-IPFDKVIFVRVTQTPD  223 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~-~~F~~~~wv~vs~~~~  223 (1074)
                      ..++.+.|+.|+|||.+|+.+... . +.....+-++.+.-..
T Consensus         3 ~~~~ll~GpsGvGKT~la~~la~~l~~~~~~~~~~~d~s~~~~   45 (171)
T PF07724_consen    3 KSNFLLAGPSGVGKTELAKALAELLFVGSERPLIRIDMSEYSE   45 (171)
T ss_dssp             SEEEEEESSTTSSHHHHHHHHHHHHT-SSCCEEEEEEGGGHCS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHhccCCccchHHHhhhcccc
Confidence            568899999999999999999988 6 5666777777665433

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 ....

>PRK10867 signal recognition particle protein; Provisional

Probab=93.33  E-value=0.32  Score=55.42  Aligned_cols=24  Identities=33%  Similarity=0.378  Sum_probs=21.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|.++|.+|+||||.|..+...
T Consensus       100 p~vI~~vG~~GsGKTTtaakLA~~  123 (433)
T PRK10867        100 PTVIMMVGLQGAGKTTTAGKLAKY  123 (433)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHH
Confidence            679999999999999988877765

>PLN02318 phosphoribulokinase/uridine kinase

Probab=93.32  E-value=0.13  Score=59.59  Aligned_cols=33  Identities=33%  Similarity=0.578  Sum_probs=26.3

Q ss_pred             HHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          174 KLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       174 ~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.+..+.....+|+|.|.+|+||||||+.+...
T Consensus        56 qlL~~~~~~riIIGIaGpSGSGKTTLAk~Lagl   88 (656)
T PLN02318         56 QLLAQKNDGIILVGVAGPSGAGKTVFTEKVLNF   88 (656)
T ss_pred             HHHHhcCCCeEEEEEECCCCCcHHHHHHHHHhh
Confidence            333334445889999999999999999999865

>PRK00131 aroK shikimate kinase; Reviewed

Probab=93.32  E-value=0.069  Score=53.33  Aligned_cols=24  Identities=29%  Similarity=0.275  Sum_probs=22.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ...|.|+|++|+||||+|+.+...
T Consensus         4 ~~~i~l~G~~GsGKstla~~La~~   27 (175)
T PRK00131          4 GPNIVLIGFMGAGKSTIGRLLAKR   27 (175)
T ss_pred             CCeEEEEcCCCCCHHHHHHHHHHH
Confidence            458999999999999999999987

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=93.31  E-value=0.075  Score=52.10  Aligned_cols=24  Identities=33%  Similarity=0.605  Sum_probs=22.5

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+++|+|..|+|||||++.+...
T Consensus         6 ~~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          6 IPLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             ceEEEEECCCCChHHHHHHHHHHH
Confidence            679999999999999999999977

>PRK08149 ATP synthase SpaL; Validated

Probab=93.30  E-value=0.4  Score=54.26  Aligned_cols=87  Identities=21%  Similarity=0.347  Sum_probs=51.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecC-CcCHHHHHHHHHHHhccC-------CCcchH------HHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTE-------LEGDVE------VLRAA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~-------~~~~~~------~~~~~  249 (1074)
                      ..++|+|..|+|||||++.+.+.... +.++...+.. ..++.++..+........       ....+.      ...+.
T Consensus       152 q~i~I~G~sG~GKTTLl~~i~~~~~~-dv~v~g~Ig~rg~ev~e~~~~~l~~~~~~~~~vV~~~sd~p~~~r~~a~~~a~  230 (428)
T PRK08149        152 QRMGIFASAGCGKTSLMNMLIEHSEA-DVFVIGLIGERGREVTEFVESLRASSRREKCVLVYATSDFSSVDRCNAALVAT  230 (428)
T ss_pred             CEEEEECCCCCChhHHHHHHhcCCCC-CeEEEEEEeeCCccHHHHHHHHhhcccccceEEEEECCCCCHHHHHhHHHHHH
Confidence            48899999999999999999876222 3344444443 334556655555432211       011111      11222


Q ss_pred             HHHHHHH-ccCeEEEEEcCcccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      .+-+++. .+|++|+++||+-..
T Consensus       231 tiAE~fr~~G~~Vll~~DslTr~  253 (428)
T PRK08149        231 TVAEYFRDQGKRVVLFIDSMTRY  253 (428)
T ss_pred             HHHHHHHHcCCCEEEEccchHHH
Confidence            3344442 589999999998653

>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=93.29  E-value=0.17  Score=48.34  Aligned_cols=41  Identities=22%  Similarity=0.302  Sum_probs=30.2

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHH
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQD  229 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~  229 (1074)
                      |.++|.+|+|||+||+.++.. ..   ...-+.++...+..++..
T Consensus         2 vlL~G~~G~GKt~l~~~la~~~~~---~~~~i~~~~~~~~~dl~g   43 (139)
T PF07728_consen    2 VLLVGPPGTGKTTLARELAALLGR---PVIRINCSSDTTEEDLIG   43 (139)
T ss_dssp             EEEEESSSSSHHHHHHHHHHHHTC---EEEEEE-TTTSTHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHHhhc---ceEEEEecccccccccee
Confidence            679999999999999999987 22   233467777777776654

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.

>cd02021 GntK Gluconate kinase (GntK) catalyzes the phosphoryl transfer from ATP to gluconate

Probab=93.26  E-value=0.061  Score=52.19  Aligned_cols=22  Identities=41%  Similarity=0.570  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +|.|+|++|+||||+|+.+...
T Consensus         1 li~l~G~~GsGKST~a~~l~~~   22 (150)
T cd02021           1 IIVVMGVSGSGKSTVGKALAER   22 (150)
T ss_pred             CEEEEcCCCCCHHHHHHHHHhh
Confidence            4789999999999999999876

The resulting product gluconate-6-phoshate is an important precursor of gluconate metabolism. GntK acts as a dimmer composed of two identical subunits.

>PRK14529 adenylate kinase; Provisional

Probab=93.25  E-value=0.27  Score=50.64  Aligned_cols=81  Identities=17%  Similarity=0.150  Sum_probs=44.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh--cCCCCeEEE--EEecCCcCHHHHHHHHHHHhccCCCcchHHHHHHHHHHHHHccCeE
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIF--VRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRV  261 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~--~~~F~~~~w--v~vs~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~  261 (1074)
                      |.|.|++|+||||+|+.+...  -.+.+....  -.+..........++++.+    ....+++.....+.+++......
T Consensus         3 I~l~G~PGsGK~T~a~~La~~~~~~~is~gdllr~~i~~~t~lg~~i~~~i~~----G~lvpdei~~~lv~~~l~~~~~~   78 (223)
T PRK14529          3 ILIFGPNGSGKGTQGALVKKKYDLAHIESGAIFREHIGGGTELGKKAKEYIDR----GDLVPDDITIPMILETLKQDGKN   78 (223)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHCCCCcccchhhhhhccCCChHHHHHHHHHhc----cCcchHHHHHHHHHHHHhccCCC
Confidence            788999999999999999887  223221111  1222222222333333322    22233444555666666532245


Q ss_pred             EEEEcCccc
Q 001457          262 LIILDDLWG  270 (1074)
Q Consensus       262 LlVlDdv~~  270 (1074)
                      -+|||+.-.
T Consensus        79 g~iLDGfPR   87 (223)
T PRK14529         79 GWLLDGFPR   87 (223)
T ss_pred             cEEEeCCCC
Confidence            589998754

>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=93.20  E-value=0.063  Score=51.79  Aligned_cols=22  Identities=41%  Similarity=0.658  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ||.|+|.+|+||||+|+.+...
T Consensus         1 ~I~i~G~~GsGKst~a~~la~~   22 (147)
T cd02020           1 IIAIDGPAGSGKSTVAKLLAKK   22 (147)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999999976

>PRK08927 fliI flagellum-specific ATP synthase; Validated

Probab=93.20  E-value=0.48  Score=53.72  Aligned_cols=88  Identities=14%  Similarity=0.232  Sum_probs=52.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchHH------HHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVEV------LRA  248 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~------~~~  248 (1074)
                      -..++|+|..|+|||||++++.+.... +.++++-+.+.. .+.++..+.+..-+..       ....+..      ..+
T Consensus       158 Gqri~I~G~sG~GKTtLL~~I~~~~~~-d~~v~~~iGER~rEv~ef~~~~l~~~~l~rsvvv~atsd~~~~~r~~a~~~a  236 (442)
T PRK08927        158 GQRMGIFAGSGVGKSVLLSMLARNADA-DVSVIGLIGERGREVQEFLQDDLGPEGLARSVVVVATSDEPALMRRQAAYLT  236 (442)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccCC-CEEEEEEEecCcHHHHHHHHHHhhccCceeEEEEEECCCCCHHHHHHHHHHH
Confidence            358899999999999999999877322 455566666544 3445544444332211       0111111      112


Q ss_pred             HHHHHHHH-ccCeEEEEEcCcccc
Q 001457          249 AFLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       249 ~~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      -.+-+++. .++.+|+++||+-..
T Consensus       237 ~tiAEyfrd~G~~Vll~~DslTr~  260 (442)
T PRK08927        237 LAIAEYFRDQGKDVLCLMDSVTRF  260 (442)
T ss_pred             HHHHHHHHHCCCcEEEEEeCcHHH
Confidence            23444442 589999999998643

>PRK08972 fliI flagellum-specific ATP synthase; Validated

Probab=93.16  E-value=0.32  Score=54.90  Aligned_cols=87  Identities=20%  Similarity=0.339  Sum_probs=52.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchHHH------HHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVEVL------RAA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~~------~~~  249 (1074)
                      ..++|+|..|+|||||++.+.+.... +.++.+-+.+.. .+.++..+++..-+..       ....+...      .+-
T Consensus       163 qrigI~G~sG~GKSTLL~~I~~~~~~-dv~Vi~lIGER~rEv~efi~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~A~  241 (444)
T PRK08972        163 QRMGLFAGSGVGKSVLLGMMTRGTTA-DVIVVGLVGERGREVKEFIEEILGEEGRARSVVVAAPADTSPLMRLKGCETAT  241 (444)
T ss_pred             CEEEEECCCCCChhHHHHHhccCCCC-CEEEEEEEcCChHHHHHHHHHhhccCCcccEEEEEECCCCCHHHHHHHHHHHH
Confidence            57999999999999999999876222 566666666554 3445555544331111       11111111      122


Q ss_pred             HHHHHHH-ccCeEEEEEcCcccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      .+-+++. .++++|+++||+-..
T Consensus       242 tiAEyfrd~G~~VLl~~DslTR~  264 (444)
T PRK08972        242 TIAEYFRDQGLNVLLLMDSLTRY  264 (444)
T ss_pred             HHHHHHHHcCCCEEEEEcChHHH
Confidence            3444442 589999999998643

>TIGR00176 mobB molybdopterin-guanine dinucleotide biosynthesis protein MobB

Probab=93.16  E-value=0.11  Score=50.54  Aligned_cols=31  Identities=23%  Similarity=0.446  Sum_probs=24.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEE
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIF  215 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~w  215 (1074)
                      ||+|+|+.|+||||++..+...  ...+...+.
T Consensus         1 vi~i~G~~gsGKTtl~~~l~~~l~~~G~~V~vi   33 (155)
T TIGR00176         1 VLQIVGPKNSGKTTLIERLVKALKARGYRVATI   33 (155)
T ss_pred             CEEEECCCCCCHHHHHHHHHHHHHhcCCeEEEE
Confidence            5899999999999999999988  334544444

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.

>COG0467 RAD55 RecA-superfamily ATPases implicated in signal transduction [Signal transduction mechanisms]

Probab=93.15  E-value=0.11  Score=55.83  Aligned_cols=49  Identities=16%  Similarity=0.277  Sum_probs=38.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHH
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~  232 (1074)
                      .-+++.|+|.+|+|||++|.++... ......++||+..+.  ...+.+...
T Consensus        22 ~g~~~lI~G~pGsGKT~f~~qfl~~~~~~ge~vlyvs~~e~--~~~l~~~~~   71 (260)
T COG0467          22 RGSVVLITGPPGTGKTIFALQFLYEGAREGEPVLYVSTEES--PEELLENAR   71 (260)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHHHHHHhcCCcEEEEEecCC--HHHHHHHHH
Confidence            4679999999999999999998888 555888999988775  344444333

>cd01136 ATPase_flagellum-secretory_path_III Flagellum-specific ATPase/type III secretory pathway virulence-related protein

Probab=93.15  E-value=0.53  Score=51.43  Aligned_cols=86  Identities=17%  Similarity=0.348  Sum_probs=49.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecC-CcCHHHHHHHHHHHhccC-------CCcchHH------HHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTE-------LEGDVEV------LRAA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~-------~~~~~~~------~~~~  249 (1074)
                      ..++|+|..|+|||||++.+.+.... +..+..-+.. ..++.++.......-+..       ....+..      ..+-
T Consensus        70 qri~I~G~sG~GKTtLl~~Ia~~~~~-~~~vi~~iGer~~ev~~~~~~~~~~~~l~rtvvv~~t~d~~~~~r~~~~~~a~  148 (326)
T cd01136          70 QRLGIFAGSGVGKSTLLGMIARGTTA-DVNVIALIGERGREVREFIEKDLGEEGLKRSVVVVATSDESPLLRVKAAYTAT  148 (326)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCCC-CEEEEEEEecCCccHHHHHHHHHhcCccceEEEEEcCCCCCHHHHHHHHHHHH
Confidence            47899999999999999998877222 3334444443 334555555554432210       1111111      1122


Q ss_pred             HHHHHHH-ccCeEEEEEcCccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWG  270 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~  270 (1074)
                      .+-+++. .+|.+|+++||+-.
T Consensus       149 ~~AEyfr~~g~~Vll~~Dsltr  170 (326)
T cd01136         149 AIAEYFRDQGKDVLLLMDSLTR  170 (326)
T ss_pred             HHHHHHHHcCCCeEEEeccchH
Confidence            2334442 58999999999854

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.

>TIGR00416 sms DNA repair protein RadA

Probab=93.14  E-value=0.28  Score=56.71  Aligned_cols=85  Identities=20%  Similarity=0.204  Sum_probs=46.7

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcc--hHHHHHHHHHHHHHccC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD--VEVLRAAFLSERLKRQK  259 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~--~~~~~~~~l~~~l~~~k  259 (1074)
                      -.++.|.|.+|+|||||+.++... ...-..++|++..+.  ..++.. -++.++...+..  ......+.+.+.+...+
T Consensus        94 GsvilI~G~pGsGKTTL~lq~a~~~a~~g~kvlYvs~EEs--~~qi~~-ra~rlg~~~~~l~~~~e~~~~~I~~~i~~~~  170 (454)
T TIGR00416        94 GSLILIGGDPGIGKSTLLLQVACQLAKNQMKVLYVSGEES--LQQIKM-RAIRLGLPEPNLYVLSETNWEQICANIEEEN  170 (454)
T ss_pred             CeEEEEEcCCCCCHHHHHHHHHHHHHhcCCcEEEEECcCC--HHHHHH-HHHHcCCChHHeEEcCCCCHHHHHHHHHhcC
Confidence            469999999999999999998776 222245778875543  333322 123333221100  00011233334443345


Q ss_pred             eEEEEEcCccc
Q 001457          260 RVLIILDDLWG  270 (1074)
Q Consensus       260 ~~LlVlDdv~~  270 (1074)
                      .-++|+|.+..
T Consensus       171 ~~~vVIDSIq~  181 (454)
T TIGR00416       171 PQACVIDSIQT  181 (454)
T ss_pred             CcEEEEecchh
Confidence            55677777643

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)).

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=93.14  E-value=0.12  Score=51.55  Aligned_cols=34  Identities=29%  Similarity=0.428  Sum_probs=27.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVR  217 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~  217 (1074)
                      .|++|+|++|+|||||.|.+..-...=++.+||.
T Consensus        29 evv~iiGpSGSGKSTlLRclN~LE~~~~G~I~i~   62 (240)
T COG1126          29 EVVVIIGPSGSGKSTLLRCLNGLEEPDSGSITVD   62 (240)
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCcCCCCceEEEC
Confidence            4999999999999999998876644445677774

>TIGR01040 V-ATPase_V1_B V-type (H+)-ATPase V1, B subunit

Probab=93.12  E-value=0.3  Score=55.20  Aligned_cols=87  Identities=22%  Similarity=0.270  Sum_probs=56.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCC-----CC---------eEEEEEecCCcCHHHHHHHHHHHhc-cC-------CCc
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIP-----FD---------KVIFVRVTQTPDVKRVQDEIARFLN-TE-------LEG  241 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~-----F~---------~~~wv~vs~~~~~~~~~~~i~~~l~-~~-------~~~  241 (1074)
                      .-++|.|-+|+|||||+.++.+..+.     .|         .++++-+.+.....+.+.+.+..-+ ..       ...
T Consensus       142 QRigIfagsGvGKs~L~~~i~~~~~~~~~~~aD~~~~~~~~~v~V~a~IGerre~~efi~~~l~~~g~l~rtvvv~atsd  221 (466)
T TIGR01040       142 QKIPIFSAAGLPHNEIAAQICRQAGLVKLPTKDVHDGHEDNFAIVFAAMGVNMETARFFKQDFEENGSMERVCLFLNLAN  221 (466)
T ss_pred             CeeeeecCCCCCHHHHHHHHHHhhccccccccccccccCCceEEEEEEeeeehHHHHHHHHHHHhcCCcceEEEEEECCC
Confidence            46899999999999999998877221     33         6778888887666665655555544 11       011


Q ss_pred             chHH------HHHHHHHHHHH--ccCeEEEEEcCccc
Q 001457          242 DVEV------LRAAFLSERLK--RQKRVLIILDDLWG  270 (1074)
Q Consensus       242 ~~~~------~~~~~l~~~l~--~~k~~LlVlDdv~~  270 (1074)
                      .+..      ..+-.+-+++.  +++++|+++||+-.
T Consensus       222 ~p~~~R~~a~~~a~tiAEyfr~~~G~~VLl~~DslTr  258 (466)
T TIGR01040       222 DPTIERIITPRLALTTAEYLAYQCEKHVLVILTDMSS  258 (466)
T ss_pred             CCHHHHHHHHhhhHHHHHHHHHhcCCcEEEeccChHH
Confidence            1111      11233555665  48999999999854

This models eukaryotic vacuolar (H+)-ATPase that is responsible for acidifying cellular compartments. This enzyme shares extensive sequence similarity with archaeal ATP synthase.

>PRK13947 shikimate kinase; Provisional

Probab=93.12  E-value=0.074  Score=52.93  Aligned_cols=22  Identities=41%  Similarity=0.394  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -|.|+|++|+||||+|+.+.+.
T Consensus         3 ~I~l~G~~GsGKst~a~~La~~   24 (171)
T PRK13947          3 NIVLIGFMGTGKTTVGKRVATT   24 (171)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHH
Confidence            4889999999999999999987

>TIGR03881 KaiC_arch_4 KaiC domain protein, PAE1156 family

Probab=93.07  E-value=0.85  Score=47.81  Aligned_cols=39  Identities=26%  Similarity=0.277  Sum_probs=29.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQT  221 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~  221 (1074)
                      -.++.|.|.+|+||||+|.++... -..-..++|++....
T Consensus        20 G~~~~i~G~~G~GKT~l~~~~~~~~~~~g~~~~~is~e~~   59 (229)
T TIGR03881        20 GFFVAVTGEPGTGKTIFCLHFAYKGLRDGDPVIYVTTEES   59 (229)
T ss_pred             CeEEEEECCCCCChHHHHHHHHHHHHhcCCeEEEEEccCC
Confidence            469999999999999999987665 223456788876443

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.

>PRK00889 adenylylsulfate kinase; Provisional

Probab=93.07  E-value=0.083  Score=52.81  Aligned_cols=24  Identities=25%  Similarity=0.333  Sum_probs=22.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -.+|+|+|++|+||||+|+.+...
T Consensus         4 g~~i~~~G~~GsGKST~a~~la~~   27 (175)
T PRK00889          4 GVTVWFTGLSGAGKTTIARALAEK   27 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999999999987

>PRK05922 type III secretion system ATPase; Validated

Probab=93.05  E-value=0.46  Score=53.83  Aligned_cols=87  Identities=21%  Similarity=0.303  Sum_probs=50.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCC-cCHHHHHHHHHHHhccCC-------CcchH------HHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQT-PDVKRVQDEIARFLNTEL-------EGDVE------VLRAA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~-~~~~~~~~~i~~~l~~~~-------~~~~~------~~~~~  249 (1074)
                      ..++|+|..|+|||||++.+.+.... +..+++-+.+. ..+.+.+.+.........       ...+.      ...+-
T Consensus       158 qrigI~G~nG~GKSTLL~~Ia~~~~~-d~gvi~liGerg~ev~eyl~q~~~~~~~~rTVlv~atsd~~~~~r~~a~~~a~  236 (434)
T PRK05922        158 QRIGVFSEPGSGKSSLLSTIAKGSKS-TINVIALIGERGREVREYIEQHKEGLAAQRTIIIASPAHETAPTKVIAGRAAM  236 (434)
T ss_pred             cEEEEECCCCCChHHHHHHHhccCCC-CceEEEEeCCCCchHHHHHHHHHhhccccceEEEEECCCCCHHHHHHHHHHHH
Confidence            46899999999999999999877322 33444444432 233444444433322110       11111      11122


Q ss_pred             HHHHHHH-ccCeEEEEEcCcccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      .+-+++. .++++|+++||+-..
T Consensus       237 tiAEyfrd~G~~VLl~~DslTR~  259 (434)
T PRK05922        237 TIAEYFRDQGHRVLFIMDSLSRW  259 (434)
T ss_pred             HHHHHHHHcCCCEEEeccchhHH
Confidence            3445552 589999999998653

>PTZ00185 ATPase alpha subunit; Provisional

Probab=93.03  E-value=0.59  Score=53.32  Aligned_cols=87  Identities=18%  Similarity=0.185  Sum_probs=52.4

Q ss_pred             eEEEEEcCCCCcHHHHH-HHHHhhc--------CCCCeEEEEEecCCcCHHHHHHHHHHHhcc-C-------CCcchHHH
Q 001457          184 NIIGVYGSGGIGKTTLM-KQVMKQE--------IPFDKVIFVRVTQTPDVKRVQDEIARFLNT-E-------LEGDVEVL  246 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa-~~v~~~~--------~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~-~-------~~~~~~~~  246 (1074)
                      .-++|.|-.|+|||+|| -.+.++.        ++-+.++++-+.+......-+.+.+++-+. +       ...++...
T Consensus       190 QR~lIfGd~GtGKTtLAld~IinQ~~~~~~~~~~~~~v~VyvaIGeR~rEV~ei~~~L~e~GaL~~TvVV~AtAdep~~~  269 (574)
T PTZ00185        190 QRELIVGDRQTGKTSIAVSTIINQVRINQQILSKNAVISIYVSIGQRCSNVARIHRLLRSYGALRYTTVMAATAAEPAGL  269 (574)
T ss_pred             CEEEeecCCCCChHHHHHHHHHhhhhhccccccCCCCEEEEEEeccchHHHHHHHHHHHhcCCccceEEEEECCCCCHHH
Confidence            36789999999999997 5566652        345678899998876433334444443331 1       01111111


Q ss_pred             ------HHHHHHHHHH-ccCeEEEEEcCccc
Q 001457          247 ------RAAFLSERLK-RQKRVLIILDDLWG  270 (1074)
Q Consensus       247 ------~~~~l~~~l~-~~k~~LlVlDdv~~  270 (1074)
                            ..-.+-+++. +++..|+|+||+..
T Consensus       270 r~~Apy~a~tiAEYFrd~GkdVLiv~DDLTr  300 (574)
T PTZ00185        270 QYLAPYSGVTMGEYFMNRGRHCLCVYDDLSK  300 (574)
T ss_pred             HHHHHHHHHHHHHHHHHcCCCEEEEEcCchH
Confidence                  1123334442 58999999999864

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=93.02  E-value=0.099  Score=53.96  Aligned_cols=63  Identities=21%  Similarity=0.293  Sum_probs=36.8

Q ss_pred             HHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCC-CeEEEEEecCCcCHHHHHHH
Q 001457          168 VIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPF-DKVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       168 ~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F-~~~~wv~vs~~~~~~~~~~~  230 (1074)
                      ...++++.+.....+-.+|+|.|+||+||+||.-.+...  .... -.++=|+=|..++--.++.+
T Consensus        14 ~~~~ll~~l~~~~g~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGD   79 (266)
T PF03308_consen   14 EARELLKRLYPHTGRAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGD   79 (266)
T ss_dssp             HHHHHHHHHGGGTT-SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--
T ss_pred             HHHHHHHHHHhhcCCceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCccccc
Confidence            455677777665545789999999999999999888777  2222 23333444455555455444

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>COG0465 HflB ATP-dependent Zn proteases [Posttranslational modification, protein turnover, chaperones]

Probab=93.02  E-value=0.51  Score=55.29  Aligned_cols=50  Identities=24%  Similarity=0.301  Sum_probs=38.5

Q ss_pred             CCcccCcchHHHHHHHHHHHhcCC-------CceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNS-------ISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       157 ~~~~~~~~r~~~~~~l~~~l~~~~-------~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+.-|.+.-.+++.++++.|.+..       .-.+-|..+|++|.|||.||+++...
T Consensus       150 ~DVAG~dEakeel~EiVdfLk~p~ky~~lGakiPkGvlLvGpPGTGKTLLAkAvAgE  206 (596)
T COG0465         150 ADVAGVDEAKEELSELVDFLKNPKKYQALGAKIPKGVLLVGPPGTGKTLLAKAVAGE  206 (596)
T ss_pred             hhhcCcHHHHHHHHHHHHHHhCchhhHhcccccccceeEecCCCCCcHHHHHHHhcc
Confidence            334445555667778888887654       23678899999999999999999998

>TIGR03498 FliI_clade3 flagellar protein export ATPase FliI

Probab=93.02  E-value=0.35  Score=54.81  Aligned_cols=86  Identities=19%  Similarity=0.315  Sum_probs=48.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecC-CcCHHHHHHHHHHHhccC-------CCcchHH------HHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTE-------LEGDVEV------LRAA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~-------~~~~~~~------~~~~  249 (1074)
                      ..++|+|..|+|||||++.+.........++ +.+.+ .-.+.++..+.+..-+.+       ....+..      ..+-
T Consensus       141 q~i~I~G~sG~GKTtLl~~I~~~~~~~~gvi-~~iGer~~ev~~~~~~~l~~~~~~~tvvv~atsd~~~~~r~~a~~~a~  219 (418)
T TIGR03498       141 QRLGIFAGSGVGKSTLLSMLARNTDADVVVI-ALVGERGREVREFLEDDLGEEGLKRSVVVVATSDESPLMRRQAAYTAT  219 (418)
T ss_pred             cEEEEECCCCCChHHHHHHHhCCCCCCEEEE-EEEeeechHHHHHHHHhhhccccceeEEEEECCCCCHHHHHHHHHHHH
Confidence            5899999999999999998887722222232 33333 334555555444332111       0111111      1122


Q ss_pred             HHHHHHH-ccCeEEEEEcCccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWG  270 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~  270 (1074)
                      .+-+++. .++.+|+++||+-.
T Consensus       220 ~iAEyfrd~G~~Vll~~DslTr  241 (418)
T TIGR03498       220 AIAEYFRDQGKDVLLLMDSVTR  241 (418)
T ss_pred             HHHHHHHHcCCCEEEeccchhH
Confidence            3444443 58999999999864

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PF12061 DUF3542: Protein of unknown function (DUF3542); InterPro: IPR021929 R1 is a gene for resistance to late blight, the most destructive disease in potato cultivation worldwide

Probab=92.98  E-value=0.35  Score=50.40  Aligned_cols=88  Identities=15%  Similarity=0.214  Sum_probs=62.2

Q ss_pred             hcccchHHHHHHHHHHHHHHHHHHHHHHHHH-hhcCcchHHHHHHHHHHHHHHHHHHHHHHHHhhcccCccccccCCh--
Q 001457           37 VRYGSNIGAFRERARDLEAKKTDVLRFVKDA-EDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWHLDW--  113 (1074)
Q Consensus        37 ~~~~~~~~~l~~~l~~l~~~l~~i~~~l~~a-~~~~~~~~~~~~~Wl~~~~~~~~d~ed~~d~~~~~~~~~~~~~~~~--  113 (1074)
                      .++.+-+.+++.+++.++..+..+|.|++.- +..+...++ .+.++.++...||++|+++|.      |.....+.|  
T Consensus       310 ~rysdSlaflKnQiqvIQ~elesLqpFLk~V~ee~~nkh~~-~ed~a~~ii~kAyevEYVVDa------Ci~k~~P~Wcl  382 (402)
T PF12061_consen  310 GRYSDSLAFLKNQIQVIQTELESLQPFLKHVVEEPHNKHDT-NEDCATQIIRKAYEVEYVVDA------CISKSVPHWCL  382 (402)
T ss_pred             ccccchHHHHHHHHHHHHHHHHHhhHHHHHHHhccchhhhh-hhhHHHHHHHHHhheeeeeeh------hhcCCCcHHHH
Confidence            3445567889999999999999999999865 554433444 999999999999999999884      333223333  


Q ss_pred             -hhhhhhcHHHHHHHHHHH
Q 001457          114 -RKRHQLSRVATKKTVEII  131 (1074)
Q Consensus       114 -~~~~~~~~~i~~~~~~l~  131 (1074)
                       .+-..+..+|+.++++++
T Consensus       383 ~~WL~dIieei~~ik~~i~  401 (402)
T PF12061_consen  383 ERWLLDIIEEITCIKAKIQ  401 (402)
T ss_pred             HHHHHHHHHHHHHHHHHhc
Confidence             233456667777776664

The R1 gene belongs to the class of plant genes for pathogen resistance that have a leucine zipper motif, a putative nucleotide binding domain and a leucine-rich repeat domain []. Most proteins matching this entry are found associated with PF00931 from PFAM.

>TIGR00390 hslU ATP-dependent protease HslVU, ATPase subunit

Probab=92.98  E-value=0.33  Score=54.22  Aligned_cols=74  Identities=23%  Similarity=0.359  Sum_probs=43.9

Q ss_pred             CcchHHHHHHHHHHHhcC------------CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCC---CeEEEEEecC-CcCH
Q 001457          162 LKSALEVIKSVMKLLKDN------------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF---DKVIFVRVTQ-TPDV  224 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~------------~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F---~~~~wv~vs~-~~~~  224 (1074)
                      +.|.++.++.+.-.+...            +...+-|.++|++|+|||++|+.+... ...|   +...|+.... ..+.
T Consensus        14 IiGQ~eAkk~lsvAl~n~~~r~~~~~~~~~e~~p~~ILLiGppG~GKT~lAraLA~~l~~~fi~vdat~~~e~g~vG~dv   93 (441)
T TIGR00390        14 IIGQDNAKKSVAIALRNRYRRSQLNEELKDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDV   93 (441)
T ss_pred             ccCHHHHHHHHHHHHHhhhhhhccccccccccCCceEEEECCCCCCHHHHHHHHHHHhCCeEEEeecceeecCCcccCCH
Confidence            345666666655444321            112467899999999999999999988 4444   2222222221 2256


Q ss_pred             HHHHHHHHHHh
Q 001457          225 KRVQDEIARFL  235 (1074)
Q Consensus       225 ~~~~~~i~~~l  235 (1074)
                      ..+++.+....
T Consensus        94 E~i~r~l~e~A  104 (441)
T TIGR00390        94 ESMVRDLTDAA  104 (441)
T ss_pred             HHHHHHHHHHH
Confidence            66666665543

This model represents the ATPase subunit of HslVU, while the proteasome-related peptidase subunit is HslV. Residues 54-61 of the model contain a P-loop ATP-binding motif. Cys-287 of E. coli (position 308 in the seed alignment), studied in PubMed:98389714, is Ser in other members of the seed alignment.

>COG1936 Predicted nucleotide kinase (related to CMP and AMP kinases) [Nucleotide transport and metabolism]

Probab=92.98  E-value=0.074  Score=50.94  Aligned_cols=20  Identities=40%  Similarity=0.702  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHH
Q 001457          185 IIGVYGSGGIGKTTLMKQVM  204 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~  204 (1074)
                      .|+|.|.+|+||||+++.+.
T Consensus         2 ~I~ITGTPGvGKTT~~~~L~   21 (180)
T COG1936           2 LIAITGTPGVGKTTVCKLLR   21 (180)
T ss_pred             eEEEeCCCCCchHHHHHHHH
Confidence            58999999999999999887

>cd03287 ABC_MSH3_euk MutS3 homolog in eukaryotes

Probab=92.98  E-value=0.061  Score=55.58  Aligned_cols=116  Identities=16%  Similarity=0.130  Sum_probs=58.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCC---cc-hHHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELE---GD-VEVLRAAFLSERLK  256 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~---~~-~~~~~~~~l~~~l~  256 (1074)
                      -+++.|.|+.|.||||+.+.+..-  ..+-.+.+|-.-..    -....+|...++....   +. .-......+...+.
T Consensus        31 g~~~~itG~N~~GKStll~~i~~~~~la~~G~~v~a~~~~----~~~~~~i~~~~~~~d~~~~~~StF~~e~~~~~~il~  106 (222)
T cd03287          31 GYCQIITGPNMGGKSSYIRQVALITIMAQIGSFVPASSAT----LSIFDSVLTRMGASDSIQHGMSTFMVELSETSHILS  106 (222)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHhCCCEEEcCceE----EeccceEEEEecCccccccccchHHHHHHHHHHHHH
Confidence            468899999999999999998873  11112222221000    0001111111111100   01 11222223333332


Q ss_pred             -ccCeEEEEEcCcccccc-------ccccccCCCCCCCCeEEEEecCChhHHhhc
Q 001457          257 -RQKRVLIILDDLWGKLD-------LAVVGIPYGEEHKGCKIILTSRFKEVCDEM  303 (1074)
Q Consensus       257 -~~k~~LlVlDdv~~~~~-------~~~~~~~~~~~~~gs~iivTTR~~~v~~~~  303 (1074)
                       ..++-|+++|+.-...+       ...+...+.. ..++.+|++|...+++...
T Consensus       107 ~~~~~sLvllDE~~~gT~~~d~~~i~~~il~~l~~-~~~~~~i~~TH~~~l~~~~  160 (222)
T cd03287         107 NCTSRSLVILDELGRGTSTHDGIAIAYATLHYLLE-EKKCLVLFVTHYPSLGEIL  160 (222)
T ss_pred             hCCCCeEEEEccCCCCCChhhHHHHHHHHHHHHHh-ccCCeEEEEcccHHHHHHH
Confidence             35799999999743211       0112222222 2478999999999886543

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

>TIGR03263 guanyl_kin guanylate kinase

Probab=92.97  E-value=0.075  Score=53.40  Aligned_cols=23  Identities=35%  Similarity=0.706  Sum_probs=21.3

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++|+|+|+.|+||||||+.+...
T Consensus         2 ~ii~l~G~~GsGKsTl~~~L~~~   24 (180)
T TIGR03263         2 LLIVISGPSGVGKSTLVKALLEE   24 (180)
T ss_pred             cEEEEECCCCCCHHHHHHHHHcc
Confidence            48999999999999999999876

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.

>PRK13768 GTPase; Provisional

Probab=92.96  E-value=0.45  Score=50.55  Aligned_cols=36  Identities=33%  Similarity=0.355  Sum_probs=25.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEe
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRV  218 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~v  218 (1074)
                      ..++.|.|.||+||||++..+... ...-..++.|+.
T Consensus         2 ~~~i~v~G~~G~GKTt~~~~~~~~l~~~g~~v~~i~~   38 (253)
T PRK13768          2 MYIVFFLGTAGSGKTTLTKALSDWLEEQGYDVAIVNL   38 (253)
T ss_pred             cEEEEEECCCCccHHHHHHHHHHHHHhcCCceEEEEC
Confidence            368999999999999999888766 222233444443

>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=92.96  E-value=0.16  Score=51.29  Aligned_cols=45  Identities=31%  Similarity=0.413  Sum_probs=31.9

Q ss_pred             HHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEE
Q 001457          169 IKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVR  217 (1074)
Q Consensus       169 ~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~  217 (1074)
                      -...++.+.+    ..++.+.|++|.|||.||....-+   .+.|+.++++.
T Consensus         9 Q~~~~~al~~----~~~v~~~G~AGTGKT~LA~a~Al~~v~~g~~~kiii~R   56 (205)
T PF02562_consen    9 QKFALDALLN----NDLVIVNGPAGTGKTFLALAAALELVKEGEYDKIIITR   56 (205)
T ss_dssp             HHHHHHHHHH-----SEEEEE--TTSSTTHHHHHHHHHHHHTTS-SEEEEEE
T ss_pred             HHHHHHHHHh----CCeEEEECCCCCcHHHHHHHHHHHHHHhCCCcEEEEEe
Confidence            3455556553    569999999999999999888766   78888888773

; GO: 0005524 ATP binding; PDB: 3B85_A.

>PRK12678 transcription termination factor Rho; Provisional

Probab=92.95  E-value=0.36  Score=55.67  Aligned_cols=87  Identities=18%  Similarity=0.201  Sum_probs=48.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEE-EEEecCCc-CHHHHHHHHHHHhc-cCCCcchH-----HHHHHHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVI-FVRVTQTP-DVKRVQDEIARFLN-TELEGDVE-----VLRAAFLSE  253 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~-wv~vs~~~-~~~~~~~~i~~~l~-~~~~~~~~-----~~~~~~l~~  253 (1074)
                      .-..|+|.+|+|||||++.+.+.  ..+-++.+ .+-|.+.. .+..+.+.+-..+- ...+....     ...+..+-+
T Consensus       417 QR~LIvgpp~aGKTtLL~~IAn~i~~n~~~~~~ivvLIgERpeEVtdm~rsVkgeVVasT~D~p~~~~~~~a~~ai~~Ae  496 (672)
T PRK12678        417 QRGLIVSPPKAGKTTILQNIANAITTNNPECHLMVVLVDERPEEVTDMQRSVKGEVIASTFDRPPSDHTTVAELAIERAK  496 (672)
T ss_pred             CEeEEeCCCCCCHHHHHHHHHHHHhhcCCCeEEEEEEEeCchhhHHHHHHhccceEEEECCCCCHHHHHHHHHHHHHHHH
Confidence            36789999999999999999997  33445444 44444433 23333222200111 11111111     112223334


Q ss_pred             HH-HccCeEEEEEcCccc
Q 001457          254 RL-KRQKRVLIILDDLWG  270 (1074)
Q Consensus       254 ~l-~~~k~~LlVlDdv~~  270 (1074)
                      ++ ..++.+||++|++-.
T Consensus       497 ~fre~G~dVlillDSlTR  514 (672)
T PRK12678        497 RLVELGKDVVVLLDSITR  514 (672)
T ss_pred             HHHHcCCCEEEEEeCchH
Confidence            44 258999999999864

>COG5238 RNA1 Ran GTPase-activating protein (RanGAP) involved in mRNA processing and transport [Signal transduction mechanisms / RNA processing and modification]

Probab=92.89  E-value=0.13  Score=52.70  Aligned_cols=162  Identities=19%  Similarity=0.268  Sum_probs=97.2

Q ss_pred             CCCCCCccEEEccCCCCCCC-C---hhHHhcCCCccEEEecCCccCCCCC--------------CccCCccCCeeeccCC
Q 001457          527 QPKCPRLTTLFLQNNPFADI-P---NAFFEHTREIKNLDLSSTNISSLAP--------------SLPCLEKLRSLHLENT  588 (1074)
Q Consensus       527 ~~~~~~Lr~L~l~~~~~~~~-~---~~~~~~l~~L~~L~l~~~~~~~lp~--------------~i~~l~~Lr~L~L~~~  588 (1074)
                      ..+||+|+..+|+.|.+..- |   ..++++-..|..|.+++|.+..+..              -...-+.|++.....|
T Consensus        88 Llkcp~l~~v~LSDNAfg~~~~e~L~d~is~~t~l~HL~l~NnGlGp~aG~rigkal~~la~nKKaa~kp~Le~vicgrN  167 (388)
T COG5238          88 LLKCPRLQKVDLSDNAFGSEFPEELGDLISSSTDLVHLKLNNNGLGPIAGGRIGKALFHLAYNKKAADKPKLEVVICGRN  167 (388)
T ss_pred             HhcCCcceeeeccccccCcccchHHHHHHhcCCCceeEEeecCCCCccchhHHHHHHHHHHHHhhhccCCCceEEEeccc
Confidence            36788888888888875432 2   2345677788888888886542211              1234567888888888


Q ss_pred             CCCC-Ccc-----ccCCCCccEEEeeCCCCccc------CccccCCCCCCEEeCCCCcCCCCcC---hhhhcCCCCcCEE
Q 001457          589 HLND-ASL-----IREFGELEVLILKGSRIVEL------PNGIGTVSNLKLLDLSNNLFLQVIP---PNVISKLSQLEEL  653 (1074)
Q Consensus       589 ~l~~-~~~-----i~~l~~L~~L~L~~~~i~~l------p~~i~~L~~L~~L~l~~~~~~~~~p---~~~i~~L~~L~~L  653 (1074)
                      ++.. +..     +..-.+|+++.+..|.|..=      -..+..+.+|+.||+.+|.++..-.   ...+...+.|++|
T Consensus       168 Rlengs~~~~a~~l~sh~~lk~vki~qNgIrpegv~~L~~~gl~y~~~LevLDlqDNtft~~gS~~La~al~~W~~lrEL  247 (388)
T COG5238         168 RLENGSKELSAALLESHENLKEVKIQQNGIRPEGVTMLAFLGLFYSHSLEVLDLQDNTFTLEGSRYLADALCEWNLLREL  247 (388)
T ss_pred             hhccCcHHHHHHHHHhhcCceeEEeeecCcCcchhHHHHHHHHHHhCcceeeeccccchhhhhHHHHHHHhcccchhhhc
Confidence            8766 322     22335788888888877611      1234577889999998887543211   1224556778888


Q ss_pred             EccCCcCCccccccccCCCCCcccc--ccCcCCCEEEEeecCc
Q 001457          654 YVGNSFGDWEVEETANGQNARFSEV--ASLTRLTVLYIHVSNT  694 (1074)
Q Consensus       654 ~l~~~~~~~~~~~~~~~~~~~~~~l--~~l~~L~~L~l~~~~~  694 (1074)
                      .++.|...-  .    .....+..+  ...++|..|...+|..
T Consensus       248 ~lnDClls~--~----G~~~v~~~f~e~~~p~l~~L~~~Yne~  284 (388)
T COG5238         248 RLNDCLLSN--E----GVKSVLRRFNEKFVPNLMPLPGDYNER  284 (388)
T ss_pred             cccchhhcc--c----cHHHHHHHhhhhcCCCccccccchhhh
Confidence            888874321  0    001111111  2345677777777653

>PRK14738 gmk guanylate kinase; Provisional

Probab=92.87  E-value=0.091  Score=53.96  Aligned_cols=27  Identities=15%  Similarity=0.417  Sum_probs=23.2

Q ss_pred             CCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          180 SISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       180 ~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ....++|.|+|++|+|||||++.+...
T Consensus        10 ~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738         10 PAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            334689999999999999999999765

>PRK06761 hypothetical protein; Provisional

Probab=92.86  E-value=0.12  Score=55.13  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=21.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++|.|.|++|+||||+|+.+++.
T Consensus         4 ~lIvI~G~~GsGKTTla~~L~~~   26 (282)
T PRK06761          4 KLIIIEGLPGFGKSTTAKMLNDI   26 (282)
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            58999999999999999999998

>COG3854 SpoIIIAA ncharacterized protein conserved in bacteria [Function unknown]

Probab=92.82  E-value=0.22  Score=49.73  Aligned_cols=114  Identities=21%  Similarity=0.239  Sum_probs=61.5

Q ss_pred             HHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh----cCCCCe-EE-EEEecCCcCHHHHHHHHHHHh--------cc
Q 001457          172 VMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ----EIPFDK-VI-FVRVTQTPDVKRVQDEIARFL--------NT  237 (1074)
Q Consensus       172 l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~----~~~F~~-~~-wv~vs~~~~~~~~~~~i~~~l--------~~  237 (1074)
                      ++..+-.+.  ..-..|.|++|+|||||.+.+..-    .+.|-. .+ -|+-+.         +|+..+        +.
T Consensus       128 li~~ly~~g--~lntLiigpP~~GKTTlLRdiaR~~s~g~~~~l~kkv~IiDers---------EIag~~~gvpq~~~g~  196 (308)
T COG3854         128 LIKDLYQNG--WLNTLIIGPPQVGKTTLLRDIARLLSDGINQFLPKKVGIIDERS---------EIAGCLNGVPQHGRGR  196 (308)
T ss_pred             HHHHHHhcC--ceeeEEecCCCCChHHHHHHHHHHhhccccccCCceEEEEeccc---------hhhccccCCchhhhhh
Confidence            444554444  445678999999999999888765    445632 22 222111         122111        10


Q ss_pred             CCCcchHHHHHHHHHHHHHccCeEEEEEcCccccccccccccCCCCCCCCeEEEEecCChhH
Q 001457          238 ELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEV  299 (1074)
Q Consensus       238 ~~~~~~~~~~~~~l~~~l~~~k~~LlVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v  299 (1074)
                      ..+.........-+....+.--+=++|+|.+-..++-..+..++   +.|-++|.|..-..+
T Consensus       197 R~dVld~cpk~~gmmmaIrsm~PEViIvDEIGt~~d~~A~~ta~---~~GVkli~TaHG~~i  255 (308)
T COG3854         197 RMDVLDPCPKAEGMMMAIRSMSPEVIIVDEIGTEEDALAILTAL---HAGVKLITTAHGNGI  255 (308)
T ss_pred             hhhhcccchHHHHHHHHHHhcCCcEEEEeccccHHHHHHHHHHH---hcCcEEEEeeccccH
Confidence            01100111111222333334567799999998887766554443   458888877654333

>COG2019 AdkA Archaeal adenylate kinase [Nucleotide transport and metabolism]

Probab=92.81  E-value=0.091  Score=49.77  Aligned_cols=24  Identities=33%  Similarity=0.621  Sum_probs=21.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .++|.|+|.+|+||||+.+.+-..
T Consensus         4 ~kvvvitGVpGvGKTTVl~~~~~~   27 (189)
T COG2019           4 RKVVVITGVPGVGKTTVLKIALKE   27 (189)
T ss_pred             ceEEEEEcCCCCChHHHHHHHHHH
Confidence            579999999999999999877654

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=92.80  E-value=0.8  Score=50.30  Aligned_cols=38  Identities=21%  Similarity=0.368  Sum_probs=29.1

Q ss_pred             HHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          169 IKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       169 ~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..++++.+........+|+|.|.+|+|||||+..+...
T Consensus        42 ~~~l~~~~~~~~~~~~~igi~G~~GaGKSTl~~~l~~~   79 (332)
T PRK09435         42 AQELLDALLPHTGNALRIGITGVPGVGKSTFIEALGMH   79 (332)
T ss_pred             HHHHHHHHhhcCCCcEEEEEECCCCCCHHHHHHHHHHH
Confidence            34556655443334789999999999999999998777

>PRK15429 formate hydrogenlyase transcriptional activator FhlA; Provisional

Probab=92.78  E-value=0.24  Score=61.18  Aligned_cols=60  Identities=15%  Similarity=0.191  Sum_probs=37.7

Q ss_pred             cCcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecC
Q 001457          161 PLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ  220 (1074)
Q Consensus       161 ~~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~  220 (1074)
                      .+.|+...+..+.+.+..-...-.-|.|+|..|+|||++|+.+++. ...-...+.+++..
T Consensus       377 ~liG~S~~~~~~~~~~~~~a~~~~pVLI~GE~GTGK~~lA~~ih~~s~r~~~~~v~i~c~~  437 (686)
T PRK15429        377 EIIGRSEAMYSVLKQVEMVAQSDSTVLILGETGTGKELIARAIHNLSGRNNRRMVKMNCAA  437 (686)
T ss_pred             ceeecCHHHHHHHHHHHHHhCCCCCEEEECCCCcCHHHHHHHHHHhcCCCCCCeEEEeccc
Confidence            3455555666655544322112347889999999999999999987 22223445555544

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=92.74  E-value=0.085  Score=53.27  Aligned_cols=23  Identities=26%  Similarity=0.551  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+|+|+|+.|+|||||++.+...
T Consensus         3 ~~i~l~G~sGsGKsTl~~~l~~~   25 (186)
T PRK10078          3 KLIWLMGPSGSGKDSLLAALRQR   25 (186)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcc
Confidence            47899999999999999999776

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=92.71  E-value=0.27  Score=52.36  Aligned_cols=29  Identities=24%  Similarity=0.371  Sum_probs=25.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      +..+|.|.|.+|+|||||+..+.+. ....
T Consensus       103 ~~~~v~l~G~pGsGKTTLl~~l~~~l~~~~  132 (290)
T PRK10463        103 KQLVLNLVSSPGSGKTTLLTETLMRLKDSV  132 (290)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHhccCC
Confidence            4889999999999999999999988 4444

>cd01132 F1_ATPase_alpha F1 ATP synthase alpha, central domain

Probab=92.71  E-value=0.65  Score=49.07  Aligned_cols=93  Identities=22%  Similarity=0.264  Sum_probs=53.1

Q ss_pred             eEEEEEcCCCCcHHHHH-HHHHhhcCCCCeE-EEEEecCCc-CHHHHHHHHHHHhcc-------CCCcchHHH------H
Q 001457          184 NIIGVYGSGGIGKTTLM-KQVMKQEIPFDKV-IFVRVTQTP-DVKRVQDEIARFLNT-------ELEGDVEVL------R  247 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa-~~v~~~~~~F~~~-~wv~vs~~~-~~~~~~~~i~~~l~~-------~~~~~~~~~------~  247 (1074)
                      .-++|.|..|+|||+|| ..+.+.. +-+.+ +++-+.+.. .+.++.+.+...-..       ....++...      .
T Consensus        70 Qr~~Ifg~~g~GKt~L~l~~i~~~~-~~~v~~V~~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~t~d~~~~~r~~a~~~  148 (274)
T cd01132          70 QRELIIGDRQTGKTAIAIDTIINQK-GKKVYCIYVAIGQKASTVAQVVKTLEEHGAMEYTIVVAATASDPAPLQYLAPYT  148 (274)
T ss_pred             CEEEeeCCCCCCccHHHHHHHHHhc-CCCeEEEEEecccchHHHHHHHHHHHhcCccceeEEEEeCCCCchhHHHHHHHH
Confidence            46899999999999996 6666552 23444 667776654 355555555532111       011111111      1


Q ss_pred             HHHHHHHHH-ccCeEEEEEcCcccc-cccccc
Q 001457          248 AAFLSERLK-RQKRVLIILDDLWGK-LDLAVV  277 (1074)
Q Consensus       248 ~~~l~~~l~-~~k~~LlVlDdv~~~-~~~~~~  277 (1074)
                      +-.+-+++. .++..|+|+||+-.. ..+.++
T Consensus       149 a~aiAE~fr~~G~~Vlvl~DslTr~A~A~rEi  180 (274)
T cd01132         149 GCAMGEYFMDNGKHALIIYDDLSKQAVAYRQM  180 (274)
T ss_pred             HHHHHHHHHHCCCCEEEEEcChHHHHHHHHHH
Confidence            223334443 489999999998654 344444

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.

>PRK07196 fliI flagellum-specific ATP synthase; Validated

Probab=92.70  E-value=0.43  Score=54.17  Aligned_cols=88  Identities=15%  Similarity=0.233  Sum_probs=46.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecC-CcCHHHHHHHHHHHhccC-------CCcchH------HHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTE-------LEGDVE------VLRA  248 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~-~~~~~~~~~~i~~~l~~~-------~~~~~~------~~~~  248 (1074)
                      -..++|+|..|+|||||++.+...... +..+...+.. ..++.++..+.+..-+..       ....+.      ...+
T Consensus       155 GQ~igI~G~sGaGKSTLl~~I~g~~~~-dv~vig~IGerg~ev~ef~~~~l~~~gl~rsvvv~~~~d~s~~~rl~a~e~a  233 (434)
T PRK07196        155 GQRVGLMAGSGVGKSVLLGMITRYTQA-DVVVVGLIGERGREVKEFIEHSLQAAGMAKSVVVAAPADESPLMRIKATELC  233 (434)
T ss_pred             ceEEEEECCCCCCccHHHHHHhcccCC-CeEEEEEEeeecHHHHHHHHHHhhhcccceEEEEEecCCCChhhhHHHHHHH
Confidence            458999999999999999998876222 2333333322 223333333333322111       001110      1112


Q ss_pred             HHHHHHHH-ccCeEEEEEcCcccc
Q 001457          249 AFLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       249 ~~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      ..+-+++. .++.+|+++||+-..
T Consensus       234 ~~iAEyfr~~g~~Vll~~Dsltr~  257 (434)
T PRK07196        234 HAIATYYRDKGHDVLLLVDSLTRY  257 (434)
T ss_pred             HHHHHHhhhccCCEEEeecchhHH
Confidence            22333332 489999999998653

>COG4240 Predicted kinase [General function prediction only]

Probab=92.69  E-value=0.33  Score=48.40  Aligned_cols=54  Identities=19%  Similarity=0.254  Sum_probs=41.3

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHh
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l  235 (1074)
                      ..-+++|.|+-|+||||++..+++.  .+.-..++..++.+-+-...-...++++.
T Consensus        49 rPli~gisGpQGSGKStls~~i~~~L~~kg~ert~~lSLDDlYlthadrl~La~q~  104 (300)
T COG4240          49 RPLIVGISGPQGSGKSTLSALIVRLLAAKGLERTATLSLDDLYLTHADRLRLARQV  104 (300)
T ss_pred             CceEEEeecCCCCchhhHHHHHHHHHHHhcccceEEeehhhhhcchHHHHHHHHhc
Confidence            3679999999999999999999999  33325677777776666666666666664

>PRK05342 clpX ATP-dependent protease ATP-binding subunit ClpX; Provisional

Probab=92.68  E-value=0.31  Score=55.39  Aligned_cols=27  Identities=33%  Similarity=0.588  Sum_probs=22.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      +.|.++|++|+|||++|+.+... ...|
T Consensus       109 ~~iLl~Gp~GtGKT~lAr~lA~~l~~pf  136 (412)
T PRK05342        109 SNILLIGPTGSGKTLLAQTLARILDVPF  136 (412)
T ss_pred             ceEEEEcCCCCCHHHHHHHHHHHhCCCc
Confidence            56899999999999999999876 4443

>PRK03846 adenylylsulfate kinase; Provisional

Probab=92.66  E-value=0.16  Score=51.84  Aligned_cols=24  Identities=21%  Similarity=0.245  Sum_probs=22.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|+|+|++|+||||+|+.+...
T Consensus        24 ~~~i~i~G~~GsGKSTla~~l~~~   47 (198)
T PRK03846         24 GVVLWFTGLSGSGKSTVAGALEEA   47 (198)
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            579999999999999999999886

>PRK00300 gmk guanylate kinase; Provisional

Probab=92.65  E-value=0.091  Score=54.09  Aligned_cols=24  Identities=33%  Similarity=0.540  Sum_probs=22.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -.+|+|+|++|+||||||+.+...
T Consensus         5 g~~i~i~G~sGsGKstl~~~l~~~   28 (205)
T PRK00300          5 GLLIVLSGPSGAGKSTLVKALLER   28 (205)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            468999999999999999999886

>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=92.65  E-value=0.1  Score=46.35  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVM  204 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~  204 (1074)
                      -..++|+|+.|+|||||++.+.
T Consensus        15 ge~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          15 KVGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             CEEEEEEcCCCCCHHHHHHHhh
Confidence            3689999999999999999876

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

>KOG3864 consensus Uncharacterized conserved protein [Function unknown]

Probab=92.65  E-value=0.031  Score=54.68  Aligned_cols=68  Identities=13%  Similarity=0.131  Sum_probs=47.9

Q ss_pred             CCCcceeecCCccCcceeeccccccccccccceEEEecCCCccccccchhHhhhcCCCceecccccccce
Q 001457          825 LKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEE  894 (1074)
Q Consensus       825 ~~~L~~L~L~~~~~L~~~~~~~~~~~~l~~L~~L~l~~C~~L~~l~~~~~~~~l~~L~~L~l~~c~~l~~  894 (1074)
                      +++++.|.+.+|..+.+....... +-.++|+.|+|++|+++++- ....+..+++|+.|.|.+.+.+..
T Consensus       124 l~~i~~l~l~~ck~~dD~~L~~l~-~~~~~L~~L~lsgC~rIT~~-GL~~L~~lknLr~L~l~~l~~v~~  191 (221)
T KOG3864|consen  124 LRSIKSLSLANCKYFDDWCLERLG-GLAPSLQDLDLSGCPRITDG-GLACLLKLKNLRRLHLYDLPYVAN  191 (221)
T ss_pred             cchhhhheeccccchhhHHHHHhc-ccccchheeeccCCCeechh-HHHHHHHhhhhHHHHhcCchhhhc
Confidence            677777778888777665433332 25688888888888888875 234567788888888888655443

>PLN02348 phosphoribulokinase

Probab=92.64  E-value=0.18  Score=55.85  Aligned_cols=26  Identities=27%  Similarity=0.489  Sum_probs=23.5

Q ss_pred             CceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       181 ~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ....+|+|.|.+|+||||+|+.+.+.
T Consensus        47 ~~p~IIGIaG~SGSGKSTfA~~L~~~   72 (395)
T PLN02348         47 DGTVVIGLAADSGCGKSTFMRRLTSV   72 (395)
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34789999999999999999999877

>TIGR00959 ffh signal recognition particle protein

Probab=92.62  E-value=0.62  Score=53.13  Aligned_cols=24  Identities=29%  Similarity=0.275  Sum_probs=21.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|.++|.+|+||||.|..++..
T Consensus        99 p~vi~~vG~~GsGKTTtaakLA~~  122 (428)
T TIGR00959        99 PTVILMVGLQGSGKTTTCGKLAYY  122 (428)
T ss_pred             CEEEEEECCCCCcHHHHHHHHHHH
Confidence            679999999999999998887766

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.

>PRK11608 pspF phage shock protein operon transcriptional activator; Provisional

Probab=92.61  E-value=0.18  Score=55.84  Aligned_cols=59  Identities=12%  Similarity=0.062  Sum_probs=34.9

Q ss_pred             CcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecC
Q 001457          162 LKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ  220 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~  220 (1074)
                      +.|+...+.++.+.+..-...-.-|.|+|-.|+||+++|+.++.. ...-...+.|++..
T Consensus         8 liG~S~~~~~~~~~i~~~a~~~~pVlI~GE~GtGK~~lA~~iH~~s~r~~~pfv~v~c~~   67 (326)
T PRK11608          8 LLGEANSFLEVLEQVSRLAPLDKPVLIIGERGTGKELIASRLHYLSSRWQGPFISLNCAA   67 (326)
T ss_pred             cEECCHHHHHHHHHHHHHhCCCCCEEEECCCCCcHHHHHHHHHHhCCccCCCeEEEeCCC
Confidence            334445555555544322111346789999999999999999876 22222334455444

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=92.60  E-value=0.16  Score=53.20  Aligned_cols=65  Identities=18%  Similarity=0.255  Sum_probs=45.4

Q ss_pred             HHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh---cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          169 IKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ---EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       169 ~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~---~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      -.+++..+.....+-.+|+|.|.||+||+||.-.+...   +++--.++=|+=|..++--.++.+=++
T Consensus        37 a~~ll~~l~p~tG~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiR  104 (323)
T COG1703          37 ARELLRALYPRTGNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIR  104 (323)
T ss_pred             HHHHHHHHhhcCCCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhh
Confidence            35677777766666789999999999999999887776   333334445555666666566555433

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=92.58  E-value=0.11  Score=53.20  Aligned_cols=28  Identities=36%  Similarity=0.386  Sum_probs=23.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      ..+|.++||+|+||||..+.++.+ ...+
T Consensus        19 p~~ilVvGMAGSGKTTF~QrL~~hl~~~~   47 (366)
T KOG1532|consen   19 PVIILVVGMAGSGKTTFMQRLNSHLHAKK   47 (366)
T ss_pred             CcEEEEEecCCCCchhHHHHHHHHHhhcc
Confidence            568899999999999999999988 4433

>PRK00279 adk adenylate kinase; Reviewed

Probab=92.58  E-value=0.47  Score=49.20  Aligned_cols=22  Identities=27%  Similarity=0.357  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .|.|.|++|+||||+|+.+...
T Consensus         2 ~I~v~G~pGsGKsT~a~~la~~   23 (215)
T PRK00279          2 RLILLGPPGAGKGTQAKFIAEK   23 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999999876

>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=92.55  E-value=0.079  Score=29.66  Aligned_cols=16  Identities=38%  Similarity=0.630  Sum_probs=7.2

Q ss_pred             CccEEEeeCCCCcccC
Q 001457          601 ELEVLILKGSRIVELP  616 (1074)
Q Consensus       601 ~L~~L~L~~~~i~~lp  616 (1074)
                      +|++|++++|+++++|
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            4566666666655554

...

>PRK14530 adenylate kinase; Provisional

Probab=92.51  E-value=0.099  Score=54.24  Aligned_cols=23  Identities=26%  Similarity=0.335  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +.|.|+|++|+||||+|+.+...
T Consensus         4 ~~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          4 PRILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999999876

>PRK13948 shikimate kinase; Provisional

Probab=92.49  E-value=0.11  Score=51.81  Aligned_cols=24  Identities=17%  Similarity=0.318  Sum_probs=22.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+.|.++|+.|+||||+++.+.+.
T Consensus        10 ~~~I~LiG~~GsGKSTvg~~La~~   33 (182)
T PRK13948         10 VTWVALAGFMGTGKSRIGWELSRA   33 (182)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
Confidence            568999999999999999999887

>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=92.48  E-value=0.1  Score=50.90  Aligned_cols=21  Identities=38%  Similarity=0.439  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |.|+|++|+||||+|+.+...
T Consensus         2 i~l~G~~GsGKstla~~la~~   22 (154)
T cd00464           2 IVLIGMMGAGKTTVGRLLAKA   22 (154)
T ss_pred             EEEEcCCCCCHHHHHHHHHHH
Confidence            789999999999999999876

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.

>cd03282 ABC_MSH4_euk MutS4 homolog in eukaryotes

Probab=92.47  E-value=0.14  Score=52.39  Aligned_cols=116  Identities=14%  Similarity=0.131  Sum_probs=57.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhccCCCcc---h-HHHHHHHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGD---V-EVLRAAFLSERLK  256 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~~~~~~---~-~~~~~~~l~~~l~  256 (1074)
                      .+++.|.|+.|.||||+.+.+..-  -.+..  .+|.... .. -.+...|...++......   + -.....++...+.
T Consensus        29 ~~~~~l~G~n~~GKstll~~i~~~~~la~~G--~~vpa~~-~~-l~~~d~I~~~~~~~d~~~~~~S~fs~e~~~~~~il~  104 (204)
T cd03282          29 SRFHIITGPNMSGKSTYLKQIALLAIMAQIG--CFVPAEY-AT-LPIFNRLLSRLSNDDSMERNLSTFASEMSETAYILD  104 (204)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHHHcC--CCcchhh-cC-ccChhheeEecCCccccchhhhHHHHHHHHHHHHHH
Confidence            478999999999999999998755  11111  1111100 00 122223333332221100   0 0111112222221


Q ss_pred             -ccCeEEEEEcCcccc---cc----ccccccCCCCCCCCeEEEEecCChhHHhhcc
Q 001457          257 -RQKRVLIILDDLWGK---LD----LAVVGIPYGEEHKGCKIILTSRFKEVCDEME  304 (1074)
Q Consensus       257 -~~k~~LlVlDdv~~~---~~----~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~  304 (1074)
                       ..++-|+++|+....   .+    ...+...+.  ..|+.+|+||-..+++....
T Consensus       105 ~~~~~~lvllDE~~~gt~~~~~~~l~~~il~~l~--~~~~~~i~~TH~~~l~~~~~  158 (204)
T cd03282         105 YADGDSLVLIDELGRGTSSADGFAISLAILECLI--KKESTVFFATHFRDIAAILG  158 (204)
T ss_pred             hcCCCcEEEeccccCCCCHHHHHHHHHHHHHHHH--hcCCEEEEECChHHHHHHhh
Confidence             246889999997432   11    111112221  23789999999998876554

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

>PRK05057 aroK shikimate kinase I; Reviewed

Probab=92.40  E-value=0.11  Score=51.65  Aligned_cols=24  Identities=33%  Similarity=0.390  Sum_probs=21.6

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ...|.|+|+.|+||||+|+.+.+.
T Consensus         4 ~~~I~liG~~GaGKStl~~~La~~   27 (172)
T PRK05057          4 KRNIFLVGPMGAGKSTIGRQLAQQ   27 (172)
T ss_pred             CCEEEEECCCCcCHHHHHHHHHHH
Confidence            346999999999999999999987

>COG0703 AroK Shikimate kinase [Amino acid transport and metabolism]

Probab=92.38  E-value=0.12  Score=50.14  Aligned_cols=27  Identities=33%  Similarity=0.506  Sum_probs=23.2

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      +-|.++||.|+||||+.+.+.+. .-+|
T Consensus         3 ~~IvLiG~mGaGKSTIGr~LAk~L~~~F   30 (172)
T COG0703           3 MNIVLIGFMGAGKSTIGRALAKALNLPF   30 (172)
T ss_pred             ccEEEEcCCCCCHhHHHHHHHHHcCCCc
Confidence            35789999999999999999988 5555

>smart00534 MUTSac ATPase domain of DNA mismatch repair MUTS family

Probab=92.37  E-value=0.066  Score=53.99  Aligned_cols=22  Identities=27%  Similarity=0.308  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++.|.|..|.||||+.+.+.-.
T Consensus         1 ~~~ltG~N~~GKst~l~~i~~~   22 (185)
T smart00534        1 VVIITGPNMGGKSTYLRQVGLI   22 (185)
T ss_pred             CEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999998843

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=92.34  E-value=0.14  Score=52.64  Aligned_cols=25  Identities=28%  Similarity=0.567  Sum_probs=23.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++++|+++|+.|+|||||..++...
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~~   45 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLIDN   45 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999999998877

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>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=92.33  E-value=0.11  Score=47.84  Aligned_cols=21  Identities=38%  Similarity=0.708  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |.|+|..|+|||||.+.+.+.
T Consensus         2 I~V~G~~g~GKTsLi~~l~~~   22 (119)
T PF08477_consen    2 IVVLGDSGVGKTSLIRRLCGG   22 (119)
T ss_dssp             EEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEECcCCCCHHHHHHHHhcC
Confidence            789999999999999999876

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.

>cd01672 TMPK Thymidine monophosphate kinase (TMPK), also known as thymidylate kinase, catalyzes the phosphorylation of thymidine monophosphate (TMP) to thymidine diphosphate (TDP) utilizing ATP as its preferred phophoryl donor

Probab=92.33  E-value=0.26  Score=50.33  Aligned_cols=22  Identities=36%  Similarity=0.524  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      +|+|.|+.|+||||+++.+.+.
T Consensus         2 ~I~ieG~~GsGKtT~~~~L~~~   23 (200)
T cd01672           2 FIVFEGIDGAGKTTLIELLAER   23 (200)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999999988

TMPK represents the rate-limiting step in either de novo or salvage biosynthesis of thymidine triphosphate (TTP).

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=92.28  E-value=0.16  Score=53.30  Aligned_cols=33  Identities=33%  Similarity=0.374  Sum_probs=22.6

Q ss_pred             EEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecC
Q 001457          188 VYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ  220 (1074)
Q Consensus       188 I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~  220 (1074)
                      |+|++|+||||+++.+.+. ...-..++-|+...
T Consensus         1 ViGpaGSGKTT~~~~~~~~~~~~~~~~~~vNLDP   34 (238)
T PF03029_consen    1 VIGPAGSGKTTFCKGLSEWLESNGRDVYIVNLDP   34 (238)
T ss_dssp             -EESTTSSHHHHHHHHHHHHTTT-S-EEEEE--T
T ss_pred             CCCCCCCCHHHHHHHHHHHHHhccCCceEEEcch
Confidence            6899999999999999998 44444455565543

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PRK13975 thymidylate kinase; Provisional

Probab=92.28  E-value=0.12  Score=52.80  Aligned_cols=23  Identities=35%  Similarity=0.400  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+|+|.|+.|+||||+|+.+...
T Consensus         3 ~~I~ieG~~GsGKtT~~~~L~~~   25 (196)
T PRK13975          3 KFIVFEGIDGSGKTTQAKLLAEK   25 (196)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999988

>PRK12339 2-phosphoglycerate kinase; Provisional

Probab=92.26  E-value=0.12  Score=52.22  Aligned_cols=24  Identities=25%  Similarity=0.362  Sum_probs=22.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|.|.|.+|+||||+|+.+...
T Consensus         3 ~~~i~i~G~~G~GKst~a~~l~~~   26 (197)
T PRK12339          3 STIHFIGGIPGVGKTSISGYIARH   26 (197)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999886

>PRK09280 F0F1 ATP synthase subunit beta; Validated

Probab=92.24  E-value=0.66  Score=52.92  Aligned_cols=88  Identities=18%  Similarity=0.344  Sum_probs=54.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchHH------HH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVEV------LR  247 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~------~~  247 (1074)
                      .-++|.|.+|+|||||+.++...  .++=+.++++-+.+.. .+.++.+++...-...       ....+..      ..
T Consensus       145 QR~gIfa~~GvGKt~Ll~~i~~~~~~~~~~v~V~~liGER~rEv~efi~~~~~~~~l~rsvvV~atsd~p~~~r~~a~~~  224 (463)
T PRK09280        145 GKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVLDKTALVFGQMNEPPGARLRVALT  224 (463)
T ss_pred             CEEEeecCCCCChhHHHHHHHHHHHhcCCCEEEEEEeccCcHHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHH
Confidence            46899999999999999998766  3333567787776544 4556666665432110       1111111      11


Q ss_pred             HHHHHHHHH--ccCeEEEEEcCcccc
Q 001457          248 AAFLSERLK--RQKRVLIILDDLWGK  271 (1074)
Q Consensus       248 ~~~l~~~l~--~~k~~LlVlDdv~~~  271 (1074)
                      +-.+-+++.  +++++|+++|++-..
T Consensus       225 a~tiAEyfrd~~G~~VLll~DslTR~  250 (463)
T PRK09280        225 GLTMAEYFRDVEGQDVLLFIDNIFRF  250 (463)
T ss_pred             HHHHHHHHHHhcCCceEEEecchHHH
Confidence            233445552  489999999998643

>TIGR01039 atpD ATP synthase, F1 beta subunit

Probab=92.24  E-value=0.7  Score=52.54  Aligned_cols=88  Identities=18%  Similarity=0.351  Sum_probs=55.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchHH------HH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVEV------LR  247 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~------~~  247 (1074)
                      .-++|.|.+|+|||||+.++...  .++=+.++++-+.+.. .+.++..++...-...       ....+..      ..
T Consensus       144 Qr~~If~~~G~GKt~L~~~~~~~~~~~~~~v~V~alIGER~rEv~ef~~~~~~~~~l~rtvvV~atsd~p~~~R~~a~~~  223 (461)
T TIGR01039       144 GKIGLFGGAGVGKTVLIQELINNIAKEHGGYSVFAGVGERTREGNDLYHEMKESGVIDKTALVYGQMNEPPGARMRVALT  223 (461)
T ss_pred             CEEEeecCCCCChHHHHHHHHHHHHhcCCCeEEEEEecCCchHHHHHHHHHHhcCCcceeEEEEECCCCCHHHHHHHHHH
Confidence            46899999999999999998876  3333577788776543 4566666664321110       1111111      12


Q ss_pred             HHHHHHHHH--ccCeEEEEEcCcccc
Q 001457          248 AAFLSERLK--RQKRVLIILDDLWGK  271 (1074)
Q Consensus       248 ~~~l~~~l~--~~k~~LlVlDdv~~~  271 (1074)
                      +-.+-+++.  +++.+|+|+||+-..
T Consensus       224 a~tiAEyfrd~~G~~VLll~DslTR~  249 (461)
T TIGR01039       224 GLTMAEYFRDEQGQDVLLFIDNIFRF  249 (461)
T ss_pred             HHHHHHHHHHhcCCeeEEEecchhHH
Confidence            234556664  379999999998653

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.

>TIGR00455 apsK adenylylsulfate kinase (apsK)

Probab=92.24  E-value=0.63  Score=46.86  Aligned_cols=24  Identities=29%  Similarity=0.376  Sum_probs=22.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+|.|.|.+|+||||+|+.+...
T Consensus        18 ~~~i~i~G~~GsGKstla~~l~~~   41 (184)
T TIGR00455        18 GVVIWLTGLSGSGKSTIANALEKK   41 (184)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            469999999999999999999877

Important residue (active site in E.coli) is residue 100 of the seed alignment.

>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=92.23  E-value=0.17  Score=49.70  Aligned_cols=21  Identities=48%  Similarity=0.797  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |.|.|.+|+|||||++.+.+.
T Consensus         2 i~iTG~pG~GKTTll~k~i~~   22 (168)
T PF03266_consen    2 IFITGPPGVGKTTLLKKVIEE   22 (168)
T ss_dssp             EEEES-TTSSHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHH
Confidence            689999999999999999888

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.

>KOG3354 consensus Gluconate kinase [Carbohydrate transport and metabolism]

Probab=92.21  E-value=0.63  Score=43.52  Aligned_cols=27  Identities=33%  Similarity=0.546  Sum_probs=23.6

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh-cCCC
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~-~~~F  210 (1074)
                      .+|.|.|.+|.||||+++++... +..|
T Consensus        13 ~~i~vmGvsGsGKSTigk~L~~~l~~~F   40 (191)
T KOG3354|consen   13 YVIVVMGVSGSGKSTIGKALSEELGLKF   40 (191)
T ss_pred             eeEEEEecCCCChhhHHHHHHHHhCCcc
Confidence            49999999999999999999988 5444

>TIGR01313 therm_gnt_kin carbohydrate kinase, thermoresistant glucokinase family

Probab=92.18  E-value=0.096  Score=51.61  Aligned_cols=21  Identities=24%  Similarity=0.465  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHHhh
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      |.|+|++|+||||+|+.+...
T Consensus         1 i~l~G~~GsGKSTla~~l~~~   21 (163)
T TIGR01313         1 FVLMGVAGSGKSTIASALAHR   21 (163)
T ss_pred             CEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999876

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.

>COG0003 ArsA Predicted ATPase involved in chromosome partitioning [Cell division and chromosome partitioning]

Probab=92.18  E-value=0.23  Score=54.05  Aligned_cols=48  Identities=27%  Similarity=0.340  Sum_probs=34.8

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~  230 (1074)
                      .+++.+.|.||+||||+|....-. ......+.-|++....+...++..
T Consensus         2 ~riv~f~GKGGVGKTT~aaA~A~~lA~~g~kvLlvStDPAhsL~d~f~~   50 (322)
T COG0003           2 TRIVFFTGKGGVGKTTIAAATAVKLAESGKKVLLVSTDPAHSLGDVFDL   50 (322)
T ss_pred             cEEEEEecCCcccHHHHHHHHHHHHHHcCCcEEEEEeCCCCchHhhhcc
Confidence            579999999999999999886555 222255777777776666665544

>cd00984 DnaB_C DnaB helicase C terminal domain

Probab=92.15  E-value=0.9  Score=48.10  Aligned_cols=48  Identities=13%  Similarity=0.248  Sum_probs=35.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~  233 (1074)
                      .++.|.|.+|+|||++|.++..+  ..+=..++|++...  +..++...++.
T Consensus        14 ~l~lI~G~~G~GKT~~~~~~~~~~~~~~g~~vly~s~E~--~~~~~~~r~~~   63 (242)
T cd00984          14 DLIIIAARPSMGKTAFALNIAENIAKKQGKPVLFFSLEM--SKEQLLQRLLA   63 (242)
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHHHHHhCCCceEEEeCCC--CHHHHHHHHHH
Confidence            58999999999999999998777  33234677776555  45666666543

The hexameric helicase DnaB unwinds the DNA duplex at the chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis.

>PRK13946 shikimate kinase; Provisional

Probab=92.11  E-value=0.13  Score=51.84  Aligned_cols=24  Identities=21%  Similarity=0.299  Sum_probs=22.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .+.|.++|++|+||||+++.+.+.
T Consensus        10 ~~~I~l~G~~GsGKsti~~~LA~~   33 (184)
T PRK13946         10 KRTVVLVGLMGAGKSTVGRRLATM   33 (184)
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999999987

>PRK13695 putative NTPase; Provisional

Probab=92.11  E-value=0.17  Score=50.38  Aligned_cols=32  Identities=34%  Similarity=0.500  Sum_probs=24.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEE
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFV  216 (1074)
Q Consensus       185 vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv  216 (1074)
                      .|+|+|.+|+|||||++.+++.  ...+....|+
T Consensus         2 ~i~ltG~~G~GKTTll~~i~~~l~~~G~~~~g~~   35 (174)
T PRK13695          2 KIGITGPPGVGKTTLVLKIAELLKEEGYKVGGFY   35 (174)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEE
Confidence            4789999999999999999887  3345444454

>PRK09099 type III secretion system ATPase; Provisional

Probab=92.07  E-value=0.6  Score=53.19  Aligned_cols=88  Identities=20%  Similarity=0.292  Sum_probs=50.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEec-CCcCHHHHHHHHHHHhccC-------CCcchHH------HHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVT-QTPDVKRVQDEIARFLNTE-------LEGDVEV------LRA  248 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs-~~~~~~~~~~~i~~~l~~~-------~~~~~~~------~~~  248 (1074)
                      -..++|.|..|+|||||++.+...... +..+.+-+. ....+.++.+.+...-+..       ....+..      ..+
T Consensus       163 Gq~~~I~G~sG~GKTtLl~~ia~~~~~-d~~vi~~iGer~~ev~ef~~~~~~~~~l~rtvvv~~tsd~p~~~r~~a~~~a  241 (441)
T PRK09099        163 GQRMGIFAPAGVGKSTLMGMFARGTQC-DVNVIALIGERGREVREFIELILGEDGMARSVVVCATSDRSSIERAKAAYVA  241 (441)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCC-CeEEEEEEccChHHHHHHHHHHhhcCCcceEEEEEECCCCCHHHHHHHHHHH
Confidence            358999999999999999999876211 223333333 3334555555554332111       0111111      112


Q ss_pred             HHHHHHHH-ccCeEEEEEcCcccc
Q 001457          249 AFLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       249 ~~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      -.+-+++. .++.+|+++||+-..
T Consensus       242 ~tiAEyfrd~G~~VLl~~DslTr~  265 (441)
T PRK09099        242 TAIAEYFRDRGLRVLLMMDSLTRF  265 (441)
T ss_pred             HHHHHHHHHcCCCEEEeccchhHH
Confidence            23444443 589999999998653

>cd01878 HflX HflX subfamily

Probab=92.05  E-value=0.36  Score=49.60  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=21.9

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ...|+|+|.+|+|||||.+.+.+.
T Consensus        41 ~~~I~iiG~~g~GKStLl~~l~~~   64 (204)
T cd01878          41 IPTVALVGYTNAGKSTLFNALTGA   64 (204)
T ss_pred             CCeEEEECCCCCCHHHHHHHHhcc
Confidence            678999999999999999988876

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>PRK05201 hslU ATP-dependent protease ATP-binding subunit HslU; Provisional

Probab=92.01  E-value=0.37  Score=53.86  Aligned_cols=74  Identities=20%  Similarity=0.384  Sum_probs=44.6

Q ss_pred             CcchHHHHHHHHHHHhc---------C---CCceeEEEEEcCCCCcHHHHHHHHHhh-cCCC---CeEEEEEec-CCcCH
Q 001457          162 LKSALEVIKSVMKLLKD---------N---SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF---DKVIFVRVT-QTPDV  224 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~---------~---~~~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F---~~~~wv~vs-~~~~~  224 (1074)
                      +.|.++.++.+..++..         .   +...+.|.++|++|+||||+|+.+... ...|   +..-|.... ...+.
T Consensus        17 IiGQe~AkkalavAl~~~~~r~~l~~~~~~e~~~~~ILliGp~G~GKT~LAr~LAk~l~~~fi~vD~t~f~e~GyvG~d~   96 (443)
T PRK05201         17 IIGQDDAKRAVAIALRNRWRRMQLPEELRDEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVEATKFTEVGYVGRDV   96 (443)
T ss_pred             cCCHHHHHHHHHHHHHHHHHHhcCCcccccccCCceEEEECCCCCCHHHHHHHHHHHhCChheeecchhhccCCcccCCH
Confidence            44666667666655532         0   111367899999999999999999888 4433   222222211 12255


Q ss_pred             HHHHHHHHHHh
Q 001457          225 KRVQDEIARFL  235 (1074)
Q Consensus       225 ~~~~~~i~~~l  235 (1074)
                      ..+.+++....
T Consensus        97 e~~ir~L~~~A  107 (443)
T PRK05201         97 ESIIRDLVEIA  107 (443)
T ss_pred             HHHHHHHHHHH
Confidence            66666665544

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=92.00  E-value=0.12  Score=49.19  Aligned_cols=33  Identities=30%  Similarity=0.505  Sum_probs=25.0

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEE
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      .+++|+|..|+|||||.+.+..........+++
T Consensus        12 ~~~~i~G~nGsGKStLl~~l~g~~~~~~G~i~~   44 (137)
T PF00005_consen   12 EIVAIVGPNGSGKSTLLKALAGLLPPDSGSILI   44 (137)
T ss_dssp             SEEEEEESTTSSHHHHHHHHTTSSHESEEEEEE
T ss_pred             CEEEEEccCCCccccceeeeccccccccccccc
Confidence            489999999999999999998872223344443

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PRK00698 tmk thymidylate kinase; Validated

Probab=91.99  E-value=0.73  Score=47.30  Aligned_cols=23  Identities=26%  Similarity=0.394  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ++|+|.|+.|+||||+++.+.+.
T Consensus         4 ~~I~ieG~~gsGKsT~~~~L~~~   26 (205)
T PRK00698          4 MFITIEGIDGAGKSTQIELLKEL   26 (205)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999887

>TIGR03496 FliI_clade1 flagellar protein export ATPase FliI

Probab=91.98  E-value=0.65  Score=52.65  Aligned_cols=86  Identities=21%  Similarity=0.370  Sum_probs=49.5

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCc-CHHHHHHHHHHHhcc-------CCCcchHH------HHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTP-DVKRVQDEIARFLNT-------ELEGDVEV------LRAA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~-------~~~~~~~~------~~~~  249 (1074)
                      ..++|+|..|+|||||++.+.+.... +..+...+.+.. .+.++.......-..       .....+..      ..+-
T Consensus       138 q~~~I~G~sG~GKTtLl~~I~~~~~~-~~~vi~~iGer~~ev~e~~~~~~~~~~~~~tvvv~~tsd~~~~~r~~a~~~a~  216 (411)
T TIGR03496       138 QRMGIFAGSGVGKSTLLGMMARYTEA-DVVVVGLIGERGREVKEFIEDILGEEGLARSVVVAATADESPLMRLRAAFYAT  216 (411)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCC-CEEEEEEEecChHHHHHHHHHHhhCCCcceEEEEEECCCCCHHHHHHHHHHHH
Confidence            47999999999999999988876222 344445555432 344444444332111       01111111      1122


Q ss_pred             HHHHHHH-ccCeEEEEEcCccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWG  270 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~  270 (1074)
                      .+-+++. .++++|+++||+-.
T Consensus       217 tiAEyfr~~G~~Vll~~Dsltr  238 (411)
T TIGR03496       217 AIAEYFRDQGKDVLLLMDSLTR  238 (411)
T ss_pred             HHHHHHHHCCCCEEEEEeChHH
Confidence            3344442 58999999999864

Members of this protein family are the FliI protein of bacterial flagellum systems. This protein acts to drive protein export for flagellar biosynthesis. The most closely related family is the YscN family of bacterial type III secretion systems. This model represents one (of three) segment of the FliI family tree. These have been modeled separately in order to exclude the type III secretion ATPases more effectively.

>PRK06936 type III secretion system ATPase; Provisional

Probab=91.97  E-value=0.69  Score=52.48  Aligned_cols=87  Identities=17%  Similarity=0.295  Sum_probs=53.1

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchHHH------HH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVEVL------RA  248 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~~~------~~  248 (1074)
                      -..++|.|..|+|||||.+.+++... -+.++++-+.+.. .+.++....+..-+..       ....+...      .+
T Consensus       162 Gq~~~I~G~sG~GKStLl~~Ia~~~~-~dv~V~~liGERgrEv~ef~~~~l~~~~l~rtvvv~atsd~p~~~R~~a~~~a  240 (439)
T PRK06936        162 GQRMGIFAAAGGGKSTLLASLIRSAE-VDVTVLALIGERGREVREFIESDLGEEGLRKAVLVVATSDRPSMERAKAGFVA  240 (439)
T ss_pred             CCEEEEECCCCCChHHHHHHHhcCCC-CCEEEEEEEccCcHHHHHHHHHHhcccccceeEEEEECCCCCHHHHHHHHHHH
Confidence            34899999999999999999998722 2567788777654 3444443333221110       01111111      12


Q ss_pred             HHHHHHHH-ccCeEEEEEcCccc
Q 001457          249 AFLSERLK-RQKRVLIILDDLWG  270 (1074)
Q Consensus       249 ~~l~~~l~-~~k~~LlVlDdv~~  270 (1074)
                      ..+-+++. .++++|+++|++-.
T Consensus       241 ~tiAEyfrd~G~~Vll~~DslTR  263 (439)
T PRK06936        241 TSIAEYFRDQGKRVLLLMDSVTR  263 (439)
T ss_pred             HHHHHHHHHcCCCEEEeccchhH
Confidence            23444442 58999999999864

>PRK14737 gmk guanylate kinase; Provisional

Probab=91.96  E-value=0.14  Score=51.51  Aligned_cols=24  Identities=17%  Similarity=0.398  Sum_probs=22.3

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      .++|.|+|++|+|||||++.+...
T Consensus         4 ~~~ivl~GpsG~GK~tl~~~l~~~   27 (186)
T PRK14737          4 PKLFIISSVAGGGKSTIIQALLEE   27 (186)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhc
Confidence            578999999999999999999876

>TIGR00750 lao LAO/AO transport system ATPase

Probab=91.95  E-value=0.22  Score=54.58  Aligned_cols=37  Identities=22%  Similarity=0.406  Sum_probs=28.5

Q ss_pred             HHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          170 KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       170 ~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..+++.+........+|+|+|.+|+||||++..+...
T Consensus        21 ~~~~~~~~~~~~~~~~i~i~G~~G~GKttl~~~l~~~   57 (300)
T TIGR00750        21 KQLLDRIMPYTGNAHRVGITGTPGAGKSTLLEALGME   57 (300)
T ss_pred             HHHHHhCCcccCCceEEEEECCCCCCHHHHHHHHHHH
Confidence            3455555443344789999999999999999998876

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>PF10236 DAP3: Mitochondrial ribosomal death-associated protein 3; InterPro: IPR019368 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=91.90  E-value=7.8  Score=42.50  Aligned_cols=46  Identities=15%  Similarity=0.086  Sum_probs=32.8

Q ss_pred             eEeCCCCCHHHHHHHHHHhcCCCC-C-CchhHHHHHHHHHHhCCChHH
Q 001457          308 YVQVEELTDEDRLILFKKKAGLPE-G-TKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       308 ~~~l~~L~~~~~~~lf~~~a~~~~-~-~~~~~~~~~~i~~~c~glPLa  353 (1074)
                      ++++++++.+|+..++.-++.... . ....+...+++.-..+|.|--
T Consensus       258 ~i~v~~~s~~E~~~ll~yy~~~~~l~~~~~~~~~~e~~~~~s~GNp~e  305 (309)
T PF10236_consen  258 PIEVPRLSKEEARSLLEYYADSGWLRSRVDEELVLEKLFLSSNGNPRE  305 (309)
T ss_pred             eEEeCCCCHHHHHHHHHHHHHCCccccCCCCHHHHHHHHHhcCCCHHH
Confidence            789999999999999877765221 1 134455667777777888853

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).

>TIGR00764 lon_rel lon-related putative ATP-dependent protease

Probab=91.90  E-value=0.43  Score=57.37  Aligned_cols=71  Identities=14%  Similarity=0.165  Sum_probs=45.3

Q ss_pred             CcchHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCcCHHHHHHHHHHHhcc
Q 001457          162 LKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNT  237 (1074)
Q Consensus       162 ~~~r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~~~~~~~~~i~~~l~~  237 (1074)
                      +.|.++.++.+...+....    .+.++|++|+||||+|+.+.+.  ...|...+++. ....+...+++.++..++.
T Consensus        20 viG~~~a~~~l~~a~~~~~----~~ll~G~pG~GKT~la~~la~~l~~~~~~~~~~~~-n~~~~~~~~~~~v~~~~g~   92 (608)
T TIGR00764        20 VIGQEEAVEIIKKAAKQKR----NVLLIGEPGVGKSMLAKAMAELLPDEELEDILVYP-NPEDPNMPRIVEVPAGEGR   92 (608)
T ss_pred             ccCHHHHHHHHHHHHHcCC----CEEEECCCCCCHHHHHHHHHHHcCchhheeEEEEe-CCCCCchHHHHHHHHhhch
Confidence            4566666665555555432    5559999999999999999988  44444444332 2223445557777666653

Members of this family from Pyrococcus horikoshii and Pyrococcus abyssi each contain a predicted intein.

>PRK05688 fliI flagellum-specific ATP synthase; Validated

Probab=91.88  E-value=0.65  Score=52.86  Aligned_cols=87  Identities=18%  Similarity=0.314  Sum_probs=50.1

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhhcCCCCeEEEEEecCCc-CHHHHHHHHHHHhccC-------CCcchH------HHHHH
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTP-DVKRVQDEIARFLNTE-------LEGDVE------VLRAA  249 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~~~~F~~~~wv~vs~~~-~~~~~~~~i~~~l~~~-------~~~~~~------~~~~~  249 (1074)
                      ..++|+|..|+|||||++.+.+... .+.++...+.... ++.++...+...-+..       ....+.      ...+.
T Consensus       169 qrigI~G~sG~GKSTLl~~I~g~~~-~dv~V~g~Ig~rg~ev~~~~~~~~~~~~l~rsvvv~atsd~~p~~r~~a~~~a~  247 (451)
T PRK05688        169 QRLGLFAGTGVGKSVLLGMMTRFTE-ADIIVVGLIGERGREVKEFIEHILGEEGLKRSVVVASPADDAPLMRLRAAMYCT  247 (451)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC-CCEEEEEEeCcCcHhHHHHHHHHhhcCCccEEEEEEECCCCCHHHHHHHHHHHH
Confidence            4799999999999999999887622 2344444444332 3445444444332111       011111      11122


Q ss_pred             HHHHHHH-ccCeEEEEEcCcccc
Q 001457          250 FLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       250 ~l~~~l~-~~k~~LlVlDdv~~~  271 (1074)
                      .+-+++. +++++|+++||+-..
T Consensus       248 aiAEyfrd~G~~VLl~~DslTR~  270 (451)
T PRK05688        248 RIAEYFRDKGKNVLLLMDSLTRF  270 (451)
T ss_pred             HHHHHHHHCCCCEEEEecchhHH
Confidence            3444443 589999999998653

>KOG0738 consensus AAA+-type ATPase [Posttranslational modification, protein turnover, chaperones]

Probab=91.87  E-value=0.34  Score=52.34  Aligned_cols=24  Identities=33%  Similarity=0.375  Sum_probs=22.2

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      -+-|..+|++|.|||-||++|+..
T Consensus       245 WkgvLm~GPPGTGKTlLAKAvATE  268 (491)
T KOG0738|consen  245 WKGVLMVGPPGTGKTLLAKAVATE  268 (491)
T ss_pred             cceeeeeCCCCCcHHHHHHHHHHh
Confidence            467889999999999999999998

>PLN03046 D-glycerate 3-kinase; Provisional

Probab=91.81  E-value=0.84  Score=50.88  Aligned_cols=41  Identities=22%  Similarity=0.178  Sum_probs=28.4

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCc
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTP  222 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~  222 (1074)
                      ..-+|+|.|..|+|||||++.+..- +.....+.-|++.+-+
T Consensus       211 ~PlIIGIsG~qGSGKSTLa~~L~~lL~~~g~~vgvISiDDfY  252 (460)
T PLN03046        211 PPLVIGFSAPQGCGKTTLVFALDYLFRVTGRKSATLSIDDFY  252 (460)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHhcccCCceEEEEECCcc
Confidence            4679999999999999999999665 3222233444544433

>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=91.81  E-value=0.52  Score=46.39  Aligned_cols=42  Identities=19%  Similarity=0.203  Sum_probs=26.6

Q ss_pred             hHHHHHHHHHHHhcCCCceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       165 r~~~~~~l~~~l~~~~~~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ....+.++++.+..-.....-|.|+|..|+||+.+|+.+++.
T Consensus         4 ~s~~m~~~~~~~~~~a~~~~pVlI~GE~GtGK~~lA~~IH~~   45 (168)
T PF00158_consen    4 ESPAMKRLREQAKRAASSDLPVLITGETGTGKELLARAIHNN   45 (168)
T ss_dssp             -SHHHHHHHHHHHHHTTSTS-EEEECSTTSSHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHhCCCCCEEEEcCCCCcHHHHHHHHHHh
Confidence            334444444444321111235569999999999999999998

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 ....

>TIGR01287 nifH nitrogenase iron protein

Probab=91.80  E-value=0.17  Score=54.86  Aligned_cols=38  Identities=34%  Similarity=0.593  Sum_probs=26.9

Q ss_pred             eEEEEEcCCCCcHHHHHHHHHhh--cCCCCeEEEEEecCCc
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP  222 (1074)
Q Consensus       184 ~vi~I~G~gG~GKTtLa~~v~~~--~~~F~~~~wv~vs~~~  222 (1074)
                      +.|+|+|-||+||||+|..+...  +..+ .+.-|+.....
T Consensus         1 ~~ia~~gKGGVGKTT~a~nLA~~La~~G~-~VlliD~D~q~   40 (275)
T TIGR01287         1 RQIAIYGKGGIGKSTTTQNIAAALAEMGK-KVMIVGCDPKA   40 (275)
T ss_pred             CeeEEeCCCcCcHHHHHHHHHHHHHHCCC-eEEEEeCCCCC
Confidence            47899999999999999888777  3333 34444544433

This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.

>PLN02796 D-glycerate 3-kinase

Probab=91.77  E-value=0.35  Score=52.76  Aligned_cols=25  Identities=32%  Similarity=0.424  Sum_probs=22.8

Q ss_pred             ceeEEEEEcCCCCcHHHHHHHHHhh
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gG~GKTtLa~~v~~~  206 (1074)
                      ..-+|+|.|..|+||||||+.+...
T Consensus        99 ~pliIGI~G~sGSGKSTLa~~L~~l  123 (347)
T PLN02796         99 PPLVIGISAPQGCGKTTLVFALVYL  123 (347)
T ss_pred             CCEEEEEECCCCCcHHHHHHHHHHH
Confidence            3578999999999999999999887

>TIGR03880 KaiC_arch_3 KaiC domain protein, AF_0351 family

Probab=91.76  E-value=0.88  Score=47.52  Aligned_cols=46  Identities=26%  Similarity=0.314  Sum_probs=33.4

Q ss_pred             eeEEEEEcCCCCcHHHHHHHHHhh-cCCCCeEEEEEecCCcCHHHHHHH
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       183 ~~vi~I~G~gG~GKTtLa~~v~~~-~~~F~~~~wv~vs~~~~~~~~~~~  230 (1074)
                      -.++.|.|.+|+|||++|.++... -..=..++|++....  ..++.+.
T Consensus        16 g~~~li~G~~G~GKt~~~~~~~~~~~~~g~~~~y~s~e~~--~~~l~~~   62 (224)
T TIGR03880        16 GHVIVVIGEYGTGKTTFSLQFLYQGLKNGEKAMYISLEER--EERILGY   62 (224)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEECCCC--HHHHHHH
Confidence            569999999999999999988766 223356778887664  4444433

This model represents a rather narrowly distributed archaeal protein family in which members have a single copy of the KaiC domain. This stands in contrast to the circadian clock protein KaiC itself, with two copies of the domain. Members are expected to have weak ATPase activity, by homology to the autokinase/autophosphorylase KaiC itself.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	1074
1z6t_A	591	Structure Of The Apoptotic Protease-activating Fact		1e-06
3iza_B	1263	Structure Of An Apoptosome-Procaspase-9 Card Comple		1e-06
3sfz_A	1249	Crystal Structure Of Full-Length Murine Apaf-1 Leng		1e-04
3shf_A	1256	Crystal Structure Of The R265s Mutant Of Full-Lengt		6e-04

>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1 Bound To Adp Length = 591

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 45/158 (28%), Positives = 71/158 (44%), Gaps = 30/158 (18%)
Query: 255 LKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNY-VQVEE 313
           L++  R L+ILDD+W    L             C+I+LT+R K V D +    Y V VE 
Sbjct: 232 LRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMGPKYVVPVES 284
Query: 314 LTDEDR------LILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVR 367
              +++      L +  KKA LPE        A  ++++C   P  + +IG  LR  P R
Sbjct: 285 SLGKEKGLEILSLFVNMKKADLPE-------QAHSIIKECKGSPLVVSLIGALLRDFPNR 337
Query: 368 EW--------NEAIKRKKASTPINVEGIPEEVVLCVAL 397
            W        N+  KR + S+  + E + E + + V +
Sbjct: 338 -WEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVEM 374

>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1 Length = 1249

Iteration: 1
 Score = 45.8 bits (107), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 54/240 (22%), Positives = 97/240 (40%), Gaps = 43/240 (17%)
Query: 186 IGVYGSGGIGKTTLMKQVMKQEIPFDK--------VIFVRVTQTPDVKRVQDEIARF--- 234
           + +YG  G GK+ L  + ++     +         V   +  ++  + ++Q+   R    
Sbjct: 150 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 209
Query: 235 --LNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIIL 292
              +  L  ++E  +       L++  R L+ILDD+W    L             C+I+L
Sbjct: 210 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQCQILL 262
Query: 293 TSRFKEVCDE-MESTNYVQVEELTDEDR------LILFKKKAGLPEGTKAFDRAAEEVVR 345
           T+R K V D  M   + V VE     ++      L +  KK  LP         A  +++
Sbjct: 263 TTRDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPA-------EAHSIIK 315
Query: 346 QCGKLPNAIVIIGTALRHKPVREW--------NEAIKRKKASTPINVEGIPEEVVLCVAL 397
           +C   P  + +IG  LR  P R W        N+  KR + S+  + E + E + + V +
Sbjct: 316 ECKGSPLVVSLIGALLRDFPNR-WAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEM 374

>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length Murine Apaf-1 Length = 1256

Iteration: 1
 Score = 43.5 bits (101), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 53/240 (22%), Positives = 96/240 (40%), Gaps = 43/240 (17%)
Query: 186 IGVYGSGGIGKTTLMKQVMKQEIPFDK--------VIFVRVTQTPDVKRVQDEIARF--- 234
           + +YG  G GK+ L  + ++     +         V   +  ++  + ++Q+   R    
Sbjct: 157 VTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQE 216
Query: 235 --LNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIIL 292
              +  L  ++E  +       L++  R L+ILDD+W    L             C+I+L
Sbjct: 217 ESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQCQILL 269
Query: 293 TSRFKEVCDE-MESTNYVQVEELTDEDR------LILFKKKAGLPEGTKAFDRAAEEVVR 345
           T+  K V D  M   + V VE     ++      L +  KK  LP         A  +++
Sbjct: 270 TTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPA-------EAHSIIK 322
Query: 346 QCGKLPNAIVIIGTALRHKPVREW--------NEAIKRKKASTPINVEGIPEEVVLCVAL 397
           +C   P  + +IG  LR  P R W        N+  KR + S+  + E + E + + V +
Sbjct: 323 ECKGSPLVVSLIGALLRDFPNR-WAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVEM 381

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	1074
2a5y_B	549	CED-4; apoptosis; HET: ATP; 2.60A {Caenorhabditis	2e-46
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-43
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-08
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-07
1z6t_A	591	APAF-1, apoptotic protease activating factor 1; ca	2e-36
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	9e-23
1h6u_A	308	Internalin H; cell adhesion, leucine rich repeat,	2e-16
1m9s_A	605	Internalin B; cell invasion, GW domains, SH3 domai	5e-22
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	7e-22
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	3e-17
3t6q_A	606	CD180 antigen; protein-protein complex, leucine ri	2e-15
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	7e-22
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-21
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-17
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-17
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	3e-15
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	4e-09
4fmz_A	347	Internalin; leucine rich repeat, structural genomi	5e-06
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	1e-21
3j0a_A	844	TOLL-like receptor 5; membrane protein, leucine-ri	5e-10
3sfz_A	1249	APAF-1, apoptotic peptidase activating factor 1; a	3e-21
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-21
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	1e-18
3o53_A	317	Protein LRIM1, AGAP006348-PA; leucine-rich repeat,	4e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	5e-21
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	6e-14
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	1e-12
2z66_A	306	Variable lymphocyte receptor B, TOLL-like recepto;	3e-06
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	2e-20
1h6t_A	291	Internalin B; cell adhesion, leucine rich repeat,	3e-15
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-20
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-18
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	9e-18
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	2e-16
1ziw_A	680	TOLL-like receptor 3; innate immunity, immune syst	1e-15
1o6v_A	466	Internalin A; bacterial infection, extracellular r	2e-20
1o6v_A	466	Internalin A; bacterial infection, extracellular r	8e-20
1o6v_A	466	Internalin A; bacterial infection, extracellular r	3e-19
1o6v_A	466	Internalin A; bacterial infection, extracellular r	9e-18
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	3e-20
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	1e-19
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-19
2z63_A	570	TOLL-like receptor 4, variable lymphocyte recepto;	2e-17
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-18
3oja_A	487	Leucine-rich immune molecule 1; coiled-coil, helix	4e-09
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-19
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	1e-17
3zyi_A	452	Leucine-rich repeat-containing protein 4; cell adh	7e-10
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-19
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-19
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	9e-18
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-17
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	5e-17
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	1e-16
3vq2_A	606	TLR4, TOLL-like receptor 4; leucine rich repeat MD	3e-16
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	2e-19
3jqh_A	167	C-type lectin domain family 4 member M; DC-signr,	3e-16
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	2e-19
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	9e-18
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	5e-16
1ozn_A	285	Reticulon 4 receptor; NOGO receptor, MAD, myelinat	4e-11
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	5e-19
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	1e-17
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	2e-17
2z81_A	549	CD282 antigen, TOLL-like receptor 2, variable lymp	6e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-19
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	3e-17
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	5e-17
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	8e-15
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-06
3fxi_A	605	TLR4, htoll, TOLL-like receptor 4; leucine rich re	2e-06
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	7e-19
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	3e-18
3zyj_A	440	Leucine-rich repeat-containing protein 4C; cell ad	2e-10
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-18
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	1e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	4e-13
4ecn_A	876	Leucine-rich repeat protein; leucine-rich repeats,	3e-11
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	4e-18
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	3e-17
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	5e-17
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	7e-17
3o6n_A	390	APL1; leucine-rich repeat, protein binding; HET: N	8e-15
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	4e-18
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-17
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	1e-15
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-15
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-13
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	5e-09
1jl5_A	454	Outer protein YOPM; leucine-rich repeat, molecular	2e-04
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-18
3oja_B	597	Anopheles plasmodium-responsive leucine-rich REPE	4e-17
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-17
1xeu_A	263	Internalin C; cellular invasion, leucine-rich repe	1e-13
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	2e-17
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-16
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	3e-11
4fcg_A	328	Uncharacterized protein; structural genomics, PSI-	1e-10
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	2e-17
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-15
2id5_A	477	Lingo-1, leucine rich repeat neuronal 6A; CNS-spec	9e-15
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	2e-17
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	1e-14
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-14
1xku_A	330	Decorin; proteoglycan, leucine-rich repeat, struct	3e-14
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	4e-16
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	1e-14
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	9e-12
3bz5_A	457	Internalin-J, INLJ; leucine rich repeat (LRR), cys	2e-07
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	6e-16
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	1e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-11
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	2e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	7e-10
3rgz_A	768	Protein brassinosteroid insensitive 1; phytohormon	4e-09
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	1e-15
2z7x_B	520	TOLL-like receptor 1, variable lymphocyte recepto;	5e-12
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-15
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-14
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	2e-13
1p9a_G	290	Platelet glycoprotein IB alpha chain precursor; pl	1e-09
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-15
4ezg_A	197	Putative uncharacterized protein; internalin-A, le	2e-11
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-15
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	8e-15
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	2e-14
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-14
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	3e-08
3g06_A	622	SSPH2 (leucine-rich repeat protein); E3 ubiquitin	5e-08
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	1e-14
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	6e-12
3cvr_A	571	Invasion plasmid antigen; leucine rich repeat and	6e-10
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	1e-14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	2e-14
2ft3_A	332	Biglycan; proteoglycan, dimer interface, structura	3e-12
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-14
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	8e-14
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	1e-13
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-13
2z80_A	353	TOLL-like receptor 2, variable lymphocyte recepto;	2e-11
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	1e-14
2z62_A	276	TOLL-like receptor 4, variable lymphocyte recepto;	2e-13
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	3e-14
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-08
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	2e-08
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	4e-06
2xwt_C	239	Thyrotropin receptor; signaling protein-immune sys	1e-04
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-14
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	4e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-11
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	5e-05
3v47_A	455	TOLL-like receptor 5B and variable lymphocyte REC	3e-04
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	6e-14
2o6q_A	270	Variable lymphocyte receptor A; leucine-rich repea	8e-12
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	7e-14
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-13
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	2e-08
4ay9_X	350	Follicle-stimulating hormone receptor; hormone-rec	3e-06
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	2e-13
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	1e-11
3a79_B	562	TLR6, VLRB.59, TOLL-like receptor 6, variable lymp	5e-04
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	5e-13
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	2e-12
2xot_A	361	Amphoterin-induced protein 1; cell adhesion, neuro	1e-07
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	2e-12
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	1e-10
4eco_A	636	Uncharacterized protein; leucine-rich repeats, pro	7e-10
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	2e-11
3ogk_B	592	Coronatine-insensitive protein 1; leucine rich rep	3e-10
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	1e-10
1wwl_A	312	Monocyte differentiation antigen CD14; LPS, immune	3e-08
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	4e-10
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	4e-10
3rfs_A	272	Internalin B, repeat modules, variable lymphocyte	1e-04
2p1m_B	594	Transport inhibitor response 1 protein; F-BOX, leu	7e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	8e-10
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	4e-07
2v9t_B	220	SLIT homolog 2 protein N-product; structural prote	1e-09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	2e-09
1ds9_A	198	Outer arm dynein; leucine-rich repeat, beta-BETA-a	1e-06
2v70_A	220	SLIT-2, SLIT homolog 2 protein N-product; neurogen	5e-09
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	7e-09
2ell_A	168	Acidic leucine-rich nuclear phosphoprotein 32 FAM	7e-06
3m19_A	251	Variable lymphocyte receptor A diversity region; a	7e-09
3m19_A	251	Variable lymphocyte receptor A diversity region; a	9e-06
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	1e-08
2je0_A	149	Acidic leucine-rich nuclear phosphoprotein 32 FAM	9e-06
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	2e-08
1a9n_A	176	U2A', U2A'; complex (nuclear protein/RNA), RNA, sn	3e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	1e-07
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	2e-06
1ogq_A	313	PGIP-2, polygalacturonase inhibiting protein; inhi	6e-04
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-07
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	6e-06
2ifg_A	347	High affinity nerve growth factor receptor; TRK, T	1e-05
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	3e-07
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	2e-06
1z7x_W	461	Ribonuclease inhibitor; leucine-rich repeat, enzym	3e-05
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	4e-06
2ca6_A	386	RAN GTPase-activating protein 1; GAP, GTPase activ	1e-04
1w8a_A	192	SLIT protein; signaling protein, secreted protein,	7e-06
3e6j_A	229	Variable lymphocyte receptor diversity region; var	1e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	3e-05
2wfh_A	193	SLIT homolog 2 protein C-product; developmental pr	3e-04
2ra8_A	362	Uncharacterized protein Q64V53_bacfr; WGR domain,	3e-05
2o6s_A	208	Variable lymphocyte receptor B; leucine-rich repea	2e-04
3rfe_A	130	Platelet glycoprotein IB beta chain; platelet surf	5e-04

>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 =  175 bits (444), Expect = 2e-46
 Identities = 58/466 (12%), Positives = 149/466 (31%), Gaps = 40/466 (8%)

Query: 51  RDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWH 110
            D E +  D L +++      E+    +     +  +    + +   +  +       ++
Sbjct: 19  HDFEPR--DALTYLEGKNIFTEDHSELISKMSTRLERIANFLRIYRRQASELGPLIDFFN 76

Query: 111 LDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSAL---- 166
            + +    L+          I    L     I+       +        VP +       
Sbjct: 77  YNNQSH--LADFLEDYIDFAINEPDLLRPVVIAPQFSRQMLDRKLLLGNVPKQMTCYIRE 134

Query: 167 -EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQV-----MKQEIPFDKVIFVRVTQ 220
             V + + KL +   +    + ++G  G GK+ +  Q          I +D +++++ + 
Sbjct: 135 YHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSG 194

Query: 221 TPDVK----------RVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWG 270
           T               ++ E        +E    V+    +   L  +   L + DD+  
Sbjct: 195 TAPKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDRPNTLFVFDDVVQ 254

Query: 271 KLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNY-VQVEELTDEDRLILFKKKAGL 329
           +  +         +    + ++T+R  E+ +    T   ++V  L  ++     +     
Sbjct: 255 EETIRWA------QELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMP 308

Query: 330 PEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGI-- 387
               +  +    + +      P  +++   +   K   +  +   + ++   + VE I  
Sbjct: 309 MPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECITP 368

Query: 388 --PEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQVGLLGE 445
              + + + +    + L    +S L F+ + PP   + ++ +     VD    +   L +
Sbjct: 369 YSYKSLAMALQRCVEVLSDEDRSALAFAVVMPPGVDIPVKLWSCVIPVDICSNEEEQLDD 428

Query: 446 VGNRVHPVVLRLISSSLLLEGDRES--CFRIHDDTRKVVKYIAARE 489
                     RL     LL G R     F+I       +K++   +
Sbjct: 429 EVADRL---KRLSKRGALLSGKRMPVLTFKIDHIIHMFLKHVVDAQ 471

>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 =  172 bits (436), Expect = 1e-43
 Identities = 105/654 (16%), Positives = 211/654 (32%), Gaps = 176/654 (26%)

Query: 38  RYGSNIGAFRER-ARDLEAKKT-DVLRFV---KDAEDRGEEIKAEVRN----WQVQTIQY 88
           +Y   +  F +    + + K   D+ + +   ++ +       A        W + + Q 
Sbjct: 17  QYKDILSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQE 76

Query: 89  EMDVELLEEKIQKSEGRCHTWHLD-WRKRHQLSRVATKKTVEIIEHIRLSNFESISFPAR 147
           EM  + +EE ++ +    + + +   +   +   + T+  +E  +  RL N         
Sbjct: 77  EMVQKFVEEVLRIN----YKFLMSPIKTEQRQPSMMTRMYIE--QRDRLYN--------- 121

Query: 148 SADVRSIPTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVM--- 204
             D +       V        ++  +  L+        + + G  G GKT +   V    
Sbjct: 122 --DNQVFA-KYNVSRLQPYLKLRQALLELRPAKN----VLIDGVLGSGKTWVALDVCLSY 174

Query: 205 KQEIPFDKVIF---VRVTQTPD--VKRVQD---EIARFLNTELEGDVEV-LRAAFLSERL 255
           K +   D  IF   ++   +P+  ++ +Q    +I     +  +    + LR   +   L
Sbjct: 175 KVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAEL 234

Query: 256 KRQ------KRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYV 309
           +R       +  L++L ++          +        CKI+LT+RFK+V D + +    
Sbjct: 235 RRLLKSKPYENCLLVLLNVQNAKAWNAFNL-------SCKILLTTRFKQVTDFLSAATTT 287

Query: 310 QV------EELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRH 363
            +        LT ++   L  K                EV       P  + II  ++R 
Sbjct: 288 HISLDHHSMTLTPDEVKSLLLKYLDCR-----PQDLPREV---LTTNPRRLSIIAESIRD 339

Query: 364 KPVREWNEAIKRKKASTPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVS 423
                W+   K                      +  D+L T+ +S L    L P  Y   
Sbjct: 340 GLAT-WDN-WKH---------------------VNCDKLTTIIESSLN--VLEPAEYRKM 374

Query: 424 MEEFVIHGLVDRLFP-------QV-GLL--GEVGNRVHPVVLRLISSSLLLEGDRESCFR 473
            +   +       FP        +  L+    + + V  VV +L   SL+ +  +ES   
Sbjct: 375 FDRLSV-------FPPSAHIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTIS 427

Query: 474 IHD---DT-----------RKVV-KYIAAR--EGDHFIAEPGMKKGWPRED--------- 507
           I     +            R +V  Y   +  + D  I         P  D         
Sbjct: 428 IPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIP--------PYLDQYFYSHIGH 479

Query: 508 -LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTN 566
            L+N E    M                  +FL      D    F E  ++I++   +   
Sbjct: 480 HLKNIEHPERMTL-------------FRMVFL------DF--RFLE--QKIRHDSTAWNA 516

Query: 567 ISSLAPSLPCLEKLRSLHLENTHLNDASL--IREF---GELEVLILKGSRIVEL 615
             S+  +L  L+  +    +N    +  +  I +F    E  ++  K + ++ +
Sbjct: 517 SGSILNTLQQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRI 570

>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 = 57.2 bits (137), Expect = 3e-08
 Identities = 119/778 (15%), Positives = 216/778 (27%), Gaps = 271/778 (34%)

Query: 202 QVMKQEIPFDKVIFV---RVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQ 258
           +  + +  +  ++ V         D K VQD     L+ E E D  ++ +    + +   
Sbjct: 10  ETGEHQYQYKDILSVFEDAFVDNFDCKDVQDMPKSILSKE-EID-HIIMS---KDAVSGT 64

Query: 259 KRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNY-VQVEELTDE 317
            R+   L                 EE       +  +F E   E+   NY   +  +  E
Sbjct: 65  LRLFWTLLS-------------KQEE-------MVQKFVE---EVLRINYKFLMSPIKTE 101

Query: 318 DRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVII--GTALRHKPVREWNEAIKR 375
            R          P             + Q  +L N   +       R +P  +  +A+  
Sbjct: 102 QRQ---------PSMMT------RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLE 146

Query: 376 KKASTPINVEGIPEEVVLCVALGYDQLETVAKSCL--------QFSCLFPPYYSVSMEEF 427
            + +  + ++G+          G        K+ +        +  C            F
Sbjct: 147 LRPAKNVLIDGVL---------G------SGKTWVALDVCLSYKVQCKMD---------F 182

Query: 428 VIHGLVDRLFPQVGLLGEVGNRVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVVKYIAA 487
            I  L             + N   P  +  +   LL + D     R    +   ++  + 
Sbjct: 183 KIFWL------------NLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSI 230

Query: 488 REGD-HFIAEPGMKKGWPR-----EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNN 541
           +      +      K +        ++QN +  +  +           C  L T      
Sbjct: 231 QAELRRLLKS----KPYENCLLVLLNVQNAKAWNAFNL---------SCKILLT------ 271

Query: 542 PFADIPNAFFEHTREIKNLD-LSSTNIS--SLAPSLPCLEKLRSLHL--ENTHLNDASLI 596
                       TR  +  D LS+   +  SL      L       L  +        L 
Sbjct: 272 ------------TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319

Query: 597 REFGELEVLILKGSRIVE-LPNGIGTVSNLKLLDLSN-----NLFLQVIPPNVISKLSQL 650
           RE   L     + S I E + +G+ T  N K ++           L V+ P    K+   
Sbjct: 320 RE--VLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM--F 375

Query: 651 EELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKR 710
           + L V                   F   A +            T +LS+     W ++ +
Sbjct: 376 DRLSV-------------------FPPSAHIP-----------TILLSL----IWFDVIK 401

Query: 711 FRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGF 770
                  D   +  K    L   S         L+EK                    +  
Sbjct: 402 ------SDVMVVVNK----LHKYS---------LVEK------------------QPKES 424

Query: 771 T-GLMCMHLRACSMQRIFHSNFYPTVQILEELH---VEYCYSLKEVFCLEDI-------- 818
           T  +  ++L                ++    LH   V+  Y++ + F  +D+        
Sbjct: 425 TISIPSIYLELK-----------VKLENEYALHRSIVD-HYNIPKTFDSDDLIPPYLDQY 472

Query: 819 ----------EGEQAGLKRLRELVLVGL----PKVL---TIWKGNHSVV-YLKTLKLMK- 859
                       E      L  +V +       K+    T W  + S++  L+ LK  K 
Sbjct: 473 FYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTAWNASGSILNTLQQLKFYKP 532

Query: 860 --VKDCGKL-RYL-----FSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQ 909
               +  K  R +     F   + E L   +   +L+  LM E    DEA  E+   Q
Sbjct: 533 YICDNDPKYERLVNAILDFLPKIEENLICSKYTDLLRIALMAE----DEAIFEEAHKQ 586

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

 Score = 55.2 bits (132), Expect = 1e-07
 Identities = 91/618 (14%), Positives = 186/618 (30%), Gaps = 172/618 (27%)

Query: 537  FLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLI 596
            F+ N    D+     +  + I    LS   I  +  S   +     L             
Sbjct: 29   FVDNFDCKDVQ----DMPKSI----LSKEEIDHIIMSKDAVSGTLRL------------- 67

Query: 597  REFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKL--SQLEELY 654
                    L+ K   +V+    +  V  +    L + +  +   P++++++   Q + LY
Sbjct: 68   -----FWTLLSKQEEMVQ--KFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120

Query: 655  VGNS-FGDWEVEETANGQNARFSEVASLTRL--------------------TVLYIHVSN 693
              N  F  + V         R      L +                     T + + V  
Sbjct: 121  NDNQVFAKYNVS--------RLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCL 172

Query: 694  TKVLSVDFDGP--WTNLKRFR-----------VCVN-DDYWEIAPKRSMHLKNLSNSIAS 739
            +  +    D    W NLK              +    D  W      S ++K   +SI +
Sbjct: 173  SYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQA 232

Query: 740  WVKLLLEKTEY----LTLTRSSNLQDIGEIDVQGFTGLMCMHL---RACSMQRIFHSNFY 792
             ++ LL+   Y    L L    N+Q+    +   F  L C  L   R   +     +   
Sbjct: 233  ELRRLLKSKPYENCLLVL---LNVQNAKAWNA--F-NLSCKILLTTRFKQVTDFLSAATT 286

Query: 793  PTVQILEELHVEYCYSLKEVF--CLEDIEGEQAGLKRLRELVLVGLPKVLTI-------- 842
              + +           +K +    L+    +      L   VL   P+ L+I        
Sbjct: 287  THISLDHHSMTLTPDEVKSLLLKYLDCRPQD------LPREVLTTNPRRLSIIAESIRDG 340

Query: 843  ---WKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTL--AEGLGNLEDLSILKCD--LMEEI 895
               W         K +   K+     +       L  AE     + LS+      +   +
Sbjct: 341  LATWD------NWKHVNCDKLT---TIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTIL 391

Query: 896  VSV-----DEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQ 950
            +S+      +++V     +                K  L+ K  K +  +S+    ++  
Sbjct: 392  LSLIWFDVIKSDVMVVVNKLH--------------KYSLVEKQPK-ESTISI---PSIYL 433

Query: 951  LEELTVASCNHMERIITVSDEEKAAENKNVLPKLKI-----------LALEDLPELDSVY 999
              ++ + +   + R I          + + L    +           L   + PE  +++
Sbjct: 434  ELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLF 493

Query: 1000 NGEIAALRWPSLEELKV------WDCPKLMKLPLDTRSAPKLETFKAHSAWFEKLQWNEG 1053
                   R+  LE+ K+      W+    +   L+T    +L+ +K +      +  N+ 
Sbjct: 494  RMVFLDFRF--LEQ-KIRHDSTAWNASGSI---LNTLQ--QLKFYKPY------ICDNDP 539

Query: 1054 YSKLRLQPLLNENFKDEE 1071
              +  +  +L+   K EE
Sbjct: 540  KYERLVNAILDFLPKIEE 557

>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 =  145 bits (367), Expect = 2e-36
 Identities = 72/469 (15%), Positives = 156/469 (33%), Gaps = 62/469 (13%)

Query: 51  RDLEAKKTDVLRFVKDAEDRGEEIKAEVRNWQVQTIQYEMDVELLEEKIQKSEGRCHTWH 110
           +D++     ++  +          + +VRN   Q  +      +L + I K +   +   
Sbjct: 18  KDIKTS--YIMDHMISDGFLTISEEEKVRNEPTQQQR----AAMLIKMILKKDNDSYVSF 71

Query: 111 LDWRKRHQLSRVATKKTVEIIEHIRLSNFESISFPARSADVRSIPTPEFVPLKSAL---- 166
            +         +A          +  S+    S    ++ VR++     VP +  +    
Sbjct: 72  YNALLHEGYKDLAALL--HDGIPVVSSSSGKDSVSGITSYVRTVLCEGGVPQRPVVFVTR 129

Query: 167 -EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQV-----MKQEIPFDKVIFVRVTQ 220
            +++ ++ + L         + ++G  G GK+ L  +      + +      V +V V +
Sbjct: 130 KKLVNAIQQKLSKLKGEPGWVTIHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGK 189

Query: 221 TPDVKRV---QDEIARFLNTELEGDVEVLRAAFLSERLK-----RQKRVLIILDDLWGKL 272
                 +   Q+   R    E       L      +RL+     +  R L+ILDD+W   
Sbjct: 190 QDKSGLLMKLQNLCTRLDQDESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSW 249

Query: 273 DLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYV--QVEELTDEDRLILFKKKAGLP 330
            L             C+I+LT+R K V D +    YV      L  E  L +      + 
Sbjct: 250 VLKAFD-------SQCQILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNMK 302

Query: 331 EGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKP--VREWNEAIKRKKASTPINVEGIP 388
           +        A  ++++C   P  + +IG  LR  P     + + ++ K+           
Sbjct: 303 K--ADLPEQAHSIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYD 360

Query: 389 EEVVLCV-ALGYDQLETVAKSCLQFSCLFPPYYSVS---------MEEFVIHG----LVD 434
            E +    ++  + L    K       +      V          ME   +       V+
Sbjct: 361 YEALDEAMSISVEMLREDIKDYYTDLSILQKDVKVPTKVLCILWDMETEEVEDILQEFVN 420

Query: 435 RLFPQVGLLGEVGN-RVHPVVLRLISSSLLLEGDRESCFRIHDDTRKVV 482
           +        G+     +H + +  ++         ++C ++ D  +K++
Sbjct: 421 KSLLFCDRNGKSFRYYLHDLQVDFLTE--------KNCSQLQDLHKKII 461

>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 = 99.4 bits (248), Expect = 9e-23
 Identities = 58/267 (21%), Positives = 102/267 (38%), Gaps = 34/267 (12%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P   L N  K++    NVT    Q     +TTL         I     ++   +  L+L 
Sbjct: 14  PDPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEG--VQYLNNLIGLELK 71

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
              I+ LAP L  L K+  L L    L + S I     ++ L L  ++I ++   +  +S
Sbjct: 72  DNQITDLAP-LKNLTKITELELSGNPLKNVSAIAGLQSIKTLDLTSTQITDVTP-LAGLS 129

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
           NL++L L  N  +  I P  ++ L+ L+ L +GN             Q +  + +A+L++
Sbjct: 130 NLQVLYLDLNQ-ITNISP--LAGLTNLQYLSIGN-----------A-QVSDLTPLANLSK 174

Query: 684 LTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVN--DDYWEIAPKRSMHLKNL------SN 735
           LT L     + K+  +       NL    +  N   D   +A     +  NL      + 
Sbjct: 175 LTTLKA--DDNKISDISPLASLPNLIEVHLKNNQISDVSPLA-----NTSNLFIVTLTNQ 227

Query: 736 SIASWVKLLLEKTEYLTLTRSSNLQDI 762
           +I +             + +  +   I
Sbjct: 228 TITNQPVFYNNNLVVPNVVKGPSGAPI 254

>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 = 80.5 bits (199), Expect = 2e-16
 Identities = 36/185 (19%), Positives = 63/185 (34%), Gaps = 10/185 (5%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P   L N + L L    +T +        L  L + N   +D+      +  ++  L   
Sbjct: 124 PLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTP--LANLSKLTTLKAD 181

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
              IS +   L  L  L  +HL+N  ++D S +     L ++ L    I   P       
Sbjct: 182 DNKISDI-SPLASLPNLIEVHLKNNQISDVSPLANTSNLFIVTLTNQTITNQPVFYNN-- 238

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
           NL + ++        I P  IS         +      W +    N  +  F++  +   
Sbjct: 239 NLVVPNVVKGPSGAPIAPATISDNGTYASPNL-----TWNLTSFINNVSYTFNQSVTFKN 293

Query: 684 LTVLY 688
            TV +
Sbjct: 294 TTVPF 298

>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 =  100 bits (251), Expect = 5e-22
 Identities = 48/245 (19%), Positives = 100/245 (40%), Gaps = 26/245 (10%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P +      K +L   +VT    Q +   +  +   N+    +     ++   +  L L+
Sbjct: 16  PDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLN 73

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
              ++ + P L  L+ L  L L+   + D S +++  +L+ L L+ + I ++ NG+  + 
Sbjct: 74  GNKLTDIKP-LTNLKNLGWLFLDENKIKDLSSLKDLKKLKSLSLEHNGISDI-NGLVHLP 131

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
            L+ L L NN  +  I    +S+L++L+ L + +           N Q +    +A LT+
Sbjct: 132 QLESLYLGNNK-ITDITV--LSRLTKLDTLSLED-----------N-QISDIVPLAGLTK 176

Query: 684 LTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRS-----MHLKNLSNSIA 738
           L  LY+  S   +  +       NL    +   +   +    +S       +KN   S+ 
Sbjct: 177 LQNLYL--SKNHISDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSLV 234

Query: 739 SWVKL 743
           +   +
Sbjct: 235 TPEII 239

>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 =  100 bits (251), Expect = 7e-22
 Identities = 80/535 (14%), Positives = 157/535 (29%), Gaps = 100/535 (18%)

Query: 512  EKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSL 570
            +  +  +  +  +P   P       L    N    I N  F     +  LDL+   I  +
Sbjct: 15   KTYNCENLGLNEIPGTLP--NSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWI 72

Query: 571  AP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNG-IGTVSNLK 626
               +     +L +L L    L     + +     L+ L    + I  +    +     L+
Sbjct: 73   HEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLE 132

Query: 627  LLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRLT 685
             L L +N  +  I         +L+ L    N+      E+ ++           L + T
Sbjct: 133  SLYLGSNH-ISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMSS-----------LQQAT 180

Query: 686  VLYIHVSNTKVLSVD---FDGPWTNLKRFRVCVNDDYWEIAPKRS-----MHLKNLSNSI 737
             L ++++   +  ++   FD        F    N        K S               
Sbjct: 181  NLSLNLNGNDIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDD 240

Query: 738  ASWVKLLLEKTEYLTLTR---SSN-LQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYP 793
                  + E    +++       +   +I       F+GL  + L A  +  +  S    
Sbjct: 241  EDISPAVFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSEL-PSGLVG 299

Query: 794  TVQILEELHVEYCYSLKEVFCLEDIEGEQ-AGLKRLRELVLVGLPKVLTIWKGNHSVVYL 852
                L++L +            E++     +    L  L +          KGN   + L
Sbjct: 300  LST-LKKLVLSANK-------FENLCQISASNFPSLTHLSI----------KGNTKRLEL 341

Query: 853  KTLKLMKVKDCGKLRYL-----------FSRTLAEGLGNLEDLSILKCDLMEEIVSVDEA 901
             T  L   ++   LR L                   L +L+ L++   +           
Sbjct: 342  GTGCL---ENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEP---------- 388

Query: 902  EVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNH 961
                                 P L+ L +    ++K   + +   NL  L+ L + S + 
Sbjct: 389  ----------LSLKTEAFKECPQLELLDLAF-TRLKVKDAQSPFQNLHLLKVLNL-SHSL 436

Query: 962  MERIITVSDEEKAAENKNVLPKLKILALED--LPELDSVYNGEIAALRWPSLEEL 1014
            ++            +  + LP L+ L L+    P+ +      +  L    LE L
Sbjct: 437  LDISS--------EQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTL--GRLEIL 481

>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 = 85.5 bits (212), Expect = 3e-17
 Identities = 65/404 (16%), Positives = 141/404 (34%), Gaps = 50/404 (12%)

Query: 507 DLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS 564
            L N   L L    +  + +       RL TL L  NP   +        + +K+L    
Sbjct: 55  RLINLTFLDLTRCQIYWIHEDTFQSQHRLDTLVLTANPLIFMAETALSGPKALKHLFFIQ 114

Query: 565 TNISSLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNG-IG 620
           T ISS+    L   + L SL+L + H++           +L+VL  + + I  L    + 
Sbjct: 115 TGISSIDFIPLHNQKTLESLYLGSNHISSIKLPKGFPTEKLKVLDFQNNAIHYLSKEDMS 174

Query: 621 TVSNLKL--LDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEV 678
           ++       L+L+ N  +  I P            + G        +   N         
Sbjct: 175 SLQQATNLSLNLNGN-DIAGIEPGAFDSAVFQSLNFGGTQNLLVIFKGLKN--------- 224

Query: 679 ASLTRLTVLYI-HVSNTKVLSVDFDG-PWTNLKRFRVCVNDDYWEIAPKRSMHLKNL--- 733
           +++  L +     + +  +    F+G    +++   +  +  +  I+         L   
Sbjct: 225 STIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESINLQKHYFF-NISSNTFHCFSGLQEL 283

Query: 734 ---SNSIASWVKLL--LEKTEYLTLTRSSN-LQDIGEIDVQGFTGLMCMHLRACSMQRIF 787
              +  ++     L  L   + L L  S+N  +++ +I    F  L  + ++  + +   
Sbjct: 284 DLTATHLSELPSGLVGLSTLKKLVL--SANKFENLCQISASNFPSLTHLSIKGNTKRLEL 341

Query: 788 HSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVL-----VGLPKVLTI 842
            +     ++ L EL + +     ++   +    +   L  L+ L L     + L      
Sbjct: 342 GTGCLENLENLRELDLSHD----DIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKT--EA 395

Query: 843 WKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSI 886
           +K       L+ L L       +L+   +++  + L  L+ L++
Sbjct: 396 FKECPQ---LELLDL---AFT-RLKVKDAQSPFQNLHLLKVLNL 432

>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 = 79.7 bits (197), Expect = 2e-15
 Identities = 33/181 (18%), Positives = 69/181 (38%), Gaps = 33/181 (18%)

Query: 512 EKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADI-PNAFFEHTREIKNLDLSSTNIS 568
           + L+L      +L  +   +CP+L  L L           + F++   +K L+LS + + 
Sbjct: 379 QSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLD 438

Query: 569 SLAP-SLPCLEKLRSLHLENTHLND-----ASLIREFGELEVLILKGSRIVELPNGI-GT 621
             +      L  L+ L+L+  H         + ++  G LE+L+L    +  +      +
Sbjct: 439 ISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTS 498

Query: 622 VSNLKLLDLSNNLF----------------------LQVIPPNVISKLSQLEELYV-GNS 658
           +  +  +DLS+N                        + +I P+++  LSQ   + +  N 
Sbjct: 499 LKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQNP 558

Query: 659 F 659
            
Sbjct: 559 L 559

>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 = 97.6 bits (244), Expect = 7e-22
 Identities = 43/207 (20%), Positives = 85/207 (41%), Gaps = 20/207 (9%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P  DL    +  L   +VT +  Q +   +T L +     A I     E+   ++ L+L+
Sbjct: 17  PDADLAEGIRAVLQKASVTDVVTQEELESITKLVVAGEKVASIQG--IEYLTNLEYLNLN 74

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
              I+ ++P L  L KL +L++    + D S ++    L  L L    I ++   +  ++
Sbjct: 75  GNQITDISP-LSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNEDNISDISP-LANLT 132

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
            +  L+L  N  L  + P  +S ++ L  L V             + +    + +A+LT 
Sbjct: 133 KMYSLNLGANHNLSDLSP--LSNMTGLNYLTVTE-----------S-KVKDVTPIANLTD 178

Query: 684 LTVLYIHVSNTKVLSVDFDGPWTNLKR 710
           L  L +  +  ++  +      T+L  
Sbjct: 179 LYSLSL--NYNQIEDISPLASLTSLHY 203

>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 = 95.7 bits (239), Expect = 3e-21
 Identities = 39/188 (20%), Positives = 78/188 (41%), Gaps = 20/188 (10%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
            +E+L++  KL +    V ++        L  L L  N   DI      +  ++ NL + 
Sbjct: 39  TQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIG 96

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
           +  I+ +  +L  L  LR L+L   +++D S +    ++  L L  +  +   + +  ++
Sbjct: 97  TNKITDI-SALQNLTNLRELYLNEDNISDISPLANLTKMYSLNLGANHNLSDLSPLSNMT 155

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVG-NSFGDWEVEETANGQNARFSEVASLT 682
            L  L ++ +  ++ + P  I+ L+ L  L +  N   D              S +ASLT
Sbjct: 156 GLNYLTVTES-KVKDVTP--IANLTDLYSLSLNYNQIED-------------ISPLASLT 199

Query: 683 RLTVLYIH 690
            L     +
Sbjct: 200 SLHYFTAY 207

>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 = 83.7 bits (208), Expect = 3e-17
 Identities = 33/153 (21%), Positives = 69/153 (45%), Gaps = 7/153 (4%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
             L +    +     +T +       RL +L + NN   D+      +  ++  L++ + 
Sbjct: 196 ASLTSLHYFTAYVNQITDITPVANMTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTN 253

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVEL-PNGIGTVSN 624
            IS +  ++  L KL+ L++ +  ++D S++    +L  L L  +++       IG ++N
Sbjct: 254 QISDI-NAVKDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTN 312

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           L  L LS N  +  I P  ++ LS+++     N
Sbjct: 313 LTTLFLSQNH-ITDIRP--LASLSKMDSADFAN 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 = 83.4 bits (207), Expect = 4e-17
 Identities = 31/178 (17%), Positives = 70/178 (39%), Gaps = 18/178 (10%)

Query: 513 KLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP 572
            L+ +   +  +             LQ     D+     E    I  L ++   ++S+  
Sbjct: 4   TLATLPAPINQIFPDADLAEGIRAVLQKASVTDVVT--QEELESITKLVVAGEKVASI-Q 60

Query: 573 SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSN 632
            +  L  L  L+L    + D S +    +L  L +  ++I ++   +  ++NL+ L L+ 
Sbjct: 61  GIEYLTNLEYLNLNGNQITDISPLSNLVKLTNLYIGTNKITDISA-LQNLTNLRELYLNE 119

Query: 633 NLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIH 690
           +  +  I P  ++ L+++  L +G            N   +  S ++++T L  L + 
Sbjct: 120 DN-ISDISP--LANLTKMYSLNLGA-----------NHNLSDLSPLSNMTGLNYLTVT 163

>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 = 77.6 bits (192), Expect = 3e-15
 Identities = 35/185 (18%), Positives = 65/185 (35%), Gaps = 22/185 (11%)

Query: 533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND 592
             TL     P   I         E     L   +++ +  +   LE +  L +    +  
Sbjct: 2   AATLATLPAPINQIFP--DADLAEGIRAVLQKASVTDV-VTQEELESITKLVVAGEKVAS 58

Query: 593 ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEE 652
              I     LE L L G++I ++   +  +  L  L +  N  +  I    +  L+ L E
Sbjct: 59  IQGIEYLTNLEYLNLNGNQITDISP-LSNLVKLTNLYIGTNK-ITDISA--LQNLTNLRE 114

Query: 653 LYV-GNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRF 711
           LY+  ++  D              S +A+LT++  L +  +N  +  +      T L   
Sbjct: 115 LYLNEDNISD-------------ISPLANLTKMYSLNLG-ANHNLSDLSPLSNMTGLNYL 160

Query: 712 RVCVN 716
            V  +
Sbjct: 161 TVTES 165

>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 = 58.7 bits (143), Expect = 4e-09
 Identities = 21/129 (16%), Positives = 43/129 (33%), Gaps = 26/129 (20%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
            +L     L +    ++ +       +L  L + +N  +DI      +  ++ +L L++ 
Sbjct: 240 ANLSQLTWLEIGTNQISDINAVKDLTKLKMLNVGSNQISDISV--LNNLSQLNSLFLNNN 297

Query: 566 NISSLAPS-LPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSN 624
            + +     +  L  L +L L   H+ D   IR    L                    S 
Sbjct: 298 QLGNEDMEVIGGLTNLTTLFLSQNHITD---IRPLASL--------------------SK 334

Query: 625 LKLLDLSNN 633
           +   D +N 
Sbjct: 335 MDSADFANQ 343

>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 = 49.1 bits (118), Expect = 5e-06
 Identities = 18/85 (21%), Positives = 34/85 (40%), Gaps = 1/85 (1%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           +DL   + L++    ++ +       +L +LFL NN   +           +  L LS  
Sbjct: 262 KDLTKLKMLNVGSNQISDISVLNNLSQLNSLFLNNNQLGNEDMEVIGGLTNLTTLFLSQN 321

Query: 566 NISSLAPSLPCLEKLRSLHLENTHL 590
           +I+ +   L  L K+ S    N  +
Sbjct: 322 HITDI-RPLASLSKMDSADFANQVI 345

>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 =  100 bits (251), Expect = 1e-21
 Identities = 81/536 (15%), Positives = 157/536 (29%), Gaps = 82/536 (15%)

Query: 520  NVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP--SLPCL 577
            N+T +P          L L  N    +  + F    +++ L+L S          +   L
Sbjct: 15   NLTQVPQVL--NTTERLLLSFNYIRTVTASSFPFLEQLQLLELGSQYTPLTIDKEAFRNL 72

Query: 578  EKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVEL---PNGIGTVSNLKLLDLSN 632
              LR L L ++ +        +    L  L L    + +          +  L  LDLS 
Sbjct: 73   PNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSK 132

Query: 633  NLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHV 691
            N    +       KL+ L+ +    N        E              L   T+ +  +
Sbjct: 133  NQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEP-----------LQGKTLSFFSL 181

Query: 692  SNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKN--LSNSIASWVKLLLEKTE 749
            +   + S         +  FR               + +     +  I       + K++
Sbjct: 182  AANSLYSRVSVDWGKCMNPFR---------NMVLEILDVSGNGWTVDITGNFSNAISKSQ 232

Query: 750  YLTLTRSSNLQD-------IGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTV----QIL 798
              +L  + ++         I + D   F GL    +R   +   F  +    V    + L
Sbjct: 233  AFSLILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDL 292

Query: 799  EELHVEYCYSLKEVFCLEDIEGEQ-AGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKL 857
            + L++ Y         +  I  E   GL  L+ L L     +  +   + +   L  +  
Sbjct: 293  KVLNLAYNK-------INKIADEAFYGLDNLQVLNLSY-NLLGEL--YSSNFYGLPKVAY 342

Query: 858  MKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNV---- 913
            + ++    +  +  +T    L  L+ L +    L          ++     +   +    
Sbjct: 343  IDLQKN-HIAIIQDQTFK-FLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKIN 400

Query: 914  -------------SSAPQPMFFPNLKKL--LIGKCNKMKRVLSLTNAHNLKQLEELTVAS 958
                          +     F   +  L  LI   N+               LE+L +  
Sbjct: 401  LTANLIHLSENRLENLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFL-G 459

Query: 959  CNHMERIITVSDEEKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEEL 1014
             N ++            E    L  L++L L     L+S+  G  + L   +L  L
Sbjct: 460  ENMLQLAWETELCWDVFEG---LSHLQVLYLNHN-YLNSLPPGVFSHL--TALRGL 509

>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 = 62.5 bits (152), Expect = 5e-10
 Identities = 31/173 (17%), Positives = 61/173 (35%), Gaps = 11/173 (6%)

Query: 498 GMKKGWPREDLQNCEKLSLMDGNVTALPDQPKC---PRLTTLFLQNNPF-----ADIPNA 549
            +   +    + + + L L     ++          P L  LFL  N        ++   
Sbjct: 415 NLDILYFLLRVPHLQILILNQNRFSSCSGDQTPSENPSLEQLFLGENMLQLAWETELCWD 474

Query: 550 FFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILK 608
            FE    ++ L L+   ++SL P     L  LR L L +  L   S       LE+L + 
Sbjct: 475 VFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLPANLEILDIS 534

Query: 609 GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGD 661
            ++++          +L +LD+++N F+     +          + +     D
Sbjct: 535 RNQLLAPNP--DVFVSLSVLDITHNKFICECELSTFINWLNHTNVTIAGPPAD 585

>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 = 99.5 bits (248), Expect = 3e-21
 Identities = 71/395 (17%), Positives = 135/395 (34%), Gaps = 55/395 (13%)

Query: 155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMK-----QEIP 209
               FV  K  +  I+  +  L         + +YG  G GK+ L  + ++     +   
Sbjct: 122 RPVIFVTRKKLVHAIQQKLWKLNGEP---GWVTIYGMAGCGKSVLAAEAVRDHSLLEGCF 178

Query: 210 FDKVIFVRVTQTP---DVKRVQDEIARF-----LNTELEGDVEVLRAAFLSERLKRQKRV 261
              V +V + +      + ++Q+   R       +  L  ++E  +       L++  R 
Sbjct: 179 SGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRS 238

Query: 262 LIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDE-MESTNYVQVEE-LTDEDR 319
           L+ILDD+W    L             C+I+LT+R K V D  M   + V VE  L  E  
Sbjct: 239 LLILDDVWDPWVLKAFDNQ-------CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKG 291

Query: 320 LILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKAS 379
           L +      + +  +     A  ++++C   P  + +IG  LR  P R W   +++ +  
Sbjct: 292 LEILSLFVNMKK--EDLPAEAHSIIKECKGSPLVVSLIGALLRDFPNR-WAYYLRQLQNK 348

Query: 380 TPINVEGIPEEVVLCVALGYDQLETVAKSCLQFSCLFPPYYSVSMEEFVIHGLVDRLFPQ 439
               +              Y+ L+      +    L          +  I     ++  +
Sbjct: 349 QFKRIRKSSSYD-------YEALDEAMS--ISVEMLREDIKDY-YTDLSILQKDVKVPTK 398

Query: 440 VG--LLGEVGNRVHPVVLRLISSSLLLEGDRES--CFRIHDDTRKVVKYIAAREGDHFIA 495
           V   L       V  ++   ++ SLL         C+ +HD     V ++  +       
Sbjct: 399 VLCVLWDLETEEVEDILQEFVNKSLLFCNRNGKSFCYYLHD---LQVDFLTEKNRSQLQD 455

Query: 496 EPGMKKGWPREDLQNCEKLSLMDGNVTALPDQPKC 530
                    R+ +   ++        T  PDQ  C
Sbjct: 456 L-------HRKMVTQFQRYYQPH---TLSPDQEDC 480

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 94.7 bits (236), Expect = 4e-21
 Identities = 37/208 (17%), Positives = 70/208 (33%), Gaps = 22/208 (10%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           ++    +   + D ++             +  L L  NP + I  A      +++ L+LS
Sbjct: 7   QNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLS 66

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
           S  +      L  L  LR+L L N ++ +   +     +E L    + I  +    G   
Sbjct: 67  SNVLYET-LDLESLSTLRTLDLNNNYVQE---LLVGPSIETLHAANNNISRVSCSRGQ-- 120

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLT 682
             K + L+NN  + ++        S+++ L +  N        E            AS  
Sbjct: 121 GKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAE----------LAASSD 169

Query: 683 RLTVLYIHVSNTKVLSVDFDGPWTNLKR 710
            L  L +      +  V     +  LK 
Sbjct: 170 TLEHLNL--QYNFIYDVKGQVVFAKLKT 195

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 87.4 bits (217), Expect = 1e-18
 Identities = 29/157 (18%), Positives = 60/157 (38%), Gaps = 9/157 (5%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPN-AFFEHTREIKNL 560
                Q  + + L +  +T L D       R+  L L+ N    +        +  +++L
Sbjct: 115 SCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHL 174

Query: 561 DLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGE---LEVLILKGSRIVELPN 617
           +L    I  +        KL++L L +  L    +  EF     +  + L+ +++V +  
Sbjct: 175 NLQYNFIYDV-KGQVVFAKLKTLDLSSNKLA--FMGPEFQSAAGVTWISLRNNKLVLIEK 231

Query: 618 GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
            +    NL+  DL  N F      +  SK  +++ + 
Sbjct: 232 ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVA 268

>3o53_A Protein LRIM1, AGAP006348-PA; leucine-rich repeat, protein binding; HET: NAG; 2.00A {Anopheles gambiae} Length = 317

 Score = 73.5 bits (181), Expect = 4e-14
 Identities = 23/148 (15%), Positives = 49/148 (33%), Gaps = 2/148 (1%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
               E L+L    +  +  Q    +L TL L +N  A +   F +    +  + L +  +
Sbjct: 168 SDTLEHLNLQYNFIYDVKGQVVFAKLKTLDLSSNKLAFMGPEF-QSAAGVTWISLRNNKL 226

Query: 568 SSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELE-VLILKGSRIVELPNGIGTVSNLK 626
             +  +L   + L    L     +  +L   F + + V  +    + +L         + 
Sbjct: 227 VLIEKALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVAKQTVKKLTGQNEEECTVP 286

Query: 627 LLDLSNNLFLQVIPPNVISKLSQLEELY 654
            L        + +P     +L  L   +
Sbjct: 287 TLGHYGAYCCEDLPAPFADRLIALGHHH 314

>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 = 93.9 bits (234), Expect = 5e-21
 Identities = 46/196 (23%), Positives = 85/196 (43%), Gaps = 20/196 (10%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNP--FADIPNAFFEHTREIKN 559
           P     +  +L L    + +LP     K  +LT L L +N   F    +     T  +K 
Sbjct: 23  PTGIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKY 82

Query: 560 LDLSSTNISSLAPSLPCLEKLRSLHLENTHLN---DASLIREFGELEVLILKGSRIVELP 616
           LDLS   + +++ +   LE+L  L  ++++L    + S+      L  L +  +      
Sbjct: 83  LDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF 142

Query: 617 NGI-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNAR 674
           NGI   +S+L++L ++ N F +   P++ ++L  L  L +        ++  TA      
Sbjct: 143 NGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL--EQLSPTA------ 194

Query: 675 FSEVASLTRLTVLYIH 690
           F+   SL+ L VL + 
Sbjct: 195 FN---SLSSLQVLNMS 207

>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 = 73.1 bits (180), Expect = 6e-14
 Identities = 25/138 (18%), Positives = 48/138 (34%), Gaps = 13/138 (9%)

Query: 530 CPR-----LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPS-LPCLEKLRSL 583
           CP       T +   +     +P            L+L S  + SL       L +L  L
Sbjct: 1   CPSRCSCSGTEIRCNSKGLTSVPTGIPSSATR---LELESNKLQSLPHGVFDKLTQLTKL 57

Query: 584 HLENTHLNDASLIRE----FGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVI 639
            L +  L+      +       L+ L L  + ++ + +    +  L+ LD  ++   Q+ 
Sbjct: 58  SLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMS 117

Query: 640 PPNVISKLSQLEELYVGN 657
             +V   L  L  L + +
Sbjct: 118 EFSVFLSLRNLIYLDISH 135

>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 = 69.3 bits (170), Expect = 1e-12
 Identities = 29/137 (21%), Positives = 51/137 (37%), Gaps = 8/137 (5%)

Query: 507 DLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFAD-IPNAFFEHTREIKNLDLS 563
            L+N   L +   +     +        L  L +  N F +      F   R +  LDLS
Sbjct: 124 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLS 183

Query: 564 STNISSLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI- 619
              +  L+P +   L  L+ L++ + +    D    +    L+VL    + I+       
Sbjct: 184 QCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQEL 243

Query: 620 -GTVSNLKLLDLSNNLF 635
               S+L  L+L+ N F
Sbjct: 244 QHFPSSLAFLNLTQNDF 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 = 49.6 bits (119), Expect = 3e-06
 Identities = 16/86 (18%), Positives = 29/86 (33%), Gaps = 4/86 (4%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
            +L+N   L L    +  L          L  L + +N F  +    ++    ++ LD S
Sbjct: 172 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYS 231

Query: 564 STNISSLAPSL--PCLEKLRSLHLEN 587
             +I +            L  L+L  
Sbjct: 232 LNHIMTSKKQELQHFPSSLAFLNLTQ 257

>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 = 92.0 bits (229), Expect = 2e-20
 Identities = 45/242 (18%), Positives = 92/242 (38%), Gaps = 28/242 (11%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
             +      K +L   +VT    Q +   +  +   N+    +     ++   +  L L+
Sbjct: 19  SDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFLN 76

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
              ++ + P L  L+ L  L L+   + D S +++  +L+ L L+ + I ++  G+  + 
Sbjct: 77  GNKLTDIKP-LANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHNGISDIN-GLVHLP 134

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLT 682
            L+ L L NN  +  I    +S+L++L+ L +  N   D                +A LT
Sbjct: 135 QLESLYLGNNK-ITDITV--LSRLTKLDTLSLEDNQISD-------------IVPLAGLT 178

Query: 683 RLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVN-----DDYWEIAPKRSMHLKNLSNSI 737
           +L  LY+  S   +  +       NL    +            +        +KN   S+
Sbjct: 179 KLQNLYL--SKNHISDLRALAGLKNLDVLELFSQECLNKPINHQSNLVVPNTVKNTDGSL 236

Query: 738 AS 739
            +
Sbjct: 237 VT 238

>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 = 76.6 bits (189), Expect = 3e-15
 Identities = 45/183 (24%), Positives = 78/183 (42%), Gaps = 10/183 (5%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           +DL+  + LSL    ++ +      P+L +L+L NN   DI         ++  L L   
Sbjct: 109 KDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDITV--LSRLTKLDTLSLEDN 166

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            IS + P L  L KL++L+L   H++D   +     L+VL L     +  P  I   SNL
Sbjct: 167 QISDIVP-LAGLTKLQNLYLSKNHISDLRALAGLKNLDVLELFSQECLNKP--INHQSNL 223

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLT 685
            + +   N    ++ P +IS     E+  V      W + E  N  +  F +  ++ +  
Sbjct: 224 VVPNTVKNTDGSLVTPEIISDDGDYEKPNV-----KWHLPEFTNEVSFIFYQPVTIGKAK 278

Query: 686 VLY 688
             +
Sbjct: 279 ARF 281

>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 = 71/344 (20%), Positives = 116/344 (33%), Gaps = 36/344 (10%)

Query: 512 EKLSLMDGNVTALPDQPKCPR-LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSL 570
           E        +T +PD    P  +T L L +N    +P A F    ++ +LD+    IS L
Sbjct: 7   EVADCSHLKLTQVPDD--LPTNITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKL 64

Query: 571 AP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPNG-IGTVSNLK 626
            P     L  L+ L+L++  L+            L  L L  + I ++ N       NL 
Sbjct: 65  EPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLI 124

Query: 627 LLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRLT 685
            LDLS+N  L         +L  L+EL +  N     + EE     N         + L 
Sbjct: 125 TLDLSHNG-LSSTKLGTQVQLENLQELLLSNNKIQALKSEELDIFAN---------SSLK 174

Query: 686 VLYIHVSN--TKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLS--------N 735
            L +  SN   +     F      L    +        +  K  + L N S        +
Sbjct: 175 KLELS-SNQIKEFSPGCFHAI-GRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNS 232

Query: 736 SIASWVKLLLEKTEYLTLTR---SSN-LQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNF 791
            +++         ++  LT    S N L  +G         L    L   ++Q +F  + 
Sbjct: 233 QLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSL 292

Query: 792 Y--PTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVL 833
           +    V+ L         S+      +  +     LK L  L +
Sbjct: 293 HGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNM 336

>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 = 90.8 bits (226), Expect = 1e-18
 Identities = 45/216 (20%), Positives = 81/216 (37%), Gaps = 18/216 (8%)

Query: 507 DLQNCEKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS 564
                  L +    ++ L  +   K P L  L LQ+N  + + +  F     +  L L S
Sbjct: 47  RYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMS 106

Query: 565 TNISSLAP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPN---G 618
            +I  +        + L +L L +  L+        +   L+ L+L  ++I  L +    
Sbjct: 107 NSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALKSEELD 166

Query: 619 IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEV 678
           I   S+LK L+LS+N  ++   P     + +L  L++ N      + E            
Sbjct: 167 IFANSSLKKLELSSN-QIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEK-------LCLE 218

Query: 679 ASLTRLTVLYIHVSN-TKVLSVDFDG-PWTNLKRFR 712
            + T +  L +  S  +   +  F G  WTNL    
Sbjct: 219 LANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLD 254

>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 = 87.7 bits (218), Expect = 9e-18
 Identities = 90/522 (17%), Positives = 172/522 (32%), Gaps = 99/522 (18%)

Query: 529  KC-PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLE 586
            KC          +     +P+    +      L+L+   +  L   +     +L SL + 
Sbjct: 1    KCTVSHEVADCSHLKLTQVPDDLPTNI---TVLNLTHNQLRRLPAANFTRYSQLTSLDVG 57

Query: 587  NTHLN--DASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNV 643
               ++  +  L ++   L+VL L+ + + +L +      +NL  L L +N  +Q I  N 
Sbjct: 58   FNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSN-SIQKIKNNP 116

Query: 644  ISKLSQLEELYVG-NSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSN--TKVLSVD 700
              K   L  L +  N              + +      L  L  L +  +N    + S +
Sbjct: 117  FVKQKNLITLDLSHNGL-----------SSTKLGTQVQLENLQELLLS-NNKIQALKSEE 164

Query: 701  FD-GPWTNLKRFRVCVNDDYWEIAPKRSMHLKNL----------SNSIASWVKLLLEKT- 748
             D    ++LK+  +  N    E +P     +  L            S+   + L L  T 
Sbjct: 165  LDIFANSSLKKLELSSNQIK-EFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTS 223

Query: 749  -EYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRA-----CSMQRIFHSNFYPTVQILEELH 802
               L+L  S++   +       F GL   +L        ++  + + +F    Q LE   
Sbjct: 224  IRNLSL--SNS--QLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQ-LEYFF 278

Query: 803  VEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKD 862
            +EY   ++ +           GL  +R L L       +I     S+  L  +     + 
Sbjct: 279  LEYNN-IQHL-----FSHSLHGLFNVRYLNLKRSFTKQSI-----SLASLPKIDDFSFQW 327

Query: 863  CGKLRYL------FSRTLAEGLGNLEDLSILKCDL---MEEIVSVDEAEVEQGAAQERNV 913
               L +L           +     L +L  L   L      + ++               
Sbjct: 328  LKCLEHLNMEDNDIPGIKSNMFTGLINLKYL--SLSNSFTSLRTLT-------------- 371

Query: 914  SSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNA-HNLKQLEELTVASCNHMERIITVSDEE 972
            +     +    L  L + K NK+ ++ S  +A   L  LE L +   N + + +T  +  
Sbjct: 372  NETFVSLAHSPLHILNLTK-NKISKIES--DAFSWLGHLEVLDLGL-NEIGQELTGQEWR 427

Query: 973  KAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEEL 1014
                    L  +  + L    +   +     A +  PSL+ L
Sbjct: 428  G-------LENIFEIYLSY-NKYLQLTRNSFALV--PSLQRL 459

>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 = 83.5 bits (207), Expect = 2e-16
 Identities = 32/174 (18%), Positives = 65/174 (37%), Gaps = 21/174 (12%)

Query: 504 PREDLQNCEKLSLMD--GN--VTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREI 557
             +       L ++D   N     L  Q       +  ++L  N +  +    F     +
Sbjct: 397 ESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSL 456

Query: 558 KNLDLSSTNISSLAPSLPC---LEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRI 612
           + L L    + ++  S      L  L  L L N ++   +  ++    +LE+L L+ + +
Sbjct: 457 QRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNL 516

Query: 613 VELPNG---------IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
             L            +  +S+L +L+L +N     IP  V   L +L+ + +G 
Sbjct: 517 ARLWKHANPGGPIYFLKGLSHLHILNLESN-GFDEIPVEVFKDLFELKIIDLGL 569

>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 = 80.4 bits (199), Expect = 1e-15
 Identities = 40/171 (23%), Positives = 69/171 (40%), Gaps = 17/171 (9%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQP----KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLD 561
             + + ++L L    +  +   P        LT L L NN  A+I +   E   +++ LD
Sbjct: 451 ALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILD 510

Query: 562 LSSTNISSLAP---------SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGS 610
           L   N++ L            L  L  L  L+LE+   ++    + ++  EL+++ L  +
Sbjct: 511 LQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLN 570

Query: 611 RIVELPNGI-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSF 659
            +  LP  +     +LK L+L  NL   V           L EL +  N F
Sbjct: 571 NLNTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPF 621

>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 = 94.6 bits (236), Expect = 2e-20
 Identities = 55/277 (19%), Positives = 96/277 (34%), Gaps = 36/277 (12%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
            +L   E+L +    V+ +    K   L +L   NN  +DI          +  L L+  
Sbjct: 174 ANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITP--LGILTNLDELSLNGN 231

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            +  +  +L  L  L  L L N  +++ + +    +L  L L  ++I  +   +  ++ L
Sbjct: 232 QLKDI-GTLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP-LAGLTAL 289

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRL 684
             L+L+ N  L+ I P  IS L  L  L +  N+  D              S V+SLT+L
Sbjct: 290 TNLELNENQ-LEDISP--ISNLKNLTYLTLYFNNISD-------------ISPVSSLTKL 333

Query: 685 TVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVND--DYWEIAPKRSMHLKNL------SNS 736
             L+    N KV  V      TN+       N   D   +A     +L  +        +
Sbjct: 334 QRLFF--YNNKVSDVSSLANLTNINWLSAGHNQISDLTPLA-----NLTRITQLGLNDQA 386

Query: 737 IASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGL 773
             +               ++     I    +      
Sbjct: 387 WTNAPVNYKANVSIPNTVKNVTGALIAPATISDGGSY 423

>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 = 93.1 bits (232), Expect = 8e-20
 Identities = 42/206 (20%), Positives = 83/206 (40%), Gaps = 22/206 (10%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
            + DL     L      + ++        LT +   NN   DI     ++  ++ ++ ++
Sbjct: 41  SQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMN 98

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
           +  I+ + P L  L  L  L L N  + D   ++    L  L L  + I ++   +  ++
Sbjct: 99  NNQIADITP-LANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISA-LSGLT 156

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
           +L+ L   N +   + P   ++ L+ LE L + +           N + +  S +A LT 
Sbjct: 157 SLQQLSFGNQV-TDLKP---LANLTTLERLDISS-----------N-KVSDISVLAKLTN 200

Query: 684 LTVLYIHVSNTKVLSVDFDGPWTNLK 709
           L  L    +N ++  +   G  TNL 
Sbjct: 201 LESLIA--TNNQISDITPLGILTNLD 224

>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 = 90.8 bits (226), Expect = 3e-19
 Identities = 49/205 (23%), Positives = 83/205 (40%), Gaps = 22/205 (10%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
             L    K  L   NVT    Q    ++TTL         I     E+   +  ++ S+ 
Sbjct: 21  TALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNN 78

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            ++ +   L  L KL  + + N  + D + +     L  L L  ++I ++   +  ++NL
Sbjct: 79  QLTDI-TPLKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQITDIDP-LKNLTNL 136

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLT 685
             L+LS+N  +  I    +S L+ L++L  GN   D                +A+LT L 
Sbjct: 137 NRLELSSNT-ISDISA--LSGLTSLQQLSFGNQVTD-------------LKPLANLTTLE 180

Query: 686 VLYIHVSNTKVLSVDFDGPWTNLKR 710
            L I  S+ KV  +      TNL+ 
Sbjct: 181 RLDI--SSNKVSDISVLAKLTNLES 203

>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 = 86.6 bits (215), Expect = 9e-18
 Identities = 31/179 (17%), Positives = 55/179 (30%), Gaps = 13/179 (7%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
             L     L L +  +  +        LT L L  N  +DI         +++ L   + 
Sbjct: 284 AGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNN 341

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            +S +  SL  L  +  L   +  ++D + +     +  L L        P      +N+
Sbjct: 342 KVSDV-SSLANLTNINWLSAGHNQISDLTPLANLTRITQLGLNDQAWTNAPVNYK--ANV 398

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEEL--------YVGNSFGDWEVEETANGQNARFS 676
            + +   N+   +I P  IS      E         Y       +    T       FS
Sbjct: 399 SIPNTVKNVTGALIAPATISDGGSYTEPDITWNLPSYTNEVSYTFSQPVTIGKGTTTFS 457

>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 = 95.2 bits (237), Expect = 3e-20
 Identities = 34/160 (21%), Positives = 68/160 (42%), Gaps = 6/160 (3%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNP--FADIPNAFFEHTREIKNLD 561
           P   L++ ++L+           +   P L  L L  N   F    +     T  +K LD
Sbjct: 320 PTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLD 379

Query: 562 LSSTNISSLAPSLPCLEKLRSLHLEN---THLNDASLIREFGELEVLILKGSRIVELPNG 618
           LS   + +++ +   LE+L  L  ++     +++ S+      L  L +  +      NG
Sbjct: 380 LSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG 439

Query: 619 I-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           I   +S+L++L ++ N F +   P++ ++L  L  L +  
Sbjct: 440 IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 479

>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 = 93.2 bits (232), Expect = 1e-19
 Identities = 30/157 (19%), Positives = 64/157 (40%), Gaps = 8/157 (5%)

Query: 508 LQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNA-FFEHTREIKNLDLSST 565
             + + L L    V  +        +L  L  Q++    +     F   R +  LD+S T
Sbjct: 372 TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT 431

Query: 566 NISSLAPS-LPCLEKLRSLHLENTHLNDASLIREFGE---LEVLILKGSRIVELPNGI-G 620
           +           L  L  L +      +  L   F E   L  L L   ++ +L      
Sbjct: 432 HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFN 491

Query: 621 TVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           ++S+L++L++++N  L+ +P  +  +L+ L+++++  
Sbjct: 492 SLSSLQVLNMASNQ-LKSVPDGIFDRLTSLQKIWLHT 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 = 92.5 bits (230), Expect = 2e-19
 Identities = 85/479 (17%), Positives = 155/479 (32%), Gaps = 63/479 (13%)

Query: 507 DLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS 564
                + L L    +  + D        L+TL L  NP   +    F     ++ L    
Sbjct: 50  SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 109

Query: 565 TNISSLAP-SLPCLEKLRSLHLENTHLNDASLIREFG---ELEVLILKGSRIVELPNG-I 619
           TN++SL    +  L+ L+ L++ +  +    L   F     LE L L  ++I  +    +
Sbjct: 110 TNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDL 169

Query: 620 GTVSNLKL----LDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARF 675
             +  + L    LDLS N  +  I P    ++  L +L + N+F    V +T        
Sbjct: 170 RVLHQMPLLNLSLDLSLN-PMNFIQPGAFKEIR-LHKLTLRNNFDSLNVMKTC------I 221

Query: 676 SEVASLTRLT-VLYIHVSNTKVLSVDFDG----PWTNLKRFRVCVNDDYWEIAPKRSMHL 730
             +A L     VL    +   +   D           ++ FR+   D Y +        L
Sbjct: 222 QGLAGLEVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCL 281

Query: 731 KNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSN 790
            N+S+     V   +E+ +  +        ++       F  L    L+  +       N
Sbjct: 282 TNVSSFSLVSVT--IERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGN 339

Query: 791 FYPTVQI--LEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHS 848
            +  V +  LE L +        +           G   L+ L L     V+T+      
Sbjct: 340 AFSEVDLPSLEFLDLSRN----GLSFKGCCSQSDFGTTSLKYLDLSFN-GVITMSSNFLG 394

Query: 849 VVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAA 908
           +  L+ L     +    L+ +   ++   L NL  L I                      
Sbjct: 395 LEQLEHLDF---QHS-NLKQMSEFSVFLSLRNLIYLDISHTHT----------------- 433

Query: 909 QERNVSSAPQPMF--FPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERI 965
                  A   +F    +L+ L +   N  +          L+ L  L + S   +E++
Sbjct: 434 -----RVAFNGIFNGLSSLEVLKMAG-NSFQENFLPDIFTELRNLTFLDL-SQCQLEQL 485

>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 = 85.9 bits (213), Expect = 2e-17
 Identities = 76/472 (16%), Positives = 147/472 (31%), Gaps = 85/472 (18%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            C +L+        +PD  P       L L  NP   + +  F    E++ LDLS   I 
Sbjct: 13  QCMELNF-----YKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQ 65

Query: 569 SLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNG-IGTVSN 624
           ++   +   L  L +L L    +             L+ L+   + +  L N  IG +  
Sbjct: 66  TIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKT 125

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTR 683
           LK L++++NL      P   S L+ LE L +  N      +  T          +  +  
Sbjct: 126 LKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI--QSIYCTD------LRVLHQMPL 177

Query: 684 LTVLYIHVSNTKVLSVD---FDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASW 740
           L  L + +S   +  +    F      L +  +  N D   +       L  L       
Sbjct: 178 LN-LSLDLSLNPMNFIQPGAFKEI--RLHKLTLRNNFDSLNVMKTCIQGLAGL------- 227

Query: 741 VKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRI--FHSNFYPTVQIL 798
                 +   L L    N  ++ + D     GL  + +    +  +  +  +       L
Sbjct: 228 ------EVHRLVLGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCL 281

Query: 799 EELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLP--KVLTIWKGNHSVVYLKTLK 856
             +      S+     +E ++ + +     + L LV     +  T+   +   +   + K
Sbjct: 282 TNVSSFSLVSVT----IERVK-DFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNK 336

Query: 857 LMKV---KDCGKLRYL-----------FSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAE 902
                   D   L +L                  G  +L+ L +    +           
Sbjct: 337 GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGV----------- 385

Query: 903 VEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEEL 954
                     +SS    +    L+ L     + +K++   +   +L+ L  L
Sbjct: 386 --------ITMSSNFLGL--EQLEHLDFQH-SNLKQMSEFSVFLSLRNLIYL 426

>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 = 37/208 (17%), Positives = 70/208 (33%), Gaps = 22/208 (10%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           ++    +   + D ++             +  L L  NP + I  A      +++ L+LS
Sbjct: 7   QNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLS 66

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
           S  +      L  L  LR+L L N ++ +   +     +E L    + I  +    G   
Sbjct: 67  SNVLYET-LDLESLSTLRTLDLNNNYVQE---LLVGPSIETLHAANNNISRVSCSRGQ-- 120

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLT 682
             K + L+NN  + ++        S+++ L +  N        E            AS  
Sbjct: 121 GKKNIYLANNK-ITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAEL----------AASSD 169

Query: 683 RLTVLYIHVSNTKVLSVDFDGPWTNLKR 710
            L  L +      +  V     +  LK 
Sbjct: 170 TLEHLNL--QYNFIYDVKGQVVFAKLKT 195

>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 = 88.0 bits (218), Expect = 4e-18
 Identities = 29/157 (18%), Positives = 60/157 (38%), Gaps = 9/157 (5%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIP-NAFFEHTREIKNL 560
                Q  + + L +  +T L D       R+  L L+ N    +        +  +++L
Sbjct: 115 SCSRGQGKKNIYLANNKITMLRDLDEGCRSRVQYLDLKLNEIDTVNFAELAASSDTLEHL 174

Query: 561 DLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGE---LEVLILKGSRIVELPN 617
           +L    I  +        KL++L L +  L    +  EF     +  + L+ +++V +  
Sbjct: 175 NLQYNFIYDV-KGQVVFAKLKTLDLSSNKLA--FMGPEFQSAAGVTWISLRNNKLVLIEK 231

Query: 618 GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
            +    NL+  DL  N F      +  SK  +++ + 
Sbjct: 232 ALRFSQNLEHFDLRGNGFHCGTLRDFFSKNQRVQTVA 268

>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 = 59.1 bits (143), Expect = 4e-09
 Identities = 29/177 (16%), Positives = 64/177 (36%), Gaps = 26/177 (14%)

Query: 551 FEHTREIKNLDLSSTNISSLAPS-LPCLEKLRSLHLENTHLND--ASLIREFGELEVLIL 607
            ++    K   ++ +++     S       ++ L L    L+   A+ +  F +LE+L L
Sbjct: 6   KQNGNRYKIEKVTDSSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNL 65

Query: 608 KGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEE 666
             + + E  + + ++S L+ LDL+NN  +Q +          +E L+   N+        
Sbjct: 66  SSNVLYETLD-LESLSTLRTLDLNNNY-VQELLV-----GPSIETLHAANNNISRVSCSR 118

Query: 667 TAN------GQNARFSEV-----ASLTRLTVLYIHVSN--TKVLSVDFDGPWTNLKR 710
                      N + + +        +R+  L +   N    V   +       L+ 
Sbjct: 119 GQGKKNIYLANN-KITMLRDLDEGCRSRVQYLDLK-LNEIDTVNFAELAASSDTLEH 173

>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 = 92.5 bits (230), Expect = 1e-19
 Identities = 40/157 (25%), Positives = 69/157 (43%), Gaps = 6/157 (3%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
             L +   L L D  +T +P        +L  L+L+NNP   IP+  F     +  LDL 
Sbjct: 120 NGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLG 179

Query: 564 STN-ISSLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNG-IG 620
               +  ++  +   L  L+ L+L   ++ D   +     LE L + G+   E+  G   
Sbjct: 180 ELKKLEYISEGAFEGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFH 239

Query: 621 TVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            +S+LK L + N+  + +I  N    L+ L EL + +
Sbjct: 240 GLSSLKKLWVMNSQ-VSLIERNAFDGLASLVELNLAH 275

>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 = 86.3 bits (214), Expect = 1e-17
 Identities = 42/208 (20%), Positives = 69/208 (33%), Gaps = 28/208 (13%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            C +  L     + +P   P       L L  N    I    F H   ++ L L   +I 
Sbjct: 60  VCTRRGL-----SEVPQGIP--SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIR 112

Query: 569 SLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVSN 624
            +   +   L  L +L L +  L    +       +L  L L+ + I  +P+     V +
Sbjct: 113 QIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPS 172

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRL 684
           L  LDL     L+ I       L  L+ L +G                     +  L  L
Sbjct: 173 LMRLDLGELKKLEYISEGAFEGLFNLKYLNLGM-----------C-NIKDMPNLTPLVGL 220

Query: 685 TVLYIHVSN--TKVLSVDFDGPWTNLKR 710
             L +   N   ++    F G  ++LK+
Sbjct: 221 EELEMS-GNHFPEIRPGSFHG-LSSLKK 246

>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 = 61.7 bits (150), Expect = 7e-10
 Identities = 27/130 (20%), Positives = 48/130 (36%), Gaps = 24/130 (18%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           E L N + L+L   N+  +P+      L  L +  N F +I    F     +K L + ++
Sbjct: 193 EGLFNLKYLNLGMCNIKDMPNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNS 252

Query: 566 NISSLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GTVS 623
            +S +   +   L  L  L+L +   N                    +  LP+ +   + 
Sbjct: 253 QVSLIERNAFDGLASLVELNLAH---N-------------------NLSSLPHDLFTPLR 290

Query: 624 NLKLLDLSNN 633
            L  L L +N
Sbjct: 291 YLVELHLHHN 300

>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 = 93.2 bits (232), Expect = 1e-19
 Identities = 55/343 (16%), Positives = 103/343 (30%), Gaps = 46/343 (13%)

Query: 514 LSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP 572
              MD  ++ +PD  P       + L  NP   + +  F +  E++ LDLS   I ++  
Sbjct: 16  YQCMDQKLSKVPDDIP--SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIED 73

Query: 573 -SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLL 628
            +   L  L +L L    +             LE L+   +++  L +  IG +  LK L
Sbjct: 74  KAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKL 133

Query: 629 DLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVA-------- 679
           ++++N       P   S L+ L  + +  N      V +    +      ++        
Sbjct: 134 NVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLDMSLNPI 193

Query: 680 --------SLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLK 731
                      +L  L +        S        NL    V        +        +
Sbjct: 194 DFIQDQAFQGIKLHELTL--RGNFNSSNIMKTCLQNLAGLHVH------RLILGEFKDER 245

Query: 732 NLSNSIASWVKLLLEKTEYLTLTRSSN-LQDIGEIDVQGFTGLMCMHLRACSMQRIFHSN 790
           NL     S ++  L          +         +       +  M L   S++ +    
Sbjct: 246 NLEIFEPSIME-GLCDVTIDEFRLTYTNDFSDDIVKFHCLANVSAMSLAGVSIKYLEDVP 304

Query: 791 FYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVL 833
            +   Q L  +  +          L+        L  L+ L L
Sbjct: 305 KHFKWQSLSIIRCQ----------LKQFPT--LDLPFLKSLTL 335

>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 = 92.0 bits (229), Expect = 3e-19
 Identities = 33/160 (20%), Positives = 64/160 (40%), Gaps = 6/160 (3%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEH--TREIKNLD 561
           P  DL   + L+L     +    +   P L+ L L  N  +      +    T  +++LD
Sbjct: 323 PTLDLPFLKSLTLTMNKGSISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLD 382

Query: 562 LSSTNISSLAPSLPCLEKLRSLHLENTHL---NDASLIREFGELEVLILKGSRIVELPNG 618
           LS      ++ +   LE+L+ L  +++ L    + S      +L  L +  +      +G
Sbjct: 383 LSFNGAIIMSANFMGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDG 442

Query: 619 I-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           I   +++L  L ++ N F      NV +  + L  L +  
Sbjct: 443 IFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSK 482

>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 = 87.4 bits (217), Expect = 9e-18
 Identities = 22/163 (13%), Positives = 48/163 (29%), Gaps = 10/163 (6%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ---PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDL 562
             L+  + L      +  + +        +L  L +         +  F     +  L +
Sbjct: 396 MGLEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKM 455

Query: 563 SSTNISSLAPS--LPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNG 618
           +  +      S        L  L L    L      +      L++L +  + ++ L + 
Sbjct: 456 AGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFDTLHRLQLLNMSHNNLLFLDSS 515

Query: 619 -IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSF 659
               + +L  LD S N  ++     +      L    +  NS 
Sbjct: 516 HYNQLYSLSTLDCSFNR-IETSKGILQHFPKSLAFFNLTNNSV 557

>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 = 85.5 bits (212), Expect = 3e-17
 Identities = 78/508 (15%), Positives = 154/508 (30%), Gaps = 93/508 (18%)

Query: 534  TTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLN- 591
             T    +   + +P+     T+    +DLS   +  L   S     +L+ L L    +  
Sbjct: 14   ITYQCMDQKLSKVPDDIPSSTKN---IDLSFNPLKILKSYSFSNFSELQWLDLSRCEIET 70

Query: 592  -DASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQ 649
             +         L  LIL G+ I     G    +++L+ L       L  +    I +L  
Sbjct: 71   IEDKAWHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVET-KLASLESFPIGQLIT 129

Query: 650  LEELYV-GNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSN--TKVLSVDFDGPWT 706
            L++L V  N     ++          FS   +LT L  + +   N    +   D      
Sbjct: 130  LKKLNVAHNFIHSCKLPAY-------FS---NLTNLVHVDLS-YNYIQTITVNDLQF-LR 177

Query: 707  NLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEID 766
                             P+ ++ L    N I        +  +   LT   N  +   I 
Sbjct: 178  EN---------------PQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGN-FNSSNIM 221

Query: 767  VQGFTGLMCMHLRACSMQRIFHSNFYPTVQI-----LEELHVEYCYSLKEVFCLEDIEGE 821
                  L  +H+    +            +      L ++ ++    L       D   +
Sbjct: 222  KTCLQNLAGLHVHRLILGEFKDERNLEIFEPSIMEGLCDVTIDEFR-LTYTNDFSDDIVK 280

Query: 822  QAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVK-------DCGKLRYL-FSR- 872
               L  +  + L G+   +   +        ++L +++ +       D   L+ L  +  
Sbjct: 281  FHCLANVSAMSLAGVS--IKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTLTMN 338

Query: 873  --TLAEGLGNLEDLSILKCDLME-EIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLL 929
              +++     L  LS L  DL    +                    +   +   +L+ L 
Sbjct: 339  KGSISFKKVALPSLSYL--DLSRNALSFSGC--------------CSYSDLGTNSLRHLD 382

Query: 930  IGKCNKMKRVLSLTNAH--NLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKIL 987
            +           + +A+   L++L+ L     + ++R+   S           L KL  L
Sbjct: 383  LSFNG-----AIIMSANFMGLEELQHLDFQH-STLKRVTEFSAFLS-------LEKLLYL 429

Query: 988  ALEDLPELDSVYNGEIAALRWPSLEELK 1015
             +         ++G    L   SL  LK
Sbjct: 430  DISYT-NTKIDFDGIFLGL--TSLNTLK 454

>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 = 85.1 bits (211), Expect = 5e-17
 Identities = 33/188 (17%), Positives = 59/188 (31%), Gaps = 20/188 (10%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
           L N   +SL   ++  L D PK  +  +L +        P         +K+L L+    
Sbjct: 284 LANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPF---LKSLTLTMNKG 340

Query: 568 SSLAPSLPCLEKLRSLHLENTHLN----DASLIREFGELEVLILKGSRIVELPNGIGTVS 623
           S ++     L  L  L L    L+     +        L  L L  +  + +      + 
Sbjct: 341 S-ISFKKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLE 399

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLT 682
            L+ LD  ++   +V   +    L +L  L +   +                      LT
Sbjct: 400 ELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLG-----------LT 448

Query: 683 RLTVLYIH 690
            L  L + 
Sbjct: 449 SLNTLKMA 456

>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 = 83.9 bits (208), Expect = 1e-16
 Identities = 34/157 (21%), Positives = 59/157 (37%), Gaps = 14/157 (8%)

Query: 507 DLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNA-FFEHTREIKNLDLSST 565
           DL       +M  N   L        L  L  Q++    +     F    ++  LD+S T
Sbjct: 382 DLSFN-GAIIMSANFMGLE------ELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYT 434

Query: 566 NISSLAPSLPC-LEKLRSLHLENTHLNDASLIREFGE---LEVLILKGSRIVELPNGI-G 620
           N       +   L  L +L +      D +L   F     L  L L   ++ ++  G+  
Sbjct: 435 NTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVFD 494

Query: 621 TVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           T+  L+LL++S+N  L  +  +  ++L  L  L    
Sbjct: 495 TLHRLQLLNMSHNN-LLFLDSSHYNQLYSLSTLDCSF 530

>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 = 82.4 bits (204), Expect = 3e-16
 Identities = 52/378 (13%), Positives = 103/378 (27%), Gaps = 46/378 (12%)

Query: 530 CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP--SLPCLEKLRSLHLEN 587
              L  L       A + +        +K L+++   I S         L  L  + L  
Sbjct: 103 LTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSY 162

Query: 588 ---THLND---ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPP 641
                +       L         L +  + I  + +       L  L L  N     I  
Sbjct: 163 NYIQTITVNDLQFLRENPQVNLSLDMSLNPIDFIQDQAFQGIKLHELTLRGNFNSSNIMK 222

Query: 642 NVISKLSQLEELY-VGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVD 700
             +  L+ L     +   F D       N +    S +  L  +T+    ++ T   S D
Sbjct: 223 TCLQNLAGLHVHRLILGEFKD-----ERNLEIFEPSIMEGLCDVTIDEFRLTYTNDFSDD 277

Query: 701 FD--GPWTNLKRFRVCVND--DYWEIAPKRSMHLKNLS-NSIASWVKLLLEKTEYLTLTR 755
                   N+    +         ++         ++    +  +  L L   + LTL  
Sbjct: 278 IVKFHCLANVSAMSLAGVSIKYLEDVPKHFKWQSLSIIRCQLKQFPTLDLPFLKSLTL-- 335

Query: 756 SSN-LQDIGEIDVQGFTGLMCMHLRACSMQRI----FHSNFYPTVQILEELHVEYCYSLK 810
           + N      +        L  + L   ++       +      +   L  L + +     
Sbjct: 336 TMNKGSISFKK--VALPSLSYLDLSRNALSFSGCCSYSDLGTNS---LRHLDLSFN---- 386

Query: 811 EVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGN--HSVVYLKTLKLMKVKDCGKLRY 868
                  +     GL+ L+ L       +  + + +   S+  L  L +         + 
Sbjct: 387 ---GAIIMSANFMGLEELQHLDFQHS-TLKRVTEFSAFLSLEKLLYLDI----SYTNTKI 438

Query: 869 LFSRTLAEGLGNLEDLSI 886
            F      GL +L  L +
Sbjct: 439 DFDGIF-LGLTSLNTLKM 455

>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 = 88.5 bits (220), Expect = 2e-19
 Identities = 54/211 (25%), Positives = 84/211 (39%), Gaps = 20/211 (9%)

Query: 510 NCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS-TN 566
             +++ L    ++ +P      C  LT L+L +N  A I  A F     ++ LDLS    
Sbjct: 33  ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQ 92

Query: 567 ISSLAPS-LPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTV 622
           + S+ P+    L +L +LHL+   L      L R    L+ L L+ + +  LP+     +
Sbjct: 93  LRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDL 152

Query: 623 SNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASL 681
            NL  L L  N  +  +P      L  L+ L +  N      V   A      F     L
Sbjct: 153 GNLTHLFLHGNR-ISSVPERAFRGLHSLDRLLLHQNRVA--HVHPHA------FR---DL 200

Query: 682 TRLTVLYIHVSNTKVLSVDFDGPWTNLKRFR 712
            RL  LY+  +N   L  +   P   L+  R
Sbjct: 201 GRLMTLYLFANNLSALPTEALAPLRALQYLR 231

>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 = 83.9 bits (208), Expect = 9e-18
 Identities = 49/188 (26%), Positives = 72/188 (38%), Gaps = 26/188 (13%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
           +C +  L      A+P   P       +FL  N  + +P A F   R +  L L S  ++
Sbjct: 17  SCPQQGL-----QAVPVGIP--AASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLA 69

Query: 569 SLAP-SLPCLEKLRSLHLE-NTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVS 623
            +   +   L  L  L L  N  L   D +     G L  L L    + EL  G+   ++
Sbjct: 70  RIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLA 129

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLT 682
            L+ L L +N  LQ +P +    L  L  L++ GN      V E A      F     L 
Sbjct: 130 ALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGNRI--SSVPERA------FR---GLH 177

Query: 683 RLTVLYIH 690
            L  L +H
Sbjct: 178 SLDRLLLH 185

>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 = 78.9 bits (195), Expect = 5e-16
 Identities = 32/159 (20%), Positives = 57/159 (35%), Gaps = 8/159 (5%)

Query: 506 EDLQNCEKLSLMD-GNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDL 562
             L   E+L L D   + ++         RL TL L      ++    F     ++ L L
Sbjct: 77  TGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYL 136

Query: 563 SSTNISSLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI 619
               + +L   +   L  L  L L    ++       R    L+ L+L  +R+  +    
Sbjct: 137 QDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHA 196

Query: 620 -GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
              +  L  L L  N  L  +P   ++ L  L+ L + +
Sbjct: 197 FRDLGRLMTLYLFANN-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 = 63.9 bits (156), Expect = 4e-11
 Identities = 31/134 (23%), Positives = 48/134 (35%), Gaps = 6/134 (4%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
             L     L L    +  L          L  L+LQ+N    +P+  F     + +L L 
Sbjct: 102 HGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLH 161

Query: 564 STNISSLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI- 619
              ISS+   +   L  L  L L    +        R+ G L  L L  + +  LP    
Sbjct: 162 GNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEAL 221

Query: 620 GTVSNLKLLDLSNN 633
             +  L+ L L++N
Sbjct: 222 APLRALQYLRLNDN 235

>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 = 90.9 bits (226), Expect = 5e-19
 Identities = 52/339 (15%), Positives = 116/339 (34%), Gaps = 27/339 (7%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLD 561
           P       + L L    +T +       C  L  L L+++    I    F     +++LD
Sbjct: 21  PSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSLEHLD 80

Query: 562 LSSTNISSLAPS-LPCLEKLRSLHLENTHLNDASLIREFG---ELEVLILKGS-RIVELP 616
           LS  ++SSL+ S    L  L+ L+L         +   F     L+ L +       E+ 
Sbjct: 81  LSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEIR 140

Query: 617 NG-IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARF 675
                 +++L  L++     L+      +  +  +  L +  S   + +E          
Sbjct: 141 RIDFAGLTSLNELEIKAL-SLRNYQSQSLKSIRDIHHLTLHLSESAFLLEIF-------A 192

Query: 676 SEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPK-RSMHLKNLS 734
             ++S+  L +   +++  +   +  D   + +K+     +    E   +   +    L 
Sbjct: 193 DILSSVRYLELRDTNLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESFNELLKLLRYILE 252

Query: 735 NSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPT 794
            S   +    L        + S  + ++G+++      +  +H+    +     + +   
Sbjct: 253 LSEVEFDDCTLNGLGDFNPSESDVVSELGKVE---TVTIRRLHIPQFYLFYDLSTVYSLL 309

Query: 795 VQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVL 833
            + ++ + VE    +  V C          LK L  L L
Sbjct: 310 EK-VKRITVENSK-VFLVPC-----SFSQHLKSLEFLDL 341

>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 = 86.7 bits (215), Expect = 1e-17
 Identities = 31/155 (20%), Positives = 71/155 (45%), Gaps = 11/155 (7%)

Query: 507 DLQNCEKLSLMDGNVTALPDQP----KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDL 562
              + + L L   ++ ++            LT+L +  N F  +P++     + ++ L+L
Sbjct: 359 AWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEK-MRFLNL 417

Query: 563 SSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTV 622
           SST I  +   +P  + L  L + N +L+  S       L+ L +  +++  LP+     
Sbjct: 418 SSTGIRVVKTCIP--QTLEVLDVSNNNLD--SFSLFLPRLQELYISRNKLKTLPDA-SLF 472

Query: 623 SNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
             L ++ +S N  L+ +P  +  +L+ L+++++  
Sbjct: 473 PVLLVMKISRNQ-LKSVPDGIFDRLTSLQKIWLHT 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 = 85.9 bits (213), Expect = 2e-17
 Identities = 87/499 (17%), Positives = 157/499 (31%), Gaps = 124/499 (24%)

Query: 530  CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENT 588
            C        ++  F  IP+      +    LDLS   I+ +    L     L+ L L+++
Sbjct: 4    CDASGVCDGRSRSFTSIPSGLTAAMKS---LDLSFNKITYIGHGDLRACANLQVLILKSS 60

Query: 589  HLN--DASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNVIS 645
             +N  +       G LE L L  + +  L +   G +S+LK L+L  N +  +   ++  
Sbjct: 61   RINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFP 120

Query: 646  KLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPW 705
             L+ L+ L +GN     E+          F+    LT L  L I  +             
Sbjct: 121  NLTNLQTLRIGNVETFSEIRRID------FA---GLTSLNELEIK-AL------------ 158

Query: 706  TNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEI 765
             +L+               +    ++++                +LTL   S    + EI
Sbjct: 159  -SLR-----------NYQSQSLKSIRDI---------------HHLTL-HLSESAFLLEI 190

Query: 766  DVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGL 825
                 + +  + LR  ++ R   S   P  ++   +                        
Sbjct: 191  FADILSSVRYLELRDTNLARFQFSPL-PVDEVSSPMKKLAFRGS---------------- 233

Query: 826  KRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFSRTLAEGLGNLEDLS 885
              L +     L K+L       S V      L  + D        S  ++E LG +E ++
Sbjct: 234  -VLTDESFNELLKLLRYIL-ELSEVEFDDCTLNGLGD---FNPSESDVVSE-LGKVETVT 287

Query: 886  ILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNA 945
            I +  +                   +          +  L+K+         + +++ N+
Sbjct: 288  IRRLHI------------------PQFYLFYDLSTVYSLLEKV---------KRITVENS 320

Query: 946  H----------NLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDLPEL 995
                       +LK LE L + S N M      +   K A      P L+ L L     L
Sbjct: 321  KVFLVPCSFSQHLKSLEFLDL-SENLMVEEYLKNSACKGA-----WPSLQTLVLSQN-HL 373

Query: 996  DSVYNGEIAALRWPSLEEL 1014
             S+       L   +L  L
Sbjct: 374  RSMQKTGEILLTLKNLTSL 392

>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 = 77.8 bits (192), Expect = 6e-15
 Identities = 31/200 (15%), Positives = 73/200 (36%), Gaps = 20/200 (10%)

Query: 529 KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPC----LEKLRSLH 584
              ++  + ++N+    +P +F +H + ++ LDLS   +                L++L 
Sbjct: 308 LLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLV 367

Query: 585 LENTHL----NDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIP 640
           L   HL        ++     L  L +  +    +P+       ++ L+LS+   ++V+ 
Sbjct: 368 LSQNHLRSMQKTGEILLTLKNLTSLDISRNTFHPMPDSCQWPEKMRFLNLSST-GIRVVK 426

Query: 641 PNVISKLSQLEELYV-GNSFGDWEVEET-------ANGQNARFSEVASLTRLTVLYIHVS 692
             +      LE L V  N+   + +          +  +     + +    L V+ I  +
Sbjct: 427 TCI---PQTLEVLDVSNNNLDSFSLFLPRLQELYISRNKLKTLPDASLFPVLLVMKISRN 483

Query: 693 NTKVLSVDFDGPWTNLKRFR 712
             K +        T+L++  
Sbjct: 484 QLKSVPDGIFDRLTSLQKIW 503

>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 = 91.2 bits (227), Expect = 5e-19
 Identities = 34/160 (21%), Positives = 68/160 (42%), Gaps = 6/160 (3%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNP--FADIPNAFFEHTREIKNLD 561
           P   L++ ++L+           +   P L  L L  N   F    +     T  +K LD
Sbjct: 320 PTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLD 379

Query: 562 LSSTNISSLAPSLPCLEKLRSLHLENTHLN---DASLIREFGELEVLILKGSRIVELPNG 618
           LS   + +++ +   LE+L  L  ++++L    + S+      L  L +  +      NG
Sbjct: 380 LSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG 439

Query: 619 -IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
               +S+L++L ++ N F +   P++ ++L  L  L +  
Sbjct: 440 IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 479

>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 = 85.9 bits (213), Expect = 3e-17
 Identities = 40/160 (25%), Positives = 63/160 (39%), Gaps = 9/160 (5%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS 564
           E + N      M+ N   +PD  P       L L  NP   + +  F    E++ LDLS 
Sbjct: 5   EVVPN-ITYQCMELNFYKIPDNLP--FSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR 61

Query: 565 TNISSLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNG-IG 620
             I ++   +   L  L +L L    +             L+ L+   + +  L N  IG
Sbjct: 62  CEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIG 121

Query: 621 TVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSF 659
            +  LK L++++NL      P   S L+ LE L +  N  
Sbjct: 122 HLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 161

>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 = 85.1 bits (211), Expect = 5e-17
 Identities = 30/154 (19%), Positives = 53/154 (34%), Gaps = 8/154 (5%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
           L N    SL+   +  + D         L L N  F   P       + +K L  +S   
Sbjct: 281 LTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKL---KSLKRLTFTSNKG 337

Query: 568 SSLAPSLPCLEKLRSLHLENTHLNDASLI-REFGE---LEVLILKGSRIVELPNGIGTVS 623
            +   S   L  L  L L    L+      +       L+ L L  + ++ + +    + 
Sbjct: 338 GNA-FSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLE 396

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            L+ LD  ++   Q+   +V   L  L  L + +
Sbjct: 397 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISH 430

>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 = 77.8 bits (192), Expect = 8e-15
 Identities = 24/138 (17%), Positives = 43/138 (31%), Gaps = 8/138 (5%)

Query: 529 KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP--SLPCLEKLRSLHLE 586
               L  L + +       N  F     ++ L ++  +            L  L  L L 
Sbjct: 419 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLS 478

Query: 587 NTHLN--DASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNV 643
              L     +       L+VL +  +    L       +++L++LD S N  +       
Sbjct: 479 QCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNH-IMTSKKQE 537

Query: 644 ISKL-SQLEELYV-GNSF 659
           +    S L  L +  N F
Sbjct: 538 LQHFPSSLAFLNLTQNDF 555

>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 = 51.2 bits (123), Expect = 2e-06
 Identities = 19/85 (22%), Positives = 34/85 (40%), Gaps = 3/85 (3%)

Query: 575 PCLEKLRSLHLENTHLNDASLIRE-FGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSN 632
           PC+E + ++  +   LN   +        + L L  + +  L +    +   L++LDLS 
Sbjct: 2   PCVEVVPNITYQCMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSR 61

Query: 633 NLFLQVIPPNVISKLSQLEELYVGN 657
              +Q I       LS L  L +  
Sbjct: 62  CE-IQTIEDGAYQSLSHLSTLILTG 85

>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 = 50.8 bits (122), Expect = 2e-06
 Identities = 20/144 (13%), Positives = 47/144 (32%), Gaps = 15/144 (10%)

Query: 500 KKGWPREDLQNCEKLSLMD--GN-VTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHT 554
           ++ +  +       L+ +D     +  L          L  L + +N F  +    ++  
Sbjct: 458 QENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCL 517

Query: 555 REIKNLDLSSTNISSLAPSL--PCLEKLRSLHLENTHL----NDASLIREFGELEVLILK 608
             ++ LD S  +I +            L  L+L            S ++   +   L+++
Sbjct: 518 NSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQWIKDQRQLLVE 577

Query: 609 GSRIV-ELPNGIGTVSNLKLLDLS 631
             R+    P        + +L L+
Sbjct: 578 VERMECATP---SDKQGMPVLSLN 598

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 89.8 bits (223), Expect = 7e-19
 Identities = 51/213 (23%), Positives = 85/213 (39%), Gaps = 22/213 (10%)

Query: 508 LQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           L++ E L L   ++  +          L TL L +N    IPN  F +  ++K L L + 
Sbjct: 87  LRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNN 146

Query: 566 NISSLAPSLPC-LEKLRSLHLEN----THLNDASLIREFGELEVLILKGSRIVELPNGIG 620
            I S+       +  LR L L      +++++ +       L  L L    + E+PN   
Sbjct: 147 PIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAF-EGLSNLRYLNLAMCNLREIPNLTP 205

Query: 621 TVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVA 679
            +  L  LDLS N  L  I P     L  L++L++  +      +E  A      F    
Sbjct: 206 -LIKLDELDLSGNH-LSAIRPGSFQGLMHLQKLWMIQSQI--QVIERNA------FD--- 252

Query: 680 SLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFR 712
           +L  L  + +  +N  +L  D   P  +L+R  
Sbjct: 253 NLQSLVEINLAHNNLTLLPHDLFTPLHHLERIH 285

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 87.9 bits (218), Expect = 3e-18
 Identities = 42/208 (20%), Positives = 72/208 (34%), Gaps = 28/208 (13%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            C + +L       +PD          L L  N    I    F+H R ++ L LS  +I 
Sbjct: 49  ICVRKNL-----REVPDGIS--TNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR 101

Query: 569 SLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVSN 624
           ++   +   L  L +L L +  L            +L+ L L+ + I  +P+     + +
Sbjct: 102 TIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPS 161

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRL 684
           L+ LDL     L  I       LS L  L +                      +  L +L
Sbjct: 162 LRRLDLGELKRLSYISEGAFEGLSNLRYLNLAM-----------C-NLREIPNLTPLIKL 209

Query: 685 TVLYIHVSN--TKVLSVDFDGPWTNLKR 710
             L +   N  + +    F G   +L++
Sbjct: 210 DELDLS-GNHLSAIRPGSFQG-LMHLQK 235

>3zyj_A Leucine-rich repeat-containing protein 4C; cell adhesion, synapse; HET: NAG BMA MAN; 3.25A {Homo sapiens} Length = 440

 Score = 63.2 bits (154), Expect = 2e-10
 Identities = 24/130 (18%), Positives = 49/130 (37%), Gaps = 24/130 (18%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           E L N   L+L   N+  +P+     +L  L L  N  + I    F+    ++ L +  +
Sbjct: 182 EGLSNLRYLNLAMCNLREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQS 241

Query: 566 NISSLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GTVS 623
            I  +   +   L+ L  ++L +   N                    +  LP+ +   + 
Sbjct: 242 QIQVIERNAFDNLQSLVEINLAH---N-------------------NLTLLPHDLFTPLH 279

Query: 624 NLKLLDLSNN 633
           +L+ + L +N
Sbjct: 280 HLERIHLHHN 289

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 91.1 bits (226), Expect = 1e-18
 Identities = 28/186 (15%), Positives = 53/186 (28%), Gaps = 24/186 (12%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
           +     L  +   V  L       +LT L L  N   +IP  F   T +++ L  S   +
Sbjct: 572 MVKLGLLDCVHNKVRHLEAFGTNVKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKL 631

Query: 568 SSLAP--SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
             +    +   +  + S+      +   S  R                          N 
Sbjct: 632 KYIPNIFNAKSVYVMGSVDFSYNKIG--SEGRNISC--------------SMDDYKGINA 675

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRL 684
             + LS N  +Q  P  + +  S +  + +  N           N    +     +   L
Sbjct: 676 STVTLSYNE-IQKFPTELFATGSPISTIILSNNLMTSIP----ENSLKPKDGNYKNTYLL 730

Query: 685 TVLYIH 690
           T + + 
Sbjct: 731 TTIDLR 736

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 74.5 bits (183), Expect = 1e-13
 Identities = 27/178 (15%), Positives = 65/178 (36%), Gaps = 23/178 (12%)

Query: 502 GWPREDLQNCEKLSLMD--GN-VTALPDQP---------KCPRLTTLFLQNNPFADIPNA 549
            +P E       +S +    N +T++P+               LTT+ L+ N    + + 
Sbjct: 687 KFPTELFATGSPISTIILSNNLMTSIPENSLKPKDGNYKNTYLLTTIDLRFNKLTSLSDD 746

Query: 550 F-FEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHL-ENTHLNDASLIREFGE------ 601
           F       + N+D+S    SS         +L++  +          ++R++        
Sbjct: 747 FRATTLPYLSNMDVSYNCFSSFPTQPLNSSQLKAFGIRHQRDAEGNRILRQWPTGITTCP 806

Query: 602 -LEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS 658
            L  L +  + I ++   +     L +LD+++N  + +   +V   +     + + + 
Sbjct: 807 SLIQLQIGSNDIRKVDEKLTP--QLYILDIADNPNISIDVTSVCPYIEAGMYVLLYDK 862

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 73.0 bits (179), Expect = 4e-13
 Identities = 26/194 (13%), Positives = 56/194 (28%), Gaps = 35/194 (18%)

Query: 513 KLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLA 571
           ++  +   +T +     +  +L  ++  N+PF     A         + +          
Sbjct: 429 QIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWE-----DANSDYAKQYENE 483

Query: 572 P-SLPCLEKLRSLHLENTHLNDASLIREFG---ELEVLILKGSRIV----------ELPN 617
             S   L+ L  + L N       L        EL+ L +  +R +           L +
Sbjct: 484 ELSWSNLKDLTDVELYNCPNMT-QLPDFLYDLPELQSLNIACNRGISAAQLKADWTRLAD 542

Query: 618 GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFS 676
              T   +++  +  N   +      + K+ +L  L    N                   
Sbjct: 543 DEDTGPKIQIFYMGYNNLEEFPASASLQKMVKLGLLDCVHNKV-------------RHLE 589

Query: 677 EVASLTRLTVLYIH 690
              +  +LT L + 
Sbjct: 590 AFGTNVKLTDLKLD 603

>4ecn_A Leucine-rich repeat protein; leucine-rich repeats, DUF4458 domain, protein binding, extra protein, structural genomics; 2.80A {Bacteroides thetaiotaomicron} Length = 876

 Score = 66.8 bits (163), Expect = 3e-11
 Identities = 31/223 (13%), Positives = 61/223 (27%), Gaps = 44/223 (19%)

Query: 501 KGWPREDLQNCEKLSLMD--GN--VTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTR 555
              P  DL N  +++ +   G      +PD   +   L  L    +        F +   
Sbjct: 312 GDQPGVDLDNNGRVTGLSLAGFGAKGRVPDAIGQLTELKVLSFGTHSETVSGRLFGDEEL 371

Query: 556 EIKNLDLSSTNISSLAPS--LPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGS--- 610
                +     I        L   ++L    L    +N    ++   +   + LK +   
Sbjct: 372 TPDMSEERKHRIRMHYKKMFLDYDQRLNLSDLLQDAINRNPEMKPIKKDSRISLKDTQIG 431

Query: 611 ----RIVELPNGIGTVSNLKLLDLSNNLFLQVIP------------------PNVISKLS 648
               RI  +   I  ++ L+++  +N+ F                           S L 
Sbjct: 432 NLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDYAKQYENEELSWSNLK 491

Query: 649 QLEELYVGNSFGDWEVEETANGQNARF-SEVASLTRLTVLYIH 690
            L ++ + N                +    +  L  L  L I 
Sbjct: 492 DLTDVELYN-----------CPNMTQLPDFLYDLPELQSLNIA 523

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 87.0 bits (216), Expect = 4e-18
 Identities = 30/156 (19%), Positives = 55/156 (35%), Gaps = 11/156 (7%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
               + +    ++    ++ L        +  L   +N    +         E+  L L 
Sbjct: 181 DLSLIPSLFHANVSYNLLSTLAIPI---AVEELDASHNSINVVRGPVN---VELTILKLQ 234

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGIGT 621
             N++     L     L  + L    L         +   LE L +  +R+V L      
Sbjct: 235 HNNLTDT-AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQP 293

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +  LK+LDLS+N  L  +  N   +  +LE LY+ +
Sbjct: 294 IPTLKVLDLSHNH-LLHVERN-QPQFDRLENLYLDH 327

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 84.3 bits (209), Expect = 3e-17
 Identities = 51/327 (15%), Positives = 111/327 (33%), Gaps = 59/327 (18%)

Query: 514 LSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP- 572
           + +   +V    +         +  +N+    +P A  +  R+++ L+L+   I  +   
Sbjct: 28  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTY 87

Query: 573 SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLLD 629
           +      ++ L++    +      + +    L VL+L+ + +  LP GI      L  L 
Sbjct: 88  AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLS 147

Query: 630 LSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEV--ASLTRLTVL 687
           +SNN  L+ I  +     + L+ L + +           N    R + V  + +  L   
Sbjct: 148 MSNNN-LERIEDDTFQATTSLQNLQLSS-----------N----RLTHVDLSLIPSLFHA 191

Query: 688 YIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEK 747
            +  +    L++        ++                      +  NSI      +  +
Sbjct: 192 NVSYNLLSTLAIP-----IAVEEL-----------------DASH--NSINVVRGPVNVE 227

Query: 748 TEYLTLTRSSN-LQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYC 806
              L L    N L D   +    + GL+ + L    +++I +  F    + LE L++   
Sbjct: 228 LTILKL--QHNNLTDTAWL--LNYPGLVEVDLSYNELEKIMYHPFVKMQR-LERLYISNN 282

Query: 807 YSLKEVFCLEDIEGEQAGLKRLRELVL 833
                   L  +      +  L+ L L
Sbjct: 283 -------RLVALNLYGQPIPTLKVLDL 302

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 83.6 bits (207), Expect = 5e-17
 Identities = 33/195 (16%), Positives = 65/195 (33%), Gaps = 25/195 (12%)

Query: 502 GWPREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKN 559
           G+    L N + ++  +  +  LP        ++  L L +    +I    F +   I+ 
Sbjct: 38  GFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTYAFAYAHTIQK 97

Query: 560 LDLSSTNISSLAPS-LPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELP 616
           L +    I  L P     +  L  L LE   L+     +     +L  L +  + +  + 
Sbjct: 98  LYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIE 157

Query: 617 NGIGT-VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARF 675
           +      ++L+ L LS+N  L  +  ++   +  L    V             N      
Sbjct: 158 DDTFQATTSLQNLQLSSNR-LTHVDLSL---IPSLFHANVSY-----------N----LL 198

Query: 676 SEVASLTRLTVLYIH 690
           S +A    +  L   
Sbjct: 199 STLAIPIAVEELDAS 213

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 83.2 bits (206), Expect = 7e-17
 Identities = 28/146 (19%), Positives = 55/146 (37%), Gaps = 6/146 (4%)

Query: 507 DLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTN 566
                E+L     ++  +   P    LT L LQ+N   D       +   +  +DLS   
Sbjct: 203 IPIAVEELDASHNSINVVRG-PVNVELTILKLQHNNLTDTAW--LLNYPGLVEVDLSYNE 259

Query: 567 ISSLAP-SLPCLEKLRSLHLENTHLNDASL-IREFGELEVLILKGSRIVELPNGIGTVSN 624
           +  +       +++L  L++ N  L   +L  +    L+VL L  + ++ +         
Sbjct: 260 LEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDR 319

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQL 650
           L+ L L +N  +  +  +    L  L
Sbjct: 320 LENLYLDHNS-IVTLKLSTHHTLKNL 344

>3o6n_A APL1; leucine-rich repeat, protein binding; HET: NAG; 1.85A {Anopheles gambiae} Length = 390

 Score = 76.6 bits (189), Expect = 8e-15
 Identities = 33/131 (25%), Positives = 49/131 (37%), Gaps = 3/131 (2%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
                     L L   N+T        P L  + L  N    I    F   + ++ L +S
Sbjct: 221 RGPVNVELTILKLQHNNLTDTAWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYIS 280

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTV 622
           +  + +L      +  L+ L L + HL        +F  LE L L  + IV L   + T 
Sbjct: 281 NNRLVALNLYGQPIPTLKVLDLSHNHLLHVERNQPQFDRLENLYLDHNSIVTLK--LSTH 338

Query: 623 SNLKLLDLSNN 633
             LK L LS+N
Sbjct: 339 HTLKNLTLSHN 349

>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 = 87.7 bits (218), Expect = 4e-18
 Identities = 38/186 (20%), Positives = 67/186 (36%), Gaps = 29/186 (15%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQP-KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS 564
           E   + E L     ++T LP+ P     L          +D+P         ++ L +S+
Sbjct: 88  ELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLKALSDLPP-------LLEYLGVSN 140

Query: 565 TNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSN 624
             +  L P L     L+ + ++N  L    L      LE +    +++ ELP  +  +  
Sbjct: 141 NQLEKL-PELQNSSFLKIIDVDNNSLK--KLPDLPPSLEFIAAGNNQLEELPE-LQNLPF 196

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRL 684
           L  +   NN  L+ +P         LE +  GN+                  E+ +L  L
Sbjct: 197 LTAIYADNNS-LKKLPDL----PLSLESIVAGNN------------ILEELPELQNLPFL 239

Query: 685 TVLYIH 690
           T +Y  
Sbjct: 240 TTIYAD 245

>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 = 84.3 bits (209), Expect = 5e-17
 Identities = 38/182 (20%), Positives = 65/182 (35%), Gaps = 24/182 (13%)

Query: 512 EKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLA 571
           E L + +  +  LP+      L  + + NN    +P+        ++ +   +  +  L 
Sbjct: 134 EYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPDLP----PSLEFIAAGNNQLEEL- 188

Query: 572 PSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLS 631
           P L  L  L +++ +N  L    L      LE ++   + + ELP  +  +  L  +   
Sbjct: 189 PELQNLPFLTAIYADNNSLK--KLPDLPLSLESIVAGNNILEELPE-LQNLPFLTTIYAD 245

Query: 632 NNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHV 691
           NNL L+ +P         LE L V +           N          SLT L V     
Sbjct: 246 NNL-LKTLPD----LPPSLEALNVRD-----------NYLTDLPELPQSLTFLDVSENIF 289

Query: 692 SN 693
           S 
Sbjct: 290 SG 291

>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 = 79.7 bits (197), Expect = 1e-15
 Identities = 29/152 (19%), Positives = 56/152 (36%), Gaps = 17/152 (11%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           +   + E +   +  +  LP+    P LTT++  NN    +P    +    ++ L++   
Sbjct: 212 DLPLSLESIVAGNNILEELPELQNLPFLTTIYADNNLLKTLP----DLPPSLEALNVRDN 267

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            ++ L      L  L       + L++         L  L    + I  L +      +L
Sbjct: 268 YLTDLPELPQSLTFLDVSENIFSGLSE-----LPPNLYYLNASSNEIRSLCDLP---PSL 319

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           + L++SNN  L  +P        +LE L    
Sbjct: 320 EELNVSNNK-LIELPAL----PPRLERLIASF 346

>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 = 78.9 bits (195), Expect = 2e-15
 Identities = 33/165 (20%), Positives = 68/165 (41%), Gaps = 21/165 (12%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           +   + E ++  +  +  LP+    P LT ++  NN    +P+        ++++   + 
Sbjct: 170 DLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPL----SLESIVAGNN 225

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            +  L P L  L  L +++ +N  L   +L      LE L ++ + + +LP    +++ L
Sbjct: 226 ILEEL-PELQNLPFLTTIYADNNLLK--TLPDLPPSLEALNVRDNYLTDLPELPQSLTFL 282

Query: 626 KLLDLSNNLFLQVIPPN-------------VISKLSQLEELYVGN 657
            + +   +  L  +PPN             +      LEEL V N
Sbjct: 283 DVSENIFS-GLSELPPNLYYLNASSNEIRSLCDLPPSLEELNVSN 326

>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 = 72.7 bits (179), Expect = 2e-13
 Identities = 27/169 (15%), Positives = 59/169 (34%), Gaps = 30/169 (17%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           E   N   L+     + +L D P  P L  L + NN   ++P         ++ L  S  
Sbjct: 294 ELPPNLYYLNASSNEIRSLCDLP--PSLEELNVSNNKLIELPALP----PRLERLIASFN 347

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLND-----------------ASLIREFGELEVLILK 608
           +++ +         L+ LH+E   L +                 A +      L+ L ++
Sbjct: 348 HLAEVPELPQ---NLKQLHVEYNPLREFPDIPESVEDLRMNSHLAEVPELPQNLKQLHVE 404

Query: 609 GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            + + E P+      +++ L +++   +            +LE+    +
Sbjct: 405 TNPLREFPDIPE---SVEDLRMNSERVVD-PYEFAHETTDKLEDDVFEH 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 = 58.9 bits (143), Expect = 5e-09
 Identities = 31/172 (18%), Positives = 59/172 (34%), Gaps = 37/172 (21%)

Query: 533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSL-------------PCLEK 579
           L      ++   ++P     + +       + +     AP                CL++
Sbjct: 13  LQEPLRHSSNLTEMPVEAE-NVKSKTEYYNAWSEWERNAPPGNGEQREMAVSRLRDCLDR 71

Query: 580 -LRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQV 638
               L L N  L+  SL      LE L+   + + ELP    ++ +L + + +    L  
Sbjct: 72  QAHELELNNLGLS--SLPELPPHLESLVASCNSLTELPELPQSLKSLLVDNNNLKA-LSD 128

Query: 639 IPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIH 690
           +PP        LE L V N           N Q  +  E+ + + L ++ + 
Sbjct: 129 LPPL-------LEYLGVSN-----------N-QLEKLPELQNSSFLKIIDVD 161

>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 = 43.8 bits (104), Expect = 2e-04
 Identities = 15/87 (17%), Positives = 38/87 (43%), Gaps = 8/87 (9%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           +  ++ E L + + ++  +P+ P+   L  L ++ NP  + P+        +++L ++S 
Sbjct: 374 DIPESVEDLRM-NSHLAEVPELPQ--NLKQLHVETNPLREFPDIPES----VEDLRMNSE 426

Query: 566 NISSLAPSLPC-LEKLRSLHLENTHLN 591
            +           +KL     E+ H +
Sbjct: 427 RVVDPYEFAHETTDKLEDDVFEHHHHH 453

>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 = 88.4 bits (219), Expect = 4e-18
 Identities = 53/328 (16%), Positives = 105/328 (32%), Gaps = 38/328 (11%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
               + +    ++    ++ L        +  L   +N    +         E+  L L 
Sbjct: 187 DLSLIPSLFHANVSYNLLSTLAIPI---AVEELDASHNSINVVRGPVN---VELTILKLQ 240

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGIGT 621
             N++     L     L  + L    L         +   LE L +  +R+V L      
Sbjct: 241 HNNLTDT-AWLLNYPGLVEVDLSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQP 299

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEV--A 679
           +  LK+LDLS+N  L  +  N   +  +LE LY+ +           N        +  +
Sbjct: 300 IPTLKVLDLSHNH-LLHVERN-QPQFDRLENLYLDH-----------N----SIVTLKLS 342

Query: 680 SLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIAS 739
           +   L  L +  S+           + N+ R  V   D + +I   +  H      S   
Sbjct: 343 THHTLKNLTL--SHNDWDCNSLRALFRNVARPAVDDADQHCKI-DYQLEHGLCCKESDKP 399

Query: 740 WVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILE 799
           ++  LL+          +++ +  +      +    ++        I        +Q  E
Sbjct: 400 YLDRLLQ------YIALTSVVEKVQRAQGRCSATDTINSVQSLSHYI-TQQGGVPLQGNE 452

Query: 800 ELHVEYCYSLKEVFCLEDIEGEQAGLKR 827
           +L  E      EV  L + + +Q  L +
Sbjct: 453 QLEAEVNELRAEVQQLTNEQIQQEQLLQ 480

>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 = 85.4 bits (211), Expect = 4e-17
 Identities = 26/148 (17%), Positives = 60/148 (40%), Gaps = 5/148 (3%)

Query: 514 LSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP- 572
           + +   +V    +         +  +N+    +P A  +  R+++ L+L+   I  +   
Sbjct: 34  IDMQTQDVYFGFEDITLNNQKIVTFKNSTMRKLPAALLDSFRQVELLNLNDLQIEEIDTY 93

Query: 573 SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLLD 629
           +      ++ L++    +      + +    L VL+L+ + +  LP GI      L  L 
Sbjct: 94  AFAYAHTIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLS 153

Query: 630 LSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +SNN  L+ I  +     + L+ L + +
Sbjct: 154 MSNNN-LERIEDDTFQATTSLQNLQLSS 180

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 83.2 bits (206), Expect = 1e-17
 Identities = 42/186 (22%), Positives = 73/186 (39%), Gaps = 20/186 (10%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P   L N  K +L   +VT L  Q +   +      N+    +     +    +K L LS
Sbjct: 14  PDPGLANAVKQNLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLAG--MQFFTNLKELHLS 71

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
              IS L+P L  L KL  L +    L + + I     L  L L  + + +  + +  + 
Sbjct: 72  HNQISDLSP-LKDLTKLEELSVNRNRLKNLNGI-PSACLSRLFLDNNELRDTDS-LIHLK 128

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
           NL++L + NN  L+ I    +  LS+LE L +             N +      +  L +
Sbjct: 129 NLEILSIRNNK-LKSIVM--LGFLSKLEVLDLHG-----------N-EITNTGGLTRLKK 173

Query: 684 LTVLYI 689
           +  + +
Sbjct: 174 VNWIDL 179

>1xeu_A Internalin C; cellular invasion, leucine-rich repeat, cell invasion; 2.05A {Listeria monocytogenes} Length = 263

 Score = 71.2 bits (175), Expect = 1e-13
 Identities = 37/183 (20%), Positives = 72/183 (39%), Gaps = 11/183 (6%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           +DL   E+LS+    +  L +      L+ LFL NN   D  +    H + ++ L + + 
Sbjct: 82  KDLTKLEELSVNRNRLKNL-NGIPSACLSRLFLDNNELRDTDS--LIHLKNLEILSIRNN 138

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            + S+   L  L KL  L L    + +   +    ++  + L G + V  P  +     L
Sbjct: 139 KLKSIVM-LGFLSKLEVLDLHGNEITNTGGLTRLKKVNWIDLTGQKCVNEP--VKYQPEL 195

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLT 685
            + +   +   + I P  IS      +  V      WE+    +  + +FSE  ++    
Sbjct: 196 YITNTVKDPDGRWISPYYISNGGSYVDGCVL-----WELPVYTDEVSYKFSEYINVGETE 250

Query: 686 VLY 688
            ++
Sbjct: 251 AIF 253

>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 = 83.8 bits (208), Expect = 2e-17
 Identities = 40/161 (24%), Positives = 71/161 (44%), Gaps = 12/161 (7%)

Query: 507 DLQNCEKL-SLMD--GNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
            ++ C +L  L +   +  A  +      L +L L+      +P +       +K+L + 
Sbjct: 156 SIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQN-LKSLKIR 214

Query: 564 STNISSLAPSLPCLEKLRSLHL-ENTHLNDASLIREFGE---LEVLILKG-SRIVELPNG 618
           ++ +S+L P++  L KL  L L   T L   +    FG    L+ LILK  S ++ LP  
Sbjct: 215 NSPLSALGPAIHHLPKLEELDLRGCTAL--RNYPPIFGGRAPLKRLILKDCSNLLTLPLD 272

Query: 619 IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSF 659
           I  ++ L+ LDL   + L  +P   I++L     + V    
Sbjct: 273 IHRLTQLEKLDLRGCVNLSRLPSL-IAQLPANCIILVPPHL 312

>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 = 80.0 bits (198), Expect = 3e-16
 Identities = 36/165 (21%), Positives = 65/165 (39%), Gaps = 18/165 (10%)

Query: 507 DLQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
            L + + +++    +  LPD   +   L TL L  NP   +P +       ++ L + + 
Sbjct: 102 RLSHLQHMTIDAAGLMELPDTMQQFAGLETLTLARNPLRALPAS-IASLNRLRELSIRAC 160

Query: 566 N-ISSL---------APSLPCLEKLRSLHLENTHLNDASLIREFGE---LEVLILKGSRI 612
             ++ L         +     L  L+SL LE T +   SL         L+ L ++ S +
Sbjct: 161 PELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR--SLPASIANLQNLKSLKIRNSPL 218

Query: 613 VELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
             L   I  +  L+ LDL     L+  PP      + L+ L + +
Sbjct: 219 SALGPAIHHLPKLEELDLRGCTALRNYPPI-FGGRAPLKRLILKD 262

>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 = 65.0 bits (159), Expect = 3e-11
 Identities = 33/261 (12%), Positives = 66/261 (25%), Gaps = 54/261 (20%)

Query: 530 CPRLTTLFLQN-NPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENT 588
                 L+ Q         +       + +    +  N    A         +       
Sbjct: 11  SSGRENLYFQGSTALRPYHDVL----SQWQRHYNADRNRWHSAWRQANSNNPQIETRTGR 66

Query: 589 HLNDASLIREFGE-----LEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNV 643
            L   +      +        L L+   + + P+    +S+L+ + +     L  +P   
Sbjct: 67  ALK--ATADLLEDATQPGRVALELRSVPLPQFPDQAFRLSHLQHMTIDAAG-LMELPDT- 122

Query: 644 ISKLSQLEELYVGN--------SFGDWEVEETAN--------------GQNARFSEVASL 681
           + + + LE L +          S          +                     E   L
Sbjct: 123 MQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGL 182

Query: 682 TRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWV 741
             L  L +  +  + L         NLK  ++  +             L  L  +I    
Sbjct: 183 VNLQSLRLEWTGIRSLPASI-ANLQNLKSLKIRNS------------PLSALGPAIHHLP 229

Query: 742 KLLLEKTEYLTLTRSSNLQDI 762
           KL     E L L   + L++ 
Sbjct: 230 KL-----EELDLRGCTALRNY 245

>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 = 63.0 bits (154), Expect = 1e-10
 Identities = 31/142 (21%), Positives = 62/142 (43%), Gaps = 10/142 (7%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS 564
           + L N + L L    + +LP        L +L ++N+P + +  A   H  +++ LDL  
Sbjct: 180 QGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAI-HHLPKLEELDLRG 238

Query: 565 TN-ISSLAPSLPCLEKLRSLHLEN-THLNDASLIREFGE---LEVLILKG-SRIVELPNG 618
              + +  P       L+ L L++ ++L   +L  +      LE L L+G   +  LP+ 
Sbjct: 239 CTALRNYPPIFGGRAPLKRLILKDCSNL--LTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296

Query: 619 IGTVSNLKLLDLSNNLFLQVIP 640
           I  +    ++ +  +L  Q+  
Sbjct: 297 IAQLPANCIILVPPHLQAQLDQ 318

>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 = 85.2 bits (211), Expect = 2e-17
 Identities = 65/348 (18%), Positives = 115/348 (33%), Gaps = 53/348 (15%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            C +         A+P+  P       L L  N    +    F     ++ L+L+   +S
Sbjct: 17  LCHRKRF-----VAVPEGIP--TETRLLDLGKNRIKTLNQDEFASFPHLEELELNENIVS 69

Query: 569 SLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVSN 624
           ++ P +   L  LR+L L +  L      +      L  L +  ++IV L + +   + N
Sbjct: 70  AVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQDLYN 129

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEV-----A 679
           LK L++ +N  L  I     S L+ LE+L +                    + +     +
Sbjct: 130 LKSLEVGDN-DLVYISHRAFSGLNSLEQLTLEK-----------C----NLTSIPTEALS 173

Query: 680 SLTRLTVLYIHVSN--TKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPK--RSMHLKNLS- 734
            L  L VL +        +    F      LK   +        + P     ++L +LS 
Sbjct: 174 HLHGLIVLRLR-HLNINAIRDYSFKRL-YRLKVLEISHWPYLDTMTPNCLYGLNLTSLSI 231

Query: 735 --NSIASWVKLLLEKTEYL-TLTRSSN-LQDIGEIDVQGFTGLMCMHLRACSMQRIFHSN 790
              ++ +   L +    YL  L  S N +  I    +     L  + L    +  +    
Sbjct: 232 THCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYA 291

Query: 791 FYPTVQILEELHVEYCYSLKEVFCLEDIEGEQ-AGLKRLRELVLVGLP 837
           F      L  L+V           L  +E      +  L  L+L   P
Sbjct: 292 FRGLNY-LRVLNVSGN-------QLTTLEESVFHSVGNLETLILDSNP 331

>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 = 77.4 bits (191), Expect = 9e-15
 Identities = 34/158 (21%), Positives = 62/158 (39%), Gaps = 9/158 (5%)

Query: 507 DLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSS 564
              + E+L L +  V+A+          L TL L++N    IP   F     +  LD+S 
Sbjct: 54  SFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISE 113

Query: 565 TNISSLAP-SLPCLEKLRSLHLEN---THLNDASLIREFGELEVLILKGSRIVELPNGI- 619
             I  L       L  L+SL + +    +++  +       LE L L+   +  +P    
Sbjct: 114 NKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAF-SGLNSLEQLTLEKCNLTSIPTEAL 172

Query: 620 GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
             +  L +L L +   +  I      +L +L+ L + +
Sbjct: 173 SHLHGLIVLRLRHLN-INAIRDYSFKRLYRLKVLEISH 209

>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 = 77.1 bits (190), Expect = 9e-15
 Identities = 30/158 (18%), Positives = 58/158 (36%), Gaps = 26/158 (16%)

Query: 506 EDLQNCEKLSLMDGNVTAL--PDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           + L   + L +          P+      LT+L + +     +P     H   ++ L+LS
Sbjct: 197 KRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLS 256

Query: 564 STNISSLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTV 622
              IS++    L  L +L+ + L    L           +E    +G            +
Sbjct: 257 YNPISTIEGSMLHELLRLQEIQLVGGQLA---------VVEPYAFRG------------L 295

Query: 623 SNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSF 659
           + L++L++S N  L  +  +V   +  LE L +  N  
Sbjct: 296 NYLRVLNVSGNQ-LTTLEESVFHSVGNLETLILDSNPL 332

>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 = 83.5 bits (207), Expect = 2e-17
 Identities = 35/195 (17%), Positives = 79/195 (40%), Gaps = 17/195 (8%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFAD--IPNAFFEHTREIKN 559
           P +  +  ++L + +  +T +         ++  + L  NP     I N  F+  +++  
Sbjct: 116 PEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSY 175

Query: 560 LDLSSTNISSLAPSLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPN 617
           + ++ TNI+++   LP    L  LHL+   +   DA+ ++    L  L L  + I  + N
Sbjct: 176 IRIADTNITTIPQGLP--PSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDN 233

Query: 618 GI-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARF 675
           G      +L+ L L+NN  L  +P   ++    ++ +Y+  N+     +           
Sbjct: 234 GSLANTPHLRELHLNNNK-LVKVPGG-LADHKYIQVVYLHNNNI--SAIGSNDFCPPGYN 289

Query: 676 SEVASLTRLTVLYIH 690
           +        + + + 
Sbjct: 290 T---KKASYSGVSLF 301

>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 = 75.8 bits (187), Expect = 1e-14
 Identities = 40/184 (21%), Positives = 69/184 (37%), Gaps = 44/184 (23%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            C  L L       +P   P  P    L LQNN   +I +  F++ + +  L L +  IS
Sbjct: 37  QCSDLGL-----EKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKIS 89

Query: 569 SLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKL 627
            ++P +   L KL  L+L     N                   ++ ELP        L+ 
Sbjct: 90  KISPGAFAPLVKLERLYLSK---N-------------------QLKELPE--KMPKTLQE 125

Query: 628 LDLSNNLFLQVIPPNVISKLSQLEELYVG-NSFGDWEVEETANGQNARFSEVASLTRLTV 686
           L +  N  +  +  +V + L+Q+  + +G N      +E  A      F     + +L+ 
Sbjct: 126 LRVHENE-ITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA------FQ---GMKKLSY 175

Query: 687 LYIH 690
           + I 
Sbjct: 176 IRIA 179

>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 = 74.3 bits (183), Expect = 3e-14
 Identities = 25/157 (15%), Positives = 54/157 (34%), Gaps = 18/157 (11%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLD 561
           P+    +  +L L    +T +          L  L L  N  + + N    +T  ++ L 
Sbjct: 187 PQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELH 246

Query: 562 LSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGT 621
           L++  +  +   L   + ++ ++L N +      I            GS     P     
Sbjct: 247 LNNNKLVKVPGGLADHKYIQVVYLHNNN------ISAI---------GSNDFCPPGYNTK 291

Query: 622 VSNLKLLDLSNN-LFLQVIPPNVISKLSQLEELYVGN 657
            ++   + L +N +    I P+    +     + +GN
Sbjct: 292 KASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAVQLGN 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 = 74.3 bits (183), Expect = 3e-14
 Identities = 44/293 (15%), Positives = 93/293 (31%), Gaps = 56/293 (19%)

Query: 510 NCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
           +   L L +  +T + D        L TL L NN  + I    F    +++ L LS   +
Sbjct: 53  DTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL 112

Query: 568 SSLAPSLPC----------------------LEKLRSLHLENTHLNDASL----IREFGE 601
             L   +P                       L ++  + L    L  + +     +   +
Sbjct: 113 KELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKK 172

Query: 602 LEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFG 660
           L  + +  + I  +P   G   +L  L L  N  +  +    +  L+ L +L +  NS  
Sbjct: 173 LSYIRIADTNITTIPQ--GLPPSLTELHLDGNK-ITKVDAASLKGLNNLAKLGLSFNSIS 229

Query: 661 DWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYW 720
              V+  +       +   +   L  L+++ +    +          ++   +  N    
Sbjct: 230 A--VDNGS------LA---NTPHLRELHLNNNKLVKVPGGLADH-KYIQVVYLHNN---- 273

Query: 721 EIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGL 773
                   ++  + ++         +K  Y  ++  SN     EI    F  +
Sbjct: 274 --------NISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCV 318

>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 = 81.3 bits (201), Expect = 4e-16
 Identities = 64/350 (18%), Positives = 112/350 (32%), Gaps = 42/350 (12%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           E L     L   + ++T +    K   LT L   +N    +          +  L   S 
Sbjct: 39  EQLATLTSLDCHNSSITDMTGIEKLTGLTKLICTSNNITTLD---LSQNTNLTYLACDSN 95

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            +++L   +  L KL  L+ +   L     + +   L  L    + + E+   +   + L
Sbjct: 96  KLTNL--DVTPLTKLTYLNCDTNKLTKLD-VSQNPLLTYLNCARNTLTEID--VSHNTQL 150

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFS-------E 677
             LD   N   + I    ++  +QL  L    N   + +V +                 +
Sbjct: 151 TELDCHLN---KKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNRLNCDTNNITKLD 207

Query: 678 VASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNL---S 734
           +    +LT L    S+ K+  +D   P T L  F   VN    E+       L  L    
Sbjct: 208 LNQNIQLTFLDC--SSNKLTEIDV-TPLTQLTYFDCSVNPL-TELDVSTLSKLTTLHCIQ 263

Query: 735 NSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPT 794
             +         +  Y         + I E+DV   T L  +  +A  +  +  S   P 
Sbjct: 264 TDLLEIDLTHNTQLIYFQA---EGCRKIKELDVTHNTQLYLLDCQAAGITELDLSQN-PK 319

Query: 795 VQIL-------EELHVEYCYSLKEVFC----LEDIEGEQAGLKRLRELVL 833
           +  L        EL V +   LK + C    ++D       +  L     
Sbjct: 320 LVYLYLNNTELTELDVSHNTKLKSLSCVNAHIQDFS-SVGKIPALNNNFE 368

>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 = 76.7 bits (189), Expect = 1e-14
 Identities = 40/213 (18%), Positives = 74/213 (34%), Gaps = 27/213 (12%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P ++  +    +        +  + +   LT+L   N+   D+     E    +  L  +
Sbjct: 16  PDDNFASEVAAAFEMQATDTI-SEEQLATLTSLDCHNSSITDMTG--IEKLTGLTKLICT 72

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
           S NI++L   L     L  L  ++  L +   +    +L  L    +++ +L   +    
Sbjct: 73  SNNITTL--DLSQNTNLTYLACDSNKLTNLD-VTPLTKLTYLNCDTNKLTKLD--VSQNP 127

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
            L  L+ + N  L  I    +S  +QL EL    +            +     +V   T+
Sbjct: 128 LLTYLNCARNT-LTEID---VSHNTQLTELDCHLN------------KKITKLDVTPQTQ 171

Query: 684 LTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVN 716
           LT L    S  K+  +D       L R     N
Sbjct: 172 LTTLD--CSFNKITELDVSQN-KLLNRLNCDTN 201

>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 = 67.4 bits (165), Expect = 9e-12
 Identities = 29/175 (16%), Positives = 52/175 (29%), Gaps = 11/175 (6%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
                             D     +L  L  Q     ++         ++  L L++T +
Sbjct: 274 NTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAGITELD---LSQNPKLVYLYLNNTEL 330

Query: 568 SSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL-- 625
           + L  S     KL+SL   N H+ D S + +   L        + + +P    T ++L  
Sbjct: 331 TELDVSH--NTKLKSLSCVNAHIQDFSSVGKIPALNNNFEAEGQTITMPKETLTNNSLTI 388

Query: 626 ----KLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFS 676
                LLD   N          +   +     +   S  +  V  T   +N    
Sbjct: 389 AVSPDLLDQFGNPMNIEPGDGGVYDQATNTITWENLSTDNPAVTYTFTSENGAIV 443

>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 = 53.5 bits (129), Expect = 2e-07
 Identities = 38/187 (20%), Positives = 64/187 (34%), Gaps = 22/187 (11%)

Query: 539 QNNPFAD-IPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIR 597
           Q   F D  P+  F        +  +    ++   S   L  L SL   N+ + D + I 
Sbjct: 7   QTQSFNDWFPDDNFA-----SEVAAAFEMQATDTISEEQLATLTSLDCHNSSITDMTGIE 61

Query: 598 EFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-G 656
           +   L  LI   + I  L   +   +NL  L   +N  L  +    ++ L++L  L    
Sbjct: 62  KLTGLTKLICTSNNITTLD--LSQNTNLTYLACDSNK-LTNLD---VTPLTKLTYLNCDT 115

Query: 657 NSFGDWEVEETANGQNARFS-------EVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLK 709
           N     +V +         +       +V+  T+LT L       K ++     P T L 
Sbjct: 116 NKLTKLDVSQNPLLTYLNCARNTLTEIDVSHNTQLTELDC--HLNKKITKLDVTPQTQLT 173

Query: 710 RFRVCVN 716
                 N
Sbjct: 174 TLDCSFN 180

>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 = 81.9 bits (203), Expect = 6e-16
 Identities = 36/134 (26%), Positives = 54/134 (40%), Gaps = 7/134 (5%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLEN 587
            C  L  L +  N  + D   A    T  +K L++SS       P LP L+ L+ L L  
Sbjct: 221 DCSALQHLDISGNKLSGDFSRAISTCTE-LKLLNISSNQFVGPIPPLP-LKSLQYLSLAE 278

Query: 588 THLN---DASLIREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIPPNV 643
                     L      L  L L G+     +P   G+ S L+ L LS+N F   +P + 
Sbjct: 279 NKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDT 338

Query: 644 ISKLSQLEELYVGN 657
           + K+  L+ L +  
Sbjct: 339 LLKMRGLKVLDLSF 352

>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 = 68.4 bits (168), Expect = 1e-11
 Identities = 38/173 (21%), Positives = 63/173 (36%), Gaps = 29/173 (16%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNISSLAPSLPC---LEKLRSLH 584
               L +LFL N+     +    F+ +  + +LDLS  ++S    +L        L+ L+
Sbjct: 75  SLTGLESLFLSNSHINGSVSG--FKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLN 132

Query: 585 LENTHLN---DASLIREFGELEVLILKGSRIV-ELPNGI---GTVSNLKLLDLSNNLFLQ 637
           + +  L+     S   +   LEVL L  + I      G         LK L +S N    
Sbjct: 133 VSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISG 192

Query: 638 VIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRLTVLYI 689
            +    +S+   LE L V  N+F         +        +   + L  L I
Sbjct: 193 DVD---VSRCVNLEFLDVSSNNF---------STG---IPFLGDCSALQHLDI 230

>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 = 67.6 bits (166), Expect = 2e-11
 Identities = 37/147 (25%), Positives = 63/147 (42%), Gaps = 19/147 (12%)

Query: 553 HTREIKNLDLSSTNIS----SLAPSLPCLEKLRSLHLENTHLNDA-SLIREFGELEVLIL 607
              ++ ++DLSS  ++    +++ SL  L  L SL L N+H+N + S  +    L  L L
Sbjct: 48  RDDKVTSIDLSSKPLNVGFSAVSSSLLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDL 107

Query: 608 KGSRIV-ELPNG--IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWE 663
             + +   +     +G+ S LK L++S+N        +   KL+ LE L +  NS     
Sbjct: 108 SRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSI---- 163

Query: 664 VEETANGQN-ARFSEVASLTRLTVLYI 689
                +G N   +        L  L I
Sbjct: 164 -----SGANVVGWVLSDGCGELKHLAI 185

>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 = 67.2 bits (165), Expect = 2e-11
 Identities = 38/160 (23%), Positives = 59/160 (36%), Gaps = 32/160 (20%)

Query: 529 KCPRLTTLFLQNNPFAD-IPNAFFEHTREIKNLDLSSTNIS-SLAPSL--PCLEKLRSLH 584
           K   L  L L  N F+  +P +    +  +  LDLSS N S  + P+L       L+ L+
Sbjct: 341 KMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELY 400

Query: 585 LENTHL---------NDASLI--------------REFGE---LEVLILKGSRIV-ELPN 617
           L+N            N + L+                 G    L  L L  + +  E+P 
Sbjct: 401 LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQ 460

Query: 618 GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            +  V  L+ L L  N     IP   +S  + L  + + N
Sbjct: 461 ELMYVKTLETLILDFNDLTGEIPSG-LSNCTNLNWISLSN 499

>3rgz_A Protein brassinosteroid insensitive 1; phytohormone, leucine-rich RE receptor-like kinases, leucine-rich repeat; HET: NAG BLD; 2.28A {Arabidopsis thaliana} PDB: 3rgx_A* 3riz_A* 3rj0_A* Length = 768

 Score = 64.2 bits (157), Expect = 2e-10
 Identities = 36/137 (26%), Positives = 60/137 (43%), Gaps = 8/137 (5%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNIS-SLAPSLPCLEKLRSLHLE 586
            C  L +L L  N  +  IP++    ++ +++L L    +   +   L  ++ L +L L+
Sbjct: 416 NCSELVSLHLSFNYLSGTIPSSLGSLSK-LRDLKLWLNMLEGEIPQELMYVKTLETLILD 474

Query: 587 NTHLNDA--SLIREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIPPNV 643
              L     S +     L  + L  +R+  E+P  IG + NL +L LSNN F   IP   
Sbjct: 475 FNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAE- 533

Query: 644 ISKLSQLEELYV-GNSF 659
           +     L  L +  N F
Sbjct: 534 LGDCRSLIWLDLNTNLF 550

>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 = 62.2 bits (152), Expect = 7e-10
 Identities = 34/137 (24%), Positives = 57/137 (41%), Gaps = 12/137 (8%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNIS-SLAPSLPC-LEKLRSLHL 585
            C  L  L + +N F   IP    +    ++ L L+    +  +   L    + L  L L
Sbjct: 245 TCTELKLLNISSNQFVGPIPPLPLKS---LQYLSLAENKFTGEIPDFLSGACDTLTGLDL 301

Query: 586 ENTHLNDASLIREFGE---LEVLILKGSRIV-ELP-NGIGTVSNLKLLDLSNNLFLQVIP 640
              H    ++   FG    LE L L  +    ELP + +  +  LK+LDLS N F   +P
Sbjct: 302 SGNHFYG-AVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELP 360

Query: 641 PNVISKLSQLEELYVGN 657
            ++ +  + L  L + +
Sbjct: 361 ESLTNLSASLLTLDLSS 377

>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 = 59.5 bits (145), Expect = 4e-09
 Identities = 24/138 (17%), Positives = 39/138 (28%), Gaps = 12/138 (8%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLEN 587
            C  L  L L  N F   IP A F+ + +I    ++          +      +  H   
Sbjct: 536 DCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAG----KRYVYIKNDGMKKECHGAG 591

Query: 588 THLNDASLIRE----FGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIPPN 642
             L    +  E            +                 ++  LD+S N+    IP  
Sbjct: 592 NLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPK- 650

Query: 643 VISKLSQLEELYV-GNSF 659
            I  +  L  L +  N  
Sbjct: 651 EIGSMPYLFILNLGHNDI 668

>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 = 80.3 bits (198), Expect = 1e-15
 Identities = 30/156 (19%), Positives = 68/156 (43%), Gaps = 7/156 (4%)

Query: 508 LQNCEKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAF--FEHTREIKNLDLS 563
           +     L   +  +T    +       L TL LQ N   ++          + ++ LD+S
Sbjct: 323 ISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDIS 382

Query: 564 STNISSLAPSLPC--LEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGT 621
             ++S       C   + L SL++ +  L D         ++VL L  ++I  +P  +  
Sbjct: 383 QNSVSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKIKSIPKQVVK 442

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +  L+ L++++N  L+ +P  +  +L+ L+++++  
Sbjct: 443 LEALQELNVASN-QLKSVPDGIFDRLTSLQKIWLHT 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 = 68.7 bits (168), Expect = 5e-12
 Identities = 47/287 (16%), Positives = 95/287 (33%), Gaps = 24/287 (8%)

Query: 534 TTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPS-LPCLEKLRSLHLENTHLN- 591
             +    N    +P    + T     L++S   IS L  S +  L KLR L + +  +  
Sbjct: 3   FLVDRSKNGLIHVPKDLSQKT---TILNISQNYISELWTSDILSLSKLRILIISHNRIQY 59

Query: 592 -DASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQL 650
            D S+ +   ELE L L  +++V++        NLK LDLS N F  +        +SQL
Sbjct: 60  LDISVFKFNQELEYLDLSHNKLVKIS--CHPTVNLKHLDLSFNAFDALPICKEFGNMSQL 117

Query: 651 EELYVGN------------SFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLS 698
           + L +                   +V            +   L       +H+       
Sbjct: 118 KFLGLSTTHLEKSSVLPIAHLNISKVLLVLGETYGEKEDPEGLQDFNTESLHIVFPTNKE 177

Query: 699 VDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSN 758
             F    +      + +++    +   +  +  ++   + +  KL       +  T +S 
Sbjct: 178 FHFILDVSVKTVANLELSNIKCVLEDNKCSYFLSILAKLQTNPKLSNLTLNNIETTWNSF 237

Query: 759 LQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTV-QILEELHVE 804
           ++ +  +     T +    +    +Q       +      L+ L + 
Sbjct: 238 IRILQLVWH---TTVWYFSISNVKLQGQLDFRDFDYSGTSLKALSIH 281

>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 = 77.5 bits (191), Expect = 1e-15
 Identities = 30/137 (21%), Positives = 52/137 (37%), Gaps = 10/137 (7%)

Query: 527 QPKCP-----RLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPS-LPCLEKL 580
            P C          +         +P    + T     L LS   + + + + L    +L
Sbjct: 1   HPICEVSKVASHLEVNCDKRNLTALPPDLPKDTT---ILHLSENLLYTFSLATLMPYTRL 57

Query: 581 RSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIP 640
             L+L+   L    +      L  L L  +++  LP    T+  L +LD+S N  L  +P
Sbjct: 58  TQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLP 116

Query: 641 PNVISKLSQLEELYVGN 657
              +  L +L+ELY+  
Sbjct: 117 LGALRGLGELQELYLKG 133

>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 = 74.8 bits (184), Expect = 1e-14
 Identities = 43/151 (28%), Positives = 66/151 (43%), Gaps = 12/151 (7%)

Query: 510 NCEKLSLMDGNVTALPDQPKCPRLTT-LFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
           NC+K +L     TALP  P  P+ TT L L  N       A       +  L+L    ++
Sbjct: 16  NCDKRNL-----TALP--PDLPKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELT 68

Query: 569 SLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVLILKGSRIVELPNGIGT-VSNLK 626
            L      L  L +L L +  L     L +    L VL +  +R+  LP G    +  L+
Sbjct: 69  KL-QVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQ 127

Query: 627 LLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            L L  N  L+ +PP +++   +LE+L + N
Sbjct: 128 ELYLKGNE-LKTLPPGLLTPTPKLEKLSLAN 157

>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 = 71.3 bits (175), Expect = 2e-13
 Identities = 39/148 (26%), Positives = 60/148 (40%), Gaps = 24/148 (16%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
                +L+L    +T L      P L TL L +N    +P    +    +  LD+S   +
Sbjct: 54  YTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLL-GQTLPALTVLDVSFNRL 112

Query: 568 SSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GTVSNLK 626
           +SL         LR L                GEL+ L LKG+ +  LP G+      L+
Sbjct: 113 TSLPLGA-----LRGL----------------GELQELYLKGNELKTLPPGLLTPTPKLE 151

Query: 627 LLDLSNNLFLQVIPPNVISKLSQLEELY 654
            L L+NN  L  +P  +++ L  L+ L 
Sbjct: 152 KLSLANNN-LTELPAGLLNGLENLDTLL 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 = 59.7 bits (145), Expect = 1e-09
 Identities = 33/131 (25%), Positives = 50/131 (38%), Gaps = 4/131 (3%)

Query: 507 DLQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
            L     L L    + +LP      P LT L +  N    +P        E++ L L   
Sbjct: 75  TLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGN 134

Query: 566 NISSLAPSL-PCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPNGIGTV 622
            + +L P L     KL  L L N +L +  A L+     L+ L+L+ + +  +P G    
Sbjct: 135 ELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGS 194

Query: 623 SNLKLLDLSNN 633
             L    L  N
Sbjct: 195 HLLPFAFLHGN 205

>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 = 75.4 bits (186), Expect = 2e-15
 Identities = 26/162 (16%), Positives = 60/162 (37%), Gaps = 9/162 (5%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
             + +   ++L + NVT L        +  L + N    +           ++ L +   
Sbjct: 41  AQMNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATNYNP--ISGLSNLERLRIMGK 98

Query: 566 NISSLAPS-LPCLEKLRSLHLENTHLNDASL--IREFGELEVLILKGSRIVELPNGIGTV 622
           +++S     L  L  L  L + ++  +D+ L  I    ++  + L  +  +     + T+
Sbjct: 99  DVTSDKIPNLSGLTSLTLLDISHSAHDDSILTKINTLPKVNSIDLSYNGAITDIMPLKTL 158

Query: 623 SNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWE 663
             LK L++  +  +       I    +L +LY    + G  +
Sbjct: 159 PELKSLNIQFD-GVHDYRG--IEDFPKLNQLYAFSQTIGGKK 197

>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 = 63.4 bits (155), Expect = 2e-11
 Identities = 25/162 (15%), Positives = 61/162 (37%), Gaps = 15/162 (9%)

Query: 555 REIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVE 614
           +   N  L  ++ +++  +   +  L  + L N ++ D + I     ++ L +       
Sbjct: 23  KAYLNGLLGQSSTANITEAQ--MNSLTYITLANINVTDLTGIEYAHNIKDLTINNIHATN 80

Query: 615 LPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNAR 674
             N I  +SNL+ L +          PN +S L+ L  L + +S             ++ 
Sbjct: 81  Y-NPISGLSNLERLRIMGKDVTSDKIPN-LSGLTSLTLLDISHS----------AHDDSI 128

Query: 675 FSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVN 716
            +++ +L ++  + +   N  +  +        LK   +  +
Sbjct: 129 LTKINTLPKVNSIDLS-YNGAITDIMPLKTLPELKSLNIQFD 169

>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 = 79.9 bits (197), Expect = 2e-15
 Identities = 38/168 (22%), Positives = 61/168 (36%), Gaps = 27/168 (16%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P     +   L + D N+T+LP  P  P L TL +  N    +P        E+      
Sbjct: 56  PDCLPAHITTLVIPDNNLTSLPALP--PELRTLEVSGNQLTSLPVL-PPGLLELSIFSNP 112

Query: 564 STNISSLAPSL--------------PCLEKLRSLHLENTHLNDASLIREFGELEVLILKG 609
            T++ +L   L                   L+ L + +  L   SL     EL  L    
Sbjct: 113 LTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQLA--SLPALPSELCKLWAYN 170

Query: 610 SRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +++  LP        L+ L +S+N  L  +P       S+L +L+  N
Sbjct: 171 NQLTSLPMLPS---GLQELSVSDNQ-LASLPTL----PSELYKLWAYN 210

>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 = 78.0 bits (192), Expect = 8e-15
 Identities = 41/185 (22%), Positives = 65/185 (35%), Gaps = 30/185 (16%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
                 ++LS+ D  + +LP  P    L  L+  NN    +P         ++ L +S  
Sbjct: 138 VLPPGLQELSVSDNQLASLPALP--SELCKLWAYNNQLTSLPMLP----SGLQELSVSDN 191

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            ++SL      L KL + +   T L           L+ LI+ G+R+  LP        L
Sbjct: 192 QLASLPTLPSELYKLWAYNNRLTSLPA-----LPSGLKELIVSGNRLTSLPVLPS---EL 243

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLT 685
           K L +S N  L  +P       S L  L V             N        +  L+  T
Sbjct: 244 KELMVSGN-RLTSLPML----PSGLLSLSVYR-----------NQLTRLPESLIHLSSET 287

Query: 686 VLYIH 690
            + + 
Sbjct: 288 TVNLE 292

>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 = 76.5 bits (188), Expect = 2e-14
 Identities = 35/152 (23%), Positives = 54/152 (35%), Gaps = 19/152 (12%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
                  +LS+    +T LP  P    L  L++  N    +P         ++ L +S  
Sbjct: 98  VLPPGLLELSIFSNPLTHLPALP--SGLCKLWIFGNQLTSLPVLP----PGLQELSVSDN 151

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            ++SL        +L  L   N  L   SL      L+ L +  +++  LP        L
Sbjct: 152 QLASLPALPS---ELCKLWAYNNQLT--SLPMLPSGLQELSVSDNQLASLPTLPS---EL 203

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
             L   NN  L  +P       S L+EL V  
Sbjct: 204 YKLWAYNNR-LTSLPAL----PSGLKELIVSG 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 = 76.1 bits (187), Expect = 3e-14
 Identities = 38/165 (23%), Positives = 61/165 (36%), Gaps = 28/165 (16%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
                 L++ +  +T LPD      +TTL + +N    +P        E++ L++S   +
Sbjct: 39  NNGNAVLNVGESGLTTLPDCL-PAHITTLVIPDNNLTSLPALP----PELRTLEVSGNQL 93

Query: 568 SSLAPSLPCLEKLRSLHLENTHLND---------------ASLIREFGELEVLILKGSRI 612
           +SL    P L +L       THL                  SL      L+ L +  +++
Sbjct: 94  TSLPVLPPGLLELSIFSNPLTHLPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSDNQL 153

Query: 613 VELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
             LP        L  L   NN  L  +P       S L+EL V +
Sbjct: 154 ASLPALPS---ELCKLWAYNNQ-LTSLPML----PSGLQELSVSD 190

>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 = 56.8 bits (137), Expect = 3e-08
 Identities = 24/148 (16%), Positives = 47/148 (31%), Gaps = 6/148 (4%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
                 ++L +    +T+LP  P    L  L +  N    +P         + +L +   
Sbjct: 218 ALPSGLKELIVSGNRLTSLPVLP--SELKELMVSGNRLTSLPMLP----SGLLSLSVYRN 271

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNL 625
            ++ L  SL  L    +++LE   L++ +L             G  I     G       
Sbjct: 272 QLTRLPESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPIIRFDMAGASAPRET 331

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEEL 653
           + L L+   +L        +   +    
Sbjct: 332 RALHLAAADWLVPAREGEPAPADRWHMF 359

>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 = 56.1 bits (135), Expect = 5e-08
 Identities = 24/142 (16%), Positives = 49/142 (34%), Gaps = 29/142 (20%)

Query: 560 LDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI 619
           L++  + +++L   LP    + +L + + +L   SL     EL  L + G+++  LP   
Sbjct: 45  LNVGESGLTTLPDCLP--AHITTLVIPDNNLT--SLPALPPELRTLEVSGNQLTSLPVLP 100

Query: 620 GTVSNLKLLDLSNNLFLQVIPPNVIS-------------KLSQLEELYVGNSFGDWEVEE 666
             +  L +        L  +P  +                   L+EL V +         
Sbjct: 101 PGLLELSIFSNPLTH-LPALPSGLCKLWIFGNQLTSLPVLPPGLQELSVSD--------- 150

Query: 667 TANGQNARFSEVASLTRLTVLY 688
             N   +  +  + L +L    
Sbjct: 151 --NQLASLPALPSELCKLWAYN 170

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 77.7 bits (191), Expect = 1e-14
 Identities = 39/191 (20%), Positives = 72/191 (37%), Gaps = 31/191 (16%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P         L +    + +LP+ P    L  L   +N  + +P         +K+LD+ 
Sbjct: 75  PDNLPPQITVLEITQNALISLPELP--ASLEYLDACDNRLSTLPELP----ASLKHLDVD 128

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS 623
           +  ++ L P LP    L  ++ +N  L    L      LEVL ++ +++  LP       
Sbjct: 129 NNQLTML-PELPA--LLEYINADNNQLT--MLPELPTSLEVLSVRNNQLTFLPELPE--- 180

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFS----EVA 679
           +L+ LD+S N  L+ +P     +    EE  +     +       N    R +     + 
Sbjct: 181 SLEALDVSTN-LLESLPAV-PVRNHHSEETEIFFRCRE-------N----RITHIPENIL 227

Query: 680 SLTRLTVLYIH 690
           SL     + + 
Sbjct: 228 SLDPTCTIILE 238

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 68.5 bits (167), Expect = 6e-12
 Identities = 26/165 (15%), Positives = 55/165 (33%), Gaps = 19/165 (11%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           E   + + L + +  +T LP+ P    L  +   NN    +P         ++ L + + 
Sbjct: 117 ELPASLKHLDVDNNQLTMLPELP--ALLEYINADNNQLTMLPELP----TSLEVLSVRNN 170

Query: 566 NISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGEL-------EVLILKGSRIVELPNG 618
            ++ L       E L +L +    L   SL                   + +RI  +P  
Sbjct: 171 QLTFLPELP---ESLEALDVSTNLL--ESLPAVPVRNHHSEETEIFFRCRENRITHIPEN 225

Query: 619 IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWE 663
           I ++     + L +N  L       +S+ +   + +    +    
Sbjct: 226 ILSLDPTCTIILEDN-PLSSRIRESLSQQTAQPDYHGPRIYFSMS 269

>3cvr_A Invasion plasmid antigen; leucine rich repeat and alpha fold, ligase; 2.80A {Shigella flexneri 2A} Length = 571

 Score = 62.3 bits (151), Expect = 6e-10
 Identities = 36/161 (22%), Positives = 57/161 (35%), Gaps = 32/161 (19%)

Query: 532 RLTTLFLQ-NNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHL 590
           +        N   + +         E   L L+  N+SSL  +LP   ++  L +    L
Sbjct: 38  KQALPGENRNEAVSLLKECLINQFSE---LQLNRLNLSSLPDNLP--PQITVLEITQNAL 92

Query: 591 NDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQL 650
              SL      LE L    +R+  LP       +LK LD+ NN  L ++P       + L
Sbjct: 93  --ISLPELPASLEYLDACDNRLSTLPELPA---SLKHLDVDNNQ-LTMLPEL----PALL 142

Query: 651 EELYVGNSFGDWEVEETANGQNARFSEV-ASLTRLTVLYIH 690
           E +   N           N    + + +    T L VL + 
Sbjct: 143 EYINADN-----------N----QLTMLPELPTSLEVLSVR 168

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 75.8 bits (187), Expect = 1e-14
 Identities = 25/157 (15%), Positives = 55/157 (35%), Gaps = 18/157 (11%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLD 561
           P++  +   +L L    + A+  +   +  +L  L L +N    I N        ++ L 
Sbjct: 188 PKDLPETLNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELH 247

Query: 562 LSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGT 621
           L +  +S +   LP L+ L+ ++L   ++          ++ V                 
Sbjct: 248 LDNNKLSRVPAGLPDLKLLQVVYLHTNNIT---------KVGVNDFCP------VGFGVK 292

Query: 622 VSNLKLLDLSNN-LFLQVIPPNVISKLSQLEELYVGN 657
            +    + L NN +    + P     ++    +  GN
Sbjct: 293 RAYYNGISLFNNPVPYWEVQPATFRCVTDRLAIQFGN 329

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 75.1 bits (185), Expect = 2e-14
 Identities = 49/272 (18%), Positives = 89/272 (32%), Gaps = 50/272 (18%)

Query: 510 NCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
           +   L L + +++ L          L  L L NN  + I    F   R+++ L +S  ++
Sbjct: 55  DTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHL 114

Query: 568 SSLAPSLP----------------------CLEKLRSLHLENTHLNDASLIRE-FG--EL 602
             + P+LP                       L  +  + +    L ++      F   +L
Sbjct: 115 VEIPPNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKL 174

Query: 603 EVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN----- 657
             L +  +++  +P        L  L L +N  +Q I    + + S+L  L +G+     
Sbjct: 175 NYLRISEAKLTGIPK--DLPETLNELHLDHNK-IQAIELEDLLRYSKLYRLGLGHNQIRM 231

Query: 658 ----SFGDWEVEETANGQNARFSEV----ASLTRLTVLYIH------VSNTKVLSVDFDG 703
               S          +  N + S V      L  L V+Y+H      V       V F  
Sbjct: 232 IENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNITKVGVNDFCPVGFGV 291

Query: 704 PWTNLKRFRVCVND-DYWEIAPKRSMHLKNLS 734
                    +  N   YWE+ P     + +  
Sbjct: 292 KRAYYNGISLFNNPVPYWEVQPATFRCVTDRL 323

>2ft3_A Biglycan; proteoglycan, dimer interface, structural protein, signaling; HET: NAG FLC; 3.40A {Bos taurus} Length = 332

 Score = 68.1 bits (167), Expect = 3e-12
 Identities = 34/150 (22%), Positives = 59/150 (39%), Gaps = 34/150 (22%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            C  L L      A+P +    P  T L LQNN  +++    F+  + +  L L +  IS
Sbjct: 39  QCSDLGL-----KAVPKEIS--PDTTLLDLQNNDISELRKDDFKGLQHLYALVLVNNKIS 91

Query: 569 SLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKL 627
            +   +   L KL+ L++     N                    +VE+P      S+L  
Sbjct: 92  KIHEKAFSPLRKLQKLYISK---N-------------------HLVEIPP--NLPSSLVE 127

Query: 628 LDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           L + +N  ++ +P  V S L  +  + +G 
Sbjct: 128 LRIHDNR-IRKVPKGVFSGLRNMNCIEMGG 156

>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 = 75.5 bits (186), Expect = 1e-14
 Identities = 32/156 (20%), Positives = 63/156 (40%), Gaps = 9/156 (5%)

Query: 510 NCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
             + L L +  +T + +    +C  L  L L +N    I    F     +++LDLS   +
Sbjct: 53  AVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYL 112

Query: 568 SSLAPSL-PCLEKLRSLHLEN---THLNDASLIREFGELEVLIL-KGSRIVELPNGI-GT 621
           S+L+ S    L  L  L+L       L + SL     +L++L +       ++       
Sbjct: 113 SNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAG 172

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           ++ L+ L++  +  LQ   P  +  +  +  L +  
Sbjct: 173 LTFLEELEIDASD-LQSYEPKSLKSIQNVSHLILHM 207

>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 = 73.2 bits (180), Expect = 8e-14
 Identities = 43/263 (16%), Positives = 95/263 (36%), Gaps = 29/263 (11%)

Query: 531 PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPC-LEKLRSLHLENTH 589
             + +L L NN    I N+  +    ++ L L+S  I+++       L  L  L L   +
Sbjct: 52  EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNY 111

Query: 590 LND--ASLIREFGELEVLILKGSRIVELPNGI--GTVSNLKLLDLSNNLFLQVIPPNVIS 645
           L++  +S  +    L  L L G+    L        ++ L++L + N      I     +
Sbjct: 112 LSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFA 171

Query: 646 KLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSN-TKVLSVDFDG 703
            L+ LEEL +  +       E  +           S+  ++ L +H+     +L +  D 
Sbjct: 172 GLTFLEELEIDASDL--QSYEPKS------L---KSIQNVSHLILHMKQHILLLEIFVDV 220

Query: 704 PWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIG 763
             ++++   +             + H   LS    +    L++K  +  +  +       
Sbjct: 221 T-SSVECLELRDT-------DLDTFHFSELSTGETN---SLIKKFTFRNVKITDESLFQV 269

Query: 764 EIDVQGFTGLMCMHLRACSMQRI 786
              +   +GL+ +      ++ +
Sbjct: 270 MKLLNQISGLLELEFSRNQLKSV 292

>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 = 72.8 bits (179), Expect = 1e-13
 Identities = 55/321 (17%), Positives = 103/321 (32%), Gaps = 59/321 (18%)

Query: 530 CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPS-LPCLEKLRSLHLENT 588
           C R       +     IP+   E  +    LDLS+  I+ ++ S L     L++L L + 
Sbjct: 30  CDRNGICKGSSGSLNSIPSGLTEAVKS---LDLSNNRITYISNSDLQRCVNLQALVLTSN 86

Query: 589 HLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLLDLSNNLFLQVIPPNVIS 645
            +N  +       G LE L L  + +  L +     +S+L  L+L  N +  +   ++ S
Sbjct: 87  GINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFS 146

Query: 646 KLSQLEELYVGNSFGDWEVEETANGQNARFSEV-----ASLTRLTVLYIHVSN-TKVLSV 699
            L++L+ L VGN                 F+++     A LT L  L I  S+       
Sbjct: 147 HLTKLQILRVGN--------------MDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPK 192

Query: 700 DFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTR---- 755
                  N+    + +                     +      +    E L L      
Sbjct: 193 SLKSI-QNVSHLILHMK---------------QHI-LLLEIFVDVTSSVECLELRDTDLD 235

Query: 756 SSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFH--SNFYPTVQILEELHVEYCYSLKEVF 813
           + +  ++   +               + + +F            L EL            
Sbjct: 236 TFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISG-LLELEFSRNQ------ 288

Query: 814 CLEDI-EGEQAGLKRLRELVL 833
            L+ + +G    L  L+++ L
Sbjct: 289 -LKSVPDGIFDRLTSLQKIWL 308

>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 = 72.5 bits (178), Expect = 2e-13
 Identities = 28/195 (14%), Positives = 66/195 (33%), Gaps = 12/195 (6%)

Query: 508 LQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
             N + L L    +  + +        L  L L  N  +++ +++F+    +  L+L   
Sbjct: 75  CVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGN 134

Query: 566 NISSLAPS-----LPCLEKLRSLHLEN-THLNDASLIREFGELEVLILKGSRIVELPNGI 619
              +L  +     L  L+ LR  +++  T +           LE L +  S +       
Sbjct: 135 PYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAG-LTFLEELEIDASDLQSYEPKS 193

Query: 620 -GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSE 677
             ++ N+  L L       ++    +   S +E L +       +   E + G+     +
Sbjct: 194 LKSIQNVSHLILHMKQ-HILLLEIFVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIK 252

Query: 678 VASLTRLTVLYIHVS 692
             +   + +    + 
Sbjct: 253 KFTFRNVKITDESLF 267

>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 = 65.9 bits (161), Expect = 2e-11
 Identities = 24/141 (17%), Positives = 56/141 (39%), Gaps = 13/141 (9%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEH-----TREIK 558
             L   E+L +   ++ +   +       ++ L L       +   F +        E++
Sbjct: 171 AGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLELR 230

Query: 559 NLDLSSTNISSLAP----SLPCLEKLRSLHLENTHLND-ASLIREFGELEVLILKGSRIV 613
           + DL + + S L+     SL      R++ + +  L     L+ +   L  L    +++ 
Sbjct: 231 DTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLK 290

Query: 614 ELPNGI-GTVSNLKLLDLSNN 633
            +P+GI   +++L+ + L  N
Sbjct: 291 SVPDGIFDRLTSLQKIWLHTN 311

>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 = 74.2 bits (183), Expect = 1e-14
 Identities = 35/153 (22%), Positives = 56/153 (36%), Gaps = 10/153 (6%)

Query: 510 NCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
           + + L L    +  L        P L  L L       I +  ++    +  L L+   I
Sbjct: 29  STKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPI 88

Query: 568 SSLAPSLP-CLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGIGT--- 621
            SLA      L  L+ L    T+L   +   I     L+ L +  + I            
Sbjct: 89  QSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP-EYFSN 147

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
           ++NL+ LDLS+N  +Q I    +  L Q+  L 
Sbjct: 148 LTNLEHLDLSSNK-IQSIYCTDLRVLHQMPLLN 179

>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 = 71.2 bits (175), Expect = 2e-13
 Identities = 36/161 (22%), Positives = 62/161 (38%), Gaps = 13/161 (8%)

Query: 508 LQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
               + L L    +  + D        L+TL L  NP   +    F     ++ L    T
Sbjct: 51  FPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVET 110

Query: 566 NISSLAPSL-PCLEKLRSLHLENTHLNDASLIREF---GELEVLILKGSRIVELPNGI-G 620
           N++SL       L+ L+ L++ +  +    L   F     LE L L  ++I  +      
Sbjct: 111 NLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLR 170

Query: 621 TVSNLKL----LDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            +  + L    LDLS N  +  I P    ++ +L+EL +  
Sbjct: 171 VLHQMPLLNLSLDLSLNP-MNFIQPGAFKEI-RLKELALDT 209

>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 = 72.7 bits (179), Expect = 3e-14
 Identities = 20/135 (14%), Positives = 44/135 (32%), Gaps = 8/135 (5%)

Query: 531 PRLTTLFLQNNPF-ADIPNAFFEHTREIKNLDLSSTNISSL--APSLPCLEKLRSLHLEN 587
            ++T + ++N      I     +    +K L + +T +        +   +    L + +
Sbjct: 80  SKVTHIEIRNTRNLTYIDPDALKELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITD 139

Query: 588 ----THLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNV 643
               T +   +      E   L L  +    +       + L  + L+ N +L VI  + 
Sbjct: 140 NPYMTSIPVNAFQGLCNETLTLKLYNNGFTSVQGYAFNGTKLDAVYLNKNKYLTVIDKDA 199

Query: 644 ISKL-SQLEELYVGN 657
              + S    L V  
Sbjct: 200 FGGVYSGPSLLDVSQ 214

>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 = 55.8 bits (135), Expect = 1e-08
 Identities = 23/139 (16%), Positives = 40/139 (28%), Gaps = 47/139 (33%)

Query: 520 NVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTN-ISSLAPSLPCLE 578
           ++  +P  P  P   TL L       IP+  F +   I  + +S    +  L        
Sbjct: 22  DIQRIPSLP--PSTQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHS---- 75

Query: 579 KLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQV 638
                               F  L                    S +  +++ N   L  
Sbjct: 76  --------------------FYNL--------------------SKVTHIEIRNTRNLTY 95

Query: 639 IPPNVISKLSQLEELYVGN 657
           I P+ + +L  L+ L + N
Sbjct: 96  IDPDALKELPLLKFLGIFN 114

>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 = 55.8 bits (135), Expect = 2e-08
 Identities = 28/155 (18%), Positives = 47/155 (30%), Gaps = 29/155 (18%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFL----QNNPFADIP-NAFFEHTREIKNL 560
           ++L   + L + +  +   PD  K       F+     N     IP NAF     E   L
Sbjct: 102 KELPLLKFLGIFNTGLKMFPDLTKVYSTDIFFILEITDNPYMTSIPVNAFQGLCNETLTL 161

Query: 561 DLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI- 619
            L +   +S+              L+  +LN    +                  +     
Sbjct: 162 KLYNNGFTSVQGYA-----FNGTKLDAVYLNKNKYLT----------------VIDKDAF 200

Query: 620 -GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEEL 653
            G  S   LLD+S    +  +P   +  L +L   
Sbjct: 201 GGVYSGPSLLDVSQTS-VTALPSKGLEHLKELIAR 234

>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 = 48.5 bits (116), Expect = 4e-06
 Identities = 14/96 (14%), Positives = 33/96 (34%), Gaps = 20/96 (20%)

Query: 601 ELEVLILKGSRIVELPNGI-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSF 659
             + L L  + +  +P+     + N+  + +S ++ LQ +  +    LS++  + + N  
Sbjct: 32  STQTLKLIETHLRTIPSHAFSNLPNISRIYVSIDVTLQQLESHSFYNLSKVTHIEIRN-- 89

Query: 660 GDWEVEETANGQNARFSEVAS-----LTRLTVLYIH 690
                           + +       L  L  L I 
Sbjct: 90  ------------TRNLTYIDPDALKELPLLKFLGIF 113

>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 = 43.8 bits (104), Expect = 1e-04
 Identities = 17/61 (27%), Positives = 28/61 (45%), Gaps = 4/61 (6%)

Query: 531 PRLTTLFLQNNPF-ADIP-NAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENT 588
            +L  ++L  N +   I  +AF         LD+S T++++L      LE L+ L   NT
Sbjct: 179 TKLDAVYLNKNKYLTVIDKDAFGGVYSGPSLLDVSQTSVTALPSKG--LEHLKELIARNT 236

Query: 589 H 589
            
Sbjct: 237 W 237

>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 = 74.8 bits (184), Expect = 4e-14
 Identities = 32/156 (20%), Positives = 62/156 (39%), Gaps = 9/156 (5%)

Query: 510 NCEKLSLMDGNVTALPDQP----KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
                S    N     +      +   + T  L  +    +  + F H  +++ L L+  
Sbjct: 250 YNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQN 309

Query: 566 NISSLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GT 621
            I+ +   +   L  L  L+L    L   D+ +     +LEVL L  + I  L +     
Sbjct: 310 EINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLG 369

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           + NLK L L  N  L+ +P  +  +L+ L+++++  
Sbjct: 370 LPNLKELALDTNQ-LKSVPDGIFDRLTSLQKIWLHT 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 = 65.5 bits (160), Expect = 4e-11
 Identities = 32/148 (21%), Positives = 56/148 (37%), Gaps = 20/148 (13%)

Query: 529 KCPRLTTLFLQNNPFADIP-NAFFEHTREIKNLDLSSTNISSLAPSLPCLE--------- 578
           K   +TTL L  N F +     FF+     K   L  +N  ++  S              
Sbjct: 210 KNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTF 269

Query: 579 ------KLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLLD 629
                  +++  L  + +     S+   F +LE L L  + I ++ +     +++L  L+
Sbjct: 270 KGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLN 329

Query: 630 LSNNLFLQVIPPNVISKLSQLEELYVGN 657
           LS N  L  I   +   L +LE L +  
Sbjct: 330 LSQNF-LGSIDSRMFENLDKLEVLDLSY 356

>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 = 65.5 bits (160), Expect = 5e-11
 Identities = 39/296 (13%), Positives = 88/296 (29%), Gaps = 45/296 (15%)

Query: 510 NCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISS 569
            C    L       +P+ P    +  + L  N  A++    F   ++++ L +       
Sbjct: 16  ICINRGL-----HQVPELP--AHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGL 68

Query: 570 LAPSLPC--LEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRI--VELPNGI-GTV 622
           +  +     L  L  L L+       +         LEVL L    +    L       +
Sbjct: 69  VIRNNTFRGLSSLIILKLDYNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPL 128

Query: 623 SNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN------------SFGDWEVEETANG 670
           ++L++L L +N   ++ P +    + +   L +              +F           
Sbjct: 129 TSLEMLVLRDNNIKKIQPASFFLNMRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLS 188

Query: 671 QN------------ARFSEVASLTRLTVLYIHVSN-TKVLSVDFDGPWTNLKRFRVCVND 717
                          +       T +T L +  +   + ++  F       K   + +++
Sbjct: 189 SITLQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSN 248

Query: 718 DYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGL 773
            Y   +     + K+  N   ++  L     +   L  S +   I  +    F+  
Sbjct: 249 SYNMGSSFGHTNFKDPDNF--TFKGLEASGVKTCDL--SKS--KIFALLKSVFSHF 298

>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 = 5e-05
 Identities = 16/83 (19%), Positives = 31/83 (37%), Gaps = 3/83 (3%)

Query: 508 LQNCEKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           L +  KL+L    + ++  +      +L  L L  N    + +  F     +K L L + 
Sbjct: 322 LTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTN 381

Query: 566 NISSLAPS-LPCLEKLRSLHLEN 587
            + S+       L  L+ + L  
Sbjct: 382 QLKSVPDGIFDRLTSLQKIWLHT 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 = 43.6 bits (103), Expect = 3e-04
 Identities = 53/318 (16%), Positives = 97/318 (30%), Gaps = 62/318 (19%)

Query: 508 LQNCEKLSLMDGN---VTALPDQ--PKCPRLTTLFLQNNPFADI-PNAFFEHTREIKNLD 561
           L N E L+L          L          L  L L++N    I P +FF + R    LD
Sbjct: 102 LANLEVLTL-TQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPASFFLNMRRFHVLD 160

Query: 562 LSSTNISSLAP----SLPCLEKLRSLHLENTHLNDASLIREFGE----------LEVLIL 607
           L+   + S+      +         L L +  L D +      E          +  L L
Sbjct: 161 LTFNKVKSICEEDLLNFQGK-HFTLLRLSSITLQDMNEYWLGWEKCGNPFKNTSITTLDL 219

Query: 608 KGSRIVELPNGI--GTVSNLKLLDL---SNNLFLQVIPPNVISKLSQLEELYVGNSFGDW 662
            G+   E         ++  K+  L   ++                         +F   
Sbjct: 220 SGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNF-------TFKGL 272

Query: 663 EVEETA--NGQNARFSEV-----ASLTRLTVLYIHVSNTKVLSVD-FDGPWTNLKRFRVC 714
           E       +   ++   +     +  T L  L +  +    +  + F G  T+L +  + 
Sbjct: 273 EASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWG-LTHLLKLNLS 331

Query: 715 VNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSN-LQDIGEIDVQGFTGL 773
            N             L ++ + +       L+K E L L  S N ++ +G+    G   L
Sbjct: 332 QN------------FLGSIDSRMFEN----LDKLEVLDL--SYNHIRALGDQSFLGLPNL 373

Query: 774 MCMHLRACSMQRIFHSNF 791
             + L    ++ +    F
Sbjct: 374 KELALDTNQLKSVPDGIF 391

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 72.3 bits (178), Expect = 6e-14
 Identities = 43/178 (24%), Positives = 75/178 (42%), Gaps = 20/178 (11%)

Query: 533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLP-CLEKLRSLHLENTHLN 591
              L LQ+N  + +P+  F    +++ L L+   + +L   +   L+ L +L + +  L 
Sbjct: 39  TKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQ 98

Query: 592 --DASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLLDLSNNLFLQVIPPNVISKLS 648
                +  +   L  L L  +++  LP  +  +++ L  L L  N  LQ +P  V  KL+
Sbjct: 99  ALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-LQSLPKGVFDKLT 157

Query: 649 QLEELYVGNSFGDWEVEETANGQNARFSEVA--SLTRLTVLYIHVSNTKVLSVD-FDG 703
            L+EL + N+            Q  R  E A   LT L  L +  +  K +    FD 
Sbjct: 158 SLKELRLYNN------------QLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDS 203

>2o6q_A Variable lymphocyte receptor A; leucine-rich repeat protein, LRR, immune system; 2.50A {Eptatretus burgeri} Length = 270

 Score = 66.2 bits (162), Expect = 8e-12
 Identities = 39/153 (25%), Positives = 62/153 (40%), Gaps = 7/153 (4%)

Query: 508 LQNCEKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           L     L L D  +  LP     +   L TL++ +N    +P   F+    +  L L   
Sbjct: 60  LTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRN 119

Query: 566 NISSLAPSLP-CLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPNGIGT- 621
            + SL P +   L KL  L L    L      +  +   L+ L L  +++  +P G    
Sbjct: 120 QLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDK 179

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
           ++ LK L L NN  L+ +P      L +L+ L 
Sbjct: 180 LTELKTLKLDNNQ-LKRVPEGAFDSLEKLKMLQ 211

>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 = 73.3 bits (180), Expect = 7e-14
 Identities = 29/192 (15%), Positives = 62/192 (32%), Gaps = 24/192 (12%)

Query: 507 DLQNCEKLSLMDGN-VTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           +L    ++ +   N +  +  +     P L  L + N     +P+    H+ +   LD+ 
Sbjct: 77  NLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQKVLLDIQ 136

Query: 564 S-TNISSLAPSL--PCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGSRIVELPNG 618
              NI ++  +       +   L L    + +   S        E+ +   + + ELPN 
Sbjct: 137 DNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPND 196

Query: 619 I-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSE 677
           +    S   +LD+S    +  +P   +  L +L                       +   
Sbjct: 197 VFHGASGPVILDISRTR-IHSLPSYGLENLKKLRARS--------------TYNLKKLPT 241

Query: 678 VASLTRLTVLYI 689
           +  L  L    +
Sbjct: 242 LEKLVALMEASL 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 = 71.4 bits (175), Expect = 3e-13
 Identities = 39/223 (17%), Positives = 78/223 (34%), Gaps = 28/223 (12%)

Query: 512 EKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSL 570
                 +  VT +P   P       L         I    F    +++ +++S  ++  +
Sbjct: 12  RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEV 69

Query: 571 APS-----LPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVS-N 624
             +     LP L ++R     N    +    +    L+ L++  + I  LP+     S  
Sbjct: 70  IEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIKHLPDVHKIHSLQ 129

Query: 625 LKLLDLSNNLFLQVIPPNVISKLS-QLEELYVGN---------SFGDWEVEETANGQNAR 674
             LLD+ +N+ +  I  N    LS +   L++           +F   +++E     N  
Sbjct: 130 KVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNN 189

Query: 675 FSEV-----ASLTRLTVLYIHVSNTKVLSVDFDGPW--TNLKR 710
             E+        +   +L I  S T++ S+   G      L+ 
Sbjct: 190 LEELPNDVFHGASGPVILDI--SRTRIHSLPSYGLENLKKLRA 230

>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 = 56.4 bits (136), Expect = 2e-08
 Identities = 50/322 (15%), Positives = 86/322 (26%), Gaps = 88/322 (27%)

Query: 530 CP------RLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSL 583
           C              Q +   +IP+    +  E   L    T +  +             
Sbjct: 2   CHHRICHCSNRVFLCQESKVTEIPSDLPRNAIE---LRFVLTKLRVIQKG---------- 48

Query: 584 HLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNV 643
                          F                        +L+ +++S N  L+VI  +V
Sbjct: 49  --------------AFSGF--------------------GDLEKIEISQNDVLEVIEADV 74

Query: 644 ISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSN--TKVLSVDF 701
            S L +L E+ +  +     +   A      F    +L  L  L I  +     +  V  
Sbjct: 75  FSNLPKLHEIRIEKANNLLYINPEA------FQ---NLPNLQYLLIS-NTGIKHLPDVHK 124

Query: 702 DGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLS-------NSIASWVKLLLEKTEYLTLT 754
                      +  N +   I     + L   S       N I          T+   L 
Sbjct: 125 IHS-LQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELN 183

Query: 755 RSSNLQDIGEIDVQGFTGLMCMH---LRACSMQRIFHSNFYPTVQILEELHVEYCYSLKE 811
            S N   + E+    F G        +    +  +         + L++L     Y+LK+
Sbjct: 184 LSDNNN-LEELPNDVFHGASGPVILDISRTRIHSLPSYGL----ENLKKLRARSTYNLKK 238

Query: 812 VFCLEDIEGEQAGLKRLRELVL 833
           +  LE        L  L E  L
Sbjct: 239 LPTLE-------KLVALMEASL 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 = 49.8 bits (119), Expect = 3e-06
 Identities = 22/129 (17%), Positives = 40/129 (31%), Gaps = 27/129 (20%)

Query: 530 CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH 589
                 L+L  N   +I N+ F  T+  +     + N+  L   +               
Sbjct: 153 SFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNNNLEELPNDV-----FHGAS----- 202

Query: 590 LNDASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLLDLSNNLFLQVIPPNVISKLS 648
                         +L +  +RI  LP+     +  L+     N   L+ +P   + KL 
Sbjct: 203 -----------GPVILDISRTRIHSLPSYGLENLKKLRARSTYN---LKKLPT--LEKLV 246

Query: 649 QLEELYVGN 657
            L E  +  
Sbjct: 247 ALMEASLTY 255

>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 = 73.4 bits (180), Expect = 2e-13
 Identities = 34/156 (21%), Positives = 70/156 (44%), Gaps = 7/156 (4%)

Query: 508 LQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFE--HTREIKNLDLS 563
             +   L+      T    Q      RL TL LQ N   +         +   ++ LD+S
Sbjct: 352 PSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVS 411

Query: 564 STNISSLAPSLPC--LEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGT 621
             +++S A    C   E +  L+L +  L  +       +++VL L  +RI+ +P  +  
Sbjct: 412 LNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTH 471

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +  L+ L++++N  L+ +P  V  +L+ L+ +++ +
Sbjct: 472 LQALQELNVASN-QLKSVPDGVFDRLTSLQYIWLHD 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 = 67.6 bits (165), Expect = 1e-11
 Identities = 30/136 (22%), Positives = 52/136 (38%), Gaps = 8/136 (5%)

Query: 525 PDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPS-LPCLEKLRSL 583
                    + +   N     +P      T   K L LS  +IS L    +  L +LR L
Sbjct: 25  MTPFSNELESMVDYSNRNLTHVPKDLPPRT---KALSLSQNSISELRMPDISFLSELRVL 81

Query: 584 HLENTHLN--DASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPP 641
            L +  +   D  +     +LE L +  +R+  +      +++L+ LDLS N F  +   
Sbjct: 82  RLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNIS--CCPMASLRHLDLSFNDFDVLPVC 139

Query: 642 NVISKLSQLEELYVGN 657
                L++L  L +  
Sbjct: 140 KEFGNLTKLTFLGLSA 155

>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 = 42.9 bits (101), Expect = 5e-04
 Identities = 26/187 (13%), Positives = 54/187 (28%), Gaps = 25/187 (13%)

Query: 533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLP-CLEKLRSLHLENTHLN 591
           L    ++N  F     A +    E+    LS ++   +    P        L+       
Sbjct: 307 LMIEHVKNQVFLFSKEALYSVFAEMNIKMLSISDTPFIHMVCPPSPSSFTFLNFTQNVFT 366

Query: 592 D--ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQ 649
           D           L+ LIL+ + +           N+  L+  +   L  +  +   +   
Sbjct: 367 DSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDV-SLNSLNSHAYDRTCA 425

Query: 650 ----LEELYVGNSFGDWEVEETANG-QNARFSEVASLT-RLTVLYIHVSNTKVLSVDFDG 703
               +  L + +           N    + F     L  ++ VL +H +    +  D   
Sbjct: 426 WAESILVLNLSS-----------NMLTGSVFR---CLPPKVKVLDLHNNRIMSIPKDVT- 470

Query: 704 PWTNLKR 710
               L+ 
Sbjct: 471 HLQALQE 477

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 71.0 bits (174), Expect = 5e-13
 Identities = 41/202 (20%), Positives = 74/202 (36%), Gaps = 23/202 (11%)

Query: 530 CPRL-----TTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP--SLPCLEKLRS 582
           CP         L        ++P +   +T     LDLS  N+S L    +   L  L S
Sbjct: 12  CPANCLCASNILSCSKQQLPNVPQSLPSYTAL---LDLSHNNLSRLRAEWTPTRLTNLHS 68

Query: 583 LHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKLLDLSNNLFLQVI 639
           L L + HLN   +        L  L L  + +  L   +   +  L++L L NN  + V+
Sbjct: 69  LLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNH-IVVV 127

Query: 640 PPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLS 698
             N    ++QL++LY+  N                   +   L +L +L +  +  K L 
Sbjct: 128 DRNAFEDMAQLQKLYLSQNQIS--RFPVEL------IKDGNKLPKLMLLDLSSNKLKKLP 179

Query: 699 VDFDGPWTNLKRFRVCVNDDYW 720
           +          +  + ++++  
Sbjct: 180 LTDLQKLPAWVKNGLYLHNNPL 201

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 69.1 bits (169), Expect = 2e-12
 Identities = 39/154 (25%), Positives = 67/154 (43%), Gaps = 11/154 (7%)

Query: 512 EKLSLMDGNVTALPDQP---KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
             L L   N++ L  +    +   L +L L +N    I +  F     ++ LDLSS ++ 
Sbjct: 42  ALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH 101

Query: 569 SLAP-SLPCLEKLRSLHLENTHLN--DASLIREFGELEVLILKGSRIVELPNGI----GT 621
           +L       L+ L  L L N H+   D +   +  +L+ L L  ++I   P  +      
Sbjct: 102 TLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNK 161

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV 655
           +  L LLDLS+N  L+ +P   + KL    +  +
Sbjct: 162 LPKLMLLDLSSNK-LKKLPLTDLQKLPAWVKNGL 194

>2xot_A Amphoterin-induced protein 1; cell adhesion, neuronal protein, neurite growth regulation; HET: NAG BMA; 2.00A {Mus musculus} Length = 361

 Score = 54.1 bits (130), Expect = 1e-07
 Identities = 22/91 (24%), Positives = 31/91 (34%), Gaps = 6/91 (6%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
             + N   L L   ++  L +        L  L L NN    +    FE   +++ L LS
Sbjct: 85  VPVPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLS 144

Query: 564 STNISSLAP----SLPCLEKLRSLHLENTHL 590
              IS            L KL  L L +  L
Sbjct: 145 QNQISRFPVELIKDGNKLPKLMLLDLSSNKL 175

>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 = 71.2 bits (175), Expect = 1e-12
 Identities = 21/196 (10%), Positives = 53/196 (27%), Gaps = 31/196 (15%)

Query: 508 LQNCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTN 566
                ++  +  N+T +     +  +L   ++ N+PF              +      T 
Sbjct: 182 TLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTE 241

Query: 567 ISSLAPSLPCLEKLRSLHLENTHLNDASLIREFG---ELEVLILKGSRIVELPN------ 617
                     L+ L  + + N       L        E++++ +  +R +          
Sbjct: 242 DLKWDN----LKDLTDVEVYNCPNLT-KLPTFLKALPEMQLINVACNRGISGEQLKDDWQ 296

Query: 618 ---GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNA 673
                     ++++ +  N          + K+ +L  L    N                
Sbjct: 297 ALADAPVGEKIQIIYIGYNNLKTFPVETSLQKMKKLGMLECLYNQL------------EG 344

Query: 674 RFSEVASLTRLTVLYI 689
           +     S  +L  L +
Sbjct: 345 KLPAFGSEIKLASLNL 360

>4eco_A Uncharacterized protein; leucine-rich repeats, protein binding, structural genomics, center for structural genomics, JCSG; 2.70A {Bacteroides eggerthii dsm 20697} Length = 636

 Score = 70.5 bits (173), Expect = 2e-12
 Identities = 29/172 (16%), Positives = 56/172 (32%), Gaps = 24/172 (13%)

Query: 504 PREDLQNCEKLSLMD--GN-VTALPDQP---------KCPRLTTLFLQNNPFADIPNAFF 551
           P+E       LS ++  GN +T +P                LT++ L+ N    + + F 
Sbjct: 449 PKELFSTGSPLSSINLMGNMLTEIPKNSLKDENENFKNTYLLTSIDLRFNKLTKLSDDFR 508

Query: 552 EHT-REIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDA-----SLIREFGE---L 602
             T   +  +DLS  + S           L+   + N                      L
Sbjct: 509 ATTLPYLVGIDLSYNSFSKFPTQPLNSSTLKGFGIRNQRDAQGNRTLREWPEGITLCPSL 568

Query: 603 EVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
             L +  + I ++   I    N+ +LD+ +N  +  I  + +    +     
Sbjct: 569 TQLQIGSNDIRKVNEKIT--PNISVLDIKDNPNIS-IDLSYVCPYIEAGMYM 617

>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 = 64.7 bits (158), Expect = 1e-10
 Identities = 23/182 (12%), Positives = 56/182 (30%), Gaps = 23/182 (12%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNIS-----SLAPSLPCLEKLRS 582
              R+T L L+    +  +P+A      E++ L L S              +        
Sbjct: 79  SNGRVTGLSLEGFGASGRVPDAIG-QLTELEVLALGSHGEKVNERLFGPKGISANMSDEQ 137

Query: 583 LHLENTHLNDASL----IREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQ 637
                 H     +      +F +L    +        +            +   +N  + 
Sbjct: 138 KQKMRMHYQKTFVDYDPREDFSDLIKDCINSDPQQKSIKKSSRITLKDTQIGQLSNN-IT 196

Query: 638 VIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARF--------SEVASLTRLTVLY 688
            +    + +L++L + Y+  + F    + E    +N+ +         +  +L  LT + 
Sbjct: 197 FVSKA-VMRLTKLRQFYMGNSPFVAENICEAWENENSEYAQQYKTEDLKWDNLKDLTDVE 255

Query: 689 IH 690
           ++
Sbjct: 256 VY 257

>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 = 62.0 bits (151), Expect = 7e-10
 Identities = 15/190 (7%), Positives = 47/190 (24%), Gaps = 39/190 (20%)

Query: 529 KCPRLTTLFLQNNPFADIPNAFF--EHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLE 586
           +   L  L L ++        F     +  + +       +      +    +     L 
Sbjct: 103 QLTELEVLALGSHGEKVNERLFGPKGISANMSDEQKQKMRMHYQKTFVDYDPREDFSDLI 162

Query: 587 NTHLNDASLIREFGE-------LEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVI 639
              +N     +   +          +    + I  +   +  ++ L+   + N+ F+   
Sbjct: 163 KDCINSDPQQKSIKKSSRITLKDTQIGQLSNNITFVSKAVMRLTKLRQFYMGNSPFVAEN 222

Query: 640 P------------------PNVISKLSQLEELYVGNSFGDWEVEETANGQNARF-SEVAS 680
                                    L  L ++ V N                +  + + +
Sbjct: 223 ICEAWENENSEYAQQYKTEDLKWDNLKDLTDVEVYN-----------CPNLTKLPTFLKA 271

Query: 681 LTRLTVLYIH 690
           L  + ++ + 
Sbjct: 272 LPEMQLINVA 281

>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 = 66.9 bits (163), Expect = 2e-11
 Identities = 69/472 (14%), Positives = 137/472 (29%), Gaps = 84/472 (17%)

Query: 507 DLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTN 566
            L  C   +     + ++     C ++ TL ++ + F++                     
Sbjct: 144 KLDKCSGFT--TDGLLSI--VTHCRKIKTLLMEESSFSEK----------------DGKW 183

Query: 567 ISSLAPSLPCLEKLRSLHLENTHLNDASLIREFG---ELEVLILKGSRIVELPNGIGTVS 623
           +  LA     LE L     E   ++   L         L  + +    I+EL       +
Sbjct: 184 LHELAQHNTSLEVLNFYMTEFAKISPKDLETIARNCRSLVSVKVGDFEILELVGFFKAAA 243

Query: 624 NLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTR 683
           NL+      +L   +  P     L    +L      G   +    N     F   A + +
Sbjct: 244 NLEEFCGG-SLNEDIGMPEKYMNLVFPRKL---CRLGLSYM--GPNEMPILFPFAAQIRK 297

Query: 684 LTVLYIHVSNTKVLSVDFDGPWTNLKRFRV--CVNDDYWEIAPKRSMHLKNLSNSIASWV 741
           L +LY  +      ++    P  NL+       + D   E+  +    LK L   I    
Sbjct: 298 LDLLYALLETEDHCTLIQKCP--NLEVLETRNVIGDRGLEVLAQYCKQLKRL--RIERGA 353

Query: 742 KLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRAC-----SMQRIFHSNFYPTVQ 796
                + E   +++   L  +     QG   L  M +        S++ I        + 
Sbjct: 354 DEQGMEDEEGLVSQRG-LIALA----QGCQELEYMAVYVSDITNESLESIGTY--LKNLC 406

Query: 797 ILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYL---- 852
               + ++    + ++     +     G K+LR          LT    +  + Y+    
Sbjct: 407 DFRLVLLDREERITDLPLDNGVRSLLIGCKKLRRFAFYLRQGGLT----DLGLSYIGQYS 462

Query: 853 KTLKLMKVKDCGK----LRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAA 908
             ++ M +   G+    L        + G  NL+ L +  C          E  +     
Sbjct: 463 PNVRWMLLGYVGESDEGLME-----FSRGCPNLQKLEMRGC-------CFSERAIAAAVT 510

Query: 909 QERNVSSAPQPMFFPNLKKLLIGKCN-KMKRVLSLTNAHNLKQLEELTVASC 959
           +             P+L+ L +      M     +  A     +E +     
Sbjct: 511 K------------LPSLRYLWVQGYRASMTGQDLMQMARPYWNIELIPSRRV 550

>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 = 63.0 bits (153), Expect = 3e-10
 Identities = 78/570 (13%), Positives = 177/570 (31%), Gaps = 106/570 (18%)

Query: 501  KGWPREDLQNCEKLSLMDGNVTALPD-QPKCPRLTTLFLQNNPFADIPNAFFEHTREIKN 559
            + W + D +  E +++             + P L +L L+  P A + N   E+      
Sbjct: 42   RRWFKIDSETREHVTMALCYTATPDRLSRRFPNLRSLKLKGKPRAAMFNLIPENWGGY-- 99

Query: 560  LDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLI----REFGELEVLILKGSRIVEL 615
                +  ++ ++ +L  L   +S+H     ++D  L         +LE L L        
Sbjct: 100  ---VTPWVTEISNNLRQL---KSVHFRRMIVSDLDLDRLAKARADDLETLKLDKCSGFT- 152

Query: 616  PNGIGTVS----NLKLLDLSNNLFLQVIPPNVIS---KLSQLEELYV----GNSFGDWEV 664
             +G+ ++      +K L +  + F +     +       + LE L             ++
Sbjct: 153  TDGLLSIVTHCRKIKTLLMEESSFSEKDGKWLHELAQHNTSLEVLNFYMTEFAKISPKDL 212

Query: 665  EETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVC-------VND 717
            E  A               L  + +      +  V F     NL+ F          + +
Sbjct: 213  ETIARN----------CRSLVSVKVG-DFEILELVGFFKAAANLEEFCGGSLNEDIGMPE 261

Query: 718  DYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLT---LTRSSNLQDIGEIDVQGFTGLM 774
             Y  +   R +    LS    + + +L      +    L  +    +     +Q    L 
Sbjct: 262  KYMNLVFPRKLCRLGLSYMGPNEMPILFPFAAQIRKLDLLYALLETEDHCTLIQKCPNLE 321

Query: 775  CMHLRAC----SMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQA------G 824
             +  R       ++ +           L+ L +E     + +   E +  ++       G
Sbjct: 322  VLETRNVIGDRGLEVLAQYCKQ-----LKRLRIERGADEQGMEDEEGLVSQRGLIALAQG 376

Query: 825  LKRLRELVL-------VGLPKVLTIWKGNHSVVYLKTLKLMKVKDCGKLRYLFS----RT 873
             + L  + +         L  + T  K       L   +L+ +    ++  L      R+
Sbjct: 377  CQELEYMAVYVSDITNESLESIGTYLKN------LCDFRLVLLDREERITDLPLDNGVRS 430

Query: 874  LAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKC 933
            L  G   L   +            + +  +                 + PN++ +L+G  
Sbjct: 431  LLIGCKKLRRFAFYLRQ-----GGLTDLGLSYIG------------QYSPNVRWMLLGYV 473

Query: 934  NK-MKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDL 992
             +  + ++    +     L++L +  C         S+   AA     LP L+ L ++  
Sbjct: 474  GESDEGLMEF--SRGCPNLQKLEMRGCC-------FSERAIAAAVTK-LPSLRYLWVQGY 523

Query: 993  PELDSVYNGEIAALRWPSLEELKVWDCPKL 1022
                +  +    A  + ++E +     P++
Sbjct: 524  RASMTGQDLMQMARPYWNIELIPSRRVPEV 553

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 63.4 bits (154), Expect = 1e-10
 Identities = 37/168 (22%), Positives = 65/168 (38%), Gaps = 19/168 (11%)

Query: 508 LQNCEKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPF---ADIPNAFFEHT-REIKNLD 561
               + LS+   +      +     P L+TL L +NP      + +A        ++ L 
Sbjct: 148 KPGLKVLSIAQAHSLNFSCEQVRVFPALSTLDLSDNPELGERGLISALCPLKFPTLQVLA 207

Query: 562 LSSTNISSLAPSLPCL----EKLRSLHLEN---THLNDASLIREFGELEVLILKGSRIVE 614
           L +  + + +     L     +L+ L L +        A       +L  L L  + + +
Sbjct: 208 LRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLSFTGLKQ 267

Query: 615 LPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFGD 661
           +P G+   + L +LDLS N  L   P     +L Q+  L + GN F D
Sbjct: 268 VPKGLP--AKLSVLDLSYNR-LDRNPS--PDELPQVGNLSLKGNPFLD 310

>1wwl_A Monocyte differentiation antigen CD14; LPS, immune system; HET: NAG; 2.50A {Mus musculus} Length = 312

 Score = 55.7 bits (134), Expect = 3e-08
 Identities = 26/129 (20%), Positives = 47/129 (36%), Gaps = 8/129 (6%)

Query: 492 HFIAEPGMKKGWPREDLQNCEKLSLMDGNVTALPDQP-----KCPRLTTLFLQNNPFADI 546
             + E G+            + L+L +  +               +L  L L +N   D 
Sbjct: 184 PELGERGLISALCPLKFPTLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDA 243

Query: 547 PNA-FFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVL 605
             A   +   ++ +L+LS T +  +   LP   KL  L L    L+      E  ++  L
Sbjct: 244 AGAPSCDWPSQLNSLNLSFTGLKQVPKGLP--AKLSVLDLSYNRLDRNPSPDELPQVGNL 301

Query: 606 ILKGSRIVE 614
            LKG+  ++
Sbjct: 302 SLKGNPFLD 310

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 61.2 bits (149), Expect = 4e-10
 Identities = 36/151 (23%), Positives = 66/151 (43%), Gaps = 11/151 (7%)

Query: 512 EKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLA 571
            K +L   +VT    Q +   +  +   N+    +     ++   ++ L L    +  + 
Sbjct: 22  IKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVRYLALGGNKLHDI- 78

Query: 572 PSLPCLEKLRSLHLENTHLNDASL----IREFGELEVLILKGSRIVELPNGI-GTVSNLK 626
            +L  L  L  L L    L   SL      +   L+ L+L  +++  LP+G+   ++NL 
Sbjct: 79  SALKELTNLTYLILTGNQL--QSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLT 136

Query: 627 LLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            L+L++N  LQ +P  V  KL+ L EL +  
Sbjct: 137 YLNLAHNQ-LQSLPKGVFDKLTNLTELDLSY 166

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 60.8 bits (148), Expect = 4e-10
 Identities = 40/160 (25%), Positives = 70/160 (43%), Gaps = 11/160 (6%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
            + +L + +++   + ++ ++      P +  L L  N   DI     +    +  L L+
Sbjct: 36  TQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGGNKLHDIS--ALKELTNLTYLILT 93

Query: 564 STNISSLAPSLP-CLEKLRSLHLENTHLNDASL----IREFGELEVLILKGSRIVELPNG 618
              + SL   +   L  L+ L L    L   SL      +   L  L L  +++  LP G
Sbjct: 94  GNQLQSLPNGVFDKLTNLKELVLVENQL--QSLPDGVFDKLTNLTYLNLAHNQLQSLPKG 151

Query: 619 I-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +   ++NL  LDLS N  LQ +P  V  KL+QL++L +  
Sbjct: 152 VFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQ 190

>3rfs_A Internalin B, repeat modules, variable lymphocyte B; LRR, protein binding, plasma; 1.70A {Listeria monocytogenes} PDB: 3rfj_A Length = 272

 Score = 44.2 bits (105), Expect = 1e-04
 Identities = 35/153 (22%), Positives = 56/153 (36%), Gaps = 31/153 (20%)

Query: 508 LQNCEKLSLMDGNVTALP----DQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           L N   L L    + +LP    D+     L  L L  N    +P+  F+    +  L+L+
Sbjct: 84  LTNLTYLILTGNQLQSLPNGVFDKLT--NLKELVLVENQLQSLPDGVFDKLTNLTYLNLA 141

Query: 564 STNISSLAPSL-PCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GT 621
              + SL   +   L  L  L L    L                        LP G+   
Sbjct: 142 HNQLQSLPKGVFDKLTNLTELDLSYNQLQ----------------------SLPEGVFDK 179

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
           ++ LK L L  N  L+ +P  V  +L+ L+ ++
Sbjct: 180 LTQLKDLRLYQNQ-LKSVPDGVFDRLTSLQYIW 211

>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 = 61.8 bits (150), Expect = 7e-10
 Identities = 72/543 (13%), Positives = 145/543 (26%), Gaps = 93/543 (17%)

Query: 502  GWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLD 561
             W R  +      ++    V       + P++ ++ L+  P              +    
Sbjct: 42   RWCRRKVFIGNCYAVSPATVIR-----RFPKVRSVELKGKPHF--------ADFNLVPDG 88

Query: 562  LSSTNISSLAPSLPCLEKLRSLHLENTHLNDASL---IREFGELEVLILKGSRIVELPNG 618
                    +         L  + L+   + D  L    + F   +VL+L         +G
Sbjct: 89   WGGYVYPWIEAMSSSYTWLEEIRLKRMVVTDDCLELIAKSFKNFKVLVLSSCEGFS-TDG 147

Query: 619  IGTV----SNLKLLDLSNNLFLQVIPP---NVISKLSQLEELYVGNSFGDWEVEETANGQ 671
            +  +     NLK LDL  +    V      +     + L  L    +      E + +  
Sbjct: 148  LAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLVSL----NISCLASEVSFSAL 203

Query: 672  NARFSEVASLTRLTVLYIH--VSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMH 729
                  V     L  L ++  V   K+ ++    P   L+                    
Sbjct: 204  ER---LVTRCPNLKSLKLNRAVPLEKLATLLQRAP--QLEELGT------------GGYT 246

Query: 730  LKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIG-EIDVQGFTGLMCMHLRACSMQRIFH 788
             +   +  +     L    E   L+   +             + L  ++L   ++Q    
Sbjct: 247  AEVRPDVYSGLSVALSGCKELRCLSGFWDAVPAYLPAVYSVCSRLTTLNLSYATVQSYDL 306

Query: 789  SNFYPTVQILEELHVEYCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHS 848
                     L+ L V        +  L       +  K LREL +      +       +
Sbjct: 307  VKLLCQCPKLQRLWVLDYIEDAGLEVL------ASTCKDLRELRVFPSEPFVMEPNVALT 360

Query: 849  VVYLKTLKLMKVKDCGKLRYLFS----------RTLAEGLGNLEDLSILKCDLMEEIVSV 898
               L ++       C KL  +             T+A    N+    +   +        
Sbjct: 361  EQGLVSV----SMGCPKLESVLYFCRQMTNAALITIARNRPNMTRFRLCIIEPKAP---- 412

Query: 899  DEAEVEQGAAQERNVSSAPQPMFFPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVAS 958
                 +    +  ++          +L++L +      K    +      K++E L+VA 
Sbjct: 413  -----DYLTLEPLDIGFGAIVEHCKDLRRLSLSGLLTDKVFEYI--GTYAKKMEMLSVAF 465

Query: 959  CNHMERIITVSDE--EKAAENKNVLPKLKILALEDLPELDSVYNGEIAALRWPSLEELKV 1016
                      SD               L+ L + D P  D        A +  ++  L +
Sbjct: 466  AG-------DSDLGMHHVLSG---CDSLRKLEIRDCPFGDKA--LLANASKLETMRSLWM 513

Query: 1017 WDC 1019
              C
Sbjct: 514  SSC 516

>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 = 61.7 bits (149), Expect = 8e-10
 Identities = 25/130 (19%), Positives = 49/130 (37%), Gaps = 6/130 (4%)

Query: 528 PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLEN 587
            +   +  L L +     + +   E    + +LDLS   + +L P+L  L  L  L   +
Sbjct: 438 MEYADVRVLHLAHKDLTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASD 495

Query: 588 THLNDASLIREFGELEVLILKGSRIVELPN--GIGTVSNLKLLDLSNNLFLQVIP--PNV 643
             L +   +     L+ L+L  +R+ +      + +   L LL+L  N   Q       +
Sbjct: 496 NALENVDGVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERL 555

Query: 644 ISKLSQLEEL 653
              L  +  +
Sbjct: 556 AEMLPSVSSI 565

>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 = 53.2 bits (127), Expect = 4e-07
 Identities = 38/191 (19%), Positives = 63/191 (32%), Gaps = 23/191 (12%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPK----CPRLTTLFLQNNPFADIPNAFFEHTREIKNLD 561
            D    E+L   + +V            C  L  L  +N                +    
Sbjct: 343 RDSATDEQLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEK 402

Query: 562 LSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGT 621
            +    S+L    P              L ++ L  E+ ++ VL L    +  L + +  
Sbjct: 403 ETLQYFSTLKAVDPMRAAYLDDLRSKFLLENSVLKMEYADVRVLHLAHKDLTVLCH-LEQ 461

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNA--RFSEVA 679
           +  +  LDLS+N  L+ +PP  ++ L  LE L   +              NA      VA
Sbjct: 462 LLLVTHLDLSHNR-LRALPPA-LAALRCLEVLQASD--------------NALENVDGVA 505

Query: 680 SLTRLTVLYIH 690
           +L RL  L + 
Sbjct: 506 NLPRLQELLLC 516

>2v9t_B SLIT homolog 2 protein N-product; structural protein-receptor complex, developmental protein, domain, roundabout, chemotaxis, LRR domain; 1.70A {Homo sapiens} PDB: 2v9s_A Length = 220

 Score = 58.5 bits (142), Expect = 1e-09
 Identities = 37/198 (18%), Positives = 63/198 (31%), Gaps = 37/198 (18%)

Query: 512 EKLSLMDGNVTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISS 569
            ++ L    +  +P        +L  + L NN  +++    F+  R + +L L    I+ 
Sbjct: 35  TEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKITE 94

Query: 570 LAPSLPC-LEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKL 627
           L  SL   L  L+ L L     N                   +I  L       + NL L
Sbjct: 95  LPKSLFEGLFSLQLLLLNA---N-------------------KINCLRVDAFQDLHNLNL 132

Query: 628 LDLSNNLFLQVIPPNVISKLSQLEELYVGN----------SFGDWEVEETANGQNARFSE 677
           L L +N  LQ I     S L  ++ +++               D+          AR + 
Sbjct: 133 LSLYDN-KLQTIAKGTFSPLRAIQTMHLAQNPFICDCHLKWLADYLHTNPIETSGARCTS 191

Query: 678 VASLTRLTVLYIHVSNTK 695
              L    +  I     +
Sbjct: 192 PRRLANKRIGQIKSKKFR 209

>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 = 57.8 bits (140), Expect = 2e-09
 Identities = 26/156 (16%), Positives = 49/156 (31%), Gaps = 19/156 (12%)

Query: 509 QNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
                +  MD  ++             L L  N    I +        ++ L L    I 
Sbjct: 32  GMIPPIEKMDATLS------TLKACKHLALSTNNIEKISS--LSGMENLRILSLGRNLIK 83

Query: 569 SLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELP--NGIGTVSNLK 626
            +       + L  L +    +   S I +   L VL +  ++I      + +  +  L+
Sbjct: 84  KIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLYMSNNKITNWGEIDKLAALDKLE 143

Query: 627 LLDLSNNLFLQVIPPN---------VISKLSQLEEL 653
            L L+ N        N         V+ +L  L++L
Sbjct: 144 DLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKL 179

>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 = 49.7 bits (119), Expect = 1e-06
 Identities = 28/132 (21%), Positives = 50/132 (37%), Gaps = 14/132 (10%)

Query: 560 LDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI 619
           L      I  +  +L  L+  + L L   ++   S +     L +L L  + I ++ N  
Sbjct: 30  LHGMIPPIEKMDATLSTLKACKHLALSTNNIEKISSLSGMENLRILSLGRNLIKKIENLD 89

Query: 620 GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVG-NSFGDWEVEETANGQNARFSEV 678
                L+ L +S N  +  +    I KL  L  LY+  N   +W              ++
Sbjct: 90  AVADTLEELWISYN-QIASLSG--IEKLVNLRVLYMSNNKITNWGE----------IDKL 136

Query: 679 ASLTRLTVLYIH 690
           A+L +L  L + 
Sbjct: 137 AALDKLEDLLLA 148

>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 = 56.6 bits (137), Expect = 5e-09
 Identities = 33/151 (21%), Positives = 56/151 (37%), Gaps = 28/151 (18%)

Query: 512 EKLSLMDGNVTALPDQ---PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            +L L +   T L       K P+L  +   NN   DI    FE    +  + L+S  + 
Sbjct: 35  AELRLNNNEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLE 94

Query: 569 SLAPSL-PCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGT-VSNLK 626
           ++   +   LE L++L L +   N                   RI  + N     +S+++
Sbjct: 95  NVQHKMFKGLESLKTLMLRS---N-------------------RITCVGNDSFIGLSSVR 132

Query: 627 LLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           LL L +N  +  + P     L  L  L +  
Sbjct: 133 LLSLYDN-QITTVAPGAFDTLHSLSTLNLLA 162

>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 = 55.1 bits (133), Expect = 7e-09
 Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 2/84 (2%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
            +  N E LSL++  + ++ + PK P+L  L L  N      +   E    + +L+LS  
Sbjct: 46  AEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDMLAEKLPNLTHLNLSGN 105

Query: 566 NISSLAP--SLPCLEKLRSLHLEN 587
            +  ++    L  LE L+SL L N
Sbjct: 106 KLKDISTLEPLKKLECLKSLDLFN 129

>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 = 46.3 bits (110), Expect = 7e-06
 Identities = 25/100 (25%), Positives = 40/100 (40%), Gaps = 1/100 (1%)

Query: 559 NLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNG 618
            LD   +N   +         L  L L N  L   S + +  +L+ L L  +RI    + 
Sbjct: 30  VLDNCKSNDGKIEGLTAEFVNLEFLSLINVGLISVSNLPKLPKLKKLELSENRIFGGLDM 89

Query: 619 IGT-VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +   + NL  L+LS N    +     + KL  L+ L + N
Sbjct: 90  LAEKLPNLTHLNLSGNKLKDISTLEPLKKLECLKSLDLFN 129

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 57.0 bits (138), Expect = 7e-09
 Identities = 45/157 (28%), Positives = 74/157 (47%), Gaps = 21/157 (13%)

Query: 510 NCEKLSLMDGNVTALPDQPKCPRLTT-LFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
           +C+  SL      ++P     P  T  L LQ+   A + +A F    ++  L+L    + 
Sbjct: 20  DCQGKSL-----DSVP--SGIPADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQ 72

Query: 569 SLAPSLP-CLEKLRSLHLENTHLNDASLIREFG------ELEVLILKGSRIVELPNGI-G 620
           +L+  +   L +L +L L N  L  ASL    G      +L+ L L G+++  LP+G+  
Sbjct: 73  TLSAGVFDDLTELGTLGLANNQL--ASL--PLGVFDHLTQLDKLYLGGNQLKSLPSGVFD 128

Query: 621 TVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            ++ LK L L+ N  LQ IP     KL+ L+ L +  
Sbjct: 129 RLTKLKELRLNTNQ-LQSIPAGAFDKLTNLQTLSLST 164

>3m19_A Variable lymphocyte receptor A diversity region; adaptive immunity, antibody, T cell, leucine-rich repeat, immune system; 1.70A {Petromyzon marinus} PDB: 3m18_A Length = 251

 Score = 47.4 bits (113), Expect = 9e-06
 Identities = 38/156 (24%), Positives = 57/156 (36%), Gaps = 31/156 (19%)

Query: 508 LQNCEKLSLMDGNVTALP----DQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           L     L+L    +  L     D      L TL L NN  A +P   F+H  ++  L L 
Sbjct: 58  LTKLTWLNLDYNQLQTLSAGVFDDLT--ELGTLGLANNQLASLPLGVFDHLTQLDKLYLG 115

Query: 564 STNISSLAPSL-PCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GT 621
              + SL   +   L KL+ L L    L                        +P G    
Sbjct: 116 GNQLKSLPSGVFDRLTKLKELRLNTNQLQ----------------------SIPAGAFDK 153

Query: 622 VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           ++NL+ L LS N  LQ +P     +L +L+ + +  
Sbjct: 154 LTNLQTLSLSTNQ-LQSVPHGAFDRLGKLQTITLFG 188

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 54.3 bits (131), Expect = 1e-08
 Identities = 24/84 (28%), Positives = 41/84 (48%), Gaps = 2/84 (2%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
           ++ +  E LS ++  +T++ + PK  +L  L L +N  +       E    + +L+LS  
Sbjct: 39  DEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEVLAEKCPNLTHLNLSGN 98

Query: 566 NISSLA--PSLPCLEKLRSLHLEN 587
            I  L+    L  LE L+SL L N
Sbjct: 99  KIKDLSTIEPLKKLENLKSLDLFN 122

>2je0_A Acidic leucine-rich nuclear phosphoprotein 32 FAM member A; nuclear protein; 2.40A {Homo sapiens} PDB: 2je1_A Length = 149

 Score = 45.8 bits (109), Expect = 9e-06
 Identities = 24/97 (24%), Positives = 38/97 (39%), Gaps = 1/97 (1%)

Query: 559 NLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNG 618
            LD S +N   L       E+L  L   N  L   + + +  +L+ L L  +R+      
Sbjct: 23  VLDNSRSNEGKLEGLTDEFEELEFLSTINVGLTSIANLPKLNKLKKLELSDNRVSGGLEV 82

Query: 619 IGT-VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
           +     NL  L+LS N    +     + KL  L+ L 
Sbjct: 83  LAEKCPNLTHLNLSGNKIKDLSTIEPLKKLENLKSLD 119

>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 = 54.3 bits (131), Expect = 2e-08
 Identities = 30/133 (22%), Positives = 51/133 (38%), Gaps = 12/133 (9%)

Query: 529 KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENT 588
              R   L L+      I N       +   +D S   I  L    P L +L++L + N 
Sbjct: 17  NAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRKLDG-FPLLRRLKTLLVNNN 74

Query: 589 HLNDAS--LIREFGELEVLILKGSRIVELP--NGIGTVSNLKLLDLSNNLFLQVIPPN-- 642
            +      L +   +L  LIL  + +VEL   + + ++ +L  L +  N        +  
Sbjct: 75  RICRIGEGLDQALPDLTELILTNNSLVELGDLDPLASLKSLTYLCILRNPVTNK--KHYR 132

Query: 643 --VISKLSQLEEL 653
             VI K+ Q+  L
Sbjct: 133 LYVIYKVPQVRVL 145

>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 = 50.4 bits (121), Expect = 3e-07
 Identities = 18/84 (21%), Positives = 31/84 (36%), Gaps = 2/84 (2%)

Query: 506 EDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST 565
             L   + +   D  +  L   P   RL TL + NN    I     +   ++  L L++ 
Sbjct: 39  ATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELILTNN 98

Query: 566 NISSLA--PSLPCLEKLRSLHLEN 587
           ++  L     L  L+ L  L +  
Sbjct: 99  SLVELGDLDPLASLKSLTYLCILR 122

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 54.1 bits (131), Expect = 1e-07
 Identities = 25/138 (18%), Positives = 53/138 (38%), Gaps = 11/138 (7%)

Query: 529 KCPRLTTLFLQNNPF---ADIPNAFFEHTREIKNLDLSSTN-IS-SLAPSLPCLEKLRSL 583
           +  R+  L L          IP++       +  L +   N +   + P++  L +L  L
Sbjct: 48  QTYRVNNLDLSGLNLPKPYPIPSSLANLPY-LNFLYIGGINNLVGPIPPAIAKLTQLHYL 106

Query: 584 HLENTHLNDA--SLIREFGELEVLILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIP 640
           ++ +T+++ A    + +   L  L    + +   LP  I ++ NL  +    N     IP
Sbjct: 107 YITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIP 166

Query: 641 PNVISKLSQL-EELYVGN 657
            +     S+L   + +  
Sbjct: 167 DS-YGSFSKLFTSMTISR 183

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 53.7 bits (130), Expect = 1e-07
 Identities = 26/159 (16%), Positives = 52/159 (32%), Gaps = 34/159 (21%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNIS-SLAPSLPCLEKLRSLHLE 586
           K  +L  L++ +   +  IP  F    + +  LD S   +S +L PS+  L  L  +  +
Sbjct: 99  KLTQLHYLYITHTNVSGAIP-DFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFD 157

Query: 587 NTHLNDASLIREFGELEVLI---------LKGS--------RIVEL-----------PNG 618
              ++  ++   +G    L          L G          +  +              
Sbjct: 158 GNRISG-AIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVL 216

Query: 619 IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            G+  N + + L+ N     +    +     L  L + N
Sbjct: 217 FGSDKNTQKIHLAKNSLAFDLGK--VGLSKNLNGLDLRN 253

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 49.8 bits (120), Expect = 2e-06
 Identities = 26/164 (15%), Positives = 53/164 (32%), Gaps = 42/164 (25%)

Query: 529 KCPRLTTLFLQNNPFA-DIPNAFFEHTREIKNLDLSSTNIS----------SLA------ 571
             P L  +    N  +  IP+++   ++   ++ +S   ++          +LA      
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSR 206

Query: 572 --------PSLPCLEKLRSLHLENTHLNDASLIREFGELEVLI--------LKGSRIVEL 615
                         +  + +HL    L     + + G  + L         + G+    L
Sbjct: 207 NMLEGDASVLFGSDKNTQKIHLAKNSLAFD--LGKVGLSKNLNGLDLRNNRIYGT----L 260

Query: 616 PNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEEL-YVGNS 658
           P G+  +  L  L++S N     IP      L + +   Y  N 
Sbjct: 261 PQGLTQLKFLHSLNVSFNNLCGEIPQ--GGNLQRFDVSAYANNK 302

>1ogq_A PGIP-2, polygalacturonase inhibiting protein; inhibitor; HET: NAG; 1.7A {Phaseolus vulgaris} SCOP: c.10.2.8 Length = 313

 Score = 42.1 bits (100), Expect = 6e-04
 Identities = 20/106 (18%), Positives = 36/106 (33%), Gaps = 25/106 (23%)

Query: 594 SLIREFGELEVLILKGSRI---VELPNGIGTVSNLKLLDLSN-NLFLQVIPPNVISKLSQ 649
               +   +  L L G  +     +P+ +  +  L  L +   N  +  IPP  I+KL+Q
Sbjct: 44  DTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPA-IAKLTQ 102

Query: 650 LEELYVGNSFGDWEVEETANGQNARFS-----EVASLTRLTVLYIH 690
           L  LY+ +                  S      ++ +  L  L   
Sbjct: 103 LHYLYITH--------------T-NVSGAIPDFLSQIKTLVTLDFS 133

>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 = 54.4 bits (130), Expect = 1e-07
 Identities = 30/107 (28%), Positives = 42/107 (39%), Gaps = 9/107 (8%)

Query: 559 NLDLSSTNISSLAPSLPCLEKLRSLHLEN----THLNDASLIREFGELEVLILKGSRIVE 614
            L  +          LP  E L  L++EN     HL    L R  GEL  L +  S +  
Sbjct: 12  GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDL-RGLGELRNLTIVKSGLRF 70

Query: 615 LPNGIGT-VSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSF 659
           +          L  L+LS N  L+ +    +  LS L+EL + GN  
Sbjct: 71  VAPDAFHFTPRLSRLNLSFNA-LESLSWKTVQGLS-LQELVLSGNPL 115

>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 = 48.6 bits (115), Expect = 6e-06
 Identities = 17/75 (22%), Positives = 32/75 (42%), Gaps = 2/75 (2%)

Query: 518 DGNVTALPDQPKCPRLTTLFLQNNP-FADIPNAFFEHTREIKNLDLSSTNISSLAP-SLP 575
           DG + +L   P    LT L+++N      +         E++NL +  + +  +AP +  
Sbjct: 18  DGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFH 77

Query: 576 CLEKLRSLHLENTHL 590
              +L  L+L    L
Sbjct: 78  FTPRLSRLNLSFNAL 92

>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 = 47.4 bits (112), Expect = 1e-05
 Identities = 16/88 (18%), Positives = 31/88 (35%), Gaps = 3/88 (3%)

Query: 507 DLQNCEKLSLMDGN-VTALPDQ--PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
             +N  +L + +   +  L  +       L  L +  +    +    F  T  +  L+LS
Sbjct: 29  GAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLS 88

Query: 564 STNISSLAPSLPCLEKLRSLHLENTHLN 591
              + SL+        L+ L L    L+
Sbjct: 89  FNALESLSWKTVQGLSLQELVLSGNPLH 116

>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 = 3e-07
 Identities = 35/188 (18%), Positives = 61/188 (32%), Gaps = 34/188 (18%)

Query: 529 KCPRLTTLFLQNNPFAD-----IPNAFFEHTREIKNLDLSSTNIS-----SLAPSLPCLE 578
             P    L + NN   +     +     +   +++ L L S  ++      L   +    
Sbjct: 168 AKPDFKELTVSNNDINEAGVRVLCQGLKDSPCQLEALKLESCGVTSDNCRDLCGIVASKA 227

Query: 579 KLRSLHLENTHLND-------ASLIREFGELEVLILKGSRI-----VELPNGIGTVSNLK 626
            LR L L +  L D         L+     L  L +    I      +L   +    +LK
Sbjct: 228 SLRELALGSNKLGDVGMAELCPGLLHPSSRLRTLWIWECGITAKGCGDLCRVLRAKESLK 287

Query: 627 LLDLSNNLF----LQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASL 681
            L L+ N       +++   ++    QLE L+V   SF        ++        +A  
Sbjct: 288 ELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSV-------LAQN 340

Query: 682 TRLTVLYI 689
             L  L I
Sbjct: 341 RFLLELQI 348

>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 = 38/157 (24%), Positives = 61/157 (38%), Gaps = 34/157 (21%)

Query: 508 LQNCEKLSLMDGNVT---------ALPDQPKCPRLTTLFLQNNPFAD-----IPNAFFEH 553
           LQ C+ + L D  +T         AL      P L  L L++N   D     +       
Sbjct: 27  LQQCQVVRLDDCGLTEARCKDISSALR---VNPALAELNLRSNELGDVGVHCVLQGLQTP 83

Query: 554 TREIKNLDLSSTNIS-----SLAPSLPCLEKLRSLHLENTHLNDAS-------LIREFGE 601
           + +I+ L L +  ++      L+ +L  L  L+ LHL +  L DA        L+     
Sbjct: 84  SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLLGDAGLQLLCEGLLDPQCR 143

Query: 602 LEVLILKGSRI-----VELPNGIGTVSNLKLLDLSNN 633
           LE L L+   +       L + +    + K L +SNN
Sbjct: 144 LEKLQLEYCSLSAASCEPLASVLRAKPDFKELTVSNN 180

>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 = 46.9 bits (112), Expect = 3e-05
 Identities = 32/186 (17%), Positives = 61/186 (32%), Gaps = 34/186 (18%)

Query: 529 KCPRLTTLFLQNNPFAD-----IPNAFFEHTREIKNLDLSSTNISS-----LAPSLPCLE 578
               L  L L  N   D     +     E   ++++L + S + ++      +  L    
Sbjct: 282 AKESLKELSLAGNELGDEGARLLCETLLEPGCQLESLWVKSCSFTAACCSHFSSVLAQNR 341

Query: 579 KLRSLHLENTHLND--ASLIREFGE-----LEVLILKGSRIVE-----LPNGIGTVSNLK 626
            L  L + N  L D     + +        L VL L    + +     L   +    +L+
Sbjct: 342 FLLELQISNNRLEDAGVRELCQGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLR 401

Query: 627 LLDLSNNLF----LQVIPPNVISKLSQLEELYV-GNSFGDWEVEETANGQNARFSEVASL 681
            LDLSNN      +  +  +V      LE+L +    + +         ++   +     
Sbjct: 402 ELDLSNNCLGDAGILQLVESVRQPGCLLEQLVLYDIYWSE-------EMEDRLQALEKDK 454

Query: 682 TRLTVL 687
             L V+
Sbjct: 455 PSLRVI 460

>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 = 49.3 bits (118), Expect = 4e-06
 Identities = 27/180 (15%), Positives = 56/180 (31%), Gaps = 30/180 (16%)

Query: 511 CEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFAD-----IPNAFFEHTREIKNLDLSST 565
             K++     +         P L ++    N   +         F  H   +  + +   
Sbjct: 139 GAKIARALQELAVNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRL-LHTVKMVQN 197

Query: 566 NISS------LAPSLPCLEKLRSLHLENTHLND------ASLIREFGELEVLILKGSRI- 612
            I        L   L   ++L+ L L++           A  ++ +  L  L L    + 
Sbjct: 198 GIRPEGIEHLLLEGLAYCQELKVLDLQDNTFTHLGSSALAIALKSWPNLRELGLNDCLLS 257

Query: 613 ----VELPNGIGTVSNLKL--LDLSNNLF----LQVIPPNVISKLSQLEELYV-GNSFGD 661
                 + +    + N+ L  L L  N      ++ +   +  K+  L  L + GN F +
Sbjct: 258 ARGAAAVVDAFSKLENIGLQTLRLQYNEIELDAVRTLKTVIDEKMPDLLFLELNGNRFSE 317

>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 = 45.1 bits (107), Expect = 1e-04
 Identities = 34/169 (20%), Positives = 59/169 (34%), Gaps = 38/169 (22%)

Query: 529 KCPRLTTLFLQNNPFAD-----IPNAFFEHTREIKNLDLSSTNIS-----SLAPSLPCLE 578
           KCP+L T+ L +N F       + +   +HT  +++L L +  +       +A +L  L 
Sbjct: 92  KCPKLHTVRLSDNAFGPTAQEPLIDFLSKHTP-LEHLYLHNNGLGPQAGAKIARALQELA 150

Query: 579 K---------LRSLHLENTHLND------ASLIREFGELEVLILKGSRI------VELPN 617
                     LRS+      L +      A   +    L  + +  + I        L  
Sbjct: 151 VNKKAKNAPPLRSIICGRNRLENGSMKEWAKTFQSHRLLHTVKMVQNGIRPEGIEHLLLE 210

Query: 618 GIGTVSNLKLLDLSNNLF----LQVIPPNVISKLSQLEELYVG-NSFGD 661
           G+     LK+LDL +N F       +    +     L EL +       
Sbjct: 211 GLAYCQELKVLDLQDNTFTHLGSSAL-AIALKSWPNLRELGLNDCLLSA 258

>1w8a_A SLIT protein; signaling protein, secreted protein, AXON guidance, leucine-rich repeat glycoprotein, EGF-like domain, signal protein; 2.8A {Drosophila melanogaster} SCOP: c.10.2.7 Length = 192

 Score = 46.9 bits (112), Expect = 7e-06
 Identities = 33/179 (18%), Positives = 61/179 (34%), Gaps = 44/179 (24%)

Query: 510 NCEKLSLMDGNVTALPDQPKCPRLTT-LFLQNNPFADI-PNAFFEHTREIKNLDLSSTNI 567
           +C    L       +P     P  TT L L +N    I  +  F     +  L+L    +
Sbjct: 14  DCTGRGL-----KEIP--RDIPLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQL 66

Query: 568 SSLAPSL-PCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GTVSNL 625
           + + P+       ++ L L    +                       E+ N +   +  L
Sbjct: 67  TGIEPNAFEGASHIQELQLGENKIK----------------------EISNKMFLGLHQL 104

Query: 626 KLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS----------FGDWEVEETANGQNAR 674
           K L+L +N  +  + P     L+ L  L + ++          F +W  +++ NG  AR
Sbjct: 105 KTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFAEWLRKKSLNGGAAR 162

>3e6j_A Variable lymphocyte receptor diversity region; variable lymphocyte receptors, VLR, leucine-rich repeat, LRR adaptive immunity, immune system; HET: DR2; 1.67A {Petromyzon marinus} Length = 229

 Score = 46.6 bits (111), Expect = 1e-05
 Identities = 35/149 (23%), Positives = 56/149 (37%), Gaps = 26/149 (17%)

Query: 512 EKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISS 569
           + L L D  +T L          L  L+L +N    +P   F+   ++  LDL +  ++ 
Sbjct: 43  QILYLHDNQITKLEPGVFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQLTV 102

Query: 570 LAPSL-PCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLL 628
           L  ++   L  L+ L +    L                       ELP GI  +++L  L
Sbjct: 103 LPSAVFDRLVHLKELFMCCNKLT----------------------ELPRGIERLTHLTHL 140

Query: 629 DLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            L  N  L+ IP     +LS L   Y+  
Sbjct: 141 ALDQNQ-LKSIPHGAFDRLSSLTHAYLFG 168

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 45.4 bits (108), Expect = 3e-05
 Identities = 15/55 (27%), Positives = 26/55 (47%), Gaps = 1/55 (1%)

Query: 603 EVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
             L L G++   +P  +    +L L+DLSNN  +  +     S ++QL  L +  
Sbjct: 34  TELYLDGNQFTLVPKELSNYKHLTLIDLSNNR-ISTLSNQSFSNMTQLLTLILSY 87

>2wfh_A SLIT homolog 2 protein C-product; developmental protein, neurogenesis, splicing, glycoprotein, leucine-rich repeat, disulfide bond, differentiation; 1.80A {Homo sapiens} Length = 193

 Score = 42.3 bits (100), Expect = 3e-04
 Identities = 23/101 (22%), Positives = 31/101 (30%), Gaps = 24/101 (23%)

Query: 558 KNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPN 617
             L L     + +   L   + L  + L N   N                   RI  L N
Sbjct: 34  TELYLDGNQFTLVPKELSNYKHLTLIDLSN---N-------------------RISTLSN 71

Query: 618 GI-GTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
                ++ L  L LS N  L+ IPP     L  L  L +  
Sbjct: 72  QSFSNMTQLLTLILSYNR-LRCIPPRTFDGLKSLRLLSLHG 111

>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 = 46.5 bits (109), Expect = 3e-05
 Identities = 20/110 (18%), Positives = 42/110 (38%), Gaps = 19/110 (17%)

Query: 507 DLQNCEKLSLMDGN-----------VTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTR 555
           DL N EKL L  G               L  + + P L  L + +    ++    F  + 
Sbjct: 217 DLPNLEKLVLYVGVEDYGFDGDMNVFRPLFSKDRFPNLKWLGIVDAEEQNVVVEMFLESD 276

Query: 556 EIKNL---DLSSTNIS-----SLAPSLPCLEKLRSLHLENTHLNDASLIR 597
            +  L   D+S+  ++      L   +  ++ L+ ++++  +L+D     
Sbjct: 277 ILPQLETMDISAGVLTDEGARLLLDHVDKIKHLKFINMKYNYLSDEMKKE 326

>2o6s_A Variable lymphocyte receptor B; leucine-rich repeat protein, LRR, immune system; 1.50A {Eptatretus burgeri} Length = 208

 Score = 43.1 bits (102), Expect = 2e-04
 Identities = 35/150 (23%), Positives = 62/150 (41%), Gaps = 27/150 (18%)

Query: 512 EKLSLMDGNVTALPDQP--KCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISS 569
             L L   ++ +LP+    +   LT L+L  N    +PN  F     +  L+LS+  + S
Sbjct: 31  TYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQS 90

Query: 570 LAPSL-PCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGI-GTVSNLKL 627
           L   +   L +L+ L L    L                        LP+G+   ++ LK 
Sbjct: 91  LPNGVFDKLTQLKELALNTNQLQ----------------------SLPDGVFDKLTQLKD 128

Query: 628 LDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           L L  N  L+ +P  V  +L+ L+ +++ +
Sbjct: 129 LRLYQNQ-LKSVPDGVFDRLTSLQYIWLHD 157

>3rfe_A Platelet glycoprotein IB beta chain; platelet surface receptor, GPIX, cell adhesion; HET: NAG; 1.25A {Homo sapiens} PDB: 3rez_A* Length = 130

 Score = 40.2 bits (94), Expect = 5e-04
 Identities = 12/50 (24%), Positives = 20/50 (40%), Gaps = 3/50 (6%)

Query: 608 KGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           +G     LP       +   L L+ N  L  +PP ++  L  L   ++G 
Sbjct: 18  RGLTWASLPTAFPV--DTTELVLTGNN-LTALPPGLLDALPALRTAHLGA 64

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	1074
d2a5yb3	277	c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenor	4e-30
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-13
d2omza2	384	c.10.2.1 (A:33-416) Internalin A {Listeria monocyt	1e-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
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	3e-09
d1dcea3	124	c.10.2.2 (A:444-567) Rab geranylgeranyltransferase	8e-07
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	2e-07
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	1e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	3e-06
d1jl5a_	353	c.10.2.6 (A:) Leucine rich effector protein YopM {	0.003
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	3e-07
d1z7xw1	460	c.10.1.1 (W:1-460) Ribonuclease inhibitor {Human (	3e-04
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	2e-06
d1xkua_	305	c.10.2.7 (A:) Decorin {Cow (Bos taurus) [TaxId: 99	5e-05
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	7e-05
d2astb2	284	c.10.1.3 (B:2136-2419) Cyclin A/CDK2-associated p1	8e-04
d1p9ag_	266	c.10.2.7 (G:) von Willebrand factor binding domain	3e-04
d1ogqa_	313	c.10.2.8 (A:) Polygalacturonase inhibiting protein	4e-04
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	5e-04
d1koha1	162	c.10.2.3 (A:201-362) mRNA export factor tap {Human	0.001
d1h6ta2	210	c.10.2.1 (A:31-240) Internalin B {Listeria monocyt	0.001
d2omxa2	199	c.10.2.1 (A:37-235) Internalin B {Listeria monocyt	0.002
d1h6ua2	227	c.10.2.1 (A:36-262) Internalin H {Listeria monocyt	0.002
d2ifga3	156	c.10.2.7 (A:36-191) High affinity nerve growth fac	0.004

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]} Length = 277

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

 Score =  118 bits (297), Expect = 4e-30
 Identities = 32/263 (12%), Positives = 83/263 (31%), Gaps = 31/263 (11%)

Query: 167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQV-----MKQEIPFDKVIFVRVTQT 221
            V + + KL +   +    + ++G  G GK+ +  Q          I +D +++++ + T
Sbjct: 28  HVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGT 87

Query: 222 PDVKRVQDEIARFL-----------NTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWG 270
                        L            +       VL+    +  + R    L + DD+  
Sbjct: 88  APKSTFDLFTDILLMLKSEDDLLNFPSVEHVTSVVLKRMICNALIDR-PNTLFVFDDVVQ 146

Query: 271 KLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEMESTNYV-QVEELTDEDRLILFKKKAGL 329
           +            +    + ++T+R  E+ +    T    +V  L  ++     +     
Sbjct: 147 EET------IRWAQELRLRCLVTTRDVEISNAASQTCEFIEVTSLEIDECYDFLEAYGMP 200

Query: 330 PEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPINVEGIPE 389
               +  +    + +      P  +++   +   K   +  +   + ++   + VE I  
Sbjct: 201 MPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGLVGVECI-- 258

Query: 390 EVVLCVALGYDQLETVAKSCLQF 412
                    Y  L    + C++ 
Sbjct: 259 -----TPYSYKSLAMALQRCVEV 276

>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 = 71.6 bits (174), Expect = 1e-13
 Identities = 31/175 (17%), Positives = 71/175 (40%), Gaps = 27/175 (15%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
           P   L N ++LSL    +  +        LT L L NN  +++         ++  L L 
Sbjct: 214 PLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLG 271

Query: 564 STNISSLAP---------------------SLPCLEKLRSLHLENTHLNDASLIREFGEL 602
           +  IS+++P                      +  L+ L  L L   +++D S +    +L
Sbjct: 272 ANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTKL 331

Query: 603 EVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
           + L    +++ ++   +  ++N+  L   +N    + P   ++ L+++ +L + +
Sbjct: 332 QRLFFANNKVSDVS-SLANLTNINWLSAGHNQISDLTP---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 = 62.3 bits (150), Expect = 1e-10
 Identities = 29/146 (19%), Positives = 56/146 (38%), Gaps = 22/146 (15%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIP-------------------- 547
           L N   L L +  ++ L       +LT L L  N  ++I                     
Sbjct: 240 LTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLED 299

Query: 548 NAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLIL 607
            +   + + +  L L   NIS ++P +  L KL+ L   N  ++D S +     +  L  
Sbjct: 300 ISPISNLKNLTYLTLYFNNISDISP-VSSLTKLQRLFFANNKVSDVSSLANLTNINWLSA 358

Query: 608 KGSRIVELPNGIGTVSNLKLLDLSNN 633
             ++I +L   +  ++ +  L L++ 
Sbjct: 359 GHNQISDLT-PLANLTRITQLGLNDQ 383

>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 = 22/89 (24%), Positives = 38/89 (42%), Gaps = 3/89 (3%)

Query: 499 MKKGWPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIK 558
           ++   P  +L+N   L+L   N++ +       +L  LF  NN  +D+ +    +   I 
Sbjct: 297 LEDISPISNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFANNKVSDVSS--LANLTNIN 354

Query: 559 NLDLSSTNISSLAPSLPCLEKLRSLHLEN 587
            L      IS L P L  L ++  L L +
Sbjct: 355 WLSAGHNQISDLTP-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 = 49.2 bits (116), Expect = 2e-06
 Identities = 73/427 (17%), Positives = 134/427 (31%), Gaps = 54/427 (12%)

Query: 565 TNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSN 624
           T I+ +      L +     L  T++ D     +  ++  L      I  +  G+  ++N
Sbjct: 10  TPINQIFTD-TALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSID-GVEYLNN 67

Query: 625 LKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRL 684
           L  ++ SNN    + P   +  L++L ++ + N+                          
Sbjct: 68  LTQINFSNNQLTDITP---LKNLTKLVDILMNNNQIADITPLANLTNLT----------- 113

Query: 685 TVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLL 744
               + + N ++  +D     TNL R  +  N      A      L+ LS          
Sbjct: 114 ---GLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKP 170

Query: 745 LEKTEYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVE 804
           L     LT     ++      D+     L  +     +  +I        +  L+EL + 
Sbjct: 171 LAN---LTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGILTNLDELSLN 227

Query: 805 YCYSLKEVFCLEDIEGEQAGLKRLRELVLVGLPKVLTIWKGNHSVVYLKTLKLMKVKDCG 864
                     L+DI G  A L  L +L L              +   L  LKL   +   
Sbjct: 228 GN-------QLKDI-GTLASLTNLTDLDLANNQISNLAPLSGLT--KLTELKLGANQISN 277

Query: 865 KLRYLFSRTLAEGLGNLEDLSILKCDLMEEIVSVDEAEVEQGAAQERNVSSAPQPMFFPN 924
                       GL  L +L + +  L +     +   +        N+S          
Sbjct: 278 ISPL-------AGLTALTNLELNENQLEDISPISNLKNLTYLTLYFNNISDISPVSSLTK 330

Query: 925 LKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKL 984
           L++L     NK+  V SL    NL  +  L+    N +  +  +++          L ++
Sbjct: 331 LQRLFFA-NNKVSDVSSLA---NLTNINWLSA-GHNQISDLTPLAN----------LTRI 375

Query: 985 KILALED 991
             L L D
Sbjct: 376 TQLGLND 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 = 19/86 (22%), Positives = 31/86 (36%), Gaps = 3/86 (3%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLS 563
               L    K  L   NVT    Q    ++TTL         I     E+   +  ++ S
Sbjct: 17  TDTALAEKMKTVLGKTNVTDTVSQTDLDQVTTLQADRLGIKSIDG--VEYLNNLTQINFS 74

Query: 564 STNISSLAPSLPCLEKLRSLHLENTH 589
           +  ++ + P L  L KL  + + N  
Sbjct: 75  NNQLTDITP-LKNLTKLVDILMNNNQ 99

>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 = 54.0 bits (129), Expect = 3e-09
 Identities = 25/123 (20%), Positives = 48/123 (39%), Gaps = 6/123 (4%)

Query: 535 TLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDAS 594
            L L +     + +   E    + +LDLS   + +L P+L  L  L  L   +  L +  
Sbjct: 2   VLHLAHKDLTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 595 LIREFGELEVLILKGSRIVELPN--GIGTVSNLKLLDLSNNLF--LQVIPPNVISKLSQL 650
            +     L+ L+L  +R+ +      + +   L LL+L  N     + I   +   L  +
Sbjct: 60  GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQGNSLCQEEGIQERLAEMLPSV 119

Query: 651 EEL 653
             +
Sbjct: 120 SSI 122

>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 = 47.0 bits (111), Expect = 8e-07
 Identities = 21/101 (20%), Positives = 38/101 (37%), Gaps = 3/101 (2%)

Query: 558 KNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVLILKGSRIVELP 616
           + L L+  +++ L   L  L  +  L L +  L      +     LEVL    + +  + 
Sbjct: 1   RVLHLAHKDLTVL-CHLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD 59

Query: 617 NGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN 657
            G+  +  L+ L L NN   Q      +    +L  L +  
Sbjct: 60  -GVANLPRLQELLLCNNRLQQSAAIQPLVSCPRLVLLNLQG 99

>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 = 52.1 bits (123), Expect = 2e-07
 Identities = 15/91 (16%), Positives = 37/91 (40%), Gaps = 5/91 (5%)

Query: 537 FLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLI 596
               N  ++   +  +    ++ L++S+  +  L    P   +L  L     HL    + 
Sbjct: 266 LYYLNASSNEIRSLCDLPPSLEELNVSNNKLIELPALPP---RLERLIASFNHLA--EVP 320

Query: 597 REFGELEVLILKGSRIVELPNGIGTVSNLKL 627
                L+ L ++ + + E P+   +V +L++
Sbjct: 321 ELPQNLKQLHVEYNPLREFPDIPESVEDLRM 351

>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 = 49.4 bits (116), Expect = 1e-06
 Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 6/79 (7%)

Query: 503 WPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDL 562
              +   + E+L++ +  +  LP  P  PRL  L    N  A++P    E  + +K L +
Sbjct: 278 SLCDLPPSLEELNVSNNKLIELPALP--PRLERLIASFNHLAEVP----ELPQNLKQLHV 331

Query: 563 SSTNISSLAPSLPCLEKLR 581
               +         +E LR
Sbjct: 332 EYNPLREFPDIPESVEDLR 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 = 48.3 bits (113), Expect = 3e-06
 Identities = 20/83 (24%), Positives = 31/83 (37%), Gaps = 10/83 (12%)

Query: 575 PCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNL 634
                L  L++ N  L    L      LE LI   + + E+P       NLK L +  N 
Sbjct: 281 DLPPSLEELNVSNNKLI--ELPALPPRLERLIASFNHLAEVPELPQ---NLKQLHVEYN- 334

Query: 635 FLQVIPPNVISKLSQLEELYVGN 657
            L+  P         +E+L + +
Sbjct: 335 PLREFPDI----PESVEDLRMNS 353

>d1jl5a_ c.10.2.6 (A:) Leucine rich effector protein YopM {Yersinia pestis [TaxId: 632]} Length = 353

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Leucine rich effector protein YopM
domain: Leucine rich effector protein YopM
species: Yersinia pestis [TaxId: 632]

 Score = 39.0 bits (89), Expect = 0.003
 Identities = 19/59 (32%), Positives = 27/59 (45%), Gaps = 6/59 (10%)

Query: 576 CLEK-LRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNN 633
           CL++    L L N  L+  SL      LE L+   + + ELP       +LK L + NN
Sbjct: 35  CLDRQAHELELNNLGLS--SLPELPPHLESLVASCNSLTELPELPQ---SLKSLLVDNN 88

>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 = 51.9 bits (122), Expect = 3e-07
 Identities = 17/113 (15%), Positives = 44/113 (38%), Gaps = 23/113 (20%)

Query: 556 EIKNLDLSSTNISS--LAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIV 613
           +I++LD+    +S    A  LP L++ + + L++  L +A                    
Sbjct: 3   DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCK----------------- 45

Query: 614 ELPNGIGTVSNLKLLDLSNNLF----LQVIPPNVISKLSQLEELYVGNSFGDW 662
           ++ + +     L  L+L +N      +  +   + +   ++++L + N     
Sbjct: 46  DISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTPSCKIQKLSLQNCCLTG 98

>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 = 41.9 bits (96), Expect = 3e-04
 Identities = 23/112 (20%), Positives = 40/112 (35%), Gaps = 25/112 (22%)

Query: 548 NAFFEHTREIKNLDLSSTNIS-----SLAPSLPCLEKLRSLHLENTHLNDASLIREFGEL 602
               +    ++ L L+  ++S     SLA +L     LR L L N  L DA  I +  E 
Sbjct: 362 QGLGQPGSVLRVLWLADCDVSDSSCSSLAATLLANHSLRELDLSNNCLGDAG-ILQLVES 420

Query: 603 EVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELY 654
               ++                L+ L L +  + + +      +L  LE+  
Sbjct: 421 ----VRQPG-----------CLLEQLVLYDIYWSEEME----DRLQALEKDK 453

>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 = 48.9 bits (115), Expect = 2e-06
 Identities = 49/293 (16%), Positives = 97/293 (33%), Gaps = 40/293 (13%)

Query: 510 NCEKLSLMDGNVTALPDQ-PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNIS 568
            C  L L       +P   P  P    L LQNN   +I +  F++ + +  L L +  IS
Sbjct: 16  QCSDLGL-----EKVPKDLP--PDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKIS 68

Query: 569 SLAP-SLPCLEKLRSLHLENTHLND-----------------------ASLIREFGELEV 604
            ++P +   L KL  L+L    L +                        S+     ++ V
Sbjct: 69  KISPGAFAPLVKLERLYLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIV 128

Query: 605 LILKGSRIVEL---PNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV-GNSFG 660
           + L  + +            +  L  + +++   +  IP  +      L EL++ GN   
Sbjct: 129 VELGTNPLKSSGIENGAFQGMKKLSYIRIADT-NITTIPQGL---PPSLTELHLDGNKIT 184

Query: 661 DWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVNDDYW 720
             +        N     ++  +   V    ++NT  L          +K      +  Y 
Sbjct: 185 KVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYI 244

Query: 721 EIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNLQDIGEIDVQGFTGL 773
           ++    + ++  + ++         +K  Y  ++  SN     EI    F  +
Sbjct: 245 QVVYLHNNNISAIGSNDFCPPGYNTKKASYSGVSLFSNPVQYWEIQPSTFRCV 297

>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 = 44.3 bits (103), Expect = 5e-05
 Identities = 30/156 (19%), Positives = 58/156 (37%), Gaps = 11/156 (7%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
           ++    + + D N+T +P     P LT L L  N    +  A  +    +  L LS  +I
Sbjct: 149 MKKLSYIRIADTNITTIPQG-LPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSI 207

Query: 568 SSLAPSLPCLEK-LRSLHLENTHLNDASL-IREFGELEVLILKGSRIVELPNG------- 618
           S++          LR LHL N  L      + +   ++V+ L  + I  + +        
Sbjct: 208 SAVDNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDFCPPGY 267

Query: 619 IGTVSNLKLLDLSNN-LFLQVIPPNVISKLSQLEEL 653
               ++   + L +N +    I P+    +     +
Sbjct: 268 NTKKASYSGVSLFSNPVQYWEIQPSTFRCVYVRAAV 303

>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 = 43.6 bits (101), Expect = 7e-05
 Identities = 33/257 (12%), Positives = 81/257 (31%), Gaps = 25/257 (9%)

Query: 581 RSLHLENTHLNDASLIREFG-ELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVI 639
           ++L L   +L+     R     +       S + +      +   ++ +DLSN++     
Sbjct: 3   QTLDLTGKNLHPDVTGRLLSQGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVST 62

Query: 640 PPNVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSNTKVLSV 699
              ++S+ S+L+ L +        +           + +A  + L  L +   +      
Sbjct: 63  LHGILSQCSKLQNLSLEGLRLSDPI----------VNTLAKNSNLVRLNLSGCS---GFS 109

Query: 700 DFDGPWTNLKRFRVCVNDDYWEIAPKRSMHLKNLSNSIASWVKLLLEKTEYLTLTRSSNL 759
           +F          R+   +  W            +++   +  +L L            + 
Sbjct: 110 EFALQTLLSSCSRLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLST 169

Query: 760 QDIGEIDVQGFTGLMCMHLRACSMQRIFHSNFYPTVQILEELHVEYCYSLKEVFCLEDIE 819
                 ++        + L+    Q  F  N+      L+ L +  CY +     L ++ 
Sbjct: 170 LVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNY------LQHLSLSRCYDIIPE-TLLEL- 221

Query: 820 GEQAGLKRLRELVLVGL 836
                +  L+ L + G+
Sbjct: 222 ---GEIPTLKTLQVFGI 235

>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 = 40.1 bits (92), Expect = 8e-04
 Identities = 23/234 (9%), Positives = 60/234 (25%), Gaps = 28/234 (11%)

Query: 555 REIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVE 614
           + +       + +           +++ + L N+ +  ++L     +             
Sbjct: 23  QGVIAFRCPRSFMDQPLAEHFSPFRVQHMDLSNSVIEVSTLHGILSQC------------ 70

Query: 615 LPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQNAR 674
                   S L+ L L        I    ++K S L  L +    G  E        +  
Sbjct: 71  --------SKLQNLSLEGLRLSDPIVNT-LAKNSNLVRLNLSGCSGFSEFALQTLLSSCS 121

Query: 675 FSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNL------KRFRVCVNDDYWEIAPKRSM 728
             +  +L+             V  V       NL       +                  
Sbjct: 122 RLDELNLSWCFDFTEKHVQVAVAHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLD 181

Query: 729 HLKNLSNSIASWVKLLLEKT-EYLTLTRSSNLQDIGEIDVQGFTGLMCMHLRAC 781
              ++      + +       ++L+L+R  ++     +++     L  + +   
Sbjct: 182 LSDSVMLKNDCFQEFFQLNYLQHLSLSRCYDIIPETLLELGEIPTLKTLQVFGI 235

>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 = 41.2 bits (95), Expect = 3e-04
 Identities = 9/67 (13%), Positives = 22/67 (32%), Gaps = 3/67 (4%)

Query: 596 IREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV 655
           + +      +      +  LP  +    +  +L LS N  L       +   ++L +L +
Sbjct: 6   VSKVASHLEVNCDKRNLTALPPDLPK--DTTILHLSEN-LLYTFSLATLMPYTRLTQLNL 62

Query: 656 GNSFGDW 662
             +    
Sbjct: 63  DRAELTK 69

>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 = 41.7 bits (96), Expect = 4e-04
 Identities = 12/47 (25%), Positives = 18/47 (38%), Gaps = 3/47 (6%)

Query: 614 ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEEL-YVGNSF 659
            LP G+  +  L  L++S N     IP      L + +   Y  N  
Sbjct: 259 TLPQGLTQLKFLHSLNVSFNNLCGEIPQ--GGNLQRFDVSAYANNKC 303

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {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: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.8 bits (92), Expect = 5e-04
 Identities = 28/136 (20%), Positives = 46/136 (33%), Gaps = 11/136 (8%)

Query: 556 EIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIRE-FGELEVLILKGSRIV- 613
             + LDL         P L        L+  ++      +I E   EL  L L  +R+  
Sbjct: 23  SQQALDLKGLRSD---PDLVAQNIDVVLNRRSSMAATLRIIEENIPELLSLNLSNNRLYR 79

Query: 614 --ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEETANGQ 671
             ++ + +    NLK+L+LS N        + I  L   E    GNS      +   +  
Sbjct: 80  LDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSL----SDTFRDQS 135

Query: 672 NARFSEVASLTRLTVL 687
               +      +L  L
Sbjct: 136 TYISAIRERFPKLLRL 151

>d1koha1 c.10.2.3 (A:201-362) mRNA export factor tap {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: mRNA export factor tap
domain: mRNA export factor tap
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 39.0 bits (90), Expect = 0.001
 Identities = 22/152 (14%), Positives = 49/152 (32%), Gaps = 25/152 (16%)

Query: 508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNI 567
             +  + +L    + + PD         L  +++  A +     E+  E+ +L+LS+  +
Sbjct: 19  RYDGSQQALDLKGLRSDPDLVAQNIDVVLNRRSSMAATLRII-EENIPELLSLNLSNNRL 77

Query: 568 SSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKL 627
             L      ++K  +L + N   N+   ++   EL+ +                      
Sbjct: 78  YRLDDMSSIVQKAPNLKILNLSGNE---LKSERELDKIKGLKLEE--------------- 119

Query: 628 LDLSNNLFLQVIPPN------VISKLSQLEEL 653
           L L  N               +  +  +L  L
Sbjct: 120 LWLDGNSLSDTFRDQSTYISAIRERFPKLLRL 151

>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 = 39.2 bits (90), Expect = 0.001
 Identities = 8/66 (12%), Positives = 23/66 (34%), Gaps = 2/66 (3%)

Query: 503 WPREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDL 562
           +  +      K +L   +VT    Q +   +  +   N+    +     ++   +  L L
Sbjct: 18  FSDDAFAETIKDNLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQG--IQYLPNVTKLFL 75

Query: 563 SSTNIS 568
           +   ++
Sbjct: 76  NGNKLT 81

>d2omxa2 c.10.2.1 (A:37-235) Internalin B {Listeria monocytogenes [TaxId: 1639]} Length = 199

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin B
species: Listeria monocytogenes [TaxId: 1639]

 Score = 38.9 bits (89), Expect = 0.002
 Identities = 31/169 (18%), Positives = 56/169 (33%), Gaps = 23/169 (13%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPN--------------- 548
            + DL     L      + ++        LT +   NN   DI                 
Sbjct: 35  SQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNN 94

Query: 549 ----AFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEV 604
                                N  +    L  L  L  L L +  ++D S +     L+ 
Sbjct: 95  QIADITPLANLTNLTGLTLFNNQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQ 154

Query: 605 LILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEEL 653
           L    +++ +L   +  ++ L+ LD+S+N  +  I    ++KL+ LE L
Sbjct: 155 LNFSSNQVTDLK-PLANLTTLERLDISSN-KVSDISV--LAKLTNLESL 199

>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 = 38.9 bits (89), Expect = 0.002
 Identities = 29/195 (14%), Positives = 58/195 (29%), Gaps = 45/195 (23%)

Query: 504 PREDLQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNA-------------- 549
            + DL     LS     VT +        L  L L++N   D+                 
Sbjct: 36  TQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGN 95

Query: 550 -----FFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND------------ 592
                      +       ++   +    L  L  L+ L+L+   + +            
Sbjct: 96  PLKNVSAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQY 155

Query: 593 ----------ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPN 642
                      + +    +L  L    ++I ++   + ++ NL  + L NN    V P  
Sbjct: 156 LSIGNAQVSDLTPLANLSKLTTLKADDNKISDIS-PLASLPNLIEVHLKNNQISDVSP-- 212

Query: 643 VISKLSQLEELYVGN 657
            ++  S L  + + N
Sbjct: 213 -LANTSNLFIVTLTN 226

>d2ifga3 c.10.2.7 (A:36-191) High affinity nerve growth factor receptor, N-terminal domain {Human (Homo sapiens) [TaxId: 9606]} Length = 156

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]

 Score = 37.1 bits (84), Expect = 0.004
 Identities = 10/54 (18%), Positives = 19/54 (35%)

Query: 602 LEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV 655
              L       ++  + +    NL  L + N   LQ +    +  L +L  L +
Sbjct: 10  SSGLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTI 63

Homologous Domains Detected by HHsearch

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

ID	Length	Definition	Probability
Query	1074
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	100.0
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.92
d2omza2	384	Internalin A {Listeria monocytogenes [TaxId: 1639]	99.91
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.83
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.8
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.77
d1xkua_	305	Decorin {Cow (Bos taurus) [TaxId: 9913]}	99.77
d1jl5a_	353	Leucine rich effector protein YopM {Yersinia pesti	99.77
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.75
d1ogqa_	313	Polygalacturonase inhibiting protein PGIP {Kidney	99.71
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.7
d1ozna_	284	Reticulon 4 receptor (Nogo-66 receptor, Ngr) {Huma	99.69
d1p9ag_	266	von Willebrand factor binding domain of glycoprote	99.69
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.65
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.65
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.64
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.63
d1h6ua2	227	Internalin H {Listeria monocytogenes [TaxId: 1639]	99.62
d2astb2	284	Cyclin A/CDK2-associated p19, Skp2 {Human (Homo sa	99.6
d2omxa2	199	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.59
d1h6ta2	210	Internalin B {Listeria monocytogenes [TaxId: 1639]	99.58
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.53
d1xwdc1	242	Follicle-stimulating hormone receptor {Human (Homo	99.41
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.37
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.37
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.35
d1w8aa_	192	Slit {Fruit fly (Drosophila melanogaster) [TaxId:	99.34
d1a9na_	162	Splicesomal U2A' protein {Human (Homo sapiens) [Ta	99.3
d1dcea3	124	Rab geranylgeranyltransferase alpha-subunit, C-ter	99.28
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	99.27
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.26
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	99.11
d1z7xw1	460	Ribonuclease inhibitor {Human (Homo sapiens) [TaxI	99.1
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.05
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	99.0
d1m9la_	198	Outer arm dynein light chain 1 {Green algae (Chlam	99.0
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	99.0
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	98.93
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	98.92
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	98.89
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.87
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	98.85
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	98.85
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	98.84
d2ifga3	156	High affinity nerve growth factor receptor, N-term	98.75
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.66
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	98.61
d2ca6a1	344	Rna1p (RanGAP1), N-terminal domain {Fission yeast	98.59
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	98.56
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	98.55
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.54
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	98.53
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	98.51
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	98.49
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	98.47
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	98.42
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	98.4
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	98.35
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	98.31
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	97.66
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	97.63
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	97.44
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	97.42
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.36
d1koha1	162	mRNA export factor tap {Human (Homo sapiens) [TaxI	97.29
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	97.2
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.97
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.97
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	96.97
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.92
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	96.91
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.9
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.89
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	96.75
d2qy9a2	211	GTPase domain of the signal recognition particle r	96.72
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	96.69
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	96.65
d1pgva_	167	Tropomodulin C-terminal domain {nematode (Caenorha	96.64
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.64
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.59
d1ls1a2	207	GTPase domain of the signal sequence recognition p	96.57
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.55
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.54
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.53
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	96.51
d1okkd2	207	GTPase domain of the signal recognition particle r	96.45
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	96.39
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	96.37
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	96.37
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	96.3
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	96.26
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	96.24
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.21
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.21
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	96.17
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	96.17
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.15
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.13
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.12
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.11
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.08
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	96.08
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.06
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.01
d1vmaa2	213	GTPase domain of the signal recognition particle r	95.99
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	95.94
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	95.9
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.89
d1xpua3	289	Transcription termination factor Rho, ATPase domai	95.89
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.89
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	95.87
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	95.87
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.84
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	95.8
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.73
d1j8yf2	211	GTPase domain of the signal sequence recognition p	95.67
d1io0a_	166	Tropomodulin C-terminal domain {Chicken (Gallus ga	95.67
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.65
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	95.64
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	95.64
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	95.62
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	95.56
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	95.48
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	95.21
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.14
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	95.13
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	95.09
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.04
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.01
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	94.88
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	94.71
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.69
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	94.67
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	94.67
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	94.63
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.62
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	94.61
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.6
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.58
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	94.56
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.55
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	94.55
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	94.48
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	94.42
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.36
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	94.35
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	94.17
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	94.1
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	94.0
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	93.92
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	93.91
d1g2912	240	Maltose transport protein MalK, N-terminal domain	93.91
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.83
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	93.83
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	93.82
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	93.81
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	93.81
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	93.76
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	93.74
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	93.65
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	93.47
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	93.45
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.43
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	93.4
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	93.37
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.18
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	93.12
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	92.83
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	92.81
d2awna2	232	Maltose transport protein MalK, N-terminal domain	92.8
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	92.8
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	92.74
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	92.7
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.56
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	92.31
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	92.29
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	92.12
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	92.12
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	92.11
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	92.09
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	92.05
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	92.03
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	91.95
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	91.94
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	91.92
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	91.92
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	91.91
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	91.89
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	91.82
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	91.74
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	91.61
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	91.6
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	91.57
d1nrjb_	209	Signal recognition particle receptor beta-subunit	91.45
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	91.43
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	91.41
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	91.4
d2fh5b1	207	Signal recognition particle receptor beta-subunit	91.37
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	91.36
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	91.34
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	91.28
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	91.26
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	91.26
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	91.24
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	91.19
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	91.18
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	91.14
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	91.13
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	91.11
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	91.05
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	91.02
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	90.99
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	90.89
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	90.88
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	90.87
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	90.86
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	90.81
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	90.79
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	90.75
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	90.72
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	90.7
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	90.64
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	90.62
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	90.55
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	90.52
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	90.47
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.36
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	90.35
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	90.35
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	90.28
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	90.21
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	90.08
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	90.03
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	89.97
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	89.84
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	89.72
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	89.72
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	89.64
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	89.56
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	89.54
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	89.52
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	89.41
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	89.41
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	89.35
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	89.34
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	89.31
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	89.3
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	89.29
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.27
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	89.26
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	89.24
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	89.2
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	88.87
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	88.52
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	88.46
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	88.32
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	88.28
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	88.14
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	87.81
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	87.35
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	86.83
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	86.4
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	86.17
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	85.91
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	85.18
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	84.49
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	84.4
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	83.99
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	83.62
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	82.86
d1tuea_	205	Replication protein E1 helicase domain {Human papi	82.06
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	81.78
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	80.22

>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=0  Score=309.22  Aligned_cols=238  Identities=12%  Similarity=0.170  Sum_probs=193.5

Q ss_pred             CCCHHHHHHHHHHHHHC-CCCCEEEEEEECCCCCCHHHHHHHHHHH-----CCCCCEEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             82139999999999722-9984159999948999188999999861-----39988399999568967899999999983
Q 001457          162 LKSALEVIKSVMKLLKD-NSISINIIGVYGSGGIGKTTLMKQVMKQ-----EIPFDKVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       162 ~~~~~~~~~~l~~~l~~-~~~~~~vi~I~G~gGiGKTtLa~~v~~~-----~~~F~~~~wv~v~~~~~~~~~~~~i~~~l  235 (1074)
                      ++||+.++++++++|.. .+...++|+|+||||+||||||+++|++     ..+|++++|+++++.++...+...+...+
T Consensus        22 ~~gR~~~~~~i~~~L~~~~~~~~~~v~I~GmgGiGKTtLA~~v~~~~~~~~~~~f~~~~Wv~vs~~~~~~~l~~~~~~~~  101 (277)
T d2a5yb3          22 CYIREYHVDRVIKKLDEMCDLDSFFLFLHGRAGSGKSVIASQALSKSDQLIGINYDSIVWLKDSGTAPKSTFDLFTDILL  101 (277)
T ss_dssp             SCCCHHHHHHHHHHHHHHTTSSSEEEEEECSTTSSHHHHHHHHHHHCSSTBTTTBSEEEEEECCCCSTTHHHHHHHHHHH
T ss_pred             EECCHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEEECCCCCHHHHHHHHHHHH
T ss_conf             23739999999999873468784089997799788899999999855655401276489999368777778999999999


Q ss_pred             ---CCCC--------CCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCHHHHHHCC
Q ss_conf             ---3477--------74359999999999987047099998186541232202668889999809999638815775216
Q 001457          236 ---NTEL--------EGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDLAVVGIPYGEEHKGCKIILTSRFKEVCDEME  304 (1074)
Q Consensus       236 ---~~~~--------~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~~~~~~~~~~~~~~~gs~iivTTR~~~v~~~~~  304 (1074)
                         +...        ...........+.+.+. ++|+|+||||||+.++|..+..      .|||||||||++.++..+.
T Consensus       102 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~-~kr~LlVLDDv~~~~~~~~~~~------~~srilvTTR~~~v~~~~~  174 (277)
T d2a5yb3         102 MLKSEDDLLNFPSVEHVTSVVLKRMICNALID-RPNTLFVFDDVVQEETIRWAQE------LRLRCLVTTRDVEISNAAS  174 (277)
T ss_dssp             HHTTTSCCTTCCCCTTCCHHHHHHHHHHHHTT-STTEEEEEEEECCHHHHHHHHH------TTCEEEEEESBGGGGGGCC
T ss_pred             HHHCCHHHCCCCCCHHHHHHHHHHHHHHHHHC-CCCEEEECCHHHHHHHHHHHCC------CCCEEEEEEEHHHHHHHCC
T ss_conf             87220220278632123369999999999844-6881675250667766555204------5755999964489998637


Q ss_pred             CC-CEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCC
Q ss_conf             99-73858999989899999975099999903699999999991898579999999972899058999999973079999
Q 001457          305 ST-NYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIVIIGTALRHKPVREWNEAIKRKKASTPIN  383 (1074)
Q Consensus       305 ~~-~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~~~~~~l~~~~~~~w~~~~~~l~~~~~~~  383 (1074)
                      .. ..|++++|+.+|||+||.++++.....+..++++++|+++|+|+||||+++|+.|+.++.++|.+..+.+.....  
T Consensus       175 ~~~~~~~l~~L~~~ea~~Lf~~~~~~~~~~~~~~~~~~~iv~~c~GlPLAl~~ig~~l~~k~~~~~~~~~~~L~~~~~--  252 (277)
T d2a5yb3         175 QTCEFIEVTSLEIDECYDFLEAYGMPMPVGEKEEDVLNKTIELSSGNPATLMMFFKSCEPKTFEKMAQLNNKLESRGL--  252 (277)
T ss_dssp             SCEEEEECCCCCHHHHHHHHHHTSCCCC--CHHHHHHHHHHHHHTTCHHHHHHHHTTCCSSSHHHHHHHHHHHHHHCS--
T ss_pred             CCCCEEECCCCCHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHCCCH--
T ss_conf             887168778899799999999984776674256799999999958998999999998655989999999999734867--


Q ss_pred             CCCCHHHHHHHHHHHHCCCHHHHHHHHHHH
Q ss_conf             889638899899873037836588999866
Q 001457          384 VEGIPEEVVLCVALGYDQLETVAKSCLQFS  413 (1074)
Q Consensus       384 ~~~~~~~~~~~l~~sy~~L~~~~k~cf~~~  413 (1074)
                           .++..++.+||++||+++|.||.++
T Consensus       253 -----~~v~~il~~sY~~L~~~lk~c~~~l  277 (277)
T d2a5yb3         253 -----VGVECITPYSYKSLAMALQRCVEVL  277 (277)
T ss_dssp             -----STTCCCSSSSSSSHHHHHHHHHHTS
T ss_pred             -----HHHHHHHHHHHHCCCHHHHHHHHHC
T ss_conf             -----8899999998851269999999739

>d2omza2 c.10.2.1 (A:33-416) Internalin A {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin A
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.92  E-value=3.7e-22  Score=152.91  Aligned_cols=98  Identities=21%  Similarity=0.423  Sum_probs=59.1

Q ss_pred             HCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECC
Q ss_conf             32897319980287457779973377457766536887899700027897539982078786568311388887888488
Q 001457          552 EHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLS  631 (1074)
Q Consensus       552 ~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~  631 (1074)
                      ..+.+|+.|++++++++.+ +.+..+++|++|++++|.+++...++++++|++|++++|.+..++. ++.+++|+.|++.
T Consensus        41 ~~l~~l~~L~l~~~~I~~l-~gl~~L~nL~~L~Ls~N~l~~l~~l~~L~~L~~L~L~~n~i~~i~~-l~~l~~L~~L~~~  118 (384)
T d2omza2          41 TDLDQVTTLQADRLGIKSI-DGVEYLNNLTQINFSNNQLTDITPLKNLTKLVDILMNNNQIADITP-LANLTNLTGLTLF  118 (384)
T ss_dssp             HHHTTCCEEECCSSCCCCC-TTGGGCTTCCEEECCSSCCCCCGGGTTCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECC
T ss_pred             HHHCCCCEEECCCCCCCCC-CCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCC
T ss_conf             8957878998999898776-2424589999896818817988633477110103013433322221-1123343334433


Q ss_pred             CCCCCCCCCHHHHCCCCCCCEEE
Q ss_conf             89689876933321999769998
Q 001457          632 NNLFLQVIPPNVISKLSQLEELY  654 (1074)
Q Consensus       632 ~~~~~~~~p~~~l~~l~~L~~L~  654 (1074)
                      ++.... .+.  ......+..+.
T Consensus       119 ~~~~~~-~~~--~~~~~~~~~~~  138 (384)
T d2omza2         119 NNQITD-IDP--LKNLTNLNRLE  138 (384)
T ss_dssp             SSCCCC-CGG--GTTCTTCSEEE
T ss_pred             CCCCCC-CCC--CCCCCCCCCCC
T ss_conf             222222-222--22222221121

>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=99.91  E-value=4e-21  Score=146.36  Aligned_cols=78  Identities=15%  Similarity=0.296  Sum_probs=33.4

Q ss_pred             CCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEEC
Q ss_conf             77457766536887899700027897539982078786568311388887888488896898769333219997699983
Q 001457          576 CLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYV  655 (1074)
Q Consensus       576 ~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l  655 (1074)
                      .+.+|++|+++++.++..+.+..+++|++|++++|.++.+|. ++.+++|++|++++|.+. .+++  ++.+++|+.|.+
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 DLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIA-DITP--LANLTNLTGLTL  117 (384)
T ss_dssp             HHTTCCEEECCSSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCC-CCGG--GTTCTTCCEEEC
T ss_pred             HHCCCCEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCCCCCCCCCC-CCCC--CCCCCCCCCCCC
T ss_conf             957878998999898776242458999989681881798863-347711010301343332-2221--112334333443


Q ss_pred             CC
Q ss_conf             67
Q 001457          656 GN  657 (1074)
Q Consensus       656 ~~  657 (1074)
                      .+
T Consensus       118 ~~  119 (384)
T d2omza2         118 FN  119 (384)
T ss_dssp             CS
T ss_pred             CC
T ss_conf             32

>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=99.83  E-value=1.1e-17  Score=124.72  Aligned_cols=120  Identities=21%  Similarity=0.343  Sum_probs=80.5

Q ss_pred             CCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCC-CCCCCCCCCEEECCCCCCCC--CCCCCCCCCCCEEEEE
Q ss_conf             95299911899989990477328973199802874577799-73377457766536887899--7000278975399820
Q 001457          532 RLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILK  608 (1074)
Q Consensus       532 ~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~-~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~  608 (1074)
                      ..++++..+..++.+|..+   .+.+++|++++|.++.+++ .+..+++|++|++++|.+..  +..+..+++|++|+++
T Consensus        11 ~~~~~~C~~~~L~~lP~~l---~~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~l~~n~~~~i~~~~f~~l~~L~~L~l~   87 (305)
T d1xkua_          11 HLRVVQCSDLGLEKVPKDL---PPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS   87 (305)
T ss_dssp             ETTEEECTTSCCCSCCCSC---CTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECC
T ss_pred             CCCEEEECCCCCCCCCCCC---CCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCEECCC
T ss_conf             5999985599988519888---9997989784991898696576046565231123443445235665279855783156


Q ss_pred             CCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCC
Q ss_conf             7878656831138888788848889689876933321999769998367
Q 001457          609 GSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN  657 (1074)
Q Consensus       609 ~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~  657 (1074)
                      ++.++.+|..+  ...+..|++.++. ...++...+.....+..+....
T Consensus        88 ~n~l~~l~~~~--~~~l~~L~~~~n~-l~~l~~~~~~~~~~~~~l~~~~  133 (305)
T d1xkua_          88 KNQLKELPEKM--PKTLQELRVHENE-ITKVRKSVFNGLNQMIVVELGT  133 (305)
T ss_dssp             SSCCSBCCSSC--CTTCCEEECCSSC-CCBBCHHHHTTCTTCCEEECCS
T ss_pred             CCCCCCCCCCH--HHHHHHHHCCCCC-HHHHHHHHHHCCCCCCCCCCCC
T ss_conf             87567676400--1113232102461-0234444540133110000123

>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=99.80  E-value=5.6e-16  Score=113.95  Aligned_cols=92  Identities=26%  Similarity=0.354  Sum_probs=43.4

Q ss_pred             CCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCCC
Q ss_conf             52999118999899904773289731998028745777997337745776653688789970002789753998207878
Q 001457          533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRI  612 (1074)
Q Consensus       533 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i  612 (1074)
                      ++.|+++++.++.+|+    ..++|++|+++++.++.+|..+   .+|+.|++.++.++....+  .+.|++|+++++.+
T Consensus        40 l~~LdLs~~~L~~lp~----~~~~L~~L~Ls~N~l~~lp~~~---~~L~~L~l~~n~l~~l~~l--p~~L~~L~L~~n~l  110 (353)
T d1jl5a_          40 AHELELNNLGLSSLPE----LPPHLESLVASCNSLTELPELP---QSLKSLLVDNNNLKALSDL--PPLLEYLGVSNNQL  110 (353)
T ss_dssp             CSEEECTTSCCSCCCS----CCTTCSEEECCSSCCSSCCCCC---TTCCEEECCSSCCSCCCSC--CTTCCEEECCSSCC
T ss_pred             CCEEEECCCCCCCCCC----CCCCCCEEECCCCCCCCCCCCH---HHHHHHHHHHCCCCHHHHH--CCCCCCCCCCCCCC
T ss_conf             9899937999887889----8789888989999796336203---3203326655143203210--22111113345543


Q ss_pred             CCCCCCCCCCCCCCEEECCCCC
Q ss_conf             6568311388887888488896
Q 001457          613 VELPNGIGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       613 ~~lp~~i~~L~~L~~L~l~~~~  634 (1074)
                      ..+|. ++.+++|++|+++++.
T Consensus       111 ~~lp~-~~~l~~L~~L~l~~~~  131 (353)
T d1jl5a_         111 EKLPE-LQNSSFLKIIDVDNNS  131 (353)
T ss_dssp             SSCCC-CTTCTTCCEEECCSSC
T ss_pred             CCCCC-HHHHCCCEEECCCCCC
T ss_conf             22210-0110131231135651

>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=99.77  E-value=8.3e-18  Score=125.46  Aligned_cols=125  Identities=18%  Similarity=0.286  Sum_probs=63.0

Q ss_pred             CCCEEECCCCCCCCC--CHHHHHCCCCCCEEEECC-CCCC-CCCCCCCCCCCCCEEECCCCCCCC--CCCCCCCCCCCEE
Q ss_conf             952999118999899--904773289731998028-7457-779973377457766536887899--7000278975399
Q 001457          532 RLTTLFLQNNPFADI--PNAFFEHTREIKNLDLSS-TNIS-SLAPSLPCLEKLRSLHLENTHLND--ASLIREFGELEVL  605 (1074)
Q Consensus       532 ~L~~L~l~~~~~~~~--~~~~~~~l~~L~~L~L~~-~~i~-~l~~~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L  605 (1074)
                      +++.|++.++.+...  .+..+.++++|++|++++ +.+. .+|..+.++++|++|++++|.+..  +..+..+..|+++
T Consensus        51 ~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~~l  130 (313)
T d1ogqa_          51 RVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTL  130 (313)
T ss_dssp             CEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCCEE
T ss_pred             EEEEEECCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHCCC
T ss_conf             98899898998888887984784675335202026543330024311454200110203564344332222201110011


Q ss_pred             EEECCCCC-CCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCC-CEEECCC
Q ss_conf             82078786-5683113888878884888968987693332199976-9998367
Q 001457          606 ILKGSRIV-ELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQL-EELYVGN  657 (1074)
Q Consensus       606 ~L~~~~i~-~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L-~~L~l~~  657 (1074)
                      +++.+.+. .+|..+..+++|+.++++++...+.+|.. +..+..+ +.+.+..
T Consensus       131 ~l~~N~~~~~~p~~l~~l~~L~~l~l~~n~l~~~ip~~-~~~l~~l~~~l~~~~  183 (313)
T d1ogqa_         131 DFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS-YGSFSKLFTSMTISR  183 (313)
T ss_dssp             ECCSSEEESCCCGGGGGCTTCCEEECCSSCCEEECCGG-GGCCCTTCCEEECCS
T ss_pred             CCCCCCCCCCCCHHHCCCCCCCEEECCCCCCCCCCCCC-CCCCCCCCCCCCCCC
T ss_conf             11224555568512206740000002355335620312-144311232310224

>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=99.77  E-value=5.5e-16  Score=113.99  Aligned_cols=97  Identities=24%  Similarity=0.411  Sum_probs=67.4

Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCC-C-CCCCCCCCCCEEEEECCCCCCC-CCCCCCCCCCCEEECCC
Q ss_conf             7319980287457779973377457766536887899-7-0002789753998207878656-83113888878884888
Q 001457          556 EIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-A-SLIREFGELEVLILKGSRIVEL-PNGIGTVSNLKLLDLSN  632 (1074)
Q Consensus       556 ~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~-~-~~i~~l~~L~~L~L~~~~i~~l-p~~i~~L~~L~~L~l~~  632 (1074)
                      .++.++.++.+++.+|..+.  +++++|++++|.++. + ..+.++++|++|+++++.+..+ |..+.++++|++|++++
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             CCCCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             96898769333219997699983677
Q 001457          633 NLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       633 ~~~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                      |. +..+|..   ....+..|....+
T Consensus        89 n~-l~~l~~~---~~~~l~~L~~~~n  110 (305)
T d1xkua_          89 NQ-LKELPEK---MPKTLQELRVHEN  110 (305)
T ss_dssp             SC-CSBCCSS---CCTTCCEEECCSS
T ss_pred             CC-CCCCCCC---HHHHHHHHHCCCC
T ss_conf             75-6767640---0111323210246

>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=99.77  E-value=5.3e-15  Score=107.77  Aligned_cols=135  Identities=21%  Similarity=0.397  Sum_probs=94.1

Q ss_pred             CCCCEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             89747961069753589999999952999118999899904773289731998028745777997337745776653688
Q 001457          509 QNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENT  588 (1074)
Q Consensus       509 ~~~~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~  588 (1074)
                      .++++|++.++.++.+|+  ..++|++|++++|.++.+|..    ..+|+.|+++++.+..++..   .+.|++|++++|
T Consensus        38 ~~l~~LdLs~~~L~~lp~--~~~~L~~L~Ls~N~l~~lp~~----~~~L~~L~l~~n~l~~l~~l---p~~L~~L~L~~n  108 (353)
T d1jl5a_          38 RQAHELELNNLGLSSLPE--LPPHLESLVASCNSLTELPEL----PQSLKSLLVDNNNLKALSDL---PPLLEYLGVSNN  108 (353)
T ss_dssp             HTCSEEECTTSCCSCCCS--CCTTCSEEECCSSCCSSCCCC----CTTCCEEECCSSCCSCCCSC---CTTCCEEECCSS
T ss_pred             CCCCEEEECCCCCCCCCC--CCCCCCEEECCCCCCCCCCCC----HHHHHHHHHHHCCCCHHHHH---CCCCCCCCCCCC
T ss_conf             699899937999887889--878988898999979633620----33203326655143203210---221111133455


Q ss_pred             CCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             7899700027897539982078786568311388887888488896898769333219997699983677
Q 001457          589 HLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       589 ~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                      .+...+.++.+++|++|+++++.+...|..   ...+..+.+..+.....  .. ++.++.++.+.+.++
T Consensus       109 ~l~~lp~~~~l~~L~~L~l~~~~~~~~~~~---~~~l~~l~~~~~~~~~~--~~-l~~l~~l~~L~l~~n  172 (353)
T d1jl5a_         109 QLEKLPELQNSSFLKIIDVDNNSLKKLPDL---PPSLEFIAAGNNQLEEL--PE-LQNLPFLTAIYADNN  172 (353)
T ss_dssp             CCSSCCCCTTCTTCCEEECCSSCCSCCCCC---CTTCCEEECCSSCCSSC--CC-CTTCTTCCEEECCSS
T ss_pred             CCCCCCCHHHHCCCEEECCCCCCCCCCCCC---CCCCCCHHHCCCCCCCC--CC-CCCCCCCEECCCCCC
T ss_conf             432221001101312311356510013223---33321000012222233--32-000122200111233

>d1p9ag_ c.10.2.7 (G:) von Willebrand factor binding domain of glycoprotein Ib alpha {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: von Willebrand factor binding domain of glycoprotein Ib alpha
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.75  E-value=1.6e-16  Score=117.44  Aligned_cols=194  Identities=22%  Similarity=0.234  Sum_probs=142.7

Q ss_pred             CCCEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCC
Q ss_conf             97479610697535899999999529991189998999047732897319980287457779973377457766536887
Q 001457          510 NCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTH  589 (1074)
Q Consensus       510 ~~~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~  589 (1074)
                      ....++..++.+..+|... .++++.|++++|.+..++...|.++++|+.|++++|.++.++. +..+++|++|++++|.
T Consensus        11 ~~~~v~C~~~~L~~iP~~l-p~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~-~~~l~~L~~L~Ls~N~   88 (266)
T d1p9ag_          11 SHLEVNCDKRNLTALPPDL-PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQV-DGTLPVLGTLDLSHNQ   88 (266)
T ss_dssp             TCCEEECTTSCCSSCCSCC-CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEEC-CSCCTTCCEEECCSSC
T ss_pred             CCEEEECCCCCCCEECCCC-CCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCC
T ss_conf             9869980699988619675-7688989884992898597786345655221356654444311-1112232111112222


Q ss_pred             CCC-CCCCCCCCCCCEEEEECCCCCCCC-CCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCC
Q ss_conf             899-700027897539982078786568-311388887888488896898769333219997699983677687400001
Q 001457          590 LND-ASLIREFGELEVLILKGSRIVELP-NGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEET  667 (1074)
Q Consensus       590 l~~-~~~i~~l~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~~  667 (1074)
                      ++. +..+..+++|++|+++++.+..++ ..+..+.+++.|++.++. ...+|+..+..++.|+.+++++|...      
T Consensus        89 l~~~~~~~~~l~~L~~L~l~~~~~~~~~~~~~~~l~~l~~L~l~~n~-l~~l~~~~~~~l~~l~~l~l~~N~l~------  161 (266)
T d1p9ag_          89 LQSLPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLKGNE-LKTLPPGLLTPTPKLEKLSLANNNLT------  161 (266)
T ss_dssp             CSSCCCCTTTCTTCCEEECCSSCCCCCCSSTTTTCTTCCEEECTTSC-CCCCCTTTTTTCTTCCEEECTTSCCS------
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCC-CCEECCCCCCCCCCCHHCCCCCCCCC------
T ss_conf             21111121222222222222231101100112222111122124342-10221233322111000000015652------


Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCEEEEEECC
Q ss_conf             25778782011367678779974068655556768998873079998557
Q 001457          668 ANGQNARFSEVASLTRLTVLYIHVSNTKVLSVDFDGPWTNLKRFRVCVND  717 (1074)
Q Consensus       668 ~~~~~~~~~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~L~~L~l~~~~  717 (1074)
                          ......+..+++|+.|+++.+....++.+++ ..++|+.|.+.+|.
T Consensus       162 ----~~~~~~~~~l~~L~~L~Ls~N~L~~lp~~~~-~~~~L~~L~L~~Np  206 (266)
T d1p9ag_         162 ----ELPAGLLNGLENLDTLLLQENSLYTIPKGFF-GSHLLPFAFLHGNP  206 (266)
T ss_dssp             ----CCCTTTTTTCTTCCEEECCSSCCCCCCTTTT-TTCCCSEEECCSCC
T ss_pred             ----CCCCCCCCCCCCCCEEECCCCCCCCCCHHHC-CCCCCCEEEECCCC
T ss_conf             ----2372001342124234301397855686677-78889999836999

>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=99.71  E-value=5.9e-17  Score=120.09  Aligned_cols=105  Identities=26%  Similarity=0.354  Sum_probs=85.5

Q ss_pred             CCCCCEEEECCCCCC---CCCCCCCCCCCCCEEECCC-CCCC-C-CCCCCCCCCCCEEEEECCCCCCCC-CCCCCCCCCC
Q ss_conf             897319980287457---7799733774577665368-8789-9-700027897539982078786568-3113888878
Q 001457          554 TREIKNLDLSSTNIS---SLAPSLPCLEKLRSLHLEN-THLN-D-ASLIREFGELEVLILKGSRIVELP-NGIGTVSNLK  626 (1074)
Q Consensus       554 l~~L~~L~L~~~~i~---~l~~~i~~l~~Lr~L~L~~-~~l~-~-~~~i~~l~~L~~L~L~~~~i~~lp-~~i~~L~~L~  626 (1074)
                      ..+++.|+++++.+.   .+|+.++.+++|++|++++ +.++ . |..++++++|++|+++++.+..++ ..+..+.+|+
T Consensus        49 ~~~v~~L~L~~~~l~g~~~lp~~l~~L~~L~~L~Ls~~N~l~g~iP~~i~~L~~L~~L~Ls~N~l~~~~~~~~~~~~~L~  128 (313)
T d1ogqa_          49 TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLV  128 (313)
T ss_dssp             CCCEEEEEEECCCCSSCEECCGGGGGCTTCSEEEEEEETTEESCCCGGGGGCTTCSEEEEEEECCEEECCGGGGGCTTCC
T ss_pred             CEEEEEEECCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCHHHHC
T ss_conf             47988998989988888879847846753352020265433300243114542001102035643443322222011100


Q ss_pred             EEECCCCCCCCCCCHHHHCCCCCCCEEECCCCC
Q ss_conf             884888968987693332199976999836776
Q 001457          627 LLDLSNNLFLQVIPPNVISKLSQLEELYVGNSF  659 (1074)
Q Consensus       627 ~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~~  659 (1074)
                      +++++.+.....+|.. +++++.|++++++++.
T Consensus       129 ~l~l~~N~~~~~~p~~-l~~l~~L~~l~l~~n~  160 (313)
T d1ogqa_         129 TLDFSYNALSGTLPPS-ISSLPNLVGITFDGNR  160 (313)
T ss_dssp             EEECCSSEEESCCCGG-GGGCTTCCEEECCSSC
T ss_pred             CCCCCCCCCCCCCCHH-HCCCCCCCEEECCCCC
T ss_conf             1111224555568512-2067400000023553

>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=99.70  E-value=2.3e-15  Score=110.10  Aligned_cols=139  Identities=24%  Similarity=0.379  Sum_probs=68.6

Q ss_pred             CCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCC-CCCCCCCCCEEECCCC-CCCC--C
Q ss_conf             6975358999999995299911899989990477328973199802874577799-7337745776653688-7899--7
Q 001457          518 DGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENT-HLND--A  593 (1074)
Q Consensus       518 ~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~-~i~~l~~Lr~L~L~~~-~l~~--~  593 (1074)
                      +..+..+|.. -.+.++.|++++|.++.+++..|.+++.|++|+++++.+..++. .+..+..++.+....+ .++.  +
T Consensus        20 ~~~L~~iP~~-ip~~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~   98 (284)
T d1ozna_          20 QQGLQAVPVG-IPAASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDP   98 (284)
T ss_dssp             SSCCSSCCTT-CCTTCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCT
T ss_pred             CCCCCCCCCC-CCCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             9998944978-899988897748817987977864142130000134454332111212222222222221022354462


Q ss_pred             CCCCCCCCCCEEEEECCCCCCCCC-CCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             000278975399820787865683-11388887888488896898769333219997699983677
Q 001457          594 SLIREFGELEVLILKGSRIVELPN-GIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       594 ~~i~~l~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                      ..+.++++|++|+++++.+..++. .+..+.+|+.++++++. +..+|+..+..+++|++|++.++
T Consensus        99 ~~~~~l~~L~~L~l~~n~~~~~~~~~~~~~~~L~~l~l~~N~-l~~i~~~~f~~~~~L~~L~l~~N  163 (284)
T d1ozna_          99 ATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHGN  163 (284)
T ss_dssp             TTTTTCTTCCEEECTTSCCCCCCTTTTTTCTTCCEEECCSSC-CCCCCTTTTTTCTTCCEEECCSS
T ss_pred             HHHCCCCCCCEEECCCCCCCCCCCCCCCHHCCCCHHHHCCCC-CCCCCHHHHCCCCCHHHCCCCCC
T ss_conf             010101027787568854432013533200012110200143-14458057404340502231417

>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=99.69  E-value=3.4e-15  Score=108.97  Aligned_cols=101  Identities=22%  Similarity=0.288  Sum_probs=39.1

Q ss_pred             CCCEEEECCCCCCCCCC-CCCCCCCCCEEECCCCCCCC--CCCCCCCCCCCEEEEECC-CCCCCC-CCCCCCCCCCEEEC
Q ss_conf             73199802874577799-73377457766536887899--700027897539982078-786568-31138888788848
Q 001457          556 EIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKGS-RIVELP-NGIGTVSNLKLLDL  630 (1074)
Q Consensus       556 ~L~~L~L~~~~i~~l~~-~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~~~-~i~~lp-~~i~~L~~L~~L~l  630 (1074)
                      .+++|++++|.++.+|+ .+..+++|++|+++++.+..  +..+..+..+..+..... .+..++ ..+..+++|++|++
T Consensus        33 ~~~~L~Ls~N~i~~i~~~~f~~l~~L~~L~ls~n~l~~i~~~~~~~~~~~~~l~~~~~~~~~~l~~~~~~~l~~L~~L~l  112 (284)
T d1ozna_          33 ASQRIFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHL  112 (284)
T ss_dssp             TCSEEECTTSCCCEECTTTTTTCTTCCEEECCSSCCCEECTTTTTTCTTCCEEECCSCTTCCCCCTTTTTTCTTCCEEEC
T ss_pred             CCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHCCCCCCCEEEC
T ss_conf             98889774881798797786414213000013445433211121222222222222102235446201010102778756


Q ss_pred             CCCCCCCCCCHHHHCCCCCCCEEECCC
Q ss_conf             889689876933321999769998367
Q 001457          631 SNNLFLQVIPPNVISKLSQLEELYVGN  657 (1074)
Q Consensus       631 ~~~~~~~~~p~~~l~~l~~L~~L~l~~  657 (1074)
                      +++.. ..++...+....+|+.+.+.+
T Consensus       113 ~~n~~-~~~~~~~~~~~~~L~~l~l~~  138 (284)
T d1ozna_         113 DRCGL-QELGPGLFRGLAALQYLYLQD  138 (284)
T ss_dssp             TTSCC-CCCCTTTTTTCTTCCEEECCS
T ss_pred             CCCCC-CCCCCCCCCHHCCCCHHHHCC
T ss_conf             88544-320135332000121102001

>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=99.69  E-value=1.5e-15  Score=111.16  Aligned_cols=122  Identities=21%  Similarity=0.307  Sum_probs=62.5

Q ss_pred             CCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCC
Q ss_conf             5299911899989990477328973199802874577799-733774577665368878997000278975399820787
Q 001457          533 LTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSR  611 (1074)
Q Consensus       533 L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~-~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~  611 (1074)
                      +...+.+++.++.+|..+   .+++++|++++|.+..++. .+..+++|++|++++|.++..+.++.+++|++|+++++.
T Consensus        12 ~~~v~C~~~~L~~iP~~l---p~~l~~L~Ls~N~i~~l~~~~f~~l~~L~~L~L~~N~l~~l~~~~~l~~L~~L~Ls~N~   88 (266)
T d1p9ag_          12 HLEVNCDKRNLTALPPDL---PKDTTILHLSENLLYTFSLATLMPYTRLTQLNLDRAELTKLQVDGTLPVLGTLDLSHNQ   88 (266)
T ss_dssp             CCEEECTTSCCSSCCSCC---CTTCCEEECTTSCCSEEEGGGGTTCTTCCEEECTTSCCCEEECCSCCTTCCEEECCSSC
T ss_pred             CEEEECCCCCCCEECCCC---CCCCCEEECCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             869980699988619675---76889898849928985977863456552213566544443111112232111112222


Q ss_pred             CCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             86568311388887888488896898769333219997699983677
Q 001457          612 IVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       612 i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                      +...+..+..+++|+.|+++++.. ..++...+..+.++++|.+.++
T Consensus        89 l~~~~~~~~~l~~L~~L~l~~~~~-~~~~~~~~~~l~~l~~L~l~~n  134 (266)
T d1p9ag_          89 LQSLPLLGQTLPALTVLDVSFNRL-TSLPLGALRGLGELQELYLKGN  134 (266)
T ss_dssp             CSSCCCCTTTCTTCCEEECCSSCC-CCCCSSTTTTCTTCCEEECTTS
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCC-CEEECCCCCCCCCCCCCCCCCC
T ss_conf             211111212222222222222311-0110011222211112212434

>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=99.65  E-value=1.3e-16  Score=117.94  Aligned_cols=62  Identities=21%  Similarity=0.264  Sum_probs=27.9

Q ss_pred             CCCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCEEECCCCHHHCCCCCCCCCCCCCCCCCCC
Q ss_conf             68840897445546421243332012357618998004674345403421000357654554351022544
Q 001457          922 FPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASCNHMERIITVSDEEKAAENKNVLPKLKILALEDL  992 (1074)
Q Consensus       922 ~~~L~~L~L~~c~~l~~~~~~~~~~~l~~L~~L~i~~C~~l~~l~~~~~~~~~~~~~~~l~~L~~L~l~~c  992 (1074)
                      +|+|++|++++|+.+++.... .+..+++|++|++++|..+++-.        ......+|+|+.|++.+|
T Consensus       174 ~~~L~~L~L~~~~~itd~~~~-~l~~~~~L~~L~L~~C~~i~~~~--------l~~L~~~~~L~~L~l~~~  235 (284)
T d2astb2         174 CPNLVHLDLSDSVMLKNDCFQ-EFFQLNYLQHLSLSRCYDIIPET--------LLELGEIPTLKTLQVFGI  235 (284)
T ss_dssp             CTTCSEEECTTCTTCCGGGGG-GGGGCTTCCEEECTTCTTCCGGG--------GGGGGGCTTCCEEECTTS
T ss_pred             CCCCCCCCCCCCCCCCCHHHH-HHCCCCCCCEEECCCCCCCCHHH--------HHHHHCCCCCCEEEEECC
T ss_conf             222123553223477830333-32135768779899999787378--------999726999898964488

>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=99.65  E-value=9.7e-15  Score=106.12  Aligned_cols=164  Identities=26%  Similarity=0.437  Sum_probs=105.5

Q ss_pred             CCCCCEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             58974796106975358999999995299911899989990477328973199802874577799733774577665368
Q 001457          508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLEN  587 (1074)
Q Consensus       508 ~~~~~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~  587 (1074)
                      +..++++.+.++.+..++....+++|+.|++++|.+..+++  +..+++|++|++++|.++.++ .+..+++|+.|++.+
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~~  121 (210)
T d1h6ta2          45 LNSIDQIIANNSDIKSVQGIQYLPNVTKLFLNGNKLTDIKP--LANLKNLGWLFLDENKVKDLS-SLKDLKKLKSLSLEH  121 (210)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCGG-GGTTCTTCCEEECTT
T ss_pred             HCCCCEEECCCCCCCCCHHHHHCCCCCEEECCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC
T ss_conf             54845897827988874447648998987698960258601--135862120143333321222-121222111223456


Q ss_pred             CCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCCCCCCCCCCC
Q ss_conf             87899700027897539982078786568311388887888488896898769333219997699983677687400001
Q 001457          588 THLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNSFGDWEVEET  667 (1074)
Q Consensus       588 ~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~~~~~~~~~~  667 (1074)
                      |.+..+..+..++.|+.++++++.+...+ .+..+++|+.+++++|.. ..+++  +.++++|++|++++|..       
T Consensus       122 ~~~~~~~~l~~l~~l~~l~~~~n~l~~~~-~~~~l~~L~~l~l~~n~l-~~i~~--l~~l~~L~~L~Ls~N~i-------  190 (210)
T d1h6ta2         122 NGISDINGLVHLPQLESLYLGNNKITDIT-VLSRLTKLDTLSLEDNQI-SDIVP--LAGLTKLQNLYLSKNHI-------  190 (210)
T ss_dssp             SCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGGGCTTCSEEECCSSCC-CCCGG--GTTCTTCCEEECCSSCC-------
T ss_pred             CCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCC-CCCCC--CCCCCCCCEEECCCCCC-------
T ss_conf             53221122011111222112223334543-100013321001346430-25645--36789899998979989-------


Q ss_pred             CCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf             25778782011367678779974
Q 001457          668 ANGQNARFSEVASLTRLTVLYIH  690 (1074)
Q Consensus       668 ~~~~~~~~~~l~~l~~L~~L~l~  690 (1074)
                           ..+..+..+++|+.|+++
T Consensus       191 -----~~l~~l~~l~~L~~L~Ls  208 (210)
T d1h6ta2         191 -----SDLRALAGLKNLDVLELF  208 (210)
T ss_dssp             -----CBCGGGTTCTTCSEEEEE
T ss_pred             -----CCCHHHCCCCCCCEEECC
T ss_conf             -----987211699998999711

>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=99.64  E-value=1.5e-14  Score=104.96  Aligned_cols=144  Identities=20%  Similarity=0.367  Sum_probs=90.6

Q ss_pred             CCCCCEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             58974796106975358999999995299911899989990477328973199802874577799733774577665368
Q 001457          508 LQNCEKLSLMDGNVTALPDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLEN  587 (1074)
Q Consensus       508 ~~~~~~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~  587 (1074)
                      +.+++.+.+.++.+..++....+++|++|++++|.+..+++  +.++++|+.|+++++.+..++ .+..+++|+.|++.+
T Consensus        39 l~~l~~L~l~~~~i~~l~~l~~l~nL~~L~Ls~N~l~~~~~--l~~l~~L~~L~l~~n~~~~~~-~l~~l~~L~~L~l~~  115 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQIADIT-PLANLTNLTGLTLFN  115 (199)
T ss_dssp             HTTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG--GTTCTTCCEEECCSSCCCCCG-GGTTCTTCSEEECCS
T ss_pred             HCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC
T ss_conf             46878998999999775202137886757545655667640--167752231111222222221-111122322211122


Q ss_pred             CCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             87899700027897539982078786568311388887888488896898769333219997699983677
Q 001457          588 THLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       588 ~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                      +.+.....+..+++|+.|+++++.+..++ .+..+++|+.|++.+|.+ ..+++  ++.+++|++|++++|
T Consensus       116 ~~~~~~~~~~~l~~L~~L~l~~n~l~~~~-~l~~~~~L~~L~l~~n~l-~~l~~--l~~l~~L~~L~ls~N  182 (199)
T d2omxa2         116 NQITDIDPLKNLTNLNRLELSSNTISDIS-ALSGLTSLQQLNFSSNQV-TDLKP--LANLTTLERLDISSN  182 (199)
T ss_dssp             SCCCCCGGGTTCTTCSEEECCSSCCCCCG-GGTTCTTCSEEECCSSCC-CCCGG--GTTCTTCCEEECCSS
T ss_pred             CCCCCCCCCCHHHHHHHHHHHHHHHCCCC-CCCCCCCCCCCCCCCCCC-CCCCC--CCCCCCCCEEECCCC
T ss_conf             22223210001223677643111100234-333211111122345555-67701--167998999978799

>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=99.63  E-value=3e-15  Score=109.30  Aligned_cols=80  Identities=20%  Similarity=0.393  Sum_probs=32.7

Q ss_pred             CCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECCC
Q ss_conf             28973199802874577799733774577665368878997000278975399820787865683113888878884888
Q 001457          553 HTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSN  632 (1074)
Q Consensus       553 ~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~  632 (1074)
                      .+.+|+.|++.++.+..+ +.+..+++|++|++++|.++....+.++++|++++++++.++.++ .+..+++|+.+++++
T Consensus        39 ~l~~L~~L~l~~~~i~~l-~~l~~l~~L~~L~ls~n~i~~~~~l~~l~~l~~l~~~~n~~~~i~-~l~~l~~L~~l~l~~  116 (227)
T d1h6ua2          39 DLDGITTLSAFGTGVTTI-EGVQYLNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLTS  116 (227)
T ss_dssp             HHHTCCEEECTTSCCCCC-TTGGGCTTCCEEECCSSCCCCCGGGTTCCSCCEEECCSCCCSCCG-GGTTCTTCCEEECTT
T ss_pred             HCCCCCEEECCCCCCCCC-HHHHCCCCCCEEECCCCEEECCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCC
T ss_conf             848868997779999766-457448888376357853202543112334320121112222222-222222221221222


Q ss_pred             CC
Q ss_conf             96
Q 001457          633 NL  634 (1074)
Q Consensus       633 ~~  634 (1074)
                      +.
T Consensus       117 ~~  118 (227)
T d1h6ua2         117 TQ  118 (227)
T ss_dssp             SC
T ss_pred             CC
T ss_conf             44

>d1h6ua2 c.10.2.1 (A:36-262) Internalin H {Listeria monocytogenes [TaxId: 1639]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Internalin LRR domain
domain: Internalin H
species: Listeria monocytogenes [TaxId: 1639]

Probab=99.62  E-value=6e-14  Score=101.14  Aligned_cols=56  Identities=23%  Similarity=0.329  Sum_probs=18.6

Q ss_pred             CCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECCCC
Q ss_conf             745776653688789970002789753998207878656831138888788848889
Q 001457          577 LEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNN  633 (1074)
Q Consensus       577 l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~  633 (1074)
                      +.+|+.|++.+|.++..+.+..+++|++|++++|.+..++. +..+++|+.+++++|
T Consensus        40 l~~L~~L~l~~~~i~~l~~l~~l~~L~~L~ls~n~i~~~~~-l~~l~~l~~l~~~~n   95 (227)
T d1h6ua2          40 LDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITDLAP-LKNLTKITELELSGN   95 (227)
T ss_dssp             HHTCCEEECTTSCCCCCTTGGGCTTCCEEECCSSCCCCCGG-GTTCCSCCEEECCSC
T ss_pred             CCCCCEEECCCCCCCCCHHHHCCCCCCEEECCCCEEECCCC-CCCCCCCCCCCCCCC
T ss_conf             48868997779999766457448888376357853202543-112334320121112

>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=99.60  E-value=5.5e-17  Score=120.28  Aligned_cols=37  Identities=19%  Similarity=0.292  Sum_probs=14.4

Q ss_pred             CCCCEEEEECCCCCCCCCCCCCCCCCCCCCCEEEEEEC
Q ss_conf             68840897445546421243332012357618998004
Q 001457          922 FPNLKKLLIGKCNKMKRVLSLTNAHNLKQLEELTVASC  959 (1074)
Q Consensus       922 ~~~L~~L~L~~c~~l~~~~~~~~~~~l~~L~~L~i~~C  959 (1074)
                      +++|++|++.+|..+++..... +..+|+|+.|++.+|
T Consensus       199 ~~~L~~L~L~~C~~i~~~~l~~-L~~~~~L~~L~l~~~  235 (284)
T d2astb2         199 LNYLQHLSLSRCYDIIPETLLE-LGEIPTLKTLQVFGI  235 (284)
T ss_dssp             CTTCCEEECTTCTTCCGGGGGG-GGGCTTCCEEECTTS
T ss_pred             CCCCCEEECCCCCCCCHHHHHH-HHCCCCCCEEEEECC
T ss_conf             5768779899999787378999-726999898964488

>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=99.59  E-value=7.2e-15  Score=106.94  Aligned_cols=122  Identities=23%  Similarity=0.380  Sum_probs=55.6

Q ss_pred             CCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEEC
Q ss_conf             99952999118999899904773289731998028745777997337745776653688789970002789753998207
Q 001457          530 CPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKG  609 (1074)
Q Consensus       530 ~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~  609 (1074)
                      +++++.|.+.++.+..+..  +..+++|++|++++|.++.+++ +..+++|++|++++|.+.....+..++.|+.|++++
T Consensus        39 l~~l~~L~l~~~~i~~l~~--l~~l~nL~~L~Ls~N~l~~~~~-l~~l~~L~~L~l~~n~~~~~~~l~~l~~L~~L~l~~  115 (199)
T d2omxa2          39 LDQVTTLQADRLGIKSIDG--VEYLNNLTQINFSNNQLTDITP-LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFN  115 (199)
T ss_dssp             HTTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSCCCCCGG-GTTCTTCCEEECCSSCCCCCGGGTTCTTCSEEECCS
T ss_pred             HCCCCEEECCCCCCCCCCC--CCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             4687899899999977520--2137886757545655667640-167752231111222222221111122322211122


Q ss_pred             CCCCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             8786568311388887888488896898769333219997699983677
Q 001457          610 SRIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       610 ~~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                      +.+...+ .+..+++|+.|++++|.+ ..++ . +..+++|+.|++.+|
T Consensus       116 ~~~~~~~-~~~~l~~L~~L~l~~n~l-~~~~-~-l~~~~~L~~L~l~~n  160 (199)
T d2omxa2         116 NQITDID-PLKNLTNLNRLELSSNTI-SDIS-A-LSGLTSLQQLNFSSN  160 (199)
T ss_dssp             SCCCCCG-GGTTCTTCSEEECCSSCC-CCCG-G-GTTCTTCSEEECCSS
T ss_pred             CCCCCCC-CCCHHHHHHHHHHHHHHH-CCCC-C-CCCCCCCCCCCCCCC
T ss_conf             2222321-000122367764311110-0234-3-332111111223455

>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=99.58  E-value=9.7e-15  Score=106.12  Aligned_cols=120  Identities=21%  Similarity=0.372  Sum_probs=51.1

Q ss_pred             CCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECC
Q ss_conf             99529991189998999047732897319980287457779973377457766536887899700027897539982078
Q 001457          531 PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGS  610 (1074)
Q Consensus       531 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~  610 (1074)
                      ..++.|.+.++.+..+..  +..+++|+.|++++|.++.++ .+..+++|++|++++|.+++.+.+..+++|+.|++.++
T Consensus        46 ~~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~~~  122 (210)
T d1h6ta2          46 NSIDQIIANNSDIKSVQG--IQYLPNVTKLFLNGNKLTDIK-PLANLKNLGWLFLDENKVKDLSSLKDLKKLKSLSLEHN  122 (210)
T ss_dssp             HTCCEEECTTSCCCCCTT--GGGCTTCCEEECCSSCCCCCG-GGTTCTTCCEEECCSSCCCCGGGGTTCTTCCEEECTTS
T ss_pred             CCCCEEECCCCCCCCCHH--HHHCCCCCEEECCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             484589782798887444--764899898769896025860-11358621201433333212221212221112234565


Q ss_pred             CCCCCCCCCCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCC
Q ss_conf             78656831138888788848889689876933321999769998367
Q 001457          611 RIVELPNGIGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGN  657 (1074)
Q Consensus       611 ~i~~lp~~i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~  657 (1074)
                      .+..++ .+..+++++.++++++... ..+ . +..+++|+++.+.+
T Consensus       123 ~~~~~~-~l~~l~~l~~l~~~~n~l~-~~~-~-~~~l~~L~~l~l~~  165 (210)
T d1h6ta2         123 GISDIN-GLVHLPQLESLYLGNNKIT-DIT-V-LSRLTKLDTLSLED  165 (210)
T ss_dssp             CCCCCG-GGGGCTTCCEEECCSSCCC-CCG-G-GGGCTTCSEEECCS
T ss_pred             CCCCCC-CCCCCCCCCCCCCCCCCCC-CCC-C-CCCCCCCCCCCCCC
T ss_conf             322112-2011111222112223334-543-1-00013321001346

>d1xwdc1 c.10.2.7 (C:18-259) Follicle-stimulating hormone receptor {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: L domain-like
family: Ngr ectodomain-like
domain: Follicle-stimulating hormone receptor
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=5.1e-13  Score=95.26  Aligned_cols=33  Identities=9%  Similarity=0.234  Sum_probs=11.6

Q ss_pred             CCEEEECCCCCCCCCC-CCCCCCCCCEEECCCCC
Q ss_conf             3199802874577799-73377457766536887
Q 001457          557 IKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTH  589 (1074)
Q Consensus       557 L~~L~L~~~~i~~l~~-~i~~l~~Lr~L~L~~~~  589 (1074)
                      ++.|+++++.+..+|. .+.++++|++|++++|.
T Consensus        31 l~~L~Ls~n~i~~l~~~~f~~l~~L~~L~ls~n~   64 (242)
T d1xwdc1          31 AIELRFVLTKLRVIQKGAFSGFGDLEKIEISQND   64 (242)
T ss_dssp             CSEEEEESCCCCEECTTTTTTCTTCCEEEEESCT
T ss_pred             CCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCC
T ss_conf             8999876991896496686146432321102211

>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=99.41  E-value=5.8e-12  Score=88.60  Aligned_cols=98  Identities=18%  Similarity=0.337  Sum_probs=42.5

Q ss_pred             CEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCC-C-CCCCCCCCCCEEEEECCCCCC-CC-CCCCCCCCCCEEECCCC
Q ss_conf             19980287457779973377457766536887899-7-000278975399820787865-68-31138888788848889
Q 001457          558 KNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-A-SLIREFGELEVLILKGSRIVE-LP-NGIGTVSNLKLLDLSNN  633 (1074)
Q Consensus       558 ~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~-~-~~i~~l~~L~~L~L~~~~i~~-lp-~~i~~L~~L~~L~l~~~  633 (1074)
                      ++++.++..++.+|..+.  +++++|++++|.++. + ..+.++++|++|+++++.+.. +| ..+..+++++++.+..+
T Consensus        11 ~~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          11 RVFLCQESKVTEIPSDLP--RNAIELRFVLTKLRVIQKGAFSGFGDLEKIEISQNDVLEVIEADVFSNLPKLHEIRIEKA   88 (242)
T ss_dssp             SEEEEESCSCSSCCSCSC--SCCSEEEEESCCCCEECTTTTTTCTTCCEEEEESCTTCCEECSSSEESCTTCCEEEEECC
T ss_pred             CEEEEECCCCCCCCCCCC--CCCCEEECCCCCCCCCCHHHHHCCCHHHHHHHCCCCCCCEEECCCCCCCCCCCCCCCCCC
T ss_conf             999981899887688889--988999876991896496686146432321102211242010011222222222111112


Q ss_pred             CCCCCCCHHHHCCCCCCCEEECCC
Q ss_conf             689876933321999769998367
Q 001457          634 LFLQVIPPNVISKLSQLEELYVGN  657 (1074)
Q Consensus       634 ~~~~~~p~~~l~~l~~L~~L~l~~  657 (1074)
                      ......++..+..+++|+++++.+
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

>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=99.37  E-value=5.5e-13  Score=95.05  Aligned_cols=127  Identities=24%  Similarity=0.310  Sum_probs=78.8

Q ss_pred             CCCCCCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCC-CC-CCCCCCCC
Q ss_conf             99999999529991189998999047732897319980287457779973377457766536887899-70-00278975
Q 001457          525 PDQPKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-AS-LIREFGEL  602 (1074)
Q Consensus       525 ~~~~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~-~~-~i~~l~~L  602 (1074)
                      +...++.++|.|++++|.+..++. .+..+++|++|++++|.+..+ +.+..+++|++|++++|.++. +. .+..+++|
T Consensus        12 ~~~~n~~~lr~L~L~~n~I~~i~~-~~~~l~~L~~L~Ls~N~i~~l-~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L   89 (162)
T d1a9na_          12 AQYTNAVRDRELDLRGYKIPVIEN-LGATLDQFDAIDFSDNEIRKL-DGFPLLRRLKTLLVNNNRICRIGEGLDQALPDL   89 (162)
T ss_dssp             CEEECTTSCEEEECTTSCCCSCCC-GGGGTTCCSEEECCSSCCCEE-CCCCCCSSCCEEECCSSCCCEECSCHHHHCTTC
T ss_pred             HHCCCCCCCCEEECCCCCCCCCCC-CCCCCCCCCEEECCCCCCCCC-CCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCC
T ss_conf             751685748489788997886576-200414599898979978764-774457613064310213457776322334534


Q ss_pred             CEEEEECCCCCCCCC--CCCCCCCCCEEECCCCCCCCCCCH---HHHCCCCCCCEEE
Q ss_conf             399820787865683--113888878884888968987693---3321999769998
Q 001457          603 EVLILKGSRIVELPN--GIGTVSNLKLLDLSNNLFLQVIPP---NVISKLSQLEELY  654 (1074)
Q Consensus       603 ~~L~L~~~~i~~lp~--~i~~L~~L~~L~l~~~~~~~~~p~---~~l~~l~~L~~L~  654 (1074)
                      +.|++++|.+..++.  .+..+++|++|++++|.+ ...|.   ..+..+++|+.|+
T Consensus        90 ~~L~L~~N~i~~~~~l~~l~~l~~L~~L~l~~N~i-~~~~~~r~~~i~~lp~L~~LD  145 (162)
T d1a9na_          90 TELILTNNSLVELGDLDPLASLKSLTYLCILRNPV-TNKKHYRLYVIYKVPQVRVLD  145 (162)
T ss_dssp             CEEECCSCCCCCGGGGGGGGGCTTCCEEECCSSGG-GGSTTHHHHHHHHCTTCSEET
T ss_pred             CCCEECCCCCCCCCCCCCCCCCCCCCHHHCCCCCC-CCCCCHHHHHHHHCCCCCEEC
T ss_conf             43420300016654211001365320664079963-456106999998789958337

>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=99.37  E-value=4.6e-12  Score=89.23  Aligned_cols=99  Identities=23%  Similarity=0.367  Sum_probs=52.5

Q ss_pred             CEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCCCC
Q ss_conf             29991189998999047732897319980287457779973377457766536887899700027897539982078786
Q 001457          534 TTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIV  613 (1074)
Q Consensus       534 ~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~  613 (1074)
                      |+|++++|.++.++.  +..+..|+.|++++|.+..+|+.+..+++|++|++++|.++..+.+..+++|+.|+++++.+.
T Consensus         1 R~L~Ls~n~l~~l~~--l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~~~~~l~~L~~L~l~~N~i~   78 (124)
T d1dcea3           1 RVLHLAHKDLTVLCH--LEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVDGVANLPRLQELLLCNNRLQ   78 (124)
T ss_dssp             SEEECTTSCCSSCCC--GGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCGGGTTCSSCCEEECCSSCCC
T ss_pred             CEEECCCCCCCCCCC--CCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCC
T ss_conf             989868998988710--105898898979787168652156554313545324321123574123355576888898658


Q ss_pred             CCC--CCCCCCCCCCEEECCCCC
Q ss_conf             568--311388887888488896
Q 001457          614 ELP--NGIGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       614 ~lp--~~i~~L~~L~~L~l~~~~  634 (1074)
                      .+|  ..++.+++|++|+++++.
T Consensus        79 ~~~~~~~l~~~~~L~~L~l~~N~  101 (124)
T d1dcea3          79 QSAAIQPLVSCPRLVLLNLQGNS  101 (124)
T ss_dssp             SSSTTGGGGGCTTCCEEECTTSG
T ss_pred             CCCCCHHHCCCCCCCEEECCCCC
T ss_conf             88882565379999999897996

>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=99.35  E-value=7.6e-12  Score=87.89  Aligned_cols=121  Identities=21%  Similarity=0.297  Sum_probs=69.0

Q ss_pred             CEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCC-CC-CCCCCCCCCCEEECCCCCCCC--CCCCCCCCCCCEEEEEC
Q ss_conf             299911899989990477328973199802874577-79-973377457766536887899--70002789753998207
Q 001457          534 TTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISS-LA-PSLPCLEKLRSLHLENTHLND--ASLIREFGELEVLILKG  609 (1074)
Q Consensus       534 ~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~-l~-~~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~L~~  609 (1074)
                      ++++.+++.++.+|.+.   ...++.|++++|.++. .+ ..+..+++|+.|++++|.+..  +..+..++.|++|++++
T Consensus        11 ~~v~Cs~~~L~~iP~~l---p~~l~~L~Ls~N~i~~~~~~~~f~~l~~L~~L~L~~N~i~~~~~~~~~~~~~L~~L~Ls~   87 (192)
T d1w8aa_          11 TTVDCTGRGLKEIPRDI---PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGE   87 (192)
T ss_dssp             TEEECTTSCCSSCCSCC---CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCS
T ss_pred             CEEEEECCCCCCCCCCC---CCCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECC
T ss_conf             99997089967029898---978788984898775530200257876272130136322121212221122221010035


Q ss_pred             CCCCCCCCC-CCCCCCCCEEECCCCCCCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             878656831-1388887888488896898769333219997699983677
Q 001457          610 SRIVELPNG-IGTVSNLKLLDLSNNLFLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       610 ~~i~~lp~~-i~~L~~L~~L~l~~~~~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                      +.+..+|.. +..+++|++|++++|. +..+|++.+..+++|++|+++++
T Consensus        88 N~l~~l~~~~F~~l~~L~~L~L~~N~-l~~i~~~~f~~l~~L~~l~L~~N  136 (192)
T d1w8aa_          88 NKIKEISNKMFLGLHQLKTLNLYDNQ-ISCVMPGSFEHLNSLTSLNLASN  136 (192)
T ss_dssp             CCCCEECSSSSTTCTTCCEEECCSSC-CCEECTTSSTTCTTCCEEECTTC
T ss_pred             CCCCCCCHHHHHCCCCCCCCCCCCCC-CCCCCHHHHCCCCCCCCCCCCCC
T ss_conf             53443497998079746552457745-35359778568753342000364

>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=99.34  E-value=1.5e-11  Score=85.94  Aligned_cols=125  Identities=17%  Similarity=0.323  Sum_probs=91.0

Q ss_pred             EEEECCCCCCCCCCCCCCCCCCEEECCCCCCCC-CCHHHHHCCCCCCEEEECCCCCCCCCC-CCCCCCCCCEEECCCCCC
Q ss_conf             796106975358999999995299911899989-990477328973199802874577799-733774577665368878
Q 001457          513 KLSLMDGNVTALPDQPKCPRLTTLFLQNNPFAD-IPNAFFEHTREIKNLDLSSTNISSLAP-SLPCLEKLRSLHLENTHL  590 (1074)
Q Consensus       513 ~l~l~~~~~~~l~~~~~~~~L~~L~l~~~~~~~-~~~~~~~~l~~L~~L~L~~~~i~~l~~-~i~~l~~Lr~L~L~~~~l  590 (1074)
                      .+..+++.+..+|... .++++.|++++|.+.. ++...|.++++|+.|+++++.+..++. .+..+++|++|++++|.+
T Consensus        12 ~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_          12 TVDCTGRGLKEIPRDI-PLHTTELLLNDNELGRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI   90 (192)
T ss_dssp             EEECTTSCCSSCCSCC-CTTCSEEECCSCCCCSBCCSCSGGGCTTCCEEECCSSCCCCBCTTTTTTCTTCCEEECCSCCC
T ss_pred             EEEEECCCCCCCCCCC-CCCCCEEEECCCCCCCCCCCCCCCCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCC
T ss_conf             9997089967029898-978788984898775530200257876272130136322121212221122221010035534


Q ss_pred             CC--CCCCCCCCCCCEEEEECCCCCCCCCC-CCCCCCCCEEECCCCCCCCC
Q ss_conf             99--70002789753998207878656831-13888878884888968987
Q 001457          591 ND--ASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLDLSNNLFLQV  638 (1074)
Q Consensus       591 ~~--~~~i~~l~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~l~~~~~~~~  638 (1074)
                      +.  +..+.++++|++|+|+++.++.+|.. +..+++|++|+++++.+...
T Consensus        91 ~~l~~~~F~~l~~L~~L~L~~N~l~~i~~~~f~~l~~L~~l~L~~N~~~~~  141 (192)
T d1w8aa_          91 KEISNKMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCN  141 (192)
T ss_dssp             CEECSSSSTTCTTCCEEECCSSCCCEECTTSSTTCTTCCEEECTTCCBCCS
T ss_pred             CCCCHHHHHCCCCCCCCCCCCCCCCCCCHHHHCCCCCCCCCCCCCCCCCCC
T ss_conf             434979980797465524577453535977856875334200036443435

>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=99.30  E-value=4.7e-12  Score=89.22  Aligned_cols=107  Identities=17%  Similarity=0.285  Sum_probs=77.4

Q ss_pred             HHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCC-CCCCCCCCEEE
Q ss_conf             73289731998028745777997337745776653688789970002789753998207878656831-13888878884
Q 001457          551 FEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLILKGSRIVELPNG-IGTVSNLKLLD  629 (1074)
Q Consensus       551 ~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L~~~~i~~lp~~-i~~L~~L~~L~  629 (1074)
                      |.++..+|.|++++|.++.++..+..+++|++|++++|.++..+.+..+++|++|++++|.+..+|.. +..+++|++|+
T Consensus        14 ~~n~~~lr~L~L~~n~I~~i~~~~~~l~~L~~L~Ls~N~i~~l~~~~~l~~L~~L~ls~N~i~~l~~~~~~~l~~L~~L~   93 (162)
T d1a9na_          14 YTNAVRDRELDLRGYKIPVIENLGATLDQFDAIDFSDNEIRKLDGFPLLRRLKTLLVNNNRICRIGEGLDQALPDLTELI   93 (162)
T ss_dssp             EECTTSCEEEECTTSCCCSCCCGGGGTTCCSEEECCSSCCCEECCCCCCSSCCEEECCSSCCCEECSCHHHHCTTCCEEE
T ss_pred             CCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCE
T ss_conf             16857484897889978865762004145998989799787647744576130643102134577763223345344342


Q ss_pred             CCCCCCCCCCCH-HHHCCCCCCCEEECCCC
Q ss_conf             888968987693-33219997699983677
Q 001457          630 LSNNLFLQVIPP-NVISKLSQLEELYVGNS  658 (1074)
Q Consensus       630 l~~~~~~~~~p~-~~l~~l~~L~~L~l~~~  658 (1074)
                      +++|.+ ..++. ..+..+++|++|++.+|
T Consensus        94 L~~N~i-~~~~~l~~l~~l~~L~~L~l~~N  122 (162)
T d1a9na_          94 LTNNSL-VELGDLDPLASLKSLTYLCILRN  122 (162)
T ss_dssp             CCSCCC-CCGGGGGGGGGCTTCCEEECCSS
T ss_pred             ECCCCC-CCCCCCCCCCCCCCCCHHHCCCC
T ss_conf             030001-66542110013653206640799

>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=99.28  E-value=4.9e-11  Score=82.80  Aligned_cols=98  Identities=20%  Similarity=0.262  Sum_probs=77.3

Q ss_pred             CEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCC-CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEECCCCCCC
Q ss_conf             19980287457779973377457766536887899-70002789753998207878656831138888788848889689
Q 001457          558 KNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLLDLSNNLFL  636 (1074)
Q Consensus       558 ~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L~l~~~~~~  636 (1074)
                      |+|+++++.++.++ .+..+++|++|++++|.++. |..++.+++|++|+++++.++.+| .+..+++|++|++++|.+.
T Consensus         1 R~L~Ls~n~l~~l~-~l~~l~~L~~L~ls~N~l~~lp~~~~~l~~L~~L~l~~N~i~~l~-~~~~l~~L~~L~l~~N~i~   78 (124)
T d1dcea3           1 RVLHLAHKDLTVLC-HLEQLLLVTHLDLSHNRLRALPPALAALRCLEVLQASDNALENVD-GVANLPRLQELLLCNNRLQ   78 (124)
T ss_dssp             SEEECTTSCCSSCC-CGGGGTTCCEEECCSSCCCCCCGGGGGCTTCCEEECCSSCCCCCG-GGTTCSSCCEEECCSSCCC
T ss_pred             CEEECCCCCCCCCC-CCCCCCCCCEEECCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCC-CCCCCCCCCEEECCCCCCC
T ss_conf             98986899898871-010589889897978716865215655431354532432112357-4123355576888898658


Q ss_pred             CCCC-HHHHCCCCCCCEEECCCC
Q ss_conf             8769-333219997699983677
Q 001457          637 QVIP-PNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       637 ~~~p-~~~l~~l~~L~~L~l~~~  658 (1074)
                       .++ ...+..+++|++|+++++
T Consensus        79 -~~~~~~~l~~~~~L~~L~l~~N  100 (124)
T d1dcea3          79 -QSAAIQPLVSCPRLVLLNLQGN  100 (124)
T ss_dssp             -SSSTTGGGGGCTTCCEEECTTS
T ss_pred             -CCCCCHHHCCCCCCCEEECCCC
T ss_conf             -8888256537999999989799

>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=99.27  E-value=3e-11  Score=84.13  Aligned_cols=193  Identities=17%  Similarity=0.182  Sum_probs=106.7

Q ss_pred             CCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECC-----CCCHHHHHHHH
Q ss_conf             9546821399999999997229984159999948999188999999861-39988399999568-----96789999999
Q 001457          158 EFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ-----TPDVKRVQDEI  231 (1074)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~-----~~~~~~~~~~i  231 (1074)
                      +...+.||+++++.+.+.    .  .+++.|+|++|+|||+|++++.+. ...   ..|+.+..     ......+...+
T Consensus        10 ~~~~f~GR~~el~~l~~~----~--~~~i~i~G~~G~GKTsLl~~~~~~~~~~---~~~i~~~~~~~~~~~~~~~~~~~~   80 (283)
T d2fnaa2          10 NRKDFFDREKEIEKLKGL----R--APITLVLGLRRTGKSSIIKIGINELNLP---YIYLDLRKFEERNYISYKDFLLEL   80 (283)
T ss_dssp             SGGGSCCCHHHHHHHHHT----C--SSEEEEEESTTSSHHHHHHHHHHHHTCC---EEEEEGGGGTTCSCCCHHHHHHHH
T ss_pred             CHHHCCCHHHHHHHHHHC----C--CCEEEEECCCCCCHHHHHHHHHHHCCCC---EEEEEECCCCCCCCCCHHHHHHHH
T ss_conf             722078969999999840----5--9879998699982999999999977998---699972145333324399999999


Q ss_pred             HHHHCC--------------C---------CCCCHHH---HHHHHHHHHH--HCCCEEEEEECCCCCCCCCC--CCC---
Q ss_conf             998334--------------7---------7743599---9999999998--70470999981865412322--026---
Q 001457          232 ARFLNT--------------E---------LEGDVEV---LRAAFLSERL--KRQKRVLIILDDLWGKLDLA--VVG---  278 (1074)
Q Consensus       232 ~~~l~~--------------~---------~~~~~~~---~~~~~l~~~l--~~~k~~LiVlDdv~~~~~~~--~~~---  278 (1074)
                      ......              .         .......   .....+.+.+  ..+++.++|+|++.......  .+.   
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~i~id~~~~~~~~~~~~~~~~l  160 (283)
T d2fnaa2          81 QKEINKLVKRLPSLLKALKNIQGIVIMGNEIKFNWNRKDRLSFANLLESFEQASKDNVIIVLDEAQELVKLRGVNLLPAL  160 (283)
T ss_dssp             HHHHHHHHHHCTTHHHHTTTSTTEEECSSSEEEC-----CCCHHHHHHHHHHTCSSCEEEEEETGGGGGGCTTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHCCCCHHHHHHHH
T ss_conf             99754455555777777775303343443222341001345899999998763155554566405541333269999999


Q ss_pred             CCCCCCCCCEEEEEECCCHHHHHHCC------------CCCEEECCCCCHHHHHHHHHHHCCC-CCCCCHHHHHHHHHHH
Q ss_conf             68889999809999638815775216------------9973858999989899999975099-9999036999999999
Q 001457          279 IPYGEEHKGCKIILTSRFKEVCDEME------------STNYVQVEELTDEDRLILFKKKAGL-PEGTKAFDRAAEEVVR  345 (1074)
Q Consensus       279 ~~~~~~~~gs~iivTTR~~~v~~~~~------------~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~  345 (1074)
                      ............+++.+.........            ....+.+.+++.+++.+++.+.+.. ......    ..+|++
T Consensus       161 ~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~L~~l~~~e~~~~l~~~~~~~~~~~~~----~~~i~~  236 (283)
T d2fnaa2         161 AYAYDNLKRIKFIMSGSEMGLLYDYLRVEDPESPLFGRAFSTVELKPFSREEAIEFLRRGFQEADIDFKD----YEVVYE  236 (283)
T ss_dssp             HHHHHHCTTEEEEEEESSHHHHHHHTTTTCTTSTTTTCCCEEEEECCCCHHHHHHHHHHHHHHHTCCCCC----HHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHCCHHCCCCEEEEEECCCCHHHHHHHHHHHHHHCCCCHHH----HHHHHH
T ss_conf             9998753113442035650678999975421000103410588628878899999999665456999999----999999


Q ss_pred             HHCCCHHHHHHHHHHHCC
Q ss_conf             918985799999999728
Q 001457          346 QCGKLPNAIVIIGTALRH  363 (1074)
Q Consensus       346 ~c~glPlai~~~~~~l~~  363 (1074)
                      .++|.|..+..++..+..
T Consensus       237 ~~~G~P~~L~~~~~~~~~  254 (283)
T d2fnaa2         237 KIGGIPGWLTYFGFIYLD  254 (283)
T ss_dssp             HHCSCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
T ss_conf             969979999999999980

>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=99.26  E-value=5.4e-15  Score=107.72  Aligned_cols=104  Identities=19%  Similarity=0.314  Sum_probs=62.6

Q ss_pred             CCCEEECCCCCCCCCC-HHHHHCCCCCCEEEECCCCCC-----CCCCCCCCCCCCCEEECCCCCCCC--CCCCC-----C
Q ss_conf             9529991189998999-047732897319980287457-----779973377457766536887899--70002-----7
Q 001457          532 RLTTLFLQNNPFADIP-NAFFEHTREIKNLDLSSTNIS-----SLAPSLPCLEKLRSLHLENTHLND--ASLIR-----E  598 (1074)
Q Consensus       532 ~L~~L~l~~~~~~~~~-~~~~~~l~~L~~L~L~~~~i~-----~l~~~i~~l~~Lr~L~L~~~~l~~--~~~i~-----~  598 (1074)
                      +|+.|+++++.++... ...+..++++++|++++|.++     .+...+..+++|++|+|++|.+++  ...+.     .
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~   82 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   82 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHCC
T ss_conf             87779820895886899999976779999982899998899999999985399988897959859728999999998437


Q ss_pred             CCCCCEEEEECCCCCC-----CCCCCCCCCCCCEEECCCCCC
Q ss_conf             8975399820787865-----683113888878884888968
Q 001457          599 FGELEVLILKGSRIVE-----LPNGIGTVSNLKLLDLSNNLF  635 (1074)
Q Consensus       599 l~~L~~L~L~~~~i~~-----lp~~i~~L~~L~~L~l~~~~~  635 (1074)
                      ...|++|++++|.++.     ++..+..+++|++|++++|.+
T Consensus        83 ~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N~i  124 (460)
T d1z7xw1          83 SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDNLL  124 (460)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSSBC
T ss_pred             CCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCC
T ss_conf             887788778887754322101211000034320024443320

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=99.11  E-value=6.3e-08  Score=63.19  Aligned_cols=167  Identities=16%  Similarity=0.198  Sum_probs=103.8

Q ss_pred             CCCHHHHHHHHHHHHHC----CCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCC-EEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             82139999999999722----9984159999948999188999999861-39988-399999568967899999999983
Q 001457          162 LKSALEVIKSVMKLLKD----NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFD-KVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       162 ~~~~~~~~~~l~~~l~~----~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~-~~~wv~v~~~~~~~~~~~~i~~~l  235 (1074)
                      +.+|+.+++.+.+++..    .....+.+.|+|++|+|||++|+.+++. ...+. ..+|+..............+....
T Consensus        18 l~~Re~ei~~l~~~l~~~l~~~~~~~~~lll~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (276)
T d1fnna2          18 LPHREQQLQQLDILLGNWLRNPGHHYPRATLLGRPGTGKTVTLRKLWELYKDKTTARFVYINGFIYRNFTAIIGEIARSL   97 (276)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHSTTSSCCEEEEECCTTSSHHHHHHHHHHHHTTSCCCEEEEEETTTCCSHHHHHHHHHHHT
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEECCHHHHHHHHHHHHHHHHH
T ss_conf             88779999999999999985789888816888989998999999999997544688578732300112466654567764


Q ss_pred             CCCCCC--CHHHHHHHHHHHHHH-CCCEEEEEECCCCCCCC-----CCCCCCCCC-CCCCCEEEEEECCCHHHHHHC---
Q ss_conf             347774--359999999999987-04709999818654123-----220266888-999980999963881577521---
Q 001457          236 NTELEG--DVEVLRAAFLSERLK-RQKRVLIILDDLWGKLD-----LAVVGIPYG-EEHKGCKIILTSRFKEVCDEM---  303 (1074)
Q Consensus       236 ~~~~~~--~~~~~~~~~l~~~l~-~~k~~LiVlDdv~~~~~-----~~~~~~~~~-~~~~gs~iivTTR~~~v~~~~---  303 (1074)
                      +.....  .........+.+.+. ......+++|++++...     ...+..... .......+|.++........+   
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~  177 (276)
T d1fnna2          98 NIPFPRRGLSRDEFLALLVEHLRERDLYMFLVLDDAFNLAPDILSTFIRLGQEADKLGAFRIALVIVGHNDAVLNNLDPS  177 (276)
T ss_dssp             TCCCCSSCCCHHHHHHHHHHHHHHTTCCEEEEEETGGGSCHHHHHHHHHHTTCHHHHSSCCEEEEEEESSTHHHHTSCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHHHHCCHH
T ss_conf             33455532543578999999875206543320368887535431068888740443356524886258764544311303


Q ss_pred             ----CCCCEEECCCCCHHHHHHHHHHHCC
Q ss_conf             ----6997385899998989999997509
Q 001457          304 ----ESTNYVQVEELTDEDRLILFKKKAG  328 (1074)
Q Consensus       304 ----~~~~~~~l~~L~~~e~~~lf~~~~~  328 (1074)
                          .....+.+.+.+.++.++++.+++.
T Consensus       178 ~~~r~~~~~i~~~~~~~~e~~~il~~r~~  206 (276)
T d1fnna2         178 TRGIMGKYVIRFSPYTKDQIFDILLDRAK  206 (276)
T ss_dssp             HHHHHTTCEEECCCCBHHHHHHHHHHHHH
T ss_pred             HHHHHCCHHCCCCCHHHHHHHHHHHHHHH
T ss_conf             66551101103441238889999999999

>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=99.10  E-value=7.8e-13  Score=94.11  Aligned_cols=103  Identities=22%  Similarity=0.370  Sum_probs=59.8

Q ss_pred             CCCEEEECCCCCCC--CCCCCCCCCCCCEEECCCCCCCC------CCCCCCCCCCCEEEEECCCCCC-----CCCCCC-C
Q ss_conf             73199802874577--79973377457766536887899------7000278975399820787865-----683113-8
Q 001457          556 EIKNLDLSSTNISS--LAPSLPCLEKLRSLHLENTHLND------ASLIREFGELEVLILKGSRIVE-----LPNGIG-T  621 (1074)
Q Consensus       556 ~L~~L~L~~~~i~~--l~~~i~~l~~Lr~L~L~~~~l~~------~~~i~~l~~L~~L~L~~~~i~~-----lp~~i~-~  621 (1074)
                      .|+.||++++.++.  +..-+..+++++.|+|++|.+++      ...+..+++|++|+++++.++.     +...+. .
T Consensus         3 ~l~~ld~~~~~i~~~~~~~l~~~l~~l~~L~L~~~~i~~~~~~~l~~~L~~~~~L~~LdLs~N~i~~~~~~~l~~~l~~~   82 (460)
T d1z7xw1           3 DIQSLDIQCEELSDARWAELLPLLQQCQVVRLDDCGLTEARCKDISSALRVNPALAELNLRSNELGDVGVHCVLQGLQTP   82 (460)
T ss_dssp             EEEEEEEESCCCCHHHHHHHHHHHTTCSEEEEESSCCCHHHHHHHHHHHHTCTTCCEEECTTCCCHHHHHHHHHHTTCST
T ss_pred             CCCEEEEECCCCCHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHCC
T ss_conf             87779820895886899999976779999982899998899999999985399988897959859728999999998437


Q ss_pred             CCCCCEEECCCCCCCCCC---CHHHHCCCCCCCEEECCCC
Q ss_conf             888788848889689876---9333219997699983677
Q 001457          622 VSNLKLLDLSNNLFLQVI---PPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       622 L~~L~~L~l~~~~~~~~~---p~~~l~~l~~L~~L~l~~~  658 (1074)
                      ..+|++|++++|.+....   ....+..+++|++|++++|
T Consensus        83 ~~~L~~L~L~~n~it~~~~~~l~~~l~~~~~L~~L~L~~N  122 (460)
T d1z7xw1          83 SCKIQKLSLQNCCLTGAGCGVLSSTLRTLPTLQELHLSDN  122 (460)
T ss_dssp             TCCCCEEECTTSCCBGGGHHHHHHHTTSCTTCCEEECCSS
T ss_pred             CCCCCEEECCCCCCCCCCCCCCCCHHHCCCCCCCCCCCCC
T ss_conf             8877887788877543221012110000343200244433

>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=99.05  E-value=2e-12  Score=91.49  Aligned_cols=106  Identities=29%  Similarity=0.406  Sum_probs=50.0

Q ss_pred             HHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCC-CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEE
Q ss_conf             7732897319980287457779973377457766536887899-700027897539982078786568311388887888
Q 001457          550 FFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLND-ASLIREFGELEVLILKGSRIVELPNGIGTVSNLKLL  628 (1074)
Q Consensus       550 ~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~-~~~i~~l~~L~~L~L~~~~i~~lp~~i~~L~~L~~L  628 (1074)
                      .+..+++|+.|++++|.+..++ .+..+++|++|++++|.++. +.....++.|+.|++++|.++.++ .+..+++|++|
T Consensus        43 sl~~L~~L~~L~Ls~n~I~~i~-~l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~-~~~~l~~L~~L  120 (198)
T d1m9la_          43 TLSTLKACKHLALSTNNIEKIS-SLSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLS-GIEKLVNLRVL  120 (198)
T ss_dssp             HHHHTTTCCEEECSEEEESCCC-CHHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHH-HHHHHHHSSEE
T ss_pred             HHHCCCCCCEEECCCCCCCCCC-CCCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCC
T ss_conf             7762604615199446899864-424782535734135343210000332212333333332222222-22222234111


Q ss_pred             ECCCCCCCCCCCH-HHHCCCCCCCEEECCCC
Q ss_conf             4888968987693-33219997699983677
Q 001457          629 DLSNNLFLQVIPP-NVISKLSQLEELYVGNS  658 (1074)
Q Consensus       629 ~l~~~~~~~~~p~-~~l~~l~~L~~L~l~~~  658 (1074)
                      ++++|.+ ..++. ..+..+++|+.|++++|
T Consensus       121 ~L~~N~i-~~~~~~~~l~~l~~L~~L~L~~N  150 (198)
T d1m9la_         121 YMSNNKI-TNWGEIDKLAALDKLEDLLLAGN  150 (198)
T ss_dssp             EESEEEC-CCHHHHHHHTTTTTCSEEEECSS
T ss_pred             CCCCCHH-CCCCCCCCCCCCCCCCEEECCCC
T ss_conf             2341021-25542212367776302342798

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.00  E-value=2.7e-09  Score=71.80  Aligned_cols=181  Identities=17%  Similarity=0.228  Sum_probs=108.5

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-C-CCC-CEEEEEEECCCCCHHHHHHHH
Q ss_conf             8999546821399999999997229984159999948999188999999861-3-998-839999956896789999999
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-E-IPF-DKVIFVRVTQTPDVKRVQDEI  231 (1074)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~-~~F-~~~~wv~v~~~~~~~~~~~~i  231 (1074)
                      .+..+..+.|.++.++.+..++....  ...+.++|++|+||||+|+.+++. . ..+ ..+..++.+...+...+...+
T Consensus        10 rP~~~~d~ig~~~~~~~L~~~~~~~~--~~~~ll~Gp~G~GKTt~a~~la~~l~~~~~~~~~~~~n~~~~~~~~~i~~~~   87 (224)
T d1sxjb2          10 RPQVLSDIVGNKETIDRLQQIAKDGN--MPHMIISGMPGIGKTTSVHCLAHELLGRSYADGVLELNASDDRGIDVVRNQI   87 (224)
T ss_dssp             CCSSGGGCCSCTHHHHHHHHHHHSCC--CCCEEEECSTTSSHHHHHHHHHHHHHGGGHHHHEEEECTTSCCSHHHHHTHH
T ss_pred             CCCCHHHHCCCHHHHHHHHHHHHCCC--CCEEEEECCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCEEHHHHH
T ss_conf             88989990297999999999998699--8749998899987054699999997256643221111134557852116678


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC--CCCCCCCCCCCCCCEEEEEECCCH-HHHHHC-CCCC
Q ss_conf             998334777435999999999998704709999818654123--220266888999980999963881-577521-6997
Q 001457          232 ARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLD--LAVVGIPYGEEHKGCKIILTSRFK-EVCDEM-ESTN  307 (1074)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~~--~~~~~~~~~~~~~gs~iivTTR~~-~v~~~~-~~~~  307 (1074)
                      .........              ...++.-++|+|++.....  ...+...........+++++|.+. .+.... ....
T Consensus        88 ~~~~~~~~~--------------~~~~~~kviiiDe~d~~~~~~~~~ll~~~e~~~~~~~~i~~~~~~~~i~~~l~sr~~  153 (224)
T d1sxjb2          88 KHFAQKKLH--------------LPPGKHKIVILDEADSMTAGAQQALRRTMELYSNSTRFAFACNQSNKIIEPLQSQCA  153 (224)
T ss_dssp             HHHHHBCCC--------------CCTTCCEEEEEESGGGSCHHHHHTTHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSE
T ss_pred             HHHHHHHCC--------------CCCCCEEEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHH
T ss_conf             878876224--------------777635999982443232157787752011233333665314743021067887777


Q ss_pred             EEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHH
Q ss_conf             385899998989999997509999990369999999999189857
Q 001457          308 YVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       308 ~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPl  352 (1074)
                      .+++++.+.++-...+.+.+.... ..-..+....|++.|+|-+-
T Consensus       154 ~i~~~~~~~~~i~~~l~~i~~~e~-~~i~~~~l~~I~~~s~Gd~R  197 (224)
T d1sxjb2         154 ILRYSKLSDEDVLKRLLQIIKLED-VKYTNDGLEAIIFTAEGDMR  197 (224)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHHHHTTCHH
T ss_pred             HHHHCCCCHHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHCCCCHH
T ss_conf             765313322456788877777404-67899999999998699699

>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=99.00  E-value=3.5e-12  Score=89.97  Aligned_cols=125  Identities=18%  Similarity=0.263  Sum_probs=91.0

Q ss_pred             CCCCCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCEEEE
Q ss_conf             99999529991189998999047732897319980287457779973377457766536887899700027897539982
Q 001457          528 PKCPRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSSTNISSLAPSLPCLEKLRSLHLENTHLNDASLIREFGELEVLIL  607 (1074)
Q Consensus       528 ~~~~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~l~~~~~i~~l~~L~~L~L  607 (1074)
                      ..+++|+.|++++|.+..++.  +.++++|+.|++++|.+..++.....+++|++|++++|.++..+.+..+++|++|++
T Consensus        45 ~~L~~L~~L~Ls~n~I~~i~~--l~~l~~L~~L~Ls~N~i~~i~~~~~~~~~L~~L~l~~N~i~~l~~~~~l~~L~~L~L  122 (198)
T d1m9la_          45 STLKACKHLALSTNNIEKISS--LSGMENLRILSLGRNLIKKIENLDAVADTLEELWISYNQIASLSGIEKLVNLRVLYM  122 (198)
T ss_dssp             HHTTTCCEEECSEEEESCCCC--HHHHTTCCEEECCEEEECSCSSHHHHHHHCCEEECSEEECCCHHHHHHHHHSSEEEE
T ss_pred             HCCCCCCEEECCCCCCCCCCC--CCCCCCCCCHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf             626046151994468998644--247825357341353432100003322123333333322222222222223411123


Q ss_pred             ECCCCCCCC--CCCCCCCCCCEEECCCCCCCCCCCH---------HHHCCCCCCCEEE
Q ss_conf             078786568--3113888878884888968987693---------3321999769998
Q 001457          608 KGSRIVELP--NGIGTVSNLKLLDLSNNLFLQVIPP---------NVISKLSQLEELY  654 (1074)
Q Consensus       608 ~~~~i~~lp--~~i~~L~~L~~L~l~~~~~~~~~p~---------~~l~~l~~L~~L~  654 (1074)
                      ++|.+..++  ..+..+++|+.|++++|.+....+.         .++..+++|+.|+
T Consensus       123 ~~N~i~~~~~~~~l~~l~~L~~L~L~~N~l~~~~~~~~~~~~~r~~vi~~lp~L~~LD  180 (198)
T d1m9la_         123 SNNKITNWGEIDKLAALDKLEDLLLAGNPLYNDYKENNATSEYRIEVVKRLPNLKKLD  180 (198)
T ss_dssp             SEEECCCHHHHHHHTTTTTCSEEEECSSHHHHHHCTTTTHHHHHHHHHHHCSSCCEES
T ss_pred             CCCHHCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCHHHHHHHHHHHCCCCCEEC
T ss_conf             4102125542212367776302342798434676322220558999998788958769

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.00  E-value=6e-09  Score=69.63  Aligned_cols=178  Identities=15%  Similarity=0.174  Sum_probs=105.7

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--CCCCC-EEEEEEECCCCCHHHHHHHHH
Q ss_conf             999546821399999999997229984159999948999188999999861--39988-399999568967899999999
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFD-KVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~-~~~wv~v~~~~~~~~~~~~i~  232 (1074)
                      +..+..+.|.++.++.+..++....  .+.+.++|++|+||||+|+.+++.  ...+. ...-.+.+...+.........
T Consensus        10 P~~~~divg~~~~~~~L~~~i~~~~--~~~lLl~Gp~G~GKttl~~~la~~l~~~~~~~~~~e~~~~~~~~~~~~~~~~~   87 (227)
T d1sxjc2          10 PETLDEVYGQNEVITTVRKFVDEGK--LPHLLFYGPPGTGKTSTIVALAREIYGKNYSNMVLELNASDDRGIDVVRNQIK   87 (227)
T ss_dssp             CSSGGGCCSCHHHHHHHHHHHHTTC--CCCEEEECSSSSSHHHHHHHHHHHHHTTSHHHHEEEECTTSCCSHHHHHTHHH
T ss_pred             CCCHHHCCCCHHHHHHHHHHHHCCC--CCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCEEEEECCHH
T ss_conf             8999983596999999999997699--98599988998775589999999851677764157731555687543210001


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCC--CCCCCCCCCCCCCCCEEEEEECCCHHH-HHH-CCCCCE
Q ss_conf             9833477743599999999999870470999981865412--322026688899998099996388157-752-169973
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL--DLAVVGIPYGEEHKGCKIILTSRFKEV-CDE-MESTNY  308 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~--~~~~~~~~~~~~~~gs~iivTTR~~~v-~~~-~~~~~~  308 (1074)
                      .....               .....+++.++|+|++....  ....+...+......++++++|....- ... ......
T Consensus        88 ~~~~~---------------~~~~~~~~kiiiiDe~d~~~~~~~~~Ll~~le~~~~~~~~~~~~~~~~~i~~~i~sr~~~  152 (227)
T d1sxjc2          88 DFAST---------------RQIFSKGFKLIILDEADAMTNAAQNALRRVIERYTKNTRFCVLANYAHKLTPALLSQCTR  152 (227)
T ss_dssp             HHHHB---------------CCSSSCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHTTSEE
T ss_pred             HCCCC---------------CCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEECCCCCCHHHHHHHHHHHHHH
T ss_conf             01110---------------002577718999966320002378999988631120023201267087759999988754


Q ss_pred             EECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCH
Q ss_conf             8589999898999999750999999036999999999918985
Q 001457          309 VQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       309 ~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      +++++++.++-.+.+.+.+.... ..-..+....|++.++|-.
T Consensus       153 i~~~~~~~~~i~~~l~~I~~~e~-i~i~~~~l~~i~~~s~Gd~  194 (227)
T d1sxjc2         153 FRFQPLPQEAIERRIANVLVHEK-LKLSPNAEKALIELSNGDM  194 (227)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTT-CCBCHHHHHHHHHHHTTCH
T ss_pred             HCCCCCCCCCCCCCCCCCCCCCC-CCCCHHHHHHHHHHCCCCH
T ss_conf             01235652000110212211112-4589899999999849969

>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=98.93  E-value=5.9e-09  Score=69.67  Aligned_cols=178  Identities=11%  Similarity=0.144  Sum_probs=102.6

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--CCCCC-EEEEEEECCCCCHHHHHHHHH
Q ss_conf             999546821399999999997229984159999948999188999999861--39988-399999568967899999999
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFD-KVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~-~~~wv~v~~~~~~~~~~~~i~  232 (1074)
                      +..+..+.|.++.++.+..++....  .+.+.++|++|+||||+|+.+++.  ...+. ..+-++.+...+...+...+.
T Consensus        20 P~~~~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtla~~iak~l~~~~~~~~~~e~n~s~~~~~~~~~~~~~   97 (231)
T d1iqpa2          20 PQRLDDIVGQEHIVKRLKHYVKTGS--MPHLLFAGPPGVGKTTAALALARELFGENWRHNFLELNASDERGINVIREKVK   97 (231)
T ss_dssp             CCSTTTCCSCHHHHHHHHHHHHHTC--CCEEEEESCTTSSHHHHHHHHHHHHHGGGHHHHEEEEETTCHHHHHTTHHHHH
T ss_pred             CCCHHHCCCCHHHHHHHHHHHHCCC--CCEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHH
T ss_conf             9989991393999999999998599--97699978999748799999999987314677715875676666348888888


Q ss_pred             HHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCC--CCCCCCCCCCCCCCCCEEEEEECC-CHHHHHHC-CCCCE
Q ss_conf             983347774359999999999987047099998186541--232202668889999809999638-81577521-69973
Q 001457          233 RFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSR-FKEVCDEM-ESTNY  308 (1074)
Q Consensus       233 ~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR-~~~v~~~~-~~~~~  308 (1074)
                      ...               ........++.++++|++...  ..+..+...+........+|.||. ...+.... .....
T Consensus        98 ~~~---------------~~~~~~~~~~~iilide~d~~~~~~~~~ll~~l~~~~~~~~~i~~~n~~~~i~~~l~sR~~~  162 (231)
T d1iqpa2          98 EFA---------------RTKPIGGASFKIIFLDEADALTQDAQQALRRTMEMFSSNVRFILSCNYSSKIIEPIQSRCAI  162 (231)
T ss_dssp             HHH---------------HSCCGGGCSCEEEEEETGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHTEEE
T ss_pred             HHH---------------HHHHCCCCCCEEEEEHHHHHCCHHHHHHHHHHCCCCCCCEEEEECCCCHHHCHHHHHCCCCC
T ss_conf             887---------------51001578722886143443121478987641124776447886148766565768473121


Q ss_pred             EECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCH
Q ss_conf             8589999898999999750999999036999999999918985
Q 001457          309 VQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       309 ~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      +.+.+.+.++....+++.+.... ..-..+..+.|++.++|-.
T Consensus       163 i~~~~~~~~~~~~~l~~~~~~e~-i~i~~~~l~~I~~~~~gdi  204 (231)
T d1iqpa2         163 FRFRPLRDEDIAKRLRYIAENEG-LELTEEGLQAILYIAEGDM  204 (231)
T ss_dssp             EECCCCCHHHHHHHHHHHHHTTT-CEECHHHHHHHHHHHTTCH
T ss_pred             CCCCCCCHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHCCCCH
T ss_conf             01233430467789988899839-9989999999999839979

>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=98.92  E-value=6.3e-07  Score=56.86  Aligned_cols=186  Identities=18%  Similarity=0.181  Sum_probs=102.7

Q ss_pred             CCCHHHHHHHHHHHH----HCC-C--CCEEEEEEECCCCCCHHHHHHHHHHH------CCC-CCEEEEEEECCCCCHHHH
Q ss_conf             821399999999997----229-9--84159999948999188999999861------399-883999995689678999
Q 001457          162 LKSALEVIKSVMKLL----KDN-S--ISINIIGVYGSGGIGKTTLMKQVMKQ------EIP-FDKVIFVRVTQTPDVKRV  227 (1074)
Q Consensus       162 ~~~~~~~~~~l~~~l----~~~-~--~~~~vi~I~G~gGiGKTtLa~~v~~~------~~~-F~~~~wv~v~~~~~~~~~  227 (1074)
                      +.+|+.+++++...+    ... .  ....++.++|++|+|||++++.+++.      ... .....+++..........
T Consensus        18 ~~~Re~e~~~l~~~l~~~~~~~~~~~~~~~~l~l~GppGtGKT~l~~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~   97 (287)
T d1w5sa2          18 LRVRRGEAEALARIYLNRLLSGAGLSDVNMIYGSIGRVGIGKTTLAKFTVKRVSEAAAKEGLTVKQAYVNAFNAPNLYTI   97 (287)
T ss_dssp             CSSSCHHHHHHHHHHHHHHHTSSCBCCEEEEEECTTCCSSSHHHHHHHHHHHHHHHHHHTTCCEEEEEEEGGGCCSHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEECCCCCCCHHHH
T ss_conf             88789999999999999997499888853489967899989999999999998754155567841663033334650467


Q ss_pred             HHHHHHHHCCCCC--CCHHHHHHHHHHHHHH-CCCEEEEEECCCCCCCC-----------CCCC---CCCCCCCCCCEEE
Q ss_conf             9999998334777--4359999999999987-04709999818654123-----------2202---6688899998099
Q 001457          228 QDEIARFLNTELE--GDVEVLRAAFLSERLK-RQKRVLIILDDLWGKLD-----------LAVV---GIPYGEEHKGCKI  290 (1074)
Q Consensus       228 ~~~i~~~l~~~~~--~~~~~~~~~~l~~~l~-~~k~~LiVlDdv~~~~~-----------~~~~---~~~~~~~~~gs~i  290 (1074)
                      ...+....+....  ..........+.+... .+...++++|.+.....           +..+   ..+......-..|
T Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~iide~d~l~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~i  177 (287)
T d1w5sa2          98 LSLIVRQTGYPIQVRGAPALDILKALVDNLYVENHYLLVILDEFQSMLSSPRIAAEDLYTLLRVHEEIPSRDGVNRIGFL  177 (287)
T ss_dssp             HHHHHHHHTCCCCCTTCCHHHHHHHHHHHHHHHTCEEEEEEESTHHHHSCTTSCHHHHHHHHTHHHHSCCTTSCCBEEEE
T ss_pred             HHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHCCHHHCCCCEEEE
T ss_conf             88876530432333451278899999999985467665412578885156655426789889998743201045651477


Q ss_pred             EEECCCHHHHH------H--CCCCCEEECCCCCHHHHHHHHHHHCCC-CCCCCHHHHHHHHHHHHH
Q ss_conf             99638815775------2--169973858999989899999975099-999903699999999991
Q 001457          291 ILTSRFKEVCD------E--MESTNYVQVEELTDEDRLILFKKKAGL-PEGTKAFDRAAEEVVRQC  347 (1074)
Q Consensus       291 ivTTR~~~v~~------~--~~~~~~~~l~~L~~~e~~~lf~~~~~~-~~~~~~~~~~~~~i~~~c  347 (1074)
                      ++++.......      .  ......+.+++.+.++..+++...+.. .....-.++..+.|+++.
T Consensus       178 ~i~~~~~~~~~~~~~~~~~~~r~~~~i~f~~y~~~el~~Il~~r~~~~~~~~~~~~~al~~ia~~~  243 (287)
T d1w5sa2         178 LVASDVRALSYMREKIPQVESQIGFKLHLPAYKSRELYTILEQRAELGLRDTVWEPRHLELISDVY  243 (287)
T ss_dssp             EEEEETHHHHHHHHHCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHHBCTTSCCHHHHHHHHHHH
T ss_pred             EECCCHHHHHHHHHHCCCHHCCCCEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
T ss_conf             624308999999862520112322065225775999999876667775246877999999999997

>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=98.89  E-value=4.7e-09  Score=70.30  Aligned_cols=188  Identities=12%  Similarity=0.158  Sum_probs=105.5

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH----CCCCCEEEEEEECCCCCHHHHHHHH
Q ss_conf             999546821399999999997229984159999948999188999999861----3998839999956896789999999
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ----EIPFDKVIFVRVTQTPDVKRVQDEI  231 (1074)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~----~~~F~~~~wv~v~~~~~~~~~~~~i  231 (1074)
                      +..+.++.|+++.++.+..++....  .+.+.++|++|+||||+|+.+++.    .........++.+...........+
T Consensus         8 P~~~~diig~~~~~~~l~~~i~~~~--~~~lll~Gp~G~GKTtl~~~i~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (237)
T d1sxjd2           8 PKNLDEVTAQDHAVTVLKKTLKSAN--LPHMLFYGPPGTGKTSTILALTKELYGPDLMKSRILELNASDERGISIVREKV   85 (237)
T ss_dssp             CSSTTTCCSCCTTHHHHHHHTTCTT--CCCEEEECSTTSSHHHHHHHHHHHHHHHHHHTTSEEEECSSSCCCHHHHTTHH
T ss_pred             CCCHHHCCCCHHHHHHHHHHHHCCC--CCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCHHHEECCCCCCCHHHHHHH
T ss_conf             8978872693999999999998699--88599989999984999999999970976334321220021135606789999


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCC--CCCCCCCCCCCCCCCEEEEEECCCHH-HHHH-CCCCC
Q ss_conf             99833477743599999999999870470999981865412--32202668889999809999638815-7752-16997
Q 001457          232 ARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL--DLAVVGIPYGEEHKGCKIILTSRFKE-VCDE-MESTN  307 (1074)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~--~~~~~~~~~~~~~~gs~iivTTR~~~-v~~~-~~~~~  307 (1074)
                      -............    ..+.. ...++.-++|+|++....  ....+...........++++|+.... +... .....
T Consensus        86 ~~~~~~~~~~~~~----~~~~~-~~~~~~~viiiDe~d~l~~~~~~~l~~~~~~~~~~~~~i~~~~~~~~~~~~l~sr~~  160 (237)
T d1sxjd2          86 KNFARLTVSKPSK----HDLEN-YPCPPYKIIILDEADSMTADAQSALRRTMETYSGVTRFCLICNYVTRIIDPLASQCS  160 (237)
T ss_dssp             HHHHHSCCCCCCT----THHHH-SCCCSCEEEEETTGGGSCHHHHHHHHHHHHHTTTTEEEEEEESCGGGSCHHHHHHSE
T ss_pred             HHHHHHHHHHHHH----HHHHH-CCCCCCEEEEEECCCCCCHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCHHH
T ss_conf             8876544432467----87761-356673699995513367777888763012222333321224664222331110001


Q ss_pred             EEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCH
Q ss_conf             38589999898999999750999999036999999999918985
Q 001457          308 YVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP  351 (1074)
Q Consensus       308 ~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glP  351 (1074)
                      .+++++++.++..+++.+.+.... ..-..+....|++.++|-+
T Consensus       161 ~i~f~~~~~~~~~~~L~~i~~~e~-i~i~~~~l~~ia~~s~gd~  203 (237)
T d1sxjd2         161 KFRFKALDASNAIDRLRFISEQEN-VKCDDGVLERILDISAGDL  203 (237)
T ss_dssp             EEECCCCCHHHHHHHHHHHHHTTT-CCCCHHHHHHHHHHTSSCH
T ss_pred             HHCCCCCCCCCCCHHHHHHHHHHC-CCCCHHHHHHHHHHCCCCH
T ss_conf             102333333211001011455526-7578999999999859989

>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=98.87  E-value=1.1e-08  Score=68.06  Aligned_cols=98  Identities=26%  Similarity=0.315  Sum_probs=43.9

Q ss_pred             EEEECCCCCCCCCCCCCCCCCCCEEECCCCC-CCC--CCCCCCCCCCCEEEEECCCCCCCC-CCCCCCCCCCEEECCCCC
Q ss_conf             9980287457779973377457766536887-899--700027897539982078786568-311388887888488896
Q 001457          559 NLDLSSTNISSLAPSLPCLEKLRSLHLENTH-LND--ASLIREFGELEVLILKGSRIVELP-NGIGTVSNLKLLDLSNNL  634 (1074)
Q Consensus       559 ~L~L~~~~i~~l~~~i~~l~~Lr~L~L~~~~-l~~--~~~i~~l~~L~~L~L~~~~i~~lp-~~i~~L~~L~~L~l~~~~  634 (1074)
                      .++.++..+...|..+..+++|+.|++.++. ++.  +..+..+++|+.|++++++++.++ ..+..+++|++|++++|.
T Consensus        12 ~l~c~~~~~~~~p~~l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~Ls~N~   91 (156)
T d2ifga3          12 GLRCTRDGALDSLHHLPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLNLSFNA   91 (156)
T ss_dssp             CEECCSSCCCTTTTTSCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEECCSSC
T ss_pred             EEEECCCCCCCCCCCCCCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEECCCCC
T ss_conf             69852899765860025765657431689866443692122566666721620212477420111245543333226787


Q ss_pred             CCCCCCHHHHCCCCCCCEEECCCC
Q ss_conf             898769333219997699983677
Q 001457          635 FLQVIPPNVISKLSQLEELYVGNS  658 (1074)
Q Consensus       635 ~~~~~p~~~l~~l~~L~~L~l~~~  658 (1074)
                       +..+|.+.+..+ .|++|+++++
T Consensus        92 -l~~l~~~~~~~~-~l~~L~L~~N  113 (156)
T d2ifga3          92 -LESLSWKTVQGL-SLQELVLSGN  113 (156)
T ss_dssp             -CSCCCSTTTCSC-CCCEEECCSS
T ss_pred             -CCCCCHHHHCCC-CCCCCCCCCC
T ss_conf             -851574563353-2124335798

>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=98.85  E-value=3.6e-08  Score=64.70  Aligned_cols=152  Identities=16%  Similarity=0.209  Sum_probs=95.6

Q ss_pred             CCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--CC-----CCCEEEEE-EECCCCCHHHHHHHH
Q ss_conf             46821399999999997229984159999948999188999999861--39-----98839999-956896789999999
Q 001457          160 VPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EI-----PFDKVIFV-RVTQTPDVKRVQDEI  231 (1074)
Q Consensus       160 ~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~-----~F~~~~wv-~v~~~~~~~~~~~~i  231 (1074)
                      .+..||++++++++..|....  ..-+.++|.+|+|||+++..++.+  ..     ..+..+|. +++.-.         
T Consensus        18 d~~igRd~Ei~~l~~iL~r~~--k~n~lLVG~~GvGKTalv~~la~ri~~~~vp~~l~~~~i~~l~~~~li---------   86 (268)
T d1r6bx2          18 DPLIGREKELERAIQVLCRRR--KNNPLLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLL---------   86 (268)
T ss_dssp             CCCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSSHHHHHHHHHHHHHHTCSCGGGTTCEEEECCCC------------
T ss_pred             CCCCCHHHHHHHHHHHHHCCC--CCCCEEECCCCCCHHHHHHHHHHHHHHCCCCCCCCCCEEEEEEECHHH---------
T ss_conf             866380999999999995476--689679888988677999999999981784500035412786405675---------


Q ss_pred             HHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCC----------CCCCCCCCCCCCCCCEEEEEECCCHHHHH
Q ss_conf             99833477743599999999999870470999981865412----------32202668889999809999638815775
Q 001457          232 ARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL----------DLAVVGIPYGEEHKGCKIILTSRFKEVCD  301 (1074)
Q Consensus       232 ~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~----------~~~~~~~~~~~~~~gs~iivTTR~~~v~~  301 (1074)
                         .|.... ..-+++...+.+.+...++.++++|++...-          +...+..|... ...-++|.||...+...
T Consensus        87 ---ag~~~~-g~~e~r~~~i~~~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~-rg~i~vIgatT~eey~~  161 (268)
T d1r6bx2          87 ---AGTKYR-GDFEKRFKALLKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS-SGKIRVIGSTTYQEFSN  161 (268)
T ss_dssp             ---CCCCCS-SCHHHHHHHHHHHHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS-SCCCEEEEEECHHHHHC
T ss_pred             ---CCCCCC-HHHHHHHHHHHHHHHCCCCCEEEECCHHHHHCCCCCCCCCCCHHHHHHHHHH-CCCCEEEEECCHHHHHH
T ss_conf             ---067630-0589999999998612678468843369886277778864117987648874-79875999579999999


Q ss_pred             HCCCC-------CEEECCCCCHHHHHHHHHHHC
Q ss_conf             21699-------738589999898999999750
Q 001457          302 EMEST-------NYVQVEELTDEDRLILFKKKA  327 (1074)
Q Consensus       302 ~~~~~-------~~~~l~~L~~~e~~~lf~~~~  327 (1074)
                      ....+       ..+.+++.+.+++.+++...+
T Consensus       162 ~~e~d~al~rrF~~I~V~Eps~e~t~~IL~~~~  194 (268)
T d1r6bx2         162 IFEKDRALARRFQKIDITEPSIEETVQIINGLK  194 (268)
T ss_dssp             CCCCTTSSGGGEEEEECCCCCHHHHHHHHHHHH
T ss_pred             HHHHCHHHHHHHCCCCCCCCCHHHHHHHHHHHH
T ss_conf             986167888652100368989999999999866

>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=98.85  E-value=1.8e-08  Score=66.60  Aligned_cols=191  Identities=10%  Similarity=0.086  Sum_probs=97.8

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--CC-----CCCEEEEEEECCC-------
Q ss_conf             999546821399999999997229984159999948999188999999861--39-----9883999995689-------
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EI-----PFDKVIFVRVTQT-------  221 (1074)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~-----~F~~~~wv~v~~~-------  221 (1074)
                      +..+..+.|+++....+..++.... ....+.++|++|+||||+|+.+++.  ..     .++...+...+..       
T Consensus         7 P~~~~diig~~~~~~~L~~~~~~~~-~~~~lll~Gp~G~GKTt~~~~la~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (252)
T d1sxje2           7 PKSLNALSHNEELTNFLKSLSDQPR-DLPHLLLYGPNGTGKKTRCMALLESIFGPGVYRLKIDVRQFVTASNRKLELNVV   85 (252)
T ss_dssp             CCSGGGCCSCHHHHHHHHTTTTCTT-CCCCEEEECSTTSSHHHHHHTHHHHHSCTTCCC------------------CCE
T ss_pred             CCCHHHCCCCHHHHHHHHHHHHCCC-CCCEEEEECCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCHHHHHHC
T ss_conf             8979883583999999999997699-878599889999988999999997622764222221234443466631122110


Q ss_pred             --------------CCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCC--CCCCCCCCCCCCCC
Q ss_conf             --------------67899999999983347774359999999999987047099998186541--23220266888999
Q 001457          222 --------------PDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEH  285 (1074)
Q Consensus       222 --------------~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~--~~~~~~~~~~~~~~  285 (1074)
                                    ....................     ....-.... .++.-++|+|+++..  .....+...+....
T Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~-~~~~~iiiide~d~l~~~~~~~l~~~~e~~~  159 (252)
T d1sxje2          86 SSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQV-----DFQDSKDGL-AHRYKCVIINEANSLTKDAQAALRRTMEKYS  159 (252)
T ss_dssp             ECSSEEEECCC----CCHHHHHHHHHHHTTTTC------------------CCEEEEEECTTSSCHHHHHHHHHHHHHST
T ss_pred             CCCCCCEEEECCCCCCCCCEEEEHHHHHHHHHHH-----HHHHCCCCC-CCCCEEEEECCCCCCCCCCCHHHHCCCCCCC
T ss_conf             4776310000104457752243102234343310-----012114666-7872499942433345431112210022135


Q ss_pred             CCEEEEEECCCHH-HHHH-CCCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHHH
Q ss_conf             9809999638815-7752-169973858999989899999975099999903699999999991898579
Q 001457          286 KGCKIILTSRFKE-VCDE-MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       286 ~gs~iivTTR~~~-v~~~-~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPla  353 (1074)
                      ..+++|+||.+.+ +... ......+++++++.++..+.+.+.+.........++..+.|++.+.|-+-.
T Consensus       160 ~~~~~Il~tn~~~~i~~~l~sR~~~i~~~~~~~~~~~~~l~~i~~~e~~~~~~~~~l~~i~~~s~Gd~R~  229 (252)
T d1sxje2         160 KNIRLIMVCDSMSPIIAPIKSQCLLIRCPAPSDSEISTILSDVVTNERIQLETKDILKRIAQASNGNLRV  229 (252)
T ss_dssp             TTEEEEEEESCSCSSCHHHHTTSEEEECCCCCHHHHHHHHHHHHHHHTCEECCSHHHHHHHHHHTTCHHH
T ss_pred             CCCCCEEEECCCCCHHHHHHCCHHEEEECCCCHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCHHH
T ss_conf             6643000102111002544210002430353304689999999998399989699999999986994999

>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=98.84  E-value=7.3e-08  Score=62.78  Aligned_cols=196  Identities=13%  Similarity=0.088  Sum_probs=105.4

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHHHHH
Q ss_conf             8999546821399999999997229984159999948999188999999861-399883999995689678999999999
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~i~~  233 (1074)
                      .+..+..+.|.++.++.+..++..+. -.+.+.++|+.|+||||+|+.+.+. .....    .. ............+..
T Consensus         7 rP~~~~dlig~~~~~~~L~~~i~~~~-~~~~~Ll~Gp~G~GKtt~a~~~~~~l~~~~~----~~-~~~~~~~~~~~~i~~   80 (239)
T d1njfa_           7 RPQTFADVVGQEHVLTALANGLSLGR-IHHAYLFSGTRGVGKTSIARLLAKGLNCETG----IT-ATPCGVCDNCREIEQ   80 (239)
T ss_dssp             CCSSGGGSCSCHHHHHHHHHHHHTTC-CCSEEEEECSTTSSHHHHHHHHHHHHHCTTC----SC-SSCCSCSHHHHHHHH
T ss_pred             CCCCHHHCCCHHHHHHHHHHHHHCCC-CCEEEEEECCCCCCHHHHHHHHHHHHCCCCC----CC-CCCCCCCHHHHHHHC
T ss_conf             88989881595999999999998599-8705988889987589999999998468556----66-675554247999974


Q ss_pred             HHCCCC-----CCCHHHHHHHHHHHHHH----CCCEEEEEECCCCCCC--CCCCCCCCCCCCCCCEEEEEECCCHHH-HH
Q ss_conf             833477-----74359999999999987----0470999981865412--322026688899998099996388157-75
Q 001457          234 FLNTEL-----EGDVEVLRAAFLSERLK----RQKRVLIILDDLWGKL--DLAVVGIPYGEEHKGCKIILTSRFKEV-CD  301 (1074)
Q Consensus       234 ~l~~~~-----~~~~~~~~~~~l~~~l~----~~k~~LiVlDdv~~~~--~~~~~~~~~~~~~~gs~iivTTR~~~v-~~  301 (1074)
                      .-..+.     ......+....+.+...    .++..++|+|+++...  ....+...+-....++++|++|.+..- ..
T Consensus        81 ~~~~~~~~~~~~~~~~i~~ir~~~~~~~~~~~~~~~kviiIde~d~l~~~~q~~Llk~lE~~~~~~~~il~tn~~~~i~~  160 (239)
T d1njfa_          81 GRFVDLIEIDAASRTKVEDTRDLLDNVQYAPARGRFKVYLIDEVHMLSRHSFNALLKTLEEPPEHVKFLLATTDPQKLPV  160 (239)
T ss_dssp             TCCTTEEEEETTCSSSHHHHHHHHHSCCCSCSSSSSEEEEEETGGGSCHHHHHHHHHHHHSCCTTEEEEEEESCGGGSCH
T ss_pred             CCCCEEEEECCHHCCCHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCEEEEEECCCCCCCCH
T ss_conf             79870799611200789999999999974652599879999781108999999999998568988699997388563676


Q ss_pred             HC-CCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHH-HHHHH
Q ss_conf             21-6997385899998989999997509999990369999999999189857-99999
Q 001457          302 EM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN-AIVII  357 (1074)
Q Consensus       302 ~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPl-ai~~~  357 (1074)
                      .. .....+.+++++.++-.+.+...+.... ..-.++....|++.++|-+- |+..+
T Consensus       161 ~i~SRc~~i~~~~~~~~~i~~~l~~i~~~e~-~~~~~~~l~~i~~~s~Gd~R~ain~l  217 (239)
T d1njfa_         161 TILSRCLQFHLKALDVEQIRHQLEHILNEEH-IAHEPRALQLLARAAEGSLRDALSLT  217 (239)
T ss_dssp             HHHTTSEEEECCCCCHHHHHHHHHHHHHHHT-CCBCHHHHHHHHHHTTTCHHHHHHHH
T ss_pred             HHHHHHCCCCCCCCCHHHHHHHHHHHHHHHC-CCCCHHHHHHHHHHCCCCHHHHHHHH
T ss_conf             5761210222246767876668878776431-47899999999997699799999999

>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=98.75  E-value=6e-08  Score=63.30  Aligned_cols=104  Identities=18%  Similarity=0.112  Sum_probs=66.1

Q ss_pred             CCCCEEECCCCCCCCCCHHHHHCCCCCCEEEECCC-CCCCCCC-CCCCCCCCCEEECCCCCCCC--CCCCCCCCCCCEEE
Q ss_conf             99529991189998999047732897319980287-4577799-73377457766536887899--70002789753998
Q 001457          531 PRLTTLFLQNNPFADIPNAFFEHTREIKNLDLSST-NISSLAP-SLPCLEKLRSLHLENTHLND--ASLIREFGELEVLI  606 (1074)
Q Consensus       531 ~~L~~L~l~~~~~~~~~~~~~~~l~~L~~L~L~~~-~i~~l~~-~i~~l~~Lr~L~L~~~~l~~--~~~i~~l~~L~~L~  606 (1074)
                      .....+.+.++.....+.. +.++++|+.|+++++ .++.++. .|..+++|+.|++++|.++.  +..+..+++|++|+
T Consensus         8 ~~~~~l~c~~~~~~~~p~~-l~~l~~l~~L~l~~n~~l~~i~~~~f~~l~~L~~L~Ls~N~l~~i~~~~f~~l~~L~~L~   86 (156)
T d2ifga3           8 HGSSGLRCTRDGALDSLHH-LPGAENLTELYIENQQHLQHLELRDLRGLGELRNLTIVKSGLRFVAPDAFHFTPRLSRLN   86 (156)
T ss_dssp             SSSSCEECCSSCCCTTTTT-SCSCSCCSEEECCSCSSCCEECGGGSCSCCCCSEEECCSSCCCEECTTGGGSCSCCCEEE
T ss_pred             CCCCEEEECCCCCCCCCCC-CCCCCCCCEEECCCCCCCCCCCCHHHCCCCCCCCCEEECCCCCCCCCCCCCCCCCCCCEE
T ss_conf             9999698528997658600-257656574316898664436921225666667216202124774201112455433332


Q ss_pred             EECCCCCCCCCCCCCCCCCCEEECCCCCC
Q ss_conf             20787865683113888878884888968
Q 001457          607 LKGSRIVELPNGIGTVSNLKLLDLSNNLF  635 (1074)
Q Consensus       607 L~~~~i~~lp~~i~~L~~L~~L~l~~~~~  635 (1074)
                      |+++.++.+|..+....+|++|+++++.+
T Consensus        87 Ls~N~l~~l~~~~~~~~~l~~L~L~~Np~  115 (156)
T d2ifga3          87 LSFNALESLSWKTVQGLSLQELVLSGNPL  115 (156)
T ss_dssp             CCSSCCSCCCSTTTCSCCCCEEECCSSCC
T ss_pred             CCCCCCCCCCHHHHCCCCCCCCCCCCCCC
T ss_conf             26787851574563353212433579863

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.66  E-value=5.1e-09  Score=70.06  Aligned_cols=15  Identities=27%  Similarity=0.284  Sum_probs=6.9

Q ss_pred             CCCCCCCEEECCCCC
Q ss_conf             388887888488896
Q 001457          620 GTVSNLKLLDLSNNL  634 (1074)
Q Consensus       620 ~~L~~L~~L~l~~~~  634 (1074)
                      ...++|+.|++++|.
T Consensus        90 ~~~~~L~~L~L~~n~  104 (344)
T d2ca6a1          90 LKCPKLHTVRLSDNA  104 (344)
T ss_dssp             TTCTTCCEEECCSCC
T ss_pred             HHCCCCCCCCCCCCC
T ss_conf             547775633000013

>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=98.61  E-value=1.3e-05  Score=48.64  Aligned_cols=174  Identities=13%  Similarity=0.131  Sum_probs=92.5

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHCC---CCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHH
Q ss_conf             8999546821399999999997229---984159999948999188999999861-399883999995689678999999
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKDN---SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~l~~~---~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~  230 (1074)
                      ++..+..+.|.++.++++..++...   +...+.+.++|++|+||||+|+.+++. ...|   +.++.+.......+. .
T Consensus         4 RP~~~~divGqe~~~~~l~~~i~~~~~~~~~~~~~L~~GPpGtGKT~lA~~la~~~~~~~---~~~~~~~~~~~~~~~-~   79 (238)
T d1in4a2           4 RPKSLDEFIGQENVKKKLSLALEAAKMRGEVLDHVLLAGPPGLGKTTLAHIIASELQTNI---HVTSGPVLVKQGDMA-A   79 (238)
T ss_dssp             SCSSGGGCCSCHHHHHHHHHHHHHHHHHTCCCCCEEEESSTTSSHHHHHHHHHHHHTCCE---EEEETTTCCSHHHHH-H
T ss_pred             CCCCHHHCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHCCCCCC---CCCCCCCCCCHHHHH-H
T ss_conf             989299908959999999999997885388777489879999738899999985038885---332574422488899-9


Q ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC---------CCCCCC-----------CCCCCCCCEEE
Q ss_conf             9998334777435999999999998704709999818654123---------220266-----------88899998099
Q 001457          231 IARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLD---------LAVVGI-----------PYGEEHKGCKI  290 (1074)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~~---------~~~~~~-----------~~~~~~~gs~i  290 (1074)
                      ++..                      .+++..+++|.+.....         .+....           ..........+
T Consensus        80 ~~~~----------------------~~~~~~~~ide~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  137 (238)
T d1in4a2          80 ILTS----------------------LERGDVLFIDEIHRLNKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTL  137 (238)
T ss_dssp             HHHH----------------------CCTTCEEEEETGGGCCHHHHHHHHHHHHTSCCCC---------------CCCEE
T ss_pred             HHHH----------------------HCCCCCHHHHHHHHHHHHHHHHCCCCEEEEEEEEEECCCCCCCCCCCCCCCEEE
T ss_conf             9875----------------------435882477789884067776421402441454454376002444457887699


Q ss_pred             EEE-CCCHHHHHH--CCCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             996-388157752--16997385899998989999997509999990369999999999189857999
Q 001457          291 ILT-SRFKEVCDE--MESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       291 ivT-TR~~~v~~~--~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  355 (1074)
                      |.+ ++...+...  ......+.++..+.++...++...+.... ....++....|++.++|-+-.+.
T Consensus       138 I~at~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~~~~l~~i~~~s~gd~R~ai  204 (238)
T d1in4a2         138 VGATTRSGLLSSPLRSRFGIILELDFYTVKELKEIIKRAASLMD-VEIEDAAAEMIAKRSRGTPRIAI  204 (238)
T ss_dssp             EEEESCGGGSCHHHHTTCSEEEECCCCCHHHHHHHHHHHHHHTT-CCBCHHHHHHHHHTSTTCHHHHH
T ss_pred             EEECCCCCCCCCCCEEEEEEEEEECCCCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHCCCCHHHHH
T ss_conf             99547875555431133007998447877877777777653011-00257999999996799899999

>d2ca6a1 c.10.1.2 (A:2-345) Rna1p (RanGAP1), N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: Rna1p (RanGAP1), N-terminal domain
domain: Rna1p (RanGAP1), N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=98.59  E-value=6.7e-09  Score=69.31  Aligned_cols=11  Identities=18%  Similarity=0.096  Sum_probs=4.7

Q ss_pred             CCCEEEEECCC
Q ss_conf             88408974455
Q 001457          923 PNLKKLLIGKC  933 (1074)
Q Consensus       923 ~~L~~L~L~~c  933 (1074)
                      ++|++|++++|
T Consensus       273 ~~L~~L~ls~N  283 (344)
T d2ca6a1         273 IGLQTLRLQYN  283 (344)
T ss_dssp             CCCCEEECCSS
T ss_pred             CCCCEEECCCC
T ss_conf             88898989898

>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=98.56  E-value=4.4e-07  Score=57.85  Aligned_cols=153  Identities=18%  Similarity=0.232  Sum_probs=89.6

Q ss_pred             CCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-------CCCCCEEEE-EEECCCCCHHHHHHH
Q ss_conf             546821399999999997229984159999948999188999999861-------399883999-995689678999999
Q 001457          159 FVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-------EIPFDKVIF-VRVTQTPDVKRVQDE  230 (1074)
Q Consensus       159 ~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-------~~~F~~~~w-v~v~~~~~~~~~~~~  230 (1074)
                      +.++.||++++.+++..|....  ..-+.++|.+|+|||+++..++.+       ..-.+..+| ++++.-.      . 
T Consensus        21 ld~~~gr~~ei~~~~~~L~r~~--k~n~llvG~~GvGKtaiv~~la~~i~~~~vp~~l~~~~i~~ld~~~l~------a-   91 (387)
T d1qvra2          21 LDPVIGRDEEIRRVIQILLRRT--KNNPVLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLL------A-   91 (387)
T ss_dssp             SCCCCSCHHHHHHHHHHHHCSS--CCCCEEEECTTSCHHHHHHHHHHHHHHTCSCTTSTTCEEEEECC------------
T ss_pred             CCCCCCCHHHHHHHHHHHHCCC--CCCCEEECCCCCCHHHHHHHHHHHHHHCCCCHHHCCCEEEEEEHHHHH------C-
T ss_conf             9987480899999999982488--999768799998899999999999980899978869668995576665------2-


Q ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHC-CCEEEEEECCCCCCC---------CCCCC-CCCCCCCCCCEEEEEECCCHHH
Q ss_conf             999833477743599999999999870-470999981865412---------32202-6688899998099996388157
Q 001457          231 IARFLNTELEGDVEVLRAAFLSERLKR-QKRVLIILDDLWGKL---------DLAVV-GIPYGEEHKGCKIILTSRFKEV  299 (1074)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~l~~~l~~-~k~~LiVlDdv~~~~---------~~~~~-~~~~~~~~~gs~iivTTR~~~v  299 (1074)
                           |....+. -+.+...+...+.. ..+.++++|++...-         +...+ +.++..  ..-++|.+|...+.
T Consensus        92 -----g~~~~g~-~e~r~~~i~~~~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r--g~~~~I~~tT~~ey  163 (387)
T d1qvra2          92 -----GAKYRGE-FEERLKAVIQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR--GELRLIGATTLDEY  163 (387)
T ss_dssp             -----------C-HHHHHHHHHHHHHTTCSSEEEEECCC-------------------HHHHHT--TCCCEEEEECHHHH
T ss_pred             -----CCCCCHH-HHHHHHHHHHHHCCCCCCEEEEECCHHHHHCCCCCCCCCCHHHHHHHHHHC--CCCCEEEECCHHHH
T ss_conf             -----6674136-899999999985058996698724088884277787741389999999737--88516663689999


Q ss_pred             HHH------CCCCCEEECCCCCHHHHHHHHHHHCC
Q ss_conf             752------16997385899998989999997509
Q 001457          300 CDE------MESTNYVQVEELTDEDRLILFKKKAG  328 (1074)
Q Consensus       300 ~~~------~~~~~~~~l~~L~~~e~~~lf~~~~~  328 (1074)
                      ...      ....+.+.+++.+.+++..++.....
T Consensus       164 ~~~e~d~al~rrF~~v~v~ep~~~~~~~il~~~~~  198 (387)
T d1qvra2         164 REIEKDPALERRFQPVYVDEPTVEETISILRGLKE  198 (387)
T ss_dssp             HHHTTCTTTCSCCCCEEECCCCHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf             87633679998246112799867889999999999

>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=98.55  E-value=5.9e-07  Score=57.03  Aligned_cols=191  Identities=12%  Similarity=0.006  Sum_probs=98.2

Q ss_pred             CCCCCCCHHHHHHHHHHHHHC---------------CCCCEEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEEECCCC
Q ss_conf             954682139999999999722---------------99841599999489991889999998613998839999956896
Q 001457          158 EFVPLKSALEVIKSVMKLLKD---------------NSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTP  222 (1074)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~l~~---------------~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv~v~~~~  222 (1074)
                      .+-.+.|.++.++++..++..               .....+.+.++|++|+||||+|+.+++..+  ...++++.+...
T Consensus        12 ~~~dlig~~~~~~~L~~~l~~~~~~~~~~~~~~~~~~~~~~~~lll~GPpG~GKTt~a~~la~~~~--~~~~~~~~~~~~   89 (253)
T d1sxja2          12 NLQQVCGNKGSVMKLKNWLANWENSKKNSFKHAGKDGSGVFRAAMLYGPPGIGKTTAAHLVAQELG--YDILEQNASDVR   89 (253)
T ss_dssp             SGGGCCSCHHHHHHHHHHHHTHHHHHHTTTCCCCTTSTTSCSEEEEECSTTSSHHHHHHHHHHHTT--CEEEEECTTSCC
T ss_pred             CHHHHCCCHHHHHHHHHHHHHHHHCCHHHHHHHCCCCCCCCCEEEEECCCCCCHHHHHHHHHHHHH--HHHHCCCCCCCH
T ss_conf             999966989999999999996253002343232025788874499987999988899999999987--512013443221


Q ss_pred             CHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCC-----CCCCCCCCCCCCCEEEEEEC-CC
Q ss_conf             7899999999983347774359999999999987047099998186541232-----20266888999980999963-88
Q 001457          223 DVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLDL-----AVVGIPYGEEHKGCKIILTS-RF  296 (1074)
Q Consensus       223 ~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~~~-----~~~~~~~~~~~~gs~iivTT-R~  296 (1074)
                      +...+-. ................. .. ......++..++++|++......     ..+.... .......+++++ ..
T Consensus        90 ~~~~~~~-~~~~~~~~~~~~~~~~~-~~-~~~~~~~~~~vi~ide~~~~~~~~~~~~~~~~~~~-~~~~~~ii~i~~~~~  165 (253)
T d1sxja2          90 SKTLLNA-GVKNALDNMSVVGYFKH-NE-EAQNLNGKHFVIIMDEVDGMSGGDRGGVGQLAQFC-RKTSTPLILICNERN  165 (253)
T ss_dssp             CHHHHHH-TGGGGTTBCCSTTTTTC------CCSSTTSEEEEECSGGGCCTTSTTHHHHHHHHH-HHCSSCEEEEESCTT
T ss_pred             HHHHHHH-HHHHHHHCCHHHHHHHH-HH-HCCCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHH-CCCCCCCCCCCCCCC
T ss_conf             1688999-99887631212101334-32-01455665137776301111100013467776540-123422211135555


Q ss_pred             HHHHHHC-CCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCH-HHHH
Q ss_conf             1577521-699738589999898999999750999999036999999999918985-7999
Q 001457          297 KEVCDEM-ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLP-NAIV  355 (1074)
Q Consensus       297 ~~v~~~~-~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glP-lai~  355 (1074)
                      ....... .....+++.+.+.++-...+...+..... .-.++...+|++.++|-. -||.
T Consensus       166 ~~~~~~l~~~~~~i~f~~~~~~~i~~~l~~i~~~e~i-~i~~~~l~~i~~~s~GDiR~ai~  225 (253)
T d1sxja2         166 LPKMRPFDRVCLDIQFRRPDANSIKSRLMTIAIREKF-KLDPNVIDRLIQTTRGDIRQVIN  225 (253)
T ss_dssp             SSTTGGGTTTSEEEECCCCCHHHHHHHHHHHHHHHTC-CCCTTHHHHHHHHTTTCHHHHHH
T ss_pred             CCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHCC-CCCHHHHHHHHHHCCCCHHHHHH
T ss_conf             2113532440365311453146788999999998099-99999999999967970999999

>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=98.54  E-value=2.5e-06  Score=53.07  Aligned_cols=175  Identities=14%  Similarity=0.148  Sum_probs=95.8

Q ss_pred             CCCCCCCHHHHHHHHHHH-HHCC-------CCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHH
Q ss_conf             954682139999999999-7229-------984159999948999188999999861-3998839999956896789999
Q 001457          158 EFVPLKSALEVIKSVMKL-LKDN-------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~-l~~~-------~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~  228 (1074)
                      ++.|++...+.+.+.+.. +...       -...+-+.++|++|+|||++|+.+++. ..+|   +.++.+.        
T Consensus         5 dv~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~GppGtGKT~l~~ala~~~~~~~---~~i~~~~--------   73 (258)
T d1e32a2           5 DVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVANETGAFF---FLINGPE--------   73 (258)
T ss_dssp             GCCSCSHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCTTSSHHHHHHHHHHHTTCEE---EEECHHH--------
T ss_pred             HHCCHHHHHHHHHHHHHHHHCCHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCEE---EEEECHH--------
T ss_conf             63109999999999999883199999867999886468766998883089999998748837---9997304--------


Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC-------------CCCCCC--CCCCCCCCEEEEEE
Q ss_conf             999998334777435999999999998704709999818654123-------------220266--88899998099996
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLD-------------LAVVGI--PYGEEHKGCKIILT  293 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~~-------------~~~~~~--~~~~~~~gs~iivT  293 (1074)
                            +.....+.. ......+.+.....++++|++||++....             ...+..  .......+.-||.|
T Consensus        74 ------l~~~~~g~~-~~~l~~~f~~A~~~~p~il~iDeid~l~~~r~~~~~~~~~~~~~~~~~~~~~~~~~~~vlvi~t  146 (258)
T d1e32a2          74 ------IMSKLAGES-ESNLRKAFEEAEKNAPAIIFIDELDAIAPKREKTHGEVERRIVSQLLTLMDGLKQRAHVIVMAA  146 (258)
T ss_dssp             ------HTTSCTTHH-HHHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCCCSSCEEEEEE
T ss_pred             ------HCCCCCCCH-HHHHHHHHHHHHHCCCEEEEEHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCCCEEEE
T ss_conf             ------302545617-8888999999986499499852111322578877770689998775001101234688117975


Q ss_pred             CCCHHHH-HHC----CCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHH
Q ss_conf             3881577-521----6997385899998989999997509999990369999999999189857
Q 001457          294 SRFKEVC-DEM----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       294 TR~~~v~-~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPl  352 (1074)
                      |...+-. ..+    .-++.+.++..+.++..++|..+........+  ....+|++.+.|.--
T Consensus       147 Tn~~~~ld~al~r~gRfd~~i~~~~P~~~~R~~il~~~l~~~~~~~~--~~~~~la~~t~G~s~  208 (258)
T d1e32a2         147 TNRPNSIDPALRRFGRFDREVDIGIPDATGRLEILQIHTKNMKLADD--VDLEQVANETHGHVG  208 (258)
T ss_dssp             ESCGGGSCGGGTSTTSSCEEEECCCCCHHHHHHHHHHTTTTSCBCTT--CCHHHHHHHCTTCCH
T ss_pred             CCCCCCCCHHHHHCCCCCCEEECCCCCHHHHHHHHHHHCCCCCCCCC--CCHHHHHHCCCCCCH
T ss_conf             79931025245424630232378999988999873220457633455--303444420667789

>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=98.53  E-value=7.4e-07  Score=56.43  Aligned_cols=176  Identities=14%  Similarity=0.177  Sum_probs=94.1

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHCC-------CCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHH
Q ss_conf             99546821399999999997229-------984159999948999188999999861-3998839999956896789999
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDN-------SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       157 ~~~~~~~~~~~~~~~l~~~l~~~-------~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~  228 (1074)
                      .+++|.+...+.+.+++..+...       ....+-|.++|++|+|||++|+.+++. ..+   .+.++.+      .+ 
T Consensus         9 ~di~G~~~~k~~l~~~i~~l~~~~~~~~~g~~~~~giLl~GppGtGKT~la~aia~~~~~~---~~~i~~~------~l-   78 (247)
T d1ixza_           9 KDVAGAEEAKEELKEIVEFLKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAGEARVP---FITASGS------DF-   78 (247)
T ss_dssp             GGCCSCHHHHHHHHHHHHHHHCHHHHHHTTCCCCSEEEEECCTTSSHHHHHHHHHHHTTCC---EEEEEHH------HH-
T ss_pred             HHHCCHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCHHHHHHHHHHHCCCC---EEEEEHH------HH-
T ss_conf             9971579999999999999879999997599988648876689888359999999873997---7997869------96-


Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCC----------------CCCCCCCCCC--CCCCCEEE
Q ss_conf             99999833477743599999999999870470999981865412----------------3220266888--99998099
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL----------------DLAVVGIPYG--EEHKGCKI  290 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~----------------~~~~~~~~~~--~~~~gs~i  290 (1074)
                         ..    ...+.+ ......+.+..+...+++|++||++...                ....+...+.  ....+.-|
T Consensus        79 ---~~----~~~g~~-~~~l~~~f~~a~~~~p~Ii~iDeid~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~viv  150 (247)
T d1ixza_          79 ---VE----MFVGVG-AARVRDLFETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVV  150 (247)
T ss_dssp             ---HH----SCTTHH-HHHHHHHHHHHTTSSSEEEEEETHHHHHC---------CHHHHHHHHHHHHHHHTCCTTCCEEE
T ss_pred             ---HH----CCCCHH-HHHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             ---46----245389-9999999999997699799997736647467899888758999999999999638777899899


Q ss_pred             EEECCCHHHH-HHC----CCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHH
Q ss_conf             9963881577-521----6997385899998989999997509999990369999999999189857
Q 001457          291 ILTSRFKEVC-DEM----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPN  352 (1074)
Q Consensus       291 ivTTR~~~v~-~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPl  352 (1074)
                      |.||...+-. ..+    .-++.+.++..+.++..++|+.+........+  .....+++.+.|..-
T Consensus       151 i~tTn~~~~ld~al~R~~Rf~~~i~~~~P~~~eR~~il~~~l~~~~~~~~--~~~~~la~~t~g~s~  215 (247)
T d1ixza_         151 MAATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAED--VDLALLAKRTPGFVG  215 (247)
T ss_dssp             EEEESCGGGSCGGGGSTTSSCEEEECCSCCHHHHHHHHHHHHTTSCBCTT--CCHHHHHHTCTTCCH
T ss_pred             EEECCCCCCCCHHHCCCCCCCEEEEECCCCHHHHHHHHHHHHCCCCCCCC--CCHHHHHHHCCCCCH
T ss_conf             98079940069967589878579997996999999999987506577654--689999977889889

>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=98.51  E-value=5.4e-06  Score=51.00  Aligned_cols=177  Identities=18%  Similarity=0.188  Sum_probs=96.8

Q ss_pred             CCCCCCCCHHHHHHHHHHHHHCCC-------CCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHH
Q ss_conf             995468213999999999972299-------84159999948999188999999861-3998839999956896789999
Q 001457          157 PEFVPLKSALEVIKSVMKLLKDNS-------ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       157 ~~~~~~~~~~~~~~~l~~~l~~~~-------~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~  228 (1074)
                      .++.|.+...+++.+++.++....       ...+.+.++|++|+|||++|+.+++. ..+|   +.++.+.-.+     
T Consensus        12 ~Di~Gl~~~k~~l~e~v~~~~~~~~~~~~g~~~~~~iLL~GppGtGKT~la~~iA~~~~~~~---~~i~~~~l~~-----   83 (256)
T d1lv7a_          12 ADVAGCDEAKEEVAELVEYLREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGEAKVPF---FTISGSDFVE-----   83 (256)
T ss_dssp             GGSCSCHHHHHHTHHHHHHHHCGGGC-----CCCCEEEEECCTTSCHHHHHHHHHHHHTCCE---EEECSCSSTT-----
T ss_pred             HHHHCHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCCCHHHHHHHHHCCCCE---EEEEHHHHHH-----
T ss_conf             99816399999999999998799999986999888678668998882289999999829987---9988699426-----


Q ss_pred             HHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCC------------C----CCCCCCCCC--CCCCCEEE
Q ss_conf             99999833477743599999999999870470999981865412------------3----220266888--99998099
Q 001457          229 DEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL------------D----LAVVGIPYG--EEHKGCKI  290 (1074)
Q Consensus       229 ~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~------------~----~~~~~~~~~--~~~~gs~i  290 (1074)
                               ...+.++ .....+.+..+...+++|++||++...            .    ...+...+.  ....+--|
T Consensus        84 ---------~~~g~~~-~~l~~~f~~A~~~~P~il~iDeiD~l~~~r~~~~~~~~~~~~~~~~~ll~~~d~~~~~~~v~v  153 (256)
T d1lv7a_          84 ---------MFVGVGA-SRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMDGFEGNEGIIV  153 (256)
T ss_dssp             ---------SCCCCCH-HHHHHHHHHHHTTCSEEEEETTHHHHTCCCSTTSCCTTCHHHHHHHHHHHHHHTCCSSSCEEE
T ss_pred             ---------CCHHHHH-HHHHHHHHHHHHCCCEEEEEECHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf             ---------0010789-999999999997599899997756657567898888748999999999999538777799899


Q ss_pred             EEECCCHHHH-HHC----CCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHHH
Q ss_conf             9963881577-521----69973858999989899999975099999903699999999991898579
Q 001457          291 ILTSRFKEVC-DEM----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       291 ivTTR~~~v~-~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPla  353 (1074)
                      |.||...+.. ..+    .-++.+.++..+.++..++|+.+........  ......+++.+.|..-|
T Consensus       154 IatTn~~~~ld~al~R~gRfd~~i~i~~P~~~~R~~il~~~l~~~~~~~--~~~~~~la~~t~G~s~a  219 (256)
T d1lv7a_         154 IAATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILKVHMRRVPLAP--DIDAAIIARGTPGFSGA  219 (256)
T ss_dssp             EEEESCTTTSCGGGGSTTSSCEEEECCCCCHHHHHHHHHHHHTTSCBCT--TCCHHHHHHTCTTCCHH
T ss_pred             EEECCCCCCCCHHHCCCCCCCEEEECCCCCHHHHHHHHHHHCCCCCCCC--CCCHHHHHHHCCCCCHH
T ss_conf             9807993107985768987877987799599999999998425998686--56999999868998999

>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=98.49  E-value=8.8e-07  Score=55.94  Aligned_cols=177  Identities=8%  Similarity=0.019  Sum_probs=97.9

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCC----
Q ss_conf             399999999997229984159999948999188999999861--39988399999568967899999999983347----
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTE----  238 (1074)
Q Consensus       165 ~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~~~----  238 (1074)
                      .+...+++.+.+..+. -.+.+.++|+.|+||||+|+.+++.  ......  +-......+    ...+.......    
T Consensus         7 ~~~~~~~l~~~~~~~~-l~h~lLl~Gp~G~GKtt~a~~~a~~l~~~~~~~--~~~~~~~~~----~~~i~~~~~~~~~~~   79 (207)
T d1a5ta2           7 LRPDFEKLVASYQAGR-GHHALLIQALPGMGDDALIYALSRYLLCQQPQG--HKSCGHCRG----CQLMQAGTHPDYYTL   79 (207)
T ss_dssp             GHHHHHHHHHHHHTTC-CCSEEEEECCTTSCHHHHHHHHHHHHTCSSCBT--TBCCSCSHH----HHHHHHTCCTTEEEE
T ss_pred             CHHHHHHHHHHHHCCC-CCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCC--CCCCCCCCH----HHHHHHCCCCCCCHH
T ss_conf             1999999999998599-673798889998759999999998210101232--122334201----556543034311012


Q ss_pred             ----CCCCHHHHHHHHHHHHHH----CCCEEEEEECCCCCCC--CCCCCCCCCCCCCCCEEEEEECCCHH-HHHHC-CCC
Q ss_conf             ----774359999999999987----0470999981865412--32202668889999809999638815-77521-699
Q 001457          239 ----LEGDVEVLRAAFLSERLK----RQKRVLIILDDLWGKL--DLAVVGIPYGEEHKGCKIILTSRFKE-VCDEM-EST  306 (1074)
Q Consensus       239 ----~~~~~~~~~~~~l~~~l~----~~k~~LiVlDdv~~~~--~~~~~~~~~~~~~~gs~iivTTR~~~-v~~~~-~~~  306 (1074)
                          .......+.+..+.+.+.    .+++-++|+|+++...  ....+...+-....+.++|+||++.. +.... ...
T Consensus        80 ~~~~~~~~i~~~~ir~l~~~~~~~~~~~~~kviIide~d~l~~~a~n~Llk~lEep~~~~~fIl~t~~~~~ll~tI~SRc  159 (207)
T d1a5ta2          80 APEKGKNTLGVDAVREVTEKLNEHARLGGAKVVWVTDAALLTDAAANALLKTLEEPPAETWFFLATREPERLLATLRSRC  159 (207)
T ss_dssp             CCCTTCSSBCHHHHHHHHHHTTSCCTTSSCEEEEESCGGGBCHHHHHHHHHHHTSCCTTEEEEEEESCGGGSCHHHHTTS
T ss_pred             HHHHCCCCCCCCHHHHHHHHHHHCCCCCCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCCEEEEEECCHHHHHHHHCCEE
T ss_conf             34313453332114677653211003576404773134420000149999999850111104553068655103200215


Q ss_pred             CEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHHHH
Q ss_conf             738589999898999999750999999036999999999918985799
Q 001457          307 NYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAI  354 (1074)
Q Consensus       307 ~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPlai  354 (1074)
                      ..+.+.+++.++....+.+...      -.++....|++.++|.|-.+
T Consensus       160 ~~i~~~~~~~~~~~~~L~~~~~------~~~~~~~~i~~~s~Gs~r~a  201 (207)
T d1a5ta2         160 RLHYLAPPPEQYAVTWLSREVT------MSQDALLAALRLSAGSPGAA  201 (207)
T ss_dssp             EEEECCCCCHHHHHHHHHHHCC------CCHHHHHHHHHHTTTCHHHH
T ss_pred             EEEECCCCCHHHHHHHHHHCCC------CCHHHHHHHHHHCCCCHHHH
T ss_conf             7882689999999999997489------99999999999769999999

>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=98.47  E-value=1e-06  Score=55.56  Aligned_cols=148  Identities=18%  Similarity=0.217  Sum_probs=85.4

Q ss_pred             CCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--C-----CCCCEEEEEEECCCCCHHHHHHHHHH
Q ss_conf             6821399999999997229984159999948999188999999861--3-----99883999995689678999999999
Q 001457          161 PLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--E-----IPFDKVIFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       161 ~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~-----~~F~~~~wv~v~~~~~~~~~~~~i~~  233 (1074)
                      +..||+++++++...|....  ..-+.++|.+|+|||+++..++.+  .     ...+..+|.-     +...++    .
T Consensus        23 ~~igRd~Ei~~l~~iL~r~~--k~n~lLvG~pGVGKTalv~~LA~ri~~~~vp~~L~~~~i~~l-----d~~~Li----A   91 (195)
T d1jbka_          23 PVIGRDEEIRRTIQVLQRRT--KNNPVLIGEPGVGKTAIVEGLAQRIINGEVPEGLKGRRVLAL-----DMGALV----A   91 (195)
T ss_dssp             CCCSCHHHHHHHHHHHTSSS--SCEEEEECCTTSCHHHHHHHHHHHHHHTCSCGGGTTCEEEEE-----CHHHHH----T
T ss_pred             CCCCCHHHHHHHHHHHHCCC--CCCEEEEECCCCCCHHHHHHHHHHHHHCCCCHHHCCCEEEEE-----EHHHHH----C
T ss_conf             87280999999999995358--887399835875447999999999980899978818569996-----699986----4


Q ss_pred             HHCCCCCCCHHHHHHHHHHHHH-HCCCEEEEEECCCCCCCC---------CCCCCCCCCCCCCCEEEEEECCCHHHHHHC
Q ss_conf             8334777435999999999998-704709999818654123---------220266888999980999963881577521
Q 001457          234 FLNTELEGDVEVLRAAFLSERL-KRQKRVLIILDDLWGKLD---------LAVVGIPYGEEHKGCKIILTSRFKEVCDEM  303 (1074)
Q Consensus       234 ~l~~~~~~~~~~~~~~~l~~~l-~~~k~~LiVlDdv~~~~~---------~~~~~~~~~~~~~gs~iivTTR~~~v~~~~  303 (1074)
                        +....+ .-+++...+.+.+ +..++.++++|++...-.         ...+..|... ...-++|.||...+.....
T Consensus        92 --g~~~rG-~~E~rl~~il~e~~~~~~~iILfIDeih~l~~~g~~~g~~d~~~~Lkp~L~-rg~l~~IgatT~eey~~~~  167 (195)
T d1jbka_          92 --GAKYRG-EFEERLKGVLNDLAKQEGNVILFIDELHTMVGAGKADGAMDAGNMLKPALA-RGELHCVGATTLDEYRQYI  167 (195)
T ss_dssp             --TTCSHH-HHHHHHHHHHHHHHHSTTTEEEEEETGGGGTT------CCCCHHHHHHHHH-TTSCCEEEEECHHHHHHHT
T ss_pred             --CCCCCH-HHHHHHHHHHHHHHCCCCCEEEECCHHHHHHCCCCCCCCCCHHHHHHHHHH-CCCCEEEECCCHHHHHHHH
T ss_conf             --587407-799999999998731798089972608998437877775238999999985-7995498518999999998


Q ss_pred             C-------CCCEEECCCCCHHHHHHHH
Q ss_conf             6-------9973858999989899999
Q 001457          304 E-------STNYVQVEELTDEDRLILF  323 (1074)
Q Consensus       304 ~-------~~~~~~l~~L~~~e~~~lf  323 (1074)
                      .       ....+.++..+.+++..++
T Consensus       168 e~d~aL~rrF~~I~V~Ep~~e~t~~IL  194 (195)
T d1jbka_         168 EKDAALERRFQKVFVAEPSVEDTIAIL  194 (195)
T ss_dssp             TTCHHHHTTEEEEECCCCCHHHHHTTC
T ss_pred             HCCHHHHHCCCEEECCCCCHHHHHHHH
T ss_conf             738899963987545898989999985

>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=4.1e-05  Score=45.46  Aligned_cols=175  Identities=15%  Similarity=0.102  Sum_probs=91.0

Q ss_pred             CCCCCCCCCCHHHHHHHHHHHHHC---CCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHH
Q ss_conf             899954682139999999999722---9984159999948999188999999861-399883999995689678999999
Q 001457          155 PTPEFVPLKSALEVIKSVMKLLKD---NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDE  230 (1074)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~l~~---~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~  230 (1074)
                      ++..+..+.|.++.++++..++..   .....+.+.++|++|+||||+|+.+++. ...   ..+++.+...........
T Consensus         4 RP~~~ddivGq~~~~~~L~~~i~~~~~~~~~~~~~Ll~GPpG~GKTtla~~la~~~~~~---~~~~~~~~~~~~~~~~~~   80 (239)
T d1ixsb2           4 RPKTLDEYIGQERLKQKLRVYLEAAKARKEPLEHLLLFGPPGLGKTTLAHVIAHELGVN---LRVTSGPAIEKPGDLAAI   80 (239)
T ss_dssp             CCCSGGGSCSCHHHHHHHHHHHHHHTTSSSCCCCEEEECCTTSCHHHHHHHHHHHHTCC---EEEEETTTCCSHHHHHHH
T ss_pred             CCCCHHHHCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHHHCCC---EEECCCCCCCCCHHHHHH
T ss_conf             97988894898999999999999787358888738988979987888999999984987---475468753432146899


Q ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCCC---------CC----CCCCCC-------CCCCCCEEE
Q ss_conf             9998334777435999999999998704709999818654123---------22----026688-------899998099
Q 001457          231 IARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKLD---------LA----VVGIPY-------GEEHKGCKI  290 (1074)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~~---------~~----~~~~~~-------~~~~~gs~i  290 (1074)
                      +...+                      ..+.++++|++.....         .+    ......       ....+...+
T Consensus        81 ~~~~~----------------------~~~~i~~iDe~~~~~~~~~~~l~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (239)
T d1ixsb2          81 LANSL----------------------EEGDILFIDEIHRLSRQAEEHLYPAMEDFVMDIVIGQGPAARTIRLELPRFTL  138 (239)
T ss_dssp             HHTTC----------------------CTTCEEEEETGGGCCHHHHHHHHHHHHHSEEEEECSCTTCCCEEEEECCCCEE
T ss_pred             HHHHC----------------------CCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHCCCCCCCEEE
T ss_conf             88510----------------------38873443110011044787500124333212110465565433468997799


Q ss_pred             EE-ECCCHHH--HHHCCCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHHHHH
Q ss_conf             99-6388157--75216997385899998989999997509999990369999999999189857999
Q 001457          291 IL-TSRFKEV--CDEMESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNAIV  355 (1074)
Q Consensus       291 iv-TTR~~~v--~~~~~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPlai~  355 (1074)
                      +. |++....  .........+.+...+.++..++....+... ......+....|++.++|-+-.+.
T Consensus       139 i~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~~~-~i~~~~~~l~~ia~~s~gd~R~a~  205 (239)
T d1ixsb2         139 IGATTRPGLITAPLLSRFGIVEHLEYYTPEELAQGVMRDARLL-GVRITEEAALEIGRRSRGTMRVAK  205 (239)
T ss_dssp             EEEESCCSSCSCGGGGGCSEEEECCCCCHHHHHHHHHHHHGGG-CCCBCHHHHHHHHHHTTSSHHHHH
T ss_pred             EEECCCCCCCCCHHHCCCCEEEEEECCCHHHHHHHHHHHHHHH-CCCCCHHHHHHHHHHCCCCHHHHH
T ss_conf             9630683334410101221456752057455557889999984-876526789999997699999999

>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=98.40  E-value=7e-06  Score=50.27  Aligned_cols=160  Identities=19%  Similarity=0.184  Sum_probs=86.3

Q ss_pred             HHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCCCHHHHHH
Q ss_conf             9999997229984159999948999188999999861-399883999995689678999999999833477743599999
Q 001457          170 KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRA  248 (1074)
Q Consensus       170 ~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~  248 (1074)
                      ..+..+....+.....+.|||+.|+|||.|++.+++. ......+++++.      ..+...+...+...        ..
T Consensus        23 ~~~~~~~~~~~~~~n~l~l~G~~G~GKTHLl~A~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~~~--------~~   88 (213)
T d1l8qa2          23 EVVKEALENLGSLYNPIFIYGSVGTGKTHLLQAAGNEAKKRGYRVIYSSA------DDFAQAMVEHLKKG--------TI   88 (213)
T ss_dssp             HHHHHHHHTTTTSCSSEEEECSSSSSHHHHHHHHHHHHHHTTCCEEEEEH------HHHHHHHHHHHHHT--------CH
T ss_pred             HHHHHHHHCCCCCCCCEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECH------HHHHHHHHHHHHCC--------CH
T ss_conf             99999986768778857998889983999999999874467650488443------78799999998716--------62


Q ss_pred             HHHHHHHHCCCEEEEEECCCCCC---CCCCC-CCCCCC-CCCCCEEEEEECCCHHH---------HHHCCCCCEEECCCC
Q ss_conf             99999987047099998186541---23220-266888-99998099996388157---------752169973858999
Q 001457          249 AFLSERLKRQKRVLIILDDLWGK---LDLAV-VGIPYG-EEHKGCKIILTSRFKEV---------CDEMESTNYVQVEEL  314 (1074)
Q Consensus       249 ~~l~~~l~~~k~~LiVlDdv~~~---~~~~~-~~~~~~-~~~~gs~iivTTR~~~v---------~~~~~~~~~~~l~~L  314 (1074)
                      ....+.+.  .--++++||+...   ..|+. +..-+. ....|.+||+|++....         ........++.++ .
T Consensus        89 ~~~~~~~~--~~dll~iDDi~~i~~~~~~~~~lf~lin~~~~~~~~iiits~~~p~~l~~~~~dL~SRL~~g~~~~i~-p  165 (213)
T d1l8qa2          89 NEFRNMYK--SVDLLLLDDVQFLSGKERTQIEFFHIFNTLYLLEKQIILASDRHPQKLDGVSDRLVSRFEGGILVEIE-L  165 (213)
T ss_dssp             HHHHHHHH--TCSEEEEECGGGGTTCHHHHHHHHHHHHHHHHTTCEEEEEESSCGGGCTTSCHHHHHHHHTSEEEECC-C
T ss_pred             HHHHHHHH--HCCCHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCEEEEECCCCCHHCCCCCHHHHHHHHCCEEEEEC-C
T ss_conf             66789876--21301011265505865778899999998763166389954875100134326788886185689978-8


Q ss_pred             CHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHH
Q ss_conf             989899999975099999903699999999991
Q 001457          315 TDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQC  347 (1074)
Q Consensus       315 ~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c  347 (1074)
                      ++++-.+++++++.... ..-.+++..-|++.+
T Consensus       166 ~d~~~~~iL~~~a~~rg-l~l~~~v~~yl~~~~  197 (213)
T d1l8qa2         166 DNKTRFKIIKEKLKEFN-LELRKEVIDYLLENT  197 (213)
T ss_dssp             CHHHHHHHHHHHHHHTT-CCCCHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHCC-CCCCHHHHHHHHHHC
T ss_conf             82799999999999829-999999999999856

>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=98.35  E-value=5.9e-05  Score=44.46  Aligned_cols=129  Identities=19%  Similarity=0.238  Sum_probs=64.8

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCE
Q ss_conf             4159999948999188999999861-399883999995689678999999999833477743599999999999870470
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKR  260 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~  260 (1074)
                      ..+-|.++|++|+|||++|+.+++. ...|   +.++.+....              ...+.........+.+......+
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~~~~~~---~~i~~~~~~~--------------g~~~~~~~~~i~~if~~A~~~~p  101 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEESNFPF---IKICSPDKMI--------------GFSETAKCQAMKKIFDDAYKSQL  101 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHHHTCSE---EEEECGGGCT--------------TCCHHHHHHHHHHHHHHHHTSSE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHCCCCCC---CCCCCCCCCC--------------CCCCCCHHHHHHHHHHHHHHCCC
T ss_conf             980799889699988999999862010023---3345652235--------------65421122444445655553242


Q ss_pred             EEEEECCCCCCCC------------CCCCCCCCCC-CCCCEE--EEEECCCHHHHHHC--CC--CCEEECCCCC-HHHHH
Q ss_conf             9999818654123------------2202668889-999809--99963881577521--69--9738589999-89899
Q 001457          261 VLIILDDLWGKLD------------LAVVGIPYGE-EHKGCK--IILTSRFKEVCDEM--ES--TNYVQVEELT-DEDRL  320 (1074)
Q Consensus       261 ~LiVlDdv~~~~~------------~~~~~~~~~~-~~~gs~--iivTTR~~~v~~~~--~~--~~~~~l~~L~-~~e~~  320 (1074)
                      ++|++|+++....            ...+...+.. ...+.+  ||.||...+.....  ..  ...+.++.++ .++-+
T Consensus       102 ~il~iDEid~l~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~~v~vi~tTn~~~~ld~~~~~~rF~~~i~~P~~~~r~~il  181 (246)
T d1d2na_         102 SCVVVDDIERLLDYVPIGPRFSNLVLQALLVLLKKAPPQGRKLLIIGTTSRKDVLQEMEMLNAFSTTIHVPNIATGEQLL  181 (246)
T ss_dssp             EEEEECCHHHHTTCBTTTTBCCHHHHHHHHHHTTCCCSTTCEEEEEEEESCHHHHHHTTCTTTSSEEEECCCEEEHHHHH
T ss_pred             CEEEHHHHHHHHHHCCCCCCHHHHHHHHHHHHHCCCCCCCCCEEEEECCCCHHHCCCHHHCCCCCEEEECCCCHHHHHHH
T ss_conf             22331025667651345441247899999998607776545014553248832256102018663388559910599999


Q ss_pred             HHHHHHC
Q ss_conf             9999750
Q 001457          321 ILFKKKA  327 (1074)
Q Consensus       321 ~lf~~~~  327 (1074)
                      +.+....
T Consensus       182 ~~l~~~~  188 (246)
T d1d2na_         182 EALELLG  188 (246)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHCC
T ss_conf             9997426

>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=98.31  E-value=6.1e-06  Score=50.66  Aligned_cols=178  Identities=14%  Similarity=0.203  Sum_probs=94.4

Q ss_pred             CCCCCCCCCHHHHHHHHHHH-HHC-------CCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHH
Q ss_conf             99954682139999999999-722-------9984159999948999188999999861-39988399999568967899
Q 001457          156 TPEFVPLKSALEVIKSVMKL-LKD-------NSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKR  226 (1074)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~-l~~-------~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~  226 (1074)
                      -.++.|++...+.+.+.+.. +..       .-...+.|.++|++|+|||++|+.++.. ..+|     +.++    ...
T Consensus         6 f~di~G~~~~k~~l~~~i~~~l~~~~~~~~~g~~~~~giLL~Gp~GtGKT~l~~ala~~~~~~~-----~~~~----~~~   76 (265)
T d1r7ra3           6 WEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIANECQANF-----ISIK----GPE   76 (265)
T ss_dssp             CSSCSSSSCCCCHHHHHTHHHHHCHHHHHHCCCCCCCEEEEBCCTTSSHHHHHHHHHHHTTCEE-----EEEC----HHH
T ss_pred             HHHHCCHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCEEEEECCCCCCCHHHHHHHHHHHCCCE-----EEEE----HHH
T ss_conf             9996678999999999999996399999867999887578878998763047788787718947-----9988----799


Q ss_pred             HHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCC--------C--------CCCCCCCCC--CCCCCE
Q ss_conf             9999999833477743599999999999870470999981865412--------3--------220266888--999980
Q 001457          227 VQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGKL--------D--------LAVVGIPYG--EEHKGC  288 (1074)
Q Consensus       227 ~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~~--------~--------~~~~~~~~~--~~~~gs  288 (1074)
                      +    .    ....+... .....+........+++|++||++...        +        ...+...+.  ....+-
T Consensus        77 l----~----~~~~~~~~-~~l~~~f~~A~~~~p~il~ideid~l~~~~~~~~~~~~~~~~~~~~~ll~~l~~~~~~~~v  147 (265)
T d1r7ra3          77 L----L----TMWFGESE-ANVREIFDKARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNV  147 (265)
T ss_dssp             H----H----TSCTTTHH-HHHHHHHHHHHHTCSEEEEESSGGGTCCHHHHCCCTTHHHHHHHHHHHHHTCC------CC
T ss_pred             H----H----HCCCCCHH-HHHHHHHHHHHHCCCCCEEHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCE
T ss_conf             5----2----53165158-9999999999863984356875463245578767887379999999999996286777998


Q ss_pred             EEEEECCCHHHH-HHC----CCCCEEECCCCCHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHCCCHHH
Q ss_conf             999963881577-521----69973858999989899999975099999903699999999991898579
Q 001457          289 KIILTSRFKEVC-DEM----ESTNYVQVEELTDEDRLILFKKKAGLPEGTKAFDRAAEEVVRQCGKLPNA  353 (1074)
Q Consensus       289 ~iivTTR~~~v~-~~~----~~~~~~~l~~L~~~e~~~lf~~~~~~~~~~~~~~~~~~~i~~~c~glPla  353 (1074)
                      -||.||...+-. ..+    ..+..++++..+.++-.++|+.+........  +....++++++.|...+
T Consensus       148 ~vi~ttn~~~~ld~al~r~gRf~~~i~~~~p~~~~R~~il~~~l~~~~~~~--~~~l~~la~~t~g~s~~  215 (265)
T d1r7ra3         148 FIIGATNRPDIIDPAILRPGRLDQLIYIPLPDEKSRVAILKANLRKSPVAK--DVDLEFLAKMTNGFSGA  215 (265)
T ss_dssp             EEEECCBSCTTTSCGGGSSTTSEEEEECCCCCCHHHHHHHHHHTTCC------CCCCHHHHHHHCSSCCH
T ss_pred             EEEEECCCCHHCCHHHHCCCCCCEEEEECCHHHHHHHHHHHHHHCCCCCHH--HHHHHHHHHCCCCCCHH
T ss_conf             999917992227997807877647999566078889999999960577102--43689998258999999

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=97.66  E-value=0.0008  Score=37.30  Aligned_cols=125  Identities=14%  Similarity=0.062  Sum_probs=66.5

Q ss_pred             HHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-----CCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCCCCCHH
Q ss_conf             999997229984159999948999188999999861-----39988399999568-967899999999983347774359
Q 001457          171 SVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-----EIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTELEGDVE  244 (1074)
Q Consensus       171 ~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-----~~~F~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~~~~~~  244 (1074)
                      -+-.++....  ...+.++|.+|+|||++|....+.     ..|.| ..++...+ ...+..+ +++.+.+....     
T Consensus         5 ~l~~~i~~~~--~~~~l~~G~~g~gk~~~a~~l~~~i~~~~~~h~D-~~~i~~~~~~I~Id~I-R~i~~~~~~~~-----   75 (198)
T d2gnoa2           5 TLKRIIEKSE--GISILINGEDLSYPREVSLELPEYVEKFPPKASD-VLEIDPEGENIGIDDI-RTIKDFLNYSP-----   75 (198)
T ss_dssp             HHHHHHHTCS--SEEEEEECSSSSHHHHHHHHHHHHHHTSCCCTTT-EEEECCSSSCBCHHHH-HHHHHHHTSCC-----
T ss_pred             HHHHHHHCCC--CCEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCC-EEEEECCCCCCCHHHH-HHHHHHHHHCC-----
T ss_conf             9999996699--8559988989988899999999998434567998-8998077678998999-99999996175-----


Q ss_pred             HHHHHHHHHHHHCCCEEEEEECCCCCC--CCCCCCCCCCCCCCCCEEEEEECCC-HHHHHHCC-CCCEEECCCCC
Q ss_conf             999999999987047099998186541--2322026688899998099996388-15775216-99738589999
Q 001457          245 VLRAAFLSERLKRQKRVLIILDDLWGK--LDLAVVGIPYGEEHKGCKIILTSRF-KEVCDEME-STNYVQVEELT  315 (1074)
Q Consensus       245 ~~~~~~l~~~l~~~k~~LiVlDdv~~~--~~~~~~~~~~~~~~~gs~iivTTR~-~~v~~~~~-~~~~~~l~~L~  315 (1074)
                                . .+++-++|+|++...  ....++...+-....++.+|++|.+ ..+..... ....+.+++..
T Consensus        76 ----------~-~~~~KviIId~ad~l~~~aqNaLLK~LEEPp~~t~fiLit~~~~~ll~TI~SRC~~i~~~~p~  139 (198)
T d2gnoa2          76 ----------E-LYTRKYVIVHDCERMTQQAANAFLKALEEPPEYAVIVLNTRRWHYLLPTIKSRVFRVVVNVPK  139 (198)
T ss_dssp             ----------S-SSSSEEEEETTGGGBCHHHHHHTHHHHHSCCTTEEEEEEESCGGGSCHHHHTTSEEEECCCCH
T ss_pred             ----------C-CCCCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCEEEECCCCHHHCHHHHHCCEEEEECCCCH
T ss_conf             ----------4-589879999473103666664788877378988522220699566878873522777679936

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.63  E-value=0.00032  Score=39.78  Aligned_cols=85  Identities=15%  Similarity=0.223  Sum_probs=59.4

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCC------CHHHHHHHHHHH
Q ss_conf             84159999948999188999999861-39988399999568967899999999983347774------359999999999
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEG------DVEVLRAAFLSE  253 (1074)
Q Consensus       181 ~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~  253 (1074)
                      ..-+++-|+|..|.||||+|.+++.. +..-..++|++..+.++...     ++++|.+.+.      ...++..+.+..
T Consensus        58 ~~g~i~e~~G~~~~GKT~l~l~~~~~~q~~g~~~vyIDtE~~~~~e~-----a~~~GvD~d~il~~~~~~~E~~~~~~~~  132 (269)
T d1mo6a1          58 PRGRVIEIYGPESSGKTTVALHAVANAQAAGGVAAFIDAEHALDPDY-----AKKLGVDTDSLLVSQPDTGEQALEIADM  132 (269)
T ss_dssp             CSSSEEEEECSSSSSHHHHHHHHHHHHHHTTCEEEEEESSCCCCHHH-----HHHHTCCGGGCEEECCSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHH-----HHHHCCCHHHEEEECCCCHHHHHHHHHH
T ss_conf             66336999648874889999999998754898899998976679999-----9980998899589669989999999999


Q ss_pred             HHHCCCEEEEEECCCCC
Q ss_conf             98704709999818654
Q 001457          254 RLKRQKRVLIILDDLWG  270 (1074)
Q Consensus       254 ~l~~~k~~LiVlDdv~~  270 (1074)
                      ..+.++.-|||+|.+-.
T Consensus       133 l~~~~~~~liIiDSi~a  149 (269)
T d1mo6a1         133 LIRSGALDIVVIDSVAA  149 (269)
T ss_dssp             HHHTTCEEEEEEECSTT
T ss_pred             HHHCCCCCEEEEECCCC
T ss_conf             98559987899933024

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Deinococcus radiodurans [TaxId: 1299]

Probab=97.44  E-value=0.00044  Score=38.94  Aligned_cols=84  Identities=19%  Similarity=0.221  Sum_probs=58.3

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCC------CHHHHHHHHHHHH
Q ss_conf             4159999948999188999999861-39988399999568967899999999983347774------3599999999999
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEG------DVEVLRAAFLSER  254 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~~  254 (1074)
                      .-+++-|+|.+|.|||++|.+++.. +..-..++|++....++..     +++.+|.+.+.      ...++..+.+...
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~aqk~g~~v~yiDtE~~~~~~-----~a~~~Gvd~d~i~~~~~~~~E~~~~~~~~l  130 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQAQKAGGTCAFIDAEHALDPV-----YARALGVNTDELLVSQPDNGEQALEIMELL  130 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHH-----HHHHTTCCGGGCEEECCSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCCHH-----HHHHHCCCCHHEEEECCCCHHHHHHHHHHH
T ss_conf             754789805876522799999999997079989999887658999-----999828981237997489999999999999


Q ss_pred             HHCCCEEEEEECCCCC
Q ss_conf             8704709999818654
Q 001457          255 LKRQKRVLIILDDLWG  270 (1074)
Q Consensus       255 l~~~k~~LiVlDdv~~  270 (1074)
                      .+.+..-|||+|-+-.
T Consensus       131 ~~~~~~~liIiDSi~a  146 (268)
T d1xp8a1         131 VRSGAIDVVVVDSVAA  146 (268)
T ss_dssp             HTTTCCSEEEEECTTT
T ss_pred             HHCCCCCEEEEECCCC
T ss_conf             8658971999945454

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=97.42  E-value=0.00053  Score=38.45  Aligned_cols=83  Identities=22%  Similarity=0.268  Sum_probs=56.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCC------CHHHHHHHHHHHHH
Q ss_conf             159999948999188999999861-39988399999568967899999999983347774------35999999999998
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEG------DVEVLRAAFLSERL  255 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~------~~~~~~~~~l~~~l  255 (1074)
                      -+++-|+|.+|.||||+|-+++.. ...-..++|++....++...     ++.++.+.+.      ...++..+.+....
T Consensus        54 g~itei~G~~gsGKTtl~l~~~~~~q~~g~~~vyidtE~~~~~~~-----a~~~Gvd~d~v~~~~~~~~E~~~~~i~~l~  128 (263)
T d1u94a1          54 GRIVEIYGPESSGKTTLTLQVIAAAQREGKTCAFIDAEHALDPIY-----ARKLGVDIDNLLCSQPDTGEQALEICDALA  128 (263)
T ss_dssp             TSEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEESSCCCCHHH-----HHHTTCCGGGCEEECCSSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHH-----HHHHCCCHHHEEEECCCCHHHHHHHHHHHH
T ss_conf             358998057774789999999999870898799986544548999-----998399879979962898999999999998


Q ss_pred             HCCCEEEEEECCCCC
Q ss_conf             704709999818654
Q 001457          256 KRQKRVLIILDDLWG  270 (1074)
Q Consensus       256 ~~~k~~LiVlDdv~~  270 (1074)
                      +.++.-|||+|-+..
T Consensus       129 ~~~~~~liViDSi~a  143 (263)
T d1u94a1         129 RSGAVDVIVVDSVAA  143 (263)
T ss_dssp             HHTCCSEEEEECGGG
T ss_pred             HCCCCCEEEEECCCC
T ss_conf             549998999988655

>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=97.36  E-value=3e-05  Score=46.32  Aligned_cols=42  Identities=24%  Similarity=0.323  Sum_probs=20.6

Q ss_pred             HHCCCCCCEEEECCCCCCCCC---CCCCCCCCCCEEECCCCCCCC
Q ss_conf             732897319980287457779---973377457766536887899
Q 001457          551 FEHTREIKNLDLSSTNISSLA---PSLPCLEKLRSLHLENTHLND  592 (1074)
Q Consensus       551 ~~~l~~L~~L~L~~~~i~~l~---~~i~~l~~Lr~L~L~~~~l~~  592 (1074)
                      +..++.|++|++++|.++.+.   ..+..+++|+.|++++|.+++
T Consensus        61 ~~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~  105 (162)
T d1koha1          61 EENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKS  105 (162)
T ss_dssp             HHHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCC
T ss_pred             HHHCCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCC
T ss_conf             974878788637776666773158898658856100043572134

>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=97.29  E-value=4.4e-06  Score=51.56  Aligned_cols=80  Identities=21%  Similarity=0.233  Sum_probs=41.5

Q ss_pred             CCCCCCCEEECCCCCCCCC----CCCCCCCCCCEEEEECCCCCCCCC-CCCCCCCCCEEECCCCCCCCCCCH------HH
Q ss_conf             3774577665368878997----000278975399820787865683-113888878884888968987693------33
Q 001457          575 PCLEKLRSLHLENTHLNDA----SLIREFGELEVLILKGSRIVELPN-GIGTVSNLKLLDLSNNLFLQVIPP------NV  643 (1074)
Q Consensus       575 ~~l~~Lr~L~L~~~~l~~~----~~i~~l~~L~~L~L~~~~i~~lp~-~i~~L~~L~~L~l~~~~~~~~~p~------~~  643 (1074)
                      ..+++|++|++++|.++..    ..+..+++|+.|+++++.|+.++. ......+|+.|++.+|.+......      .+
T Consensus        62 ~~~~~L~~L~Ls~N~i~~l~~~~~~~~~l~~L~~L~Ls~N~i~~l~~l~~l~~~~L~~L~L~~Npl~~~~~~~~~y~~~i  141 (162)
T d1koha1          62 ENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEELWLDGNSLSDTFRDQSTYISAI  141 (162)
T ss_dssp             HHCTTCCCCCCCSSCCCCCSGGGTHHHHSTTCCCCCCTTSCCCCGGGHHHHTTCCCSSCCCTTSTTSSSSSSHHHHHHHH
T ss_pred             HHCCCCCEEECCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCCCCHHHHHHHCCCCCEEECCCCCCCCCCCCCHHHHHHH
T ss_conf             74878788637776666773158898658856100043572134234422203310426648997676766615699999


Q ss_pred             HCCCCCCCEEE
Q ss_conf             21999769998
Q 001457          644 ISKLSQLEELY  654 (1074)
Q Consensus       644 l~~l~~L~~L~  654 (1074)
                      +..+++|+.|+
T Consensus       142 ~~~~P~L~~LD  152 (162)
T d1koha1         142 RERFPKLLRLD  152 (162)
T ss_dssp             HTTSTTCCEET
T ss_pred             HHHCCCCCEEC
T ss_conf             99889978799

>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=97.20  E-value=0.00013  Score=42.33  Aligned_cols=24  Identities=29%  Similarity=0.455  Sum_probs=21.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .+.+.++|++|+|||.||+.+++.
T Consensus        49 ~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          49 PKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHC
T ss_conf             866999899998888999998621

>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=96.97  E-value=0.00091  Score=36.95  Aligned_cols=44  Identities=18%  Similarity=0.193  Sum_probs=29.7

Q ss_pred             HHHHHHHHHHHCC---CCCEEEEEEECCCCCCHHHHHHHHHHH-CCCC
Q ss_conf             9999999997229---984159999948999188999999861-3998
Q 001457          167 EVIKSVMKLLKDN---SISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       167 ~~~~~l~~~l~~~---~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F  210 (1074)
                      +.+.+.+..+...   ...++.|.++|++|+||||+|+.+++. ...|
T Consensus        13 ~~~~~~~~~~~~~~~~~~~P~~ilL~GpPGtGKT~la~~la~~~~~~~   60 (273)
T d1gvnb_          13 NRLNDNLEELIQGKKAVESPTAFLLGGQPGSGKTSLRSAIFEETQGNV   60 (273)
T ss_dssp             HHHHHHHHHHHTTCCCCSSCEEEEEECCTTSCTHHHHHHHHHHTTTCC
T ss_pred             HHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCE
T ss_conf             999999999984152789997999889799889999999999865154

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.97  E-value=0.00066  Score=37.84  Aligned_cols=36  Identities=25%  Similarity=0.234  Sum_probs=26.6

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEE
Q ss_conf             4159999948999188999999861-39988399999
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVR  217 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~  217 (1074)
                      +.-+|+|.|.+|.||||+|+.+... .........++
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~~l~~~~~~~~~~~   57 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQTLREQGISVCVFH   57 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHHHHHHTTCCEEEEE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHCCCCCCCEECC
T ss_conf             9889997898878999999999998363466520012

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.97  E-value=0.0063  Score=31.67  Aligned_cols=88  Identities=17%  Similarity=0.305  Sum_probs=56.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEEECCCC-CHHHHHHHHHHHHCC-------------CCCCCHHHH-
Q ss_conf             59999948999188999999861--3998839999956896-789999999998334-------------777435999-
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP-DVKRVQDEIARFLNT-------------ELEGDVEVL-  246 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~v~~~~-~~~~~~~~i~~~l~~-------------~~~~~~~~~-  246 (1074)
                      .-++|.|..|+|||+|+..+.+.  +.+-+.++++-+.+.. ...++.+...+.--.             ....++... 
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~~~~~~~~v~V~~~iGer~~ev~~~~~~~~~~~~~~~~~~~~~tvvv~~~s~~~~~~r  148 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINNVAKAHGGYSVFAGVGERTREGNDLYHEMIESGVINLKDATSKVALVYGQMNEPPGAR  148 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHHHTTTCSSEEEEEEESCCHHHHHHHHHHHHHHTSSCSSSSCCCEEEEEECTTSCHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEEEECCCHHHHHHHHHHHHHCCCCCCCCCCCEEEEEEECCCCCHHHH
T ss_conf             87776679998989999999998876179969999955575999999999886176545666423899997899999999


Q ss_pred             -----HHHHHHHHHH--CCCEEEEEECCCCCC
Q ss_conf             -----9999999987--047099998186541
Q 001457          247 -----RAAFLSERLK--RQKRVLIILDDLWGK  271 (1074)
Q Consensus       247 -----~~~~l~~~l~--~~k~~LiVlDdv~~~  271 (1074)
                           .+-.+-+++.  .+++.|+++||+...
T Consensus       149 ~~~~~~a~~iAEyf~~~~G~~VLv~~Dsltr~  180 (276)
T d2jdid3         149 ARVALTGLTVAEYFRDQEGQDVLLFIDNIFRF  180 (276)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSCEEEEEECTHHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCEEEEEECCHHHH
T ss_conf             99999999999998863798489997060689

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=96.92  E-value=0.00046  Score=38.81  Aligned_cols=35  Identities=14%  Similarity=0.006  Sum_probs=28.0

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEE
Q ss_conf             159999948999188999999861--39988399999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVR  217 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~  217 (1074)
                      ..+|.++|++|.||||+|+.+...  ...++...++.
T Consensus         6 g~~I~l~G~~GsGKTTia~~La~~L~~~~~~~~~~~~   42 (183)
T d1m8pa3           6 GFTIFLTGYMNSGKDAIARALQVTLNQQGGRSVSLLL   42 (183)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHCSSCEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf             7699988999999999999999998650798403211

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=96.91  E-value=0.0029  Score=33.76  Aligned_cols=39  Identities=23%  Similarity=0.329  Sum_probs=32.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCC
Q ss_conf             159999948999188999999861-399883999995689
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQT  221 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~  221 (1074)
                      -.++.|+|.+|+|||++|.++... ..+...++|++....
T Consensus        26 gsl~li~G~pGsGKT~l~~qia~~~~~~~~~~~~is~e~~   65 (242)
T d1tf7a2          26 DSIILATGATGTGKTLLVSRFVENACANKERAILFAYEES   65 (242)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEESSSC
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCEEECCCC
T ss_conf             8499999189999999999999999872324411212679

>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=96.90  E-value=0.0013  Score=35.94  Aligned_cols=103  Identities=15%  Similarity=0.250  Sum_probs=54.3

Q ss_pred             CCCHHHHHHHHHHHHH-------CCCCCEEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCHHHHHHHHHHH
Q ss_conf             8213999999999972-------299841599999489991889999998613998839999956896789999999998
Q 001457          162 LKSALEVIKSVMKLLK-------DNSISINIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       162 ~~~~~~~~~~l~~~l~-------~~~~~~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv~v~~~~~~~~~~~~i~~~  234 (1074)
                      +.|.++.++.+...+.       +.+....++..+|+.|+|||.||+.++.--  +...+-++.+.-.+...    +.+-
T Consensus        24 viGQ~~a~~~v~~~v~~~~~~l~~~~~p~~~~lf~Gp~GvGKT~lak~la~~l--~~~~i~~d~s~~~~~~~----~~~l   97 (315)
T d1r6bx3          24 VFGQDKAIEALTEAIKMARAGLGHEHKPVGSFLFAGPTGVGKTEVTVQLSKAL--GIELLRFDMSEYMERHT----VSRL   97 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHHTTCSCTTSCSEEEEEECSTTSSHHHHHHHHHHHH--TCEEEEEEGGGCSSSSC----CSSS
T ss_pred             ECCHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHC--CCCEEEECCCCCCCHHH----HHHH
T ss_conf             64859999999999999972678888876589997787500699999998633--67706741544455446----6652


Q ss_pred             HCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCC
Q ss_conf             3347774359999999999987047099998186541
Q 001457          235 LNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       235 l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~  271 (1074)
                      ++. ..+.........+.+.+......+++||+++..
T Consensus        98 ~g~-~~gy~g~~~~~~l~~~~~~~~~~vvl~DeieKa  133 (315)
T d1r6bx3          98 IGA-PPGYVGFDQGGLLTDAVIKHPHAVLLLDEIEKA  133 (315)
T ss_dssp             CCC-CSCSHHHHHTTHHHHHHHHCSSEEEEEETGGGS
T ss_pred             CCC-CCCCCCCCCCCHHHHHHHHCCCCHHHHCCCCCC
T ss_conf             146-787501146870337777385430221222301

>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=96.89  E-value=0.0016  Score=35.46  Aligned_cols=102  Identities=20%  Similarity=0.278  Sum_probs=54.6

Q ss_pred             CCCHHHHHHHHHHHHH-------CCCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCH---HHHHHH
Q ss_conf             8213999999999972-------29984159999948999188999999861-399883999995689678---999999
Q 001457          162 LKSALEVIKSVMKLLK-------DNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDV---KRVQDE  230 (1074)
Q Consensus       162 ~~~~~~~~~~l~~~l~-------~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~---~~~~~~  230 (1074)
                      +.|.++.++.+...+.       +......++..+|+.|+|||.+|+.+... -..-...+-++.+.-.+.   ..+...
T Consensus        25 v~GQ~~ai~~v~~~i~~~~~~l~~~~kp~~~~lf~Gp~G~GKt~lak~la~~l~~~~~~~~~~~~~~~~~~~~~~~L~g~  104 (315)
T d1qvra3          25 VVGQDEAIRAVADAIRRARAGLKDPNRPIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHAVSRLIGA  104 (315)
T ss_dssp             SCSCHHHHHHHHHHHHHHGGGCSCSSSCSEEEEEBSCSSSSHHHHHHHHHHHHHSSGGGEEEECTTTCCSSGGGGGC---
T ss_pred             EECHHHHHHHHHHHHHHHHCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCHHHHHHCCC
T ss_conf             70879999999999999865789988876699997888624899999999983588753488731554542156651489


Q ss_pred             HHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEEEEECCCCCC
Q ss_conf             99983347774359999999999987047099998186541
Q 001457          231 IARFLNTELEGDVEVLRAAFLSERLKRQKRVLIILDDLWGK  271 (1074)
Q Consensus       231 i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~LiVlDdv~~~  271 (1074)
                      -....|.        .....+.+.++.....++++|+++..
T Consensus       105 ~~gyvG~--------~~~~~l~~~~~~~p~~Vvl~DEieK~  137 (315)
T d1qvra3         105 PPGYVGY--------EEGGQLTEAVRRRPYSVILFDEIEKA  137 (315)
T ss_dssp             -------------------CHHHHHHHCSSEEEEESSGGGS
T ss_pred             CCCCCCC--------CCCCHHHHHHHHCCCCEEEEEHHHHC
T ss_conf             9987674--------66784899998499837997147540

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=96.75  E-value=0.00051  Score=38.52  Aligned_cols=24  Identities=17%  Similarity=0.408  Sum_probs=22.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .+.|+|.|+.|+||||||+.+...
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             328999899999899999999998

>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=96.72  E-value=0.0092  Score=30.61  Aligned_cols=86  Identities=17%  Similarity=0.110  Sum_probs=47.7

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCH--HHHHHHHHHHHCCCCCCC----HHHHHHHHHHHH
Q ss_conf             4159999948999188999999861-399883999995689678--999999999833477743----599999999999
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDV--KRVQDEIARFLNTELEGD----VEVLRAAFLSER  254 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~--~~~~~~i~~~l~~~~~~~----~~~~~~~~l~~~  254 (1074)
                      .+.||.++|+.|+||||-+.+++.. +. ....+.+-..+.+..  .+-++..++.++.+....    ..........+.
T Consensus         8 ~p~vi~lvGptGvGKTTTiAKLA~~~~~-~g~kV~lit~Dt~R~gA~eQL~~~a~~l~v~~~~~~~~~d~~~~l~~~~~~   86 (211)
T d2qy9a2           8 APFVILMVGVNGVGKTTTIGKLARQFEQ-QGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQA   86 (211)
T ss_dssp             TTEEEEEECCTTSCHHHHHHHHHHHHHT-TTCCEEEECCCTTCHHHHHHHHHHHHHTTCCEECCSTTCCHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCCEEEEECCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHH
T ss_conf             9979999899999989999999999997-799479982321366612045554343388621135687799999999999


Q ss_pred             HHCCCEEEEEECCC
Q ss_conf             87047099998186
Q 001457          255 LKRQKRVLIILDDL  268 (1074)
Q Consensus       255 l~~~k~~LiVlDdv  268 (1074)
                      .+....=+|++|-.
T Consensus        87 a~~~~~d~ilIDTa  100 (211)
T d2qy9a2          87 AKARNIDVLIADTA  100 (211)
T ss_dssp             HHHTTCSEEEECCC
T ss_pred             HHHCCCCEEEECCC
T ss_conf             98769988996568

>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=96.69  E-value=0.00088  Score=37.04  Aligned_cols=32  Identities=25%  Similarity=0.377  Sum_probs=25.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEE
Q ss_conf             159999948999188999999861--39988399
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVI  214 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~  214 (1074)
                      .+|++|+|..|.|||||++++...  .+.+...+
T Consensus         2 ~Pvi~itG~~GSGKTTL~~~L~~~l~~~g~~v~v   35 (170)
T d1np6a_           2 IPLLAFAAWSGTGKTTLLKKLIPALCARGIRPGL   35 (170)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCCEEEE
T ss_conf             7889999189998999999999999977976877

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=96.65  E-value=0.0028  Score=33.86  Aligned_cols=59  Identities=15%  Similarity=0.229  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--CCCCC-EEEEEEECCCCC
Q ss_conf             399999999997229984159999948999188999999861--39988-399999568967
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFD-KVIFVRVTQTPD  223 (1074)
Q Consensus       165 ~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~-~~~wv~v~~~~~  223 (1074)
                      ......+++..+.....+..+|+|.|++|.|||||..++...  ...+. .++-++.+..++
T Consensus        33 ~~~~~~~~~~~~~~~~~~~~~igitG~pGaGKSTli~~l~~~~~~~g~~vaViavDpss~~~   94 (323)
T d2qm8a1          33 HRAAVRDLIDAVLPQTGRAIRVGITGVPGVGKSTTIDALGSLLTAAGHKVAVLAVDPSSTRT   94 (323)
T ss_dssp             HHHHHHHHHHHHGGGCCCSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEEEECGGGGSS
T ss_pred             HHHHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCHHH
T ss_conf             38999999998633069815986117998889999999999876368751344346554787

>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=96.64  E-value=0.00068  Score=37.75  Aligned_cols=11  Identities=27%  Similarity=0.462  Sum_probs=3.8

Q ss_pred             CCCEEECCCCC
Q ss_conf             57766536887
Q 001457          579 KLRSLHLENTH  589 (1074)
Q Consensus       579 ~Lr~L~L~~~~  589 (1074)
                      +|+.|++++|.
T Consensus        45 ~L~~L~Ls~n~   55 (167)
T d1pgva_          45 HIEKFSLANTA   55 (167)
T ss_dssp             CCCEEECTTSC
T ss_pred             CCCEEECCCCC
T ss_conf             64540120156

>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=96.64  E-value=0.003  Score=33.65  Aligned_cols=67  Identities=18%  Similarity=0.142  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEE--EEEEECCCCCHHHHHHHHHH
Q ss_conf             9999999997229984159999948999188999999861-3998839--99995689678999999999
Q 001457          167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKV--IFVRVTQTPDVKRVQDEIAR  233 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~--~wv~v~~~~~~~~~~~~i~~  233 (1074)
                      +...+++..+.....+..+|+|+|++|+|||||...+... ......+  +-++.+..++-..++.+-.+
T Consensus        38 ~~~~~ll~~~~~~~~~~~~IgitG~pGaGKSTLi~~l~~~~~~~g~~vavlavDpss~~~ggailgdr~r  107 (327)
T d2p67a1          38 ALSTQLLDAIMPYCGNTLRLGVTGTPGAGKSTFLEAFGMLLIREGLKVAVIAVDPSSPVTGGSILGDKTR  107 (327)
T ss_dssp             HHHHHHHHHHGGGCSCSEEEEEEECTTSCHHHHHHHHHHHHHHTTCCEEEEEECCC--------------
T ss_pred             HHHHHHHHHHHHCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEECCCCCEEEECCCCCCCHHH
T ss_conf             9999999986531698328974389999899999999999975698332203777610006515541367

>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=96.59  E-value=0.0015  Score=35.63  Aligned_cols=37  Identities=24%  Similarity=0.467  Sum_probs=27.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECC
Q ss_conf             59999948999188999999861-39988399999568
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ  220 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~  220 (1074)
                      +.|+|+|-||+||||+|..+... ...-..+.-|+...
T Consensus         2 r~Iai~gKGGvGKTT~a~nLA~~LA~~G~rVllID~D~   39 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNLTSGLHAMGKTIMVVGCDP   39 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHHHHTTTCCEEEEEECT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCC
T ss_conf             79999899857799999999999996899589996379

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=96.57  E-value=0.012  Score=29.97  Aligned_cols=56  Identities=16%  Similarity=0.124  Sum_probs=35.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCC--HHHHHHHHHHHHCCCC
Q ss_conf             159999948999188999999861-39988399999568967--8999999999833477
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPD--VKRVQDEIARFLNTEL  239 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~--~~~~~~~i~~~l~~~~  239 (1074)
                      .+||.++|+.|+||||-+.+++.. ..+-..+..+++ +.+.  ..+-++..++.++.+.
T Consensus        10 ~~vi~lvGp~GvGKTTTiaKLA~~~~~~g~kV~lit~-Dt~R~gA~eQL~~~a~~l~v~~   68 (207)
T d1ls1a2          10 RNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAA-DTQRPAAREQLRLLGEKVGVPV   68 (207)
T ss_dssp             SEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEEC-CSSCHHHHHHHHHHHHHHTCCE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEC-CCCCCHHHHHHHHHHHHCCCCC
T ss_conf             8689998999998899999999999977992799954-4346408888999998628863

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.55  E-value=0.0007  Score=37.67  Aligned_cols=23  Identities=30%  Similarity=0.476  Sum_probs=21.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +.|.|+|++|+|||||+++++..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             69999889997199999999999

>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=96.54  E-value=0.00094  Score=36.87  Aligned_cols=32  Identities=25%  Similarity=0.508  Sum_probs=24.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEE
Q ss_conf             15999994899918899999986139988399999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVR  217 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv~  217 (1074)
                      .++|.|.|++|+||||+|+.+...   ++...+++
T Consensus         2 ~klI~i~G~~GsGKTTva~~L~~~---~~~~~~~~   33 (176)
T d2bdta1           2 KKLYIITGPAGVGKSTTCKRLAAQ---LDNSAYIE   33 (176)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHH---SSSEEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH---CCCCEEEE
T ss_conf             808999899999989999999998---09988983

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.00066  Score=37.83  Aligned_cols=23  Identities=35%  Similarity=0.437  Sum_probs=20.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +.|.+.|++|+||||+|+.++..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             74999899999999999999999

>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=96.51  E-value=0.0026  Score=34.08  Aligned_cols=35  Identities=26%  Similarity=0.494  Sum_probs=26.1

Q ss_pred             HHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999997229984159999948999188999999861
Q 001457          170 KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       170 ~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+...+....  .++|.+.|-||+||||+|-.+...
T Consensus         9 ~~~~~~~~~~~--~~iii~sGKGGVGKTT~a~nLA~~   43 (279)
T d1ihua2           9 SALVDDIARNE--HGLIMLMGKGGVGKTTMAAAIAVR   43 (279)
T ss_dssp             HHHHHHHHTTS--CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHCCC--CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             89998850379--789999799988789999999999

>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=96.45  E-value=0.016  Score=29.17  Aligned_cols=58  Identities=21%  Similarity=0.210  Sum_probs=39.1

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCC
Q ss_conf             4159999948999188999999861-39988399999568-9678999999999833477
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTEL  239 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~  239 (1074)
                      ..++|.++|+.|+||||-+.+++.. ..+-..+..++.-. .....+-++..++.++.+.
T Consensus         5 ~~~vi~lvGptGvGKTTTiaKLA~~~~~~g~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   64 (207)
T d1okkd2           5 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPV   64 (207)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTHHHHHHHHHHHHTCCE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCCCHHHHHHCCCCCCCEE
T ss_conf             977999989999988999999999999779907999813666540266764054568238

>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=96.39  E-value=0.0032  Score=33.53  Aligned_cols=45  Identities=22%  Similarity=0.136  Sum_probs=32.0

Q ss_pred             CCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             821399999999997229984159999948999188999999861
Q 001457          162 LKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       162 ~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+.+..+.+.+.......+..+.+.++|++|+|||++|+.+++.
T Consensus       133 ~~~~~~~i~~~l~~~~~~~~~~~~~~~~g~~~~gk~~~~~~~~~~  177 (362)
T d1svma_         133 LPKMDSVVYDFLKCMVYNIPKKRYWLFKGPIDSGKTTLAAALLEL  177 (362)
T ss_dssp             STTHHHHHHHHHHHHHHCCTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             432589999999999828997676999899998889999999998

>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=96.37  E-value=0.0014  Score=35.77  Aligned_cols=48  Identities=19%  Similarity=0.285  Sum_probs=33.2

Q ss_pred             CCCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHH
Q ss_conf             99954682139999999999722998415999994899918899999986
Q 001457          156 TPEFVPLKSALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~  205 (1074)
                      .-+|..+.|++..+..++-......  .+-|.+.|.+|+||||+|+.+..
T Consensus         3 ~~~f~~I~Gq~~~kral~laa~~~~--~h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_           3 VFPFSAIVGQEDMKLALLLTAVDPG--IGGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCCGGGSCSCHHHHHHHHHHHHCGG--GCCEEEECCGGGCTTHHHHHHHH
T ss_pred             CCCHHHCCCCHHHHHHHHHHHHCCC--CCEEEEECCCCCCHHHHHHHHHH
T ss_conf             8985140694999999999976469--97089988998529999999987

>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=96.37  E-value=0.0014  Score=35.87  Aligned_cols=24  Identities=29%  Similarity=0.445  Sum_probs=20.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++|.|.|++|.||||+|+++...
T Consensus         2 kklIii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           2 KKIILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             879999899999999999999995

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=96.30  E-value=0.013  Score=29.68  Aligned_cols=70  Identities=19%  Similarity=0.196  Sum_probs=40.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCCHHHHHHHHHHHHCCCCCCCHHHHHHHHHHHHHHCCCEEE
Q ss_conf             59999948999188999999861-39988399999568967899999999983347774359999999999987047099
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPDVKRVQDEIARFLNTELEGDVEVLRAAFLSERLKRQKRVL  262 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~~l~~~l~~~k~~L  262 (1074)
                      .++.++|++|+|||.||+.++.. ...+.. +-+..+.-.+              ...+.. +.....+.+..+  +.++
T Consensus       124 g~~l~~G~pG~GKT~la~ala~~~~~~~~~-~~~~~~~~~~--------------~~~G~~-e~~~~~~f~~a~--~~~i  185 (321)
T d1w44a_         124 GMVIVTGKGNSGKTPLVHALGEALGGKDKY-ATVRFGEPLS--------------GYNTDF-NVFVDDIARAML--QHRV  185 (321)
T ss_dssp             EEEEEECSSSSCHHHHHHHHHHHHHTTSCC-EEEEBSCSST--------------TCBCCH-HHHHHHHHHHHH--HCSE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHCCCCCE-EEEEHHHHHH--------------CCCCHH-HHHHHHHHHHHH--HCCE
T ss_conf             638887799850889999999986379980-8978268544--------------244457-899999999986--2658


Q ss_pred             EEECCCCCC
Q ss_conf             998186541
Q 001457          263 IILDDLWGK  271 (1074)
Q Consensus       263 iVlDdv~~~  271 (1074)
                      |.+|.++..
T Consensus       186 lf~DEid~~  194 (321)
T d1w44a_         186 IVIDSLKNV  194 (321)
T ss_dssp             EEEECCTTT
T ss_pred             EEEEHHHHH
T ss_conf             974101222

>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=96.26  E-value=0.019  Score=28.69  Aligned_cols=45  Identities=18%  Similarity=0.234  Sum_probs=32.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH---CC----CCCEEEEEEECCCCCHHHH
Q ss_conf             159999948999188999999861---39----9883999995689678999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ---EI----PFDKVIFVRVTQTPDVKRV  227 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~---~~----~F~~~~wv~v~~~~~~~~~  227 (1074)
                      -+++.|+|.+|.||||+|.++...   ..    .-..++|++....+.....
T Consensus        34 G~~~li~G~pGsGKT~l~lq~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~   85 (251)
T d1szpa2          34 GSITELFGEFRTGKSQLCHTLAVTCQIPLDIGGGEGKCLYIDTEGTFRPVRL   85 (251)
T ss_dssp             SSEEEEEESTTSSHHHHHHHHTTTTTSCTTTTCCSCEEEEEESSSCCCGGGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECCHHHHHHH
T ss_conf             9699998389998899999999986312431268963999940230789999

>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=96.24  E-value=0.0015  Score=35.67  Aligned_cols=24  Identities=38%  Similarity=0.524  Sum_probs=20.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ...|.|.|++|.||||+|+.+...
T Consensus         4 ~~~I~i~G~pGsGKTTia~~La~~   27 (173)
T d1rkba_           4 LPNILLTGTPGVGKTTLGKELASK   27 (173)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             897989899999989999999999

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=96.21  E-value=0.0019  Score=34.89  Aligned_cols=25  Identities=28%  Similarity=0.444  Sum_probs=22.8

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .+.+|.|.|++|.||||+|+.++..
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9948999899999889999999999

>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=96.21  E-value=0.0012  Score=36.11  Aligned_cols=34  Identities=18%  Similarity=0.011  Sum_probs=25.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEE
Q ss_conf             159999948999188999999861-3998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv  216 (1074)
                      ..+|.++|++|.||||+|+.+... ...+....++
T Consensus        19 g~vI~L~G~pGSGKTTiAk~La~~l~~~~~~~~~~   53 (195)
T d1x6va3          19 GCTVWLTGLSGAGKTTVSMALEEYLVCHGIPCYTL   53 (195)
T ss_dssp             CEEEEEESSCHHHHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCCCCCH
T ss_conf             96999889999999999999999997447973100

>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=96.17  E-value=0.02  Score=28.55  Aligned_cols=88  Identities=22%  Similarity=0.240  Sum_probs=50.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCCC-HHHHHHHHHHHHCCC--------CCCCH-----HHHHH
Q ss_conf             59999948999188999999861-39988399999568967-899999999983347--------77435-----99999
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTPD-VKRVQDEIARFLNTE--------LEGDV-----EVLRA  248 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~~-~~~~~~~i~~~l~~~--------~~~~~-----~~~~~  248 (1074)
                      .-++|.|..|+|||+|+...... ..+.+.++++-+..... ..++.....+.-...        .+...     ....+
T Consensus        68 Qr~~Ifg~~g~GKt~l~~~~~~~~~~~~~v~V~~~iGer~~Ev~e~~~~~~~~~~~~~tvvv~~tsd~p~~~r~~a~~~a  147 (276)
T d1fx0a3          68 QRELIIGDRQTGKTAVATDTILNQQGQNVICVYVAIGQKASSVAQVVTNFQERGAMEYTIVVAETADSPATLQYLAPYTG  147 (276)
T ss_dssp             CBCBEEESSSSSHHHHHHHHHHTCCTTTCEEEEEEESCCHHHHHHHHHHTGGGTGGGSEEEEEECTTSCGGGTTHHHHHH
T ss_pred             CEEEECCCCCCCHHHHHHHHHHHHCCCCCEEEEEEECCHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCHHHHHHHHHHH
T ss_conf             66760067788857999997765404675355555221267788999851157750331001234676599999999999


Q ss_pred             HHHHHHHH-CCCEEEEEECCCCCC
Q ss_conf             99999987-047099998186541
Q 001457          249 AFLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       249 ~~l~~~l~-~~k~~LiVlDdv~~~  271 (1074)
                      -.+-+++. .+++.|+++||+...
T Consensus       148 ~tiAEyfrd~G~~Vlll~Dsltr~  171 (276)
T d1fx0a3         148 AALAEYFMYRERHTLIIYDDLSKQ  171 (276)
T ss_dssp             HHHHHHHHHTTCEEEEEEECHHHH
T ss_pred             HHHHHHHHHCCCCEEEEEECCHHH
T ss_conf             988889997599645775053899

>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=96.17  E-value=0.0047  Score=32.47  Aligned_cols=24  Identities=25%  Similarity=0.310  Sum_probs=20.4

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHH
Q ss_conf             415999994899918899999986
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~  205 (1074)
                      ..++|.+.|-||+||||+|..++.
T Consensus         7 ~p~~i~~sGKGGVGKTTvaa~lA~   30 (296)
T d1ihua1           7 IPPYLFFTGKGGVGKTSISCATAI   30 (296)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             985999979986749999999999

>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=96.15  E-value=0.0019  Score=34.98  Aligned_cols=23  Identities=30%  Similarity=0.474  Sum_probs=21.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ++|+|.|+.|+||||+++.+...
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~~   24 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMDN   24 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
T ss_conf             88999899998989999999999

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=96.13  E-value=0.0037  Score=33.11  Aligned_cols=24  Identities=25%  Similarity=0.301  Sum_probs=21.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +.+|.++|.+|.||||+|++++..
T Consensus         2 p~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           2 PTLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             989999899999999999999999

>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=96.12  E-value=0.0036  Score=33.22  Aligned_cols=29  Identities=28%  Similarity=0.374  Sum_probs=24.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH--CCCCCE
Q ss_conf             59999948999188999999861--399883
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDK  212 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~  212 (1074)
                      ++|.|.|+.|+||||+++.+...  ..+|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~~L~~~~~~~   32 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKEILDNQGINN   32 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHHTTTCCE
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHCCCCE
T ss_conf             1999989899898999999999998769988

>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=96.11  E-value=0.0019  Score=34.90  Aligned_cols=27  Identities=22%  Similarity=0.409  Sum_probs=20.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCC
Q ss_conf             159999948999188999999861-3998
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPF  210 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F  210 (1074)
                      +++| +.||+|+||||+|+.++.. .-.|
T Consensus         2 p~Iv-liG~~G~GKSTig~~La~~l~~~f   29 (165)
T d2iyva1           2 PKAV-LVGLPGSGKSTIGRRLAKALGVGL   29 (165)
T ss_dssp             CSEE-EECSTTSSHHHHHHHHHHHHTCCE
T ss_pred             CCEE-EECCCCCCHHHHHHHHHHHHCCCE
T ss_conf             9489-988999988999999999849986

>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=96.08  E-value=0.0022  Score=34.54  Aligned_cols=24  Identities=17%  Similarity=0.327  Sum_probs=22.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++|.|.|++|.||||+|+.+...
T Consensus         3 ~kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           3 TRMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             859999899999989999999997

>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=96.08  E-value=0.0033  Score=33.44  Aligned_cols=32  Identities=28%  Similarity=0.261  Sum_probs=25.3

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEE
Q ss_conf             59999948999188999999861--399883999
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIF  215 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~w  215 (1074)
                      ++++|+|..|.|||||+.++...  .+.+...+-
T Consensus         2 kii~I~G~~gSGKTTli~~l~~~L~~~g~~v~vi   35 (165)
T d1xjca_           2 NVWQVVGYKHSGKTTLMEKWVAAAVREGWRVGTV   35 (165)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEE
T ss_pred             CEEEEEECCCCCHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             0999980999989999999999998679837999

>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=96.06  E-value=0.0026  Score=34.04  Aligned_cols=25  Identities=28%  Similarity=0.437  Sum_probs=22.7

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+++.|.|++|.||||+|+.+...
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             8718999899998989999999998

>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=96.01  E-value=0.0029  Score=33.76  Aligned_cols=25  Identities=32%  Similarity=0.529  Sum_probs=23.0

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..++|.|.|++|.||||+|+.++.+
T Consensus         7 ~~~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           7 QVSVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9728999899999989999999998

>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=95.99  E-value=0.028  Score=27.58  Aligned_cols=59  Identities=17%  Similarity=0.093  Sum_probs=37.5

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCC
Q ss_conf             84159999948999188999999861-39988399999568-9678999999999833477
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTEL  239 (1074)
Q Consensus       181 ~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~  239 (1074)
                      ..+.||.++|+.|+||||-+.+++.+ ..+-..+..+++.. .....+-++..++.++...
T Consensus         9 ~~p~vi~lvGptGvGKTTTiAKLAa~~~~~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~   69 (213)
T d1vmaa2           9 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATV   69 (213)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEE
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEECCCCCCHHHHHHHHHHHCCCCC
T ss_conf             9998999989999988999999999999779906999601334204678887764327641

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=95.94  E-value=0.0057  Score=31.92  Aligned_cols=39  Identities=31%  Similarity=0.564  Sum_probs=27.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEEECCCC
Q ss_conf             159999948999188999999861--3998839999956896
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTP  222 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~v~~~~  222 (1074)
                      -+.|+|+|-||+||||+|..+...  +... .+.-|+.-...
T Consensus         2 Mr~IaisgKGGVGKTT~a~NLA~~LA~~G~-rVLlID~DpQ~   42 (289)
T d2afhe1           2 MRQCAIYGKGGIGKSTTTQNLVAALAEMGK-KVMIVGCDPKA   42 (289)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHHHTTC-CEEEEEECSSS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHHHHCCC-CEEEEECCCCC
T ss_conf             628999899987799999999999997899-78999518999

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=95.90  E-value=0.0031  Score=33.63  Aligned_cols=24  Identities=25%  Similarity=0.321  Sum_probs=21.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .-.|.|.|++|+||||+|+.+...
T Consensus         5 ~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           5 GINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             888999828999889999999998

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.89  E-value=0.0028  Score=33.85  Aligned_cols=42  Identities=24%  Similarity=0.318  Sum_probs=29.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCHHHHHHHHHHH
Q ss_conf             1599999489991889999998613998839999956896789999999998
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARF  234 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv~v~~~~~~~~~~~~i~~~  234 (1074)
                      .+||+|.|++|.||||+|+.+.++   |+. .++      +.-.++++++..
T Consensus         3 ~piI~I~GppGSGKgT~ak~La~~---~gl-~~i------StGdLlR~~a~~   44 (225)
T d1ckea_           3 APVITIDGPSGAGKGTLCKAMAEA---LQW-HLL------DSGAIYRVLALA   44 (225)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHH---HTC-EEE------EHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH---HCC-CEE------CHHHHHHHHHHH
T ss_conf             988997799988989999999999---699-089------888999999999

>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=95.89  E-value=0.0084  Score=30.87  Aligned_cols=97  Identities=21%  Similarity=0.224  Sum_probs=52.9

Q ss_pred             HHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEE-ECCCCCHHHHHHHHHHHHCC----CCCCCH
Q ss_conf             999997229984159999948999188999999861--39988399999-56896789999999998334----777435
Q 001457          171 SVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVR-VTQTPDVKRVQDEIARFLNT----ELEGDV  243 (1074)
Q Consensus       171 ~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~-v~~~~~~~~~~~~i~~~l~~----~~~~~~  243 (1074)
                      ++++.+..-. .-.-++|.|..|+|||+|+..+.+.  .++-+.++.+. +....  +++ .++.+....    .....+
T Consensus        32 r~ID~l~Pig-rGQr~~I~g~~g~GKT~l~~~i~~~~~~~~~~~v~~~~~iger~--~ev-~~~~~~~~~~vv~~t~d~~  107 (289)
T d1xpua3          32 RVLDLASPIG-RGQRGLIVAPPKAGKTMLLQNIAQSIAYNHPDCVLMVLLIDERP--EEV-TEMQRLVKGEVVASTFDEP  107 (289)
T ss_dssp             HHHHHHSCCB-TTCEEEEEECSSSSHHHHHHHHHHHHHHHCTTSEEEEEEEEECH--HHH-HHHHHHCSSEEEEEETTSC
T ss_pred             EEEEECCCCC-CCCEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEEEEECEEH--HHH-HHHHHHCCEEEEECCCCCC
T ss_conf             3564125645-78755686799988789999999977515897699987611008--788-7677540507996058883


Q ss_pred             H------HHHHHHHHHHHH-CCCEEEEEECCCCCC
Q ss_conf             9------999999999987-047099998186541
Q 001457          244 E------VLRAAFLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       244 ~------~~~~~~l~~~l~-~~k~~LiVlDdv~~~  271 (1074)
                      .      ...+..+-+++. .++..|+++||+...
T Consensus       108 ~~~r~~~~~~a~~iAEyfrd~G~dVLli~Dsltr~  142 (289)
T d1xpua3         108 ASRHVQVAEMVIEKAKRLVEHKKDVIILLDSITRL  142 (289)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTTCEEEEEESCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHCCCCEEECCCHHHH
T ss_conf             56789999999999999998265751551768999

>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=95.89  E-value=0.029  Score=27.47  Aligned_cols=78  Identities=13%  Similarity=0.045  Sum_probs=44.3

Q ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHHHH--CCC-C-CEEEEEEECCCCCHHHHHHHHHHHHCC-------CCCCCHHHHH
Q ss_conf             9984159999948999188999999861--399-8-839999956896789999999998334-------7774359999
Q 001457          179 NSISINIIGVYGSGGIGKTTLMKQVMKQ--EIP-F-DKVIFVRVTQTPDVKRVQDEIARFLNT-------ELEGDVEVLR  247 (1074)
Q Consensus       179 ~~~~~~vi~I~G~gGiGKTtLa~~v~~~--~~~-F-~~~~wv~v~~~~~~~~~~~~i~~~l~~-------~~~~~~~~~~  247 (1074)
                      ....+-+|||.|..|.||||+|..+...  ..+ + ..++-++..+-+-...-...+.+....       ..++..+...
T Consensus        23 ~~~~P~iIGi~G~qGSGKSTl~~~l~~~L~~~~~~~~~v~~iS~DdfY~t~~~r~~L~~~~~~~pl~~~RG~PgThD~~l  102 (286)
T d1odfa_          23 GNKCPLFIFFSGPQGSGKSFTSIQIYNHLMEKYGGEKSIGYASIDDFYLTHEDQLKLNEQFKNNKLLQGRGLPGTHDMKL  102 (286)
T ss_dssp             TCCSCEEEEEECCTTSSHHHHHHHHHHHHHHHHGGGSCEEEEEGGGGBCCHHHHHHHHHHTTTCGGGSSSCSTTSBCHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHCCCCCEEEECCCCCCCCHHHHHHHHHHCCCCCCCEECCCCCCHHHHH
T ss_conf             89998899837998788999999999999987277860676356777788899999852135553110047874034889


Q ss_pred             HHHHHHHHH
Q ss_conf             999999987
Q 001457          248 AAFLSERLK  256 (1074)
Q Consensus       248 ~~~l~~~l~  256 (1074)
                      .....+.++
T Consensus       103 l~~~l~~l~  111 (286)
T d1odfa_         103 LQEVLNTIF  111 (286)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
T ss_conf             999999997

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=95.87  E-value=0.0027  Score=33.94  Aligned_cols=21  Identities=38%  Similarity=0.477  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             999948999188999999861
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      |.+.||+|+||||+|+.++.+
T Consensus         3 I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           3 IVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999899999889999999998

>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=95.87  E-value=0.0028  Score=33.85  Aligned_cols=24  Identities=29%  Similarity=0.396  Sum_probs=21.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++|.|.|++|.||||+|+.+...
T Consensus         4 g~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           4 GNILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             TEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             859999889999889999999999

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.84  E-value=0.0055  Score=32.01  Aligned_cols=34  Identities=21%  Similarity=0.040  Sum_probs=25.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEE
Q ss_conf             159999948999188999999861--3998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv  216 (1074)
                      ..+|.+.|++|.||||+|+.+...  .......+++
T Consensus        24 g~vIwltGlsGsGKTTia~~L~~~l~~~~~~~~~~l   59 (208)
T d1m7ga_          24 GLTIWLTGLSASGKSTLAVELEHQLVRDRRVHAYRL   59 (208)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHHHHHHCCCEEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHHCCCEEEEE
T ss_conf             869999899999989999999988777427508997

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=95.80  E-value=0.0025  Score=34.15  Aligned_cols=23  Identities=26%  Similarity=0.382  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +.|.+.|++|+||||+|+.++..
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~~   25 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELARA   25 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHHH
T ss_conf             98899889999889999999999

>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=95.73  E-value=0.0038  Score=33.05  Aligned_cols=24  Identities=25%  Similarity=0.462  Sum_probs=21.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +-+|+|.|..|.||||+|+.+...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~   25 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQL   25 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             989999899978799999999999

>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=95.67  E-value=0.038  Score=26.76  Aligned_cols=57  Identities=18%  Similarity=0.158  Sum_probs=35.0

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEEECC-CCCHHHHHHHHHHHHCCCC
Q ss_conf             4159999948999188999999861--39988399999568-9678999999999833477
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQ-TPDVKRVQDEIARFLNTEL  239 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~v~~-~~~~~~~~~~i~~~l~~~~  239 (1074)
                      .+.||.++|+.|+||||-+.+++..  ... ..+..++... .....+-++..++.++.+.
T Consensus        11 ~p~vi~lvGptGvGKTTTiAKLA~~~~~~g-~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~   70 (211)
T d1j8yf2          11 IPYVIMLVGVQGTGKATTAGKLAYFYKKKG-FKVGLVGADVYRPAALEQLQQLGQQIGVPV   70 (211)
T ss_dssp             SSEEEEEECSCCC----HHHHHHHHHHHTT-CCEEEEECCCSSHHHHHHHHHHHHHHTCCE
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHCC-CCEEEEEEECCCCCHHHHHHHHCCCCCCCE
T ss_conf             998999989999998999999999999779-936999720235515678987401468422

>d1io0a_ c.10.1.1 (A:) Tropomodulin C-terminal domain {Chicken (Gallus gallus) [TaxId: 9031]}

class: Alpha and beta proteins (a/b)
fold: Leucine-rich repeat, LRR (right-handed beta-alpha superhelix)
superfamily: RNI-like
family: 28-residue LRR
domain: Tropomodulin C-terminal domain
species: Chicken (Gallus gallus) [TaxId: 9031]

Probab=95.67  E-value=0.0023  Score=34.46  Aligned_cols=115  Identities=16%  Similarity=0.114  Sum_probs=0.0

Q ss_pred             CCCCCCCEEECCC-CCCCC------CCCCCCCCCCCEEEEECCCCC-----CCCCCCCCCCCCCEEECCCCCCCCCCCH-
Q ss_conf             3774577665368-87899------700027897539982078786-----5683113888878884888968987693-
Q 001457          575 PCLEKLRSLHLEN-THLND------ASLIREFGELEVLILKGSRIV-----ELPNGIGTVSNLKLLDLSNNLFLQVIPP-  641 (1074)
Q Consensus       575 ~~l~~Lr~L~L~~-~~l~~------~~~i~~l~~L~~L~L~~~~i~-----~lp~~i~~L~~L~~L~l~~~~~~~~~p~-  641 (1074)
                      ...+.|++|++++ +.+++      ...+...++|+.|++++|.+.     .+-..+...++++.+++.+|........ 
T Consensus        14 ~~~~~L~~L~L~~~~~i~~~~~~~l~~al~~n~~L~~L~Ls~n~l~~~~~~~L~~~l~~~~~l~~l~l~~~~~~~~g~~~   93 (166)
T d1io0a_          14 NNDPDLEEVNLNNIMNIPVPTLKACAEALKTNTYVKKFSIVGTRSNDPVAFALAEMLKVNNTLKSLNVESNFISGSGILA   93 (166)
T ss_dssp             TTCTTCCEEECTTCTTCCHHHHHHHHHHHTTCCSCCEEECTTSCCCHHHHHHHHHHHHHCSSCCEEECCSSCCCHHHHHH
T ss_pred             HCCCCCCEEECCCCCCCCHHHHHHHHHHHHCCCCCCEEECCCCCCCHHHHHHHHHHHHHCCCCHHHHHCCCCCCCHHHHH
T ss_conf             55999868876899998989999999888419825743015896117789999987752122101210254322014788


Q ss_pred             --HHHCCCCCCCEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECC
Q ss_conf             --3321999769998367768740000125778782011367678779974068
Q 001457          642 --NVISKLSQLEELYVGNSFGDWEVEETANGQNARFSEVASLTRLTVLYIHVSN  693 (1074)
Q Consensus       642 --~~l~~l~~L~~L~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~L~~L~l~~~~  693 (1074)
                        ..+...++|+.+++..+.......    ........+...+.|+.|++.++.
T Consensus        94 l~~~l~~~~~L~~l~L~l~~n~i~~~----~~~~La~~L~~n~~L~~L~l~~~~  143 (166)
T d1io0a_          94 LVEALQSNTSLIELRIDNQSQPLGNN----VEMEIANMLEKNTTLLKFGYHFTQ  143 (166)
T ss_dssp             HHHGGGGCSSCCEEECCCCSSCCCHH----HHHHHHHHHHHCSSCCEEECCCSS
T ss_pred             HHHHHHHCCCCCEEEECCCCCCCCHH----HHHHHHHHHHHCCCCCEEECCCCC
T ss_conf             99999848652477321677867679----999999999849984788581898

>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=95.65  E-value=0.023  Score=28.14  Aligned_cols=43  Identities=19%  Similarity=0.110  Sum_probs=30.0

Q ss_pred             CCEEEEEEECCCCCCHHHHHHHHHHH-CCCC--CEEEEEEECCCCC
Q ss_conf             84159999948999188999999861-3998--8399999568967
Q 001457          181 ISINIIGVYGSGGIGKTTLMKQVMKQ-EIPF--DKVIFVRVTQTPD  223 (1074)
Q Consensus       181 ~~~~vi~I~G~gGiGKTtLa~~v~~~-~~~F--~~~~wv~v~~~~~  223 (1074)
                      ..+-+|+|.|..|+||||+|+.+... ...+  ..+.-++..+-+-
T Consensus        78 k~P~iIGIaG~sgSGKSTla~~L~~lL~~~~~~~~v~~Is~D~F~~  123 (308)
T d1sq5a_          78 RIPYIISIAGSVAVGKSTTARVLQALLSRWPEHRRVELITTDGFLH  123 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHHHTTSTTCCCEEEEEGGGGBC
T ss_pred             CCCEEEEEECCCCCCCCHHHHHHHHHHHHHCCCCCEEEEEEEEEEC
T ss_conf             9988999968999987689999999973046899659995215689

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=95.64  E-value=0.026  Score=27.74  Aligned_cols=47  Identities=26%  Similarity=0.320  Sum_probs=34.8

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH-C------CCCCEEEEEEECCCCCHHHHH
Q ss_conf             4159999948999188999999861-3------998839999956896789999
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-E------IPFDKVIFVRVTQTPDVKRVQ  228 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~-~------~~F~~~~wv~v~~~~~~~~~~  228 (1074)
                      .-+++.|+|.+|.||||+|.++... .      ......+|+......+.....
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAVMVQLPPEEGGLNGSVIWIDTENTFRPERIR   88 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHTTSCGGGTSCSCEEEEEESSSCCCHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHCHHHHCCCCCEEEEEECCCHHHHHHHH
T ss_conf             887999985898988999999999863448763889628998310125899999

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=95.64  E-value=0.0043  Score=32.70  Aligned_cols=42  Identities=21%  Similarity=0.319  Sum_probs=28.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf             5999994899918899999986139988399999568967899999999983
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFVRVTQTPDVKRVQDEIARFL  235 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv~v~~~~~~~~~~~~i~~~l  235 (1074)
                      -+|+|-|++|+||||+|+.+..+   |+. .++      +.-.+++.++...
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~---lg~-~~i------stGdl~R~~a~~~   45 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKD---FGF-TYL------DTGAMYRAATYMA   45 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHH---HCC-EEE------EHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH---HCC-CEE------CHHHHHHHHHHHH
T ss_conf             59997899987989999999999---699-478------7799999999999

>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=95.62  E-value=0.0042  Score=32.75  Aligned_cols=25  Identities=20%  Similarity=0.400  Sum_probs=22.0

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ...+|.++|++|.||||+|++....
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~~   37 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLVS   37 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9989999899999899999999976

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=95.56  E-value=0.0042  Score=32.77  Aligned_cols=22  Identities=41%  Similarity=0.697  Sum_probs=20.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|+|+|+.|+|||||++.+...
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCHHHHHHHHHHHC
T ss_conf             8999989993899999999814

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=95.48  E-value=0.0058  Score=31.90  Aligned_cols=24  Identities=25%  Similarity=0.379  Sum_probs=21.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +.+|.|.|++|.||||+|+.++..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             939999799999989999999998

>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=95.21  E-value=0.02  Score=28.52  Aligned_cols=34  Identities=18%  Similarity=0.234  Sum_probs=25.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEE
Q ss_conf             159999948999188999999861--39988399999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVR  217 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~  217 (1074)
                      -..|+|-|+.|+||||+++.+.+.  ...+.. +++.
T Consensus         3 G~lI~ieG~dGsGKsT~~~~L~~~L~~~g~~v-~~~~   38 (209)
T d1nn5a_           3 GALIVLEGVDRAGKSTQSRKLVEALCAAGHRA-ELLR   38 (209)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHHHHTTCCE-EEEE
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHHHHCCCCE-EEEE
T ss_conf             05999989988899999999999998779968-9996

>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=95.14  E-value=0.0061  Score=31.76  Aligned_cols=28  Identities=29%  Similarity=0.541  Sum_probs=22.4

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH-CCCCC
Q ss_conf             59999948999188999999861-39988
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFD  211 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~-~~~F~  211 (1074)
                      +.|.|.|+.|+|||||++.+... ...|.
T Consensus         1 rpIvl~GPsGsGK~tl~~~L~~~~~~~~~   29 (190)
T d1lvga_           1 RPVVLSGPSGAGKSTLLKKLFQEHSSIFG   29 (190)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHHTTTEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCCCEE
T ss_conf             91999999999999999999974887605

>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=95.13  E-value=0.006  Score=31.78  Aligned_cols=30  Identities=30%  Similarity=0.467  Sum_probs=23.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH-CCCCCEE
Q ss_conf             59999948999188999999861-3998839
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKV  213 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~  213 (1074)
                      +.|.|+|+.|+|||||++.+... ...|...
T Consensus         2 rpIvl~GpsG~GK~tl~~~L~~~~~~~~~~~   32 (186)
T d1gkya_           2 RPIVISGPSGTGKSTLLKKLFAEYPDSFGFS   32 (186)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHCTTTEEEC
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHCCCCEEEE
T ss_conf             7699989999998999999997488662477

>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=95.09  E-value=0.022  Score=28.20  Aligned_cols=39  Identities=26%  Similarity=0.184  Sum_probs=27.0

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEEECCC
Q ss_conf             159999948999188999999861--399883999995689
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQT  221 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~v~~~  221 (1074)
                      -.++.|+|.+|+|||++|.++...  ...-..+.|++....
T Consensus        26 G~~~~I~G~~G~GKT~la~~~~~~~~~~~~~~~~~~s~e~~   66 (242)
T d1tf7a1          26 GRSTLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTFEET   66 (242)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHHHHHHHHHCCCEEEEESSSC
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCC
T ss_conf             83999994799999999999999999856887420126679

>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=95.04  E-value=0.014  Score=29.56  Aligned_cols=37  Identities=30%  Similarity=0.272  Sum_probs=27.3

Q ss_pred             EEEEEEEC-CCCCCHHHHHHHHHHH-CCCCCEEEEEEEC
Q ss_conf             15999994-8999188999999861-3998839999956
Q 001457          183 INIIGVYG-SGGIGKTTLMKQVMKQ-EIPFDKVIFVRVT  219 (1074)
Q Consensus       183 ~~vi~I~G-~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~  219 (1074)
                      -++|+|+| -||+||||+|..++.. ...-..++.++..
T Consensus         2 ~~vIav~~~kGGvGKTtia~nLA~~la~~g~~VlliD~D   40 (237)
T d1g3qa_           2 GRIISIVSGKGGTGKTTVTANLSVALGDRGRKVLAVDGD   40 (237)
T ss_dssp             CEEEEEECSSTTSSHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             CEEEEEECCCCCCCHHHHHHHHHHHHHHCCCCEEEEECC
T ss_conf             829999899998819999999999999689989999498

>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=95.01  E-value=0.014  Score=29.48  Aligned_cols=36  Identities=31%  Similarity=0.328  Sum_probs=27.5

Q ss_pred             EEEEEE-CCCCCCHHHHHHHHHHH-CCCCCEEEEEEEC
Q ss_conf             599999-48999188999999861-3998839999956
Q 001457          184 NIIGVY-GSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVT  219 (1074)
Q Consensus       184 ~vi~I~-G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~  219 (1074)
                      ++|+|+ |-||+||||+|..++.. ...-..+.+|+..
T Consensus         2 kvIav~s~KGGvGKTtia~nlA~~la~~g~~VlliD~D   39 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANLGVALAQLGHDVTIVDAD   39 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHHHHHHHHTTCCEEEEECC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHHHHHHCCCCEEEEECC
T ss_conf             79999799999809999999999999689989999598

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.88  E-value=0.01  Score=30.37  Aligned_cols=23  Identities=17%  Similarity=0.499  Sum_probs=21.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ++|.|+|+.|+|||||++.+..+
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             49999899999999999999845

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=94.71  E-value=0.021  Score=28.35  Aligned_cols=22  Identities=36%  Similarity=0.495  Sum_probs=20.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ||+|.|+.|.|||||...+.+.
T Consensus         2 vi~v~G~~GsGKTTLl~~ll~~   23 (244)
T d1yrba1           2 IVVFVGTAGSGKTTLTGEFGRY   23 (244)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             8999918998399999999998

>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=94.69  E-value=0.013  Score=29.63  Aligned_cols=23  Identities=26%  Similarity=0.486  Sum_probs=20.0

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++| |.|++|.||||+|+.++..
T Consensus         4 ~rii-l~G~pGSGKsT~a~~La~~   26 (190)
T d1ak2a1           4 VRAV-LLGPPGAGKGTQAPKLAKN   26 (190)
T ss_dssp             CEEE-EECCTTSSHHHHHHHHHHH
T ss_pred             CEEE-EECCCCCCHHHHHHHHHHH
T ss_conf             3899-9899999889999999998

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=94.67  E-value=0.011  Score=30.06  Aligned_cols=21  Identities=24%  Similarity=0.406  Sum_probs=19.4

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             999948999188999999861
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      |.|.|++|.||||+|+.++..
T Consensus         3 I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           3 LVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
T ss_conf             999889999989999999998

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=94.67  E-value=0.012  Score=29.98  Aligned_cols=24  Identities=33%  Similarity=0.465  Sum_probs=22.1

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++|.|.|++|.||||+|+.+...
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             828999899999879999999998

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.63  E-value=0.077  Score=24.81  Aligned_cols=45  Identities=29%  Similarity=0.375  Sum_probs=33.6

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH-------CCCCCEEEEEEECCCCCHHH
Q ss_conf             4159999948999188999999861-------39988399999568967899
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ-------EIPFDKVIFVRVTQTPDVKR  226 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~-------~~~F~~~~wv~v~~~~~~~~  226 (1074)
                      .-+++.|+|.+|.|||++|.++...       ...+..+.|+.....+....
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCVTAQLPGAGGYPGGKIIFIDTENTFRPDR   87 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHHHTTSCBTTTBCCCEEEEEESSSCCCHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCEEEEECHHHHHHHHH
T ss_conf             8979999889988788999999999974443166662488740177778999

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.62  E-value=0.05  Score=25.98  Aligned_cols=49  Identities=20%  Similarity=0.312  Sum_probs=30.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEEECCCCCHHHHHHHHH
Q ss_conf             59999948999188999999861--39988399999568967899999999
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIA  232 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~v~~~~~~~~~~~~i~  232 (1074)
                      +.|+|-|+.|.||||+++.+...  ...+..+.+..-.......+..++..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~~L~~~g~~~~~~~~ep~~~~~g~~i~~~~   53 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVETLEQLGIRDMVFTREPGGTQLAEKLRSLL   53 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHHHHHHTTCCCEEEEESSCSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCCHHHHHHHH
T ss_conf             789998998887999999999999967997399832989961144558988

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.61  E-value=0.013  Score=29.65  Aligned_cols=31  Identities=13%  Similarity=0.320  Sum_probs=24.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEE
Q ss_conf             159999948999188999999861-3998839
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKV  213 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~  213 (1074)
                      .+.|.|+|+.|+|||||++++..+ ...|...
T Consensus         3 ~k~ivl~Gpsg~GK~tl~~~L~~~~~~~~~~~   34 (178)
T d1kgda_           3 RKTLVLLGAHGVGRRHIKNTLITKHPDRFAYP   34 (178)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHCTTTEECC
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHCCCCEEEC
T ss_conf             77199999899999999999997097676523

>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=94.60  E-value=0.014  Score=29.42  Aligned_cols=24  Identities=25%  Similarity=0.403  Sum_probs=22.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ++.|+|-|+-|+||||+++.+...
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             819999899888599999999998

>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=94.58  E-value=0.024  Score=28.03  Aligned_cols=30  Identities=23%  Similarity=0.350  Sum_probs=23.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH--CCCCCEEE
Q ss_conf             9999948999188999999861--39988399
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVI  214 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~  214 (1074)
                      .|+|-|+.|.||||+++.+...  ...+..++
T Consensus         2 lI~ieG~dGsGKST~~~~L~~~l~~~g~~v~~   33 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSGAFRAAGRSVAT   33 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHHHHTTCCEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHHCCCCEEE
T ss_conf             89998998789999999999999878997899

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=94.56  E-value=0.011  Score=30.24  Aligned_cols=24  Identities=17%  Similarity=0.134  Sum_probs=20.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +-.|.|.|++|.||||+|+.+.+.
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             729999889999989999999998

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=94.55  E-value=0.011  Score=30.04  Aligned_cols=23  Identities=35%  Similarity=0.455  Sum_probs=20.0

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHH
Q ss_conf             15999994899918899999986
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~  205 (1074)
                      +-+|||+|..|.||||+|+.+-.
T Consensus         3 p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
T ss_conf             98999989887789999999998

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=94.55  E-value=0.012  Score=29.79  Aligned_cols=23  Identities=26%  Similarity=0.410  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      --|.|.|++|.||||+|+.++.+
T Consensus         7 mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           7 LRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             16999889999879999999999

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=94.48  E-value=0.013  Score=29.63  Aligned_cols=22  Identities=23%  Similarity=0.332  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|.|++|.||||+|+.++..
T Consensus         2 ~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           2 RVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             8999889999979999999999

>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=94.42  E-value=0.086  Score=24.50  Aligned_cols=48  Identities=17%  Similarity=0.195  Sum_probs=30.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEECCCC-CHHHHHHHHHH
Q ss_conf             159999948999188999999861-3998839999956896-78999999999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVTQTP-DVKRVQDEIAR  233 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~~~~-~~~~~~~~i~~  233 (1074)
                      -+.|+|-|+.|+||||+++.+... +.++   ..+...... ......+.++.
T Consensus         3 Gk~I~iEG~DGsGKST~~~~L~~~L~~~~---~~~~~p~~~~~~g~~ir~~l~   52 (214)
T d1tmka_           3 GKLILIEGLDRTGKTTQCNILYKKLQPNC---KLLKFPERSTRIGGLINEYLT   52 (214)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHHHTTTSE---EEEESSCTTSHHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHHHHCC---EEEEECCCCCHHHHHHHHHHH
T ss_conf             68999989988869999999999997197---799978999607676777654

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=94.36  E-value=0.014  Score=29.53  Aligned_cols=25  Identities=28%  Similarity=0.268  Sum_probs=21.9

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..-+|+|-|..|+||||+++.+...
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             8619998899998889999999987

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=94.35  E-value=0.015  Score=29.31  Aligned_cols=22  Identities=27%  Similarity=0.403  Sum_probs=19.8

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .|.|.|++|.||||+|+.++..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             8999889999879999999998

>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=94.17  E-value=0.045  Score=26.24  Aligned_cols=43  Identities=19%  Similarity=0.271  Sum_probs=27.6

Q ss_pred             CHHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             1399999999997229984159999948999188999999861
Q 001457          164 SALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       164 ~~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      |....+.++.+.+..-.....-|.|.|..|+|||++|+.++..
T Consensus         4 ~~S~~~~~~~~~~~~~a~~~~pvlI~Ge~GtGK~~~A~~ih~~   46 (247)
T d1ny5a2           4 FESPKMKEILEKIKKISCAECPVLITGESGVGKEVVARLIHKL   46 (247)
T ss_dssp             CCSHHHHHHHHHHHHHTTCCSCEEEECSTTSSHHHHHHHHHHH
T ss_pred             ECCHHHHHHHHHHHHHHCCCCCEEEECCCCCCHHHHHHHHHHH
T ss_conf             6299999999999999688997899899981799999999996

>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=94.10  E-value=0.029  Score=27.46  Aligned_cols=34  Identities=18%  Similarity=0.457  Sum_probs=25.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||.+.+..-...-.+.+++
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~~p~sG~I~~   64 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLDKPTEGEVYI   64 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCCCHHHHHCCCCCCCCCCEEEE
T ss_conf             9799998899998216557506887777662699

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=94.00  E-value=0.021  Score=28.38  Aligned_cols=23  Identities=26%  Similarity=0.509  Sum_probs=21.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .+|.|+|++|+|||||.+.+...
T Consensus         3 ~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           3 TLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             09999999999999999999863

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.92  E-value=0.02  Score=28.47  Aligned_cols=23  Identities=26%  Similarity=0.411  Sum_probs=19.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++ .|.|++|.||||+|+.++..
T Consensus         3 mrI-vl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           3 IRM-VLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CEE-EEECCTTSSHHHHHHHHHHH
T ss_pred             EEE-EEECCCCCCHHHHHHHHHHH
T ss_conf             699-99899999989999999999

>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=93.91  E-value=0.0098  Score=30.45  Aligned_cols=24  Identities=33%  Similarity=0.421  Sum_probs=21.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+|+|.|.+|.||||+|+.+.+.
T Consensus         4 ~pIIgIaG~SGSGKTTva~~l~~i   27 (288)
T d1a7ja_           4 HPIISVTGSSGAGTSTVKHTFDQI   27 (288)
T ss_dssp             SCEEEEESCC---CCTHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             889999899978099999999999

>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=93.91  E-value=0.039  Score=26.69  Aligned_cols=34  Identities=26%  Similarity=0.421  Sum_probs=24.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||++.++.-...-.+.+++
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~~p~sG~I~~   62 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLEEPSRGQIYI   62 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9899999999980999999996487889898999

>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=93.83  E-value=0.11  Score=23.77  Aligned_cols=43  Identities=21%  Similarity=0.234  Sum_probs=30.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH--CC---------------CCCEEEEEEECCCCCHH
Q ss_conf             159999948999188999999861--39---------------98839999956896789
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ--EI---------------PFDKVIFVRVTQTPDVK  225 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~--~~---------------~F~~~~wv~v~~~~~~~  225 (1074)
                      -.++.|.|.+|+|||++|.+++..  ..               ....+.|++........
T Consensus        34 G~l~~i~G~~G~GKT~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~e~~~~~~   93 (258)
T d2i1qa2          34 QSVTEFAGVFGSGKTQIMHQSCVNLQNPEFLFYDEEAVSKGEVAQPKAVYIDTEGTFRPE   93 (258)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHHTTCGGGEECCTTTSCTTTTSSEEEEEEESSSCCCHH
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHHHHCCCCCEEEEECCCCHHCCCEEEEEEECCCCCHH
T ss_conf             859999917999989999999999985379743775300310038519999956876889

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.83  E-value=0.035  Score=26.96  Aligned_cols=34  Identities=32%  Similarity=0.519  Sum_probs=25.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||++.+..-...-.+.+++
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl~~p~~G~I~~   61 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFLEKPSEGAIIV   61 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCCEEE
T ss_conf             9799999899982999999997476678997799

>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=93.82  E-value=0.036  Score=26.92  Aligned_cols=34  Identities=18%  Similarity=0.297  Sum_probs=25.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|+|+.|.|||||++.+..--..-.+.+++
T Consensus        40 Ge~vaivG~sGsGKSTLl~li~gl~~p~~G~I~i   73 (251)
T d1jj7a_          40 GEVTALVGPNGSGKSTVAALLQNLYQPTGGQLLL   73 (251)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9899999999984999999986143787689988

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=93.81  E-value=0.034  Score=27.02  Aligned_cols=34  Identities=18%  Similarity=0.219  Sum_probs=24.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|+|+.|.|||||++.+..-...-.+.+.+
T Consensus        41 Ge~iaivG~sGsGKSTLl~ll~gl~~p~~G~I~i   74 (253)
T d3b60a1          41 GKTVALVGRSGSGKSTIASLITRFYDIDEGHILM   74 (253)
T ss_dssp             TCEEEEEECTTSSHHHHHHHHTTTTCCSEEEEEE
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9999999999985999999986216888468987

>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=93.81  E-value=0.041  Score=26.53  Aligned_cols=33  Identities=15%  Similarity=0.236  Sum_probs=25.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             599999489991889999998613998839999
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      .+++|.|+.|.|||||.+.+..-...-.+.+|+
T Consensus        25 e~~~liGpnGaGKSTll~~i~Gl~~p~~G~I~~   57 (240)
T d2onka1          25 DYCVLLGPTGAGKSVFLELIAGIVKPDRGEVRL   57 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEE
T ss_pred             EEEEEECCCCCHHHHHHHHHHCCCCCCCEEEEE
T ss_conf             799999799980999999997399989628999

>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=93.76  E-value=0.013  Score=29.62  Aligned_cols=24  Identities=25%  Similarity=0.373  Sum_probs=21.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .+.|+|-|+.|+||||+|+.+...
T Consensus         2 ~k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           2 IKKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             CEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             988999878887799999999999

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=93.74  E-value=0.022  Score=28.27  Aligned_cols=22  Identities=27%  Similarity=0.286  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .|.|.|++|.||||+|+.++.+
T Consensus         2 ~I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           2 RIILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
T ss_conf             8999879999989999999998

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=93.65  E-value=0.03  Score=27.36  Aligned_cols=34  Identities=35%  Similarity=0.518  Sum_probs=25.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||.+.++.-.....+.+.+
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~~p~~G~I~~   60 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYLKPLKGEIIY   60 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9899999999971999999996620567788999

>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=93.47  E-value=0.044  Score=26.31  Aligned_cols=34  Identities=32%  Similarity=0.564  Sum_probs=24.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -..++|+|..|.|||||++.+..--..-.+.+.+
T Consensus        29 Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G~I~i   62 (241)
T d2pmka1          29 GEVIGIVGRSGSGKSTLTKLIQRFYIPENGQVLI   62 (241)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHCCCCCCCEEEE
T ss_conf             9999999999998999999997357888889999

>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=93.45  E-value=0.051  Score=25.91  Aligned_cols=34  Identities=26%  Similarity=0.436  Sum_probs=24.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||.+.+..-...-.+.+++
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG~I~i   65 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLEEPTEGRIYF   65 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9899999999982999999997589998787999

>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=93.43  E-value=0.13  Score=23.34  Aligned_cols=51  Identities=24%  Similarity=0.320  Sum_probs=33.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH--CCCCCEEEEEEECCCCCHHHHHHHHHHHHC
Q ss_conf             59999948999188999999861--399883999995689678999999999833
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ--EIPFDKVIFVRVTQTPDVKRVQDEIARFLN  236 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~--~~~F~~~~wv~v~~~~~~~~~~~~i~~~l~  236 (1074)
                      .++.|.|.+|+|||+++.++..+  ..+-..+.+++..  .+...+...++....
T Consensus        36 ~l~vi~G~~G~GKT~~~~~la~~~a~~~g~~v~~~s~E--~~~~~~~~r~~~~~~   88 (277)
T d1cr2a_          36 EVIMVTSGSGMGKSTFVRQQALQWGTAMGKKVGLAMLE--ESVEETAEDLIGLHN   88 (277)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEESS--SCHHHHHHHHHHHHT
T ss_pred             EEEEEEECCCCCHHHHHHHHHHHHHHHCCCCEEEEEEC--CCHHHHHHHHHHHHH
T ss_conf             08999947999799999999972655336634576401--111357769999864

>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=93.40  E-value=0.068  Score=25.16  Aligned_cols=25  Identities=32%  Similarity=0.397  Sum_probs=21.3

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ....+...|+.|+|||-||+.++..
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~~   91 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAKH   91 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEECCCCCCHHHHHHHHHHH
T ss_conf             8753244189986378999999864

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=93.37  E-value=0.062  Score=25.37  Aligned_cols=49  Identities=18%  Similarity=0.188  Sum_probs=28.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH----CCCCCEEEEEEECCCCCHHHHHHHH
Q ss_conf             159999948999188999999861----3998839999956896789999999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ----EIPFDKVIFVRVTQTPDVKRVQDEI  231 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~----~~~F~~~~wv~v~~~~~~~~~~~~i  231 (1074)
                      .++..|+|.+|.||||++..+...    ...-...+.+.....-....+...+
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~~l~~l~~~~~~~~~~I~l~ApTgkAA~~L~e~~  215 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAKLLAALIQMADGERCRIRLAAPTGKAAARLTESL  215 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHHHHHHHHHTCSSCCCCEEEEBSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCCEEHHHHHHHHHHHHHHCCCCEEEEECCCHHHHHHHHHHH
T ss_conf             88599976898875216999999999987526982898437599999999888

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=93.18  E-value=0.031  Score=27.30  Aligned_cols=22  Identities=27%  Similarity=0.437  Sum_probs=18.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHH
Q ss_conf             5999994899918899999986
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~  205 (1074)
                      -+|||+|+.|.||||+|+.+-.
T Consensus         4 ~iIgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             7999789886889999999998

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=93.12  E-value=0.033  Score=27.16  Aligned_cols=24  Identities=29%  Similarity=0.556  Sum_probs=21.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -.+++|+|+.|.|||||++.+...
T Consensus        62 Ge~vaivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          62 GEMLAITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCC
T ss_conf             999999989998299999999579

>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=92.83  E-value=0.12  Score=23.66  Aligned_cols=42  Identities=21%  Similarity=0.420  Sum_probs=31.3

Q ss_pred             HHHHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             399999999997229984159999948999188999999861
Q 001457          165 ALEVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       165 ~~~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ....+.+++..+.......--|.++|..|+||||+...+..+
T Consensus        14 ~~~~l~e~~~~l~~~~~~~l~I~LvG~tg~GKSSliN~ilg~   55 (257)
T d1h65a_          14 TQTKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGE   55 (257)
T ss_dssp             HHHHHHHHHHHHHHTTCCEEEEEEEESTTSSHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHCCCCCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             999999999998645778748999899998699999998589

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=92.81  E-value=0.089  Score=24.42  Aligned_cols=29  Identities=28%  Similarity=0.142  Sum_probs=23.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCC
Q ss_conf             159999948999188999999861-39988
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFD  211 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~  211 (1074)
                      +-.|.|-|+-|+||||+++.+.+. ..+..
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~l~~~~~   35 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASAASGGSP   35 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSGGGCSSC
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHHHCCCCC
T ss_conf             589999888667899999999998656997

>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=92.80  E-value=0.04  Score=26.57  Aligned_cols=34  Identities=24%  Similarity=0.381  Sum_probs=25.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||.+.+..-...-.+.+++
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~~p~sG~I~i   59 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLETITSGDLFI   59 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCHHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9899999899982999999996587888888999

>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=92.80  E-value=0.033  Score=27.09  Aligned_cols=34  Identities=38%  Similarity=0.555  Sum_probs=24.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||++.+..-...-.+.+++
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~~p~sG~I~~   64 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLERPTEGSVLV   64 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHCCCCCCCCCCEEE
T ss_conf             9799998999898889999875886366773288

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=92.74  E-value=0.039  Score=26.63  Aligned_cols=22  Identities=36%  Similarity=0.540  Sum_probs=19.1

Q ss_pred             EEEEEECCCCCCHHHHHHHHHH
Q ss_conf             5999994899918899999986
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~  205 (1074)
                      -+|||+|..|.||||+|+.+-.
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
T ss_conf             8999888887889999999998

>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=92.70  E-value=0.04  Score=26.58  Aligned_cols=24  Identities=29%  Similarity=0.426  Sum_probs=21.1

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -..++|+|+.|.|||||++.+..-
T Consensus        28 Ge~vaivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          28 NSIIAFAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999999999999799999999996

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.56  E-value=0.053  Score=25.80  Aligned_cols=23  Identities=26%  Similarity=0.297  Sum_probs=20.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ++|+|+|..|.||||+|+.+.+.
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e~   24 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMSN   24 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
T ss_conf             89999799998899999999986

>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=92.31  E-value=0.05  Score=25.99  Aligned_cols=22  Identities=27%  Similarity=0.291  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||||...+..+
T Consensus         2 kivlvG~~~vGKSsLi~~l~~~   23 (160)
T d1r8sa_           2 RILMVGLDAAGKTTILYKLKLG   23 (160)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999998989999999659

>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=92.29  E-value=0.049  Score=26.05  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||+|+..+.++
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (173)
T d2a5ja1           5 KYIIIGDTGVGKSCLLLQFTDK   26 (173)
T ss_dssp             EEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999993999999999629

>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=92.12  E-value=0.11  Score=23.91  Aligned_cols=23  Identities=22%  Similarity=0.250  Sum_probs=19.8

Q ss_pred             EEEEEECCC-CCCHHHHHHHHHHH
Q ss_conf             599999489-99188999999861
Q 001457          184 NIIGVYGSG-GIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~g-GiGKTtLa~~v~~~  206 (1074)
                      +.+.|.|-| |+||||++-.++..
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~La~a   25 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCALLQA   25 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             519999899994299999999999

>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=92.12  E-value=0.064  Score=25.32  Aligned_cols=32  Identities=34%  Similarity=0.322  Sum_probs=22.9

Q ss_pred             HHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             97229984159999948999188999999861
Q 001457          175 LLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       175 ~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .+.......--|.++|.+|+|||||...+.+.
T Consensus         8 k~~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~   39 (176)
T d1fzqa_           8 KLKSAPDQEVRILLLGLDNAGKTTLLKQLASE   39 (176)
T ss_dssp             HCSSCCSSCEEEEEEESTTSSHHHHHHHHCCS
T ss_pred             HHHCCCCCEEEEEEECCCCCCHHHHHHHHHCC
T ss_conf             71178998779999999998999999999648

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=92.11  E-value=0.062  Score=25.39  Aligned_cols=25  Identities=16%  Similarity=0.519  Sum_probs=21.7

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+.|+|+|.+|+|||||...+.+.
T Consensus        22 ~~~~I~lvG~~n~GKSTLin~L~g~   46 (195)
T d1svia_          22 GLPEIALAGRSNVGKSSFINSLINR   46 (195)
T ss_dssp             CCCEEEEEEBTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHCCC
T ss_conf             9989999899998799999985298

>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=92.09  E-value=0.09  Score=24.38  Aligned_cols=34  Identities=18%  Similarity=0.272  Sum_probs=25.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||++.+..-...-.+.+++
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G~I~~   63 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLKADEGRVYF   63 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9799999999984999999997797688737999

>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=92.05  E-value=0.054  Score=25.75  Aligned_cols=22  Identities=32%  Similarity=0.434  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|+|+|.+|+|||||.+.+.+.
T Consensus         7 kI~ivG~~~vGKSSLi~~~~~~   28 (169)
T d1upta_           7 RILILGLDGAGKTTILYRLQVG   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998999999999679

>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=92.03  E-value=0.2  Score=22.15  Aligned_cols=88  Identities=18%  Similarity=0.194  Sum_probs=47.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH----CC-----CCCEEEEEEECCCCC-HHHHHHHHHHHHCC--------CCCCCHHH
Q ss_conf             59999948999188999999861----39-----988399999568967-89999999998334--------77743599
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ----EI-----PFDKVIFVRVTQTPD-VKRVQDEIARFLNT--------ELEGDVEV  245 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~----~~-----~F~~~~wv~v~~~~~-~~~~~~~i~~~l~~--------~~~~~~~~  245 (1074)
                      .-++|.|.+|+|||+++..+...    ..     .-..++++-+..... ..++.......-..        ..++....
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~~~~~~~~~~~~~~~~~v~~~IGer~~E~~e~~~~~~~~~~~~~tvvv~~ts~~~~~~  148 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIINQKRFNDGTDEKKKLYCIYVAIGQKRSTVAQLVKRLTDADAMKYTIVVSATASDAAPL  148 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHHTHHHHTSSCTTTCCEEEEEEESCCHHHHHHHHHHHHHTTCGGGEEEEEECTTSCHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEEEEEEEECCCHHHHHHHHHHHCCCCCCCCEEEEEECCCCCHHH
T ss_conf             77876568888858999999975776415654456328999630763878999999861456120049999789999999


Q ss_pred             H-----HHHHHHHHHH-CCCEEEEEECCCCCC
Q ss_conf             9-----9999999987-047099998186541
Q 001457          246 L-----RAAFLSERLK-RQKRVLIILDDLWGK  271 (1074)
Q Consensus       246 ~-----~~~~l~~~l~-~~k~~LiVlDdv~~~  271 (1074)
                      .     .+-.+-+++. .+|+.|+++||+...
T Consensus       149 r~~~~~~a~tiAEyfrd~G~~VLll~Dsltr~  180 (285)
T d2jdia3         149 QYLAPYSGCSMGEYFRDNGKHALIIYDDLSKQ  180 (285)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCEEEEEEETHHHH
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEEEECCHHHH
T ss_conf             99999999999999997699679997172899

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=91.95  E-value=0.059  Score=25.55  Aligned_cols=25  Identities=32%  Similarity=0.550  Sum_probs=21.3

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++|..|.|.-|.||||+.+++...
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEEECCCCCHHHHHHHHHHC
T ss_conf             9788998648889999999999856

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=91.94  E-value=0.094  Score=24.25  Aligned_cols=34  Identities=24%  Similarity=0.293  Sum_probs=23.2

Q ss_pred             HHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             99997229984159999948999188999999861
Q 001457          172 VMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       172 l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +++.+.-... ..-|.++|.+|+|||||...+...
T Consensus         3 ~~~~~~~~~k-~~kI~lvG~~~vGKTsLl~~l~~~   36 (186)
T d1f6ba_           3 VLQFLGLYKK-TGKLVFLGLDNAGKTTLLHMLKDD   36 (186)
T ss_dssp             HHHHHTCTTC-CEEEEEEEETTSSHHHHHHHHSCC
T ss_pred             HHHHCCCCCC-CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             6775553477-778999999998989999999678

>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=91.92  E-value=0.096  Score=24.19  Aligned_cols=34  Identities=24%  Similarity=0.289  Sum_probs=25.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||.+.+..-...-.+.+.+
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~p~~G~I~~   65 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVRAQKGKIIF   65 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9799999999985999999996788888038984

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.92  E-value=0.057  Score=25.63  Aligned_cols=22  Identities=32%  Similarity=0.357  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|.+|+|||||+..+.+.
T Consensus         4 Kv~liG~~~vGKTsLl~~~~~~   25 (165)
T d1z06a1           4 KIIVIGDSNVGKTCLTYRFCAG   25 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999992989999999739

>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=91.91  E-value=0.13  Score=23.35  Aligned_cols=33  Identities=21%  Similarity=0.327  Sum_probs=24.0

Q ss_pred             HHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             999997229984159999948999188999999861
Q 001457          171 SVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       171 ~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ++...+...+  . -|.|+|.+|+|||||..++...
T Consensus         6 ~~~~~~~~k~--~-kI~vvG~~~~GKSsLi~rl~~~   38 (177)
T d1zj6a1           6 RIWRLFNHQE--H-KVIIVGLDNAGKTTILYQFSMN   38 (177)
T ss_dssp             HHHHHHTTSC--E-EEEEEESTTSSHHHHHHHHHTT
T ss_pred             HHHHHHCCCE--E-EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9997728985--7-9999999998989999999668

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.89  E-value=0.058  Score=25.57  Aligned_cols=22  Identities=27%  Similarity=0.478  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||+|++.+.+.
T Consensus         6 KivlvG~~~vGKTsli~~~~~~   27 (166)
T d1z0fa1           6 KYIIIGDMGVGKSCLLHQFTEK   27 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999994989999999729

>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=91.82  E-value=0.059  Score=25.53  Aligned_cols=24  Identities=33%  Similarity=0.549  Sum_probs=21.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -.+++|.|+.|.||||+.+.+..-
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl   54 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGL   54 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             989999989998099999999758

>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=91.74  E-value=0.045  Score=26.25  Aligned_cols=34  Identities=21%  Similarity=0.336  Sum_probs=24.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||.+.+..-...-.+.+++
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~~p~sG~I~~   59 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFHVPDSGRILL   59 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9899999899982999999996476888788999

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.61  E-value=0.065  Score=25.28  Aligned_cols=22  Identities=27%  Similarity=0.582  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|.+|+|||||+..+.+.
T Consensus         4 Kv~liG~~~vGKSsLi~rl~~~   25 (164)
T d1z2aa1           4 KMVVVGNGAVGKSSMIQRYCKG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999998995989999999829

>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=91.60  E-value=0.065  Score=25.25  Aligned_cols=50  Identities=26%  Similarity=0.404  Sum_probs=31.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEEEEEC-------CCCCHHHHHHHHHHHH
Q ss_conf             159999948999188999999861-3998839999956-------8967899999999983
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIFVRVT-------QTPDVKRVQDEIARFL  235 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~wv~v~-------~~~~~~~~~~~i~~~l  235 (1074)
                      .+=|.+.|+.|+|||-||+.++.. .-.|   +-++++       ...+++.+.+.++...
T Consensus        49 ksNILliGPTGvGKTlLAr~LAk~l~VPF---v~~daT~fTeaGYvG~DVesii~~L~~~a  106 (443)
T d1g41a_          49 PKNILMIGPTGVGKTEIARRLAKLANAPF---IKVEATKFTEVGYVGKEVDSIIRDLTDSA  106 (443)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHHHTTCCE---EEEEGGGGC----CCCCTHHHHHHHHHHH
T ss_pred             CCCEEEECCCCCCHHHHHHHHHHHHCCCE---EEEECCEEEECCEEECCHHHHHHHHHHHH
T ss_conf             56479989999889999999998738988---98625511411111044457899999987

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.57  E-value=0.06  Score=25.47  Aligned_cols=22  Identities=36%  Similarity=0.839  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|.|.+|+|||||...+.+.
T Consensus         4 Ki~viG~~~vGKTsLi~r~~~~   25 (171)
T d2erxa1           4 RVAVFGAGGVGKSSLVLRFVKG   25 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             8999998997989999999709

>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=91.45  E-value=0.075  Score=24.87  Aligned_cols=23  Identities=26%  Similarity=0.343  Sum_probs=20.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +.|+|+|.+|+|||||...+.+.
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~   26 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTD   26 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
T ss_conf             89999999998899999999679

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.43  E-value=0.059  Score=25.52  Aligned_cols=22  Identities=27%  Similarity=0.487  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         7 Ki~ivG~~~vGKTsLi~~l~~~   28 (186)
T d2f7sa1           7 KLLALGDSGVGKTTFLYRYTDN   28 (186)
T ss_dssp             EEEEESCTTSSHHHHHHHHHCS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999991989999999619

>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=91.41  E-value=0.069  Score=25.09  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||+|+..+.+.
T Consensus         5 KivlvG~~~vGKTsLi~r~~~~   26 (167)
T d1z08a1           5 KVVLLGEGCVGKTSLVLRYCEN   26 (167)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999993989999999829

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=91.40  E-value=0.07  Score=25.07  Aligned_cols=22  Identities=23%  Similarity=0.580  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         6 Ki~lvG~~~vGKTsli~rl~~~   27 (167)
T d1z0ja1           6 KVCLLGDTGVGKSSIMWRFVED   27 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             8999998994999999999739

>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=91.37  E-value=0.078  Score=24.78  Aligned_cols=23  Identities=22%  Similarity=0.264  Sum_probs=20.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +-|+|+|.+|+|||||..++.+.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~   23 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTG   23 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
T ss_conf             98999999998989999999809

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=91.36  E-value=0.072  Score=24.99  Aligned_cols=22  Identities=23%  Similarity=0.421  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||||...+.+.
T Consensus         7 Ki~vvG~~~vGKTsLi~~l~~~   28 (169)
T d3raba_           7 KILIIGNSSVGKTSFLFRYADD   28 (169)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999991989999999739

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.34  E-value=0.072  Score=25.00  Aligned_cols=22  Identities=23%  Similarity=0.724  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||+|.+.+.+.
T Consensus         4 Ki~lvG~~~vGKTsli~r~~~~   25 (168)
T d2atva1           4 KLAIFGRAGVGKSALVVRFLTK   25 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999998997899999999739

>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=91.28  E-value=0.21  Score=22.02  Aligned_cols=24  Identities=29%  Similarity=0.441  Sum_probs=22.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+|.+.|.=|.||||++|.+++.
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             829999668776588999998764

>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=91.26  E-value=0.07  Score=25.07  Aligned_cols=22  Identities=27%  Similarity=0.484  Sum_probs=19.3

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||+|++.+.+.
T Consensus         2 Kv~vvG~~~vGKTsLi~r~~~~   23 (164)
T d1yzqa1           2 KLVFLGEQSVGKTSLITRFMYD   23 (164)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             8999998990989999999849

>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=91.26  E-value=0.07  Score=25.06  Aligned_cols=22  Identities=32%  Similarity=0.591  Sum_probs=19.7

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         7 Ki~lvG~~~vGKTsLi~~l~~~   28 (171)
T d2ew1a1           7 KIVLIGNAGVGKTCLVRRFTQG   28 (171)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999991989999999729

>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=91.24  E-value=0.074  Score=24.91  Aligned_cols=22  Identities=41%  Similarity=0.656  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||+|..++.++
T Consensus         5 Ki~lvG~~~vGKTsLi~r~~~~   26 (167)
T d1kaoa_           5 KVVVLGSGGVGKSALTVQFVTG   26 (167)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999998993999999999719

>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=91.19  E-value=0.076  Score=24.82  Aligned_cols=22  Identities=23%  Similarity=0.481  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||+|+..+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (170)
T d1r2qa_           8 KLVLLGESAVGKSSLVLRFVKG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999994989999999859

>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=91.18  E-value=0.071  Score=25.01  Aligned_cols=24  Identities=33%  Similarity=0.609  Sum_probs=20.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .--|.|+|.+|+|||+|...+.+.
T Consensus         6 ~~Kv~lvG~~~vGKTsLi~r~~~~   29 (173)
T d2fn4a1           6 THKLVVVGGGGVGKSALTIQFIQS   29 (173)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             279999997996989999999739

>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=91.14  E-value=0.077  Score=24.81  Aligned_cols=23  Identities=30%  Similarity=0.583  Sum_probs=19.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      --|.|+|.+|+|||||...+.+.
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~   25 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVND   25 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHCC
T ss_conf             89999999996989999999709

>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=91.13  E-value=0.093  Score=24.28  Aligned_cols=36  Identities=25%  Similarity=0.329  Sum_probs=24.5

Q ss_pred             HHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999997229984159999948999188999999861
Q 001457          170 KSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       170 ~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+++.+....... -|.++|.+|+|||||..++.+.
T Consensus         5 ~~~~~~l~~~~k~~-KI~lvG~~~vGKTsLi~~l~~~   40 (182)
T d1moza_           5 SSMFDKLWGSNKEL-RILILGLDGAGKTTILYRLQIG   40 (182)
T ss_dssp             HHHHGGGTTCSSCE-EEEEEEETTSSHHHHHHHTCCS
T ss_pred             HHHHHHHHCCCCEE-EEEEECCCCCCHHHHHHHHHCC
T ss_conf             99999870789668-9999999999889999887338

>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=91.11  E-value=0.072  Score=25.00  Aligned_cols=34  Identities=29%  Similarity=0.456  Sum_probs=24.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCCCEEEEE
Q ss_conf             1599999489991889999998613998839999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPFDKVIFV  216 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F~~~~wv  216 (1074)
                      -.+++|.|+.|.|||||.+.+..-...-.+.+.+
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~p~~G~i~i   61 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIKPSSGIVTV   61 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSEEEEEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCCCCCCCCEEEE
T ss_conf             9799999999999999999996698878887999

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=91.05  E-value=0.073  Score=24.94  Aligned_cols=22  Identities=23%  Similarity=0.368  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||+|++.+.+.
T Consensus         3 Ki~lvG~~~vGKTsLi~~~~~~   24 (168)
T d2gjsa1           3 KVLLLGAPGVGKSALARIFGGV   24 (168)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999898993999999998188

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=91.02  E-value=0.076  Score=24.84  Aligned_cols=23  Identities=22%  Similarity=0.421  Sum_probs=19.9

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      --|.|+|.+|+|||||+..+.+.
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~   29 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDD   29 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             89999999990989999999619

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.99  E-value=0.077  Score=24.80  Aligned_cols=22  Identities=32%  Similarity=0.567  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||||+..+...
T Consensus         7 KI~lvG~~~vGKTsll~~~~~~   28 (174)
T d2bmea1           7 KFLVIGNAGTGKSCLLHQFIEK   28 (174)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999990999999999709

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=90.89  E-value=0.087  Score=24.46  Aligned_cols=22  Identities=32%  Similarity=0.457  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|.+|+|||+|.+++...
T Consensus         4 KivllG~~~vGKTsl~~r~~~~   25 (195)
T d1svsa1           4 KLLLLGAGESGKSTIVKQMKII   25 (195)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999998889999988408

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.88  E-value=0.23  Score=21.77  Aligned_cols=31  Identities=19%  Similarity=0.328  Sum_probs=25.3

Q ss_pred             HHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             7229984159999948999188999999861
Q 001457          176 LKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       176 l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      |..-+..+.||+|.|+-+.||++|+..++..
T Consensus        25 l~~~~~~v~vvsi~G~~~sGKS~llN~l~~~   55 (277)
T d1f5na2          25 LSAITQPMVVVAIVGLYRTGKSYLMNKLAGK   55 (277)
T ss_dssp             HHTCCSBEEEEEEEEBTTSSHHHHHHHHTTC
T ss_pred             HHCCCCCEEEEEEECCCCCCHHHHHHHHCCC
T ss_conf             9707998799998899999799999998099

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.87  E-value=0.085  Score=24.52  Aligned_cols=24  Identities=29%  Similarity=0.353  Sum_probs=20.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .--|.|+|.+|+|||+|..++.++
T Consensus         5 ~iKivviG~~~vGKTsli~~~~~~   28 (183)
T d1mh1a_           5 AIKCVVVGDGAVGKTCLLISYTTN   28 (183)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             699999999997999999999749

>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=90.86  E-value=0.1  Score=23.99  Aligned_cols=24  Identities=21%  Similarity=0.527  Sum_probs=21.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ...|+|+|..|+|||||.+.+...
T Consensus         5 ~~~I~lvG~~~~GKSSLin~l~~~   28 (178)
T d1wf3a1           5 SGFVAIVGKPNVGKSTLLNNLLGV   28 (178)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             769999999999999999999688

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.81  E-value=0.087  Score=24.47  Aligned_cols=23  Identities=22%  Similarity=0.523  Sum_probs=20.0

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      --|.|+|..|+|||||+..+.+.
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~   27 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRN   27 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             89999999990989999999829

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.79  E-value=0.087  Score=24.46  Aligned_cols=22  Identities=41%  Similarity=0.673  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||+|.+.+.+.
T Consensus         5 KivvvG~~~vGKTsli~r~~~~   26 (167)
T d1c1ya_           5 KLVVLGSGGVGKSALTVQFVQG   26 (167)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999998998999999999709

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.75  E-value=0.083  Score=24.61  Aligned_cols=22  Identities=36%  Similarity=0.650  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||+|...+.++
T Consensus         7 Ki~lvG~~~vGKTsLi~r~~~~   28 (171)
T d2erya1           7 RLVVVGGGGVGKSALTIQFIQS   28 (171)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             8999999997999999999739

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.72  E-value=0.11  Score=23.82  Aligned_cols=23  Identities=30%  Similarity=0.419  Sum_probs=19.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +-|.|+|.+|+|||+|...+.+.
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~   25 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKD   25 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             79999998993889999999719

>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=90.70  E-value=0.072  Score=24.97  Aligned_cols=22  Identities=27%  Similarity=0.386  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||||.+.+.+.
T Consensus         4 ki~ivG~~~~GKTsLi~~l~~~   25 (165)
T d1ksha_           4 RLLMLGLDNAGKTTILKKFNGE   25 (165)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHCCC
T ss_conf             9999999998999999998089

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.64  E-value=0.086  Score=24.49  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||||...+.+.
T Consensus         4 Ki~vvG~~~vGKTSli~~l~~~   25 (166)
T d1g16a_           4 KILLIGDSGVGKSCLLVRFVED   25 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999996789999999868

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.62  E-value=0.086  Score=24.48  Aligned_cols=24  Identities=29%  Similarity=0.416  Sum_probs=20.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .--|.|+|.+|+|||+|...+.+.
T Consensus         9 ~~Ki~lvG~~~vGKTsLi~r~~~~   32 (185)
T d2atxa1           9 MLKCVVVGDGAVGKTCLLMSYAND   32 (185)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             899999999998999999999649

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.55  E-value=0.12  Score=23.59  Aligned_cols=24  Identities=25%  Similarity=0.416  Sum_probs=20.5

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..-|.|.|..|+|||+|...+.+.
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~   27 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEG   27 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             338999998992989999999719

>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=90.52  E-value=0.11  Score=23.76  Aligned_cols=25  Identities=28%  Similarity=0.565  Sum_probs=22.0

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ....|+|.|.+|+|||||..++.+.
T Consensus         4 ~~~~I~iiG~~nvGKSSLin~L~~~   28 (179)
T d1egaa1           4 YCGFIAIVGRPNVGKSTLLNKLLGQ   28 (179)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             3619999979999899999999589

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=90.47  E-value=0.094  Score=24.27  Aligned_cols=22  Identities=27%  Similarity=0.579  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .|+|.|..|+|||||.+.+...
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~   23 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKK   23 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC-
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999999899999999677

>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=90.36  E-value=0.096  Score=24.20  Aligned_cols=23  Identities=30%  Similarity=0.458  Sum_probs=19.8

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++.|+|.+|+||||+|.+++-.
T Consensus        30 ~~~~i~G~~G~GKS~l~l~la~~   52 (274)
T d1nlfa_          30 TVGALVSPGGAGKSMLALQLAAQ   52 (274)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCHHHHHHHHHHH
T ss_conf             58999928999899999999999

>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=90.35  E-value=0.14  Score=23.08  Aligned_cols=33  Identities=27%  Similarity=0.451  Sum_probs=24.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH-CCCCCEEEE
Q ss_conf             159999948999188999999861-399883999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ-EIPFDKVIF  215 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~-~~~F~~~~w  215 (1074)
                      +-.|.|-|.-|+||||+++.+.+. ..+...+.+
T Consensus         5 ~lrI~IEG~iGsGKSTl~~~L~~~l~~~g~~v~~   38 (331)
T d1osna_           5 VLRIYLDGAYGIGKTTAAEEFLHHFAITPNRILL   38 (331)
T ss_dssp             EEEEEEEESSSSCTTHHHHHHHHTTTTSGGGEEE
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEE
T ss_conf             1699998887788999999999987346885699

>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=90.35  E-value=0.068  Score=25.13  Aligned_cols=24  Identities=25%  Similarity=0.368  Sum_probs=20.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -..++|+|..|.|||||++.+..-
T Consensus        44 Ge~vaivG~sGsGKSTLl~ll~gl   67 (255)
T d2hyda1          44 GETVAFVGMSGGGKSTLINLIPRF   67 (255)
T ss_dssp             TCEEEEECSTTSSHHHHHTTTTTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHC
T ss_conf             989999889998099999999712

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=90.28  E-value=0.1  Score=23.99  Aligned_cols=22  Identities=14%  Similarity=0.443  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|..|+|||+|...+.+.
T Consensus         5 Ki~vvG~~~vGKTsLi~~~~~~   26 (170)
T d1ek0a_           5 KLVLLGEAAVGKSSIVLRFVSN   26 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999991989999999729

>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=90.21  E-value=0.099  Score=24.12  Aligned_cols=22  Identities=36%  Similarity=0.699  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||+|...+.+.
T Consensus         5 Ki~viG~~~vGKTsli~~l~~~   26 (166)
T d1ctqa_           5 KLVVVGAGGVGKSALTIQLIQN   26 (166)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999997998999999999809

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=90.08  E-value=0.098  Score=24.14  Aligned_cols=20  Identities=40%  Similarity=0.582  Sum_probs=17.7

Q ss_pred             EEEEEECCCCCCHHHHHHHH
Q ss_conf             59999948999188999999
Q 001457          184 NIIGVYGSGGIGKTTLMKQV  203 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v  203 (1074)
                      --|.+.|.+|+|||||..++
T Consensus         3 iKivllG~~~vGKTsll~r~   22 (200)
T d1zcba2           3 VKILLLGAGESGKSTFLKQM   22 (200)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
T ss_conf             89999989999989999988

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=90.03  E-value=0.11  Score=23.79  Aligned_cols=22  Identities=27%  Similarity=0.486  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||+|+.++.+.
T Consensus         8 Ki~vvG~~~vGKTsli~~~~~~   29 (170)
T d2g6ba1           8 KVMLVGDSGVGKTCLLVRFKDG   29 (170)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999992999999999719

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.97  E-value=0.11  Score=23.90  Aligned_cols=22  Identities=32%  Similarity=0.439  Sum_probs=19.1

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|.+|+|||+|...+.+.
T Consensus         5 KvvllG~~~vGKTSli~r~~~~   26 (191)
T d2ngra_           5 KCVVVGDGAVGKTCLLISYTTN   26 (191)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999996999999999719

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=89.84  E-value=0.12  Score=23.66  Aligned_cols=22  Identities=36%  Similarity=0.685  Sum_probs=19.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||||+..+.+.
T Consensus         4 Kv~vvG~~~vGKSSLi~~l~~~   25 (184)
T d1vg8a_           4 KVIILGDSGVGKTSLMNQYVNK   25 (184)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999991989999999719

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.72  E-value=0.12  Score=23.54  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|.+|+|||||.+.+.+.
T Consensus         9 Ki~vvG~~~vGKTsli~~l~~~   30 (177)
T d1x3sa1           9 KILIIGESGVGKSSLLLRFTDD   30 (177)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             8999998990889999999719

>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=89.72  E-value=0.12  Score=23.62  Aligned_cols=22  Identities=32%  Similarity=0.460  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|.+|+|||+|..++...
T Consensus         4 Kiv~lG~~~vGKTsll~r~~~~   25 (200)
T d2bcjq2           4 KLLLLGTGESGKSTFIKQMRII   25 (200)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999999889999999679

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=89.64  E-value=0.12  Score=23.48  Aligned_cols=24  Identities=38%  Similarity=0.628  Sum_probs=20.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..-|.|.|.+|+|||||+..+.+.
T Consensus         4 ~~KivlvG~~~vGKTsli~~~~~~   27 (168)
T d1u8za_           4 LHKVIMVGSGGVGKSALTLQFMYD   27 (168)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHC
T ss_conf             269999998995889999999729

>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=89.56  E-value=0.13  Score=23.29  Aligned_cols=31  Identities=23%  Similarity=0.293  Sum_probs=22.2

Q ss_pred             HHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             997229984159999948999188999999861
Q 001457          174 KLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       174 ~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +.+.+.. ..+ |.++|.+|+|||||.+.+.+.
T Consensus         5 ~~~~~~k-~~k-IvlvG~~~vGKTSli~rl~~~   35 (173)
T d1e0sa_           5 SKIFGNK-EMR-ILMLGLDAAGKTTILYKLKLG   35 (173)
T ss_dssp             HHHHTTC-CEE-EEEEEETTSSHHHHHHHTTCC
T ss_pred             HHHHCCC-EEE-EEEECCCCCCHHHHHHHHHCC
T ss_conf             4540797-479-999999998789999998448

>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=89.54  E-value=0.16  Score=22.77  Aligned_cols=25  Identities=24%  Similarity=0.327  Sum_probs=21.4

Q ss_pred             CEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             4159999948999188999999861
Q 001457          182 SINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       182 ~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..|-|+|.|.+|.|||||+-.+...
T Consensus         5 ~iRni~i~gh~~~GKTtL~e~ll~~   29 (276)
T d2bv3a2           5 RLRNIGIAAHIDAGKTTTTERILYY   29 (276)
T ss_dssp             GEEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             HCEEEEEEECCCCCHHHHHHHHHHH
T ss_conf             2029999958989989999999996

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.52  E-value=0.12  Score=23.55  Aligned_cols=22  Identities=36%  Similarity=0.434  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|..|+|||+|++.+.+.
T Consensus         4 KivliG~~~vGKTsli~r~~~~   25 (179)
T d1m7ba_           4 KIVVVGDSQCGKTALLHVFAKD   25 (179)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999995989999999729

>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=89.41  E-value=0.14  Score=23.23  Aligned_cols=24  Identities=29%  Similarity=0.423  Sum_probs=19.8

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..-|.+.|.+|+|||||.+++...
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~   29 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRIL   29 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             477999989999889999989509

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=89.41  E-value=0.27  Score=21.36  Aligned_cols=23  Identities=26%  Similarity=0.514  Sum_probs=19.6

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +..++.|..|+|||||...+..+
T Consensus        96 kt~~~~G~SGVGKSTLiN~L~~~  118 (225)
T d1u0la2          96 KISTMAGLSGVGKSSLLNAINPG  118 (225)
T ss_dssp             SEEEEECSTTSSHHHHHHHHSTT
T ss_pred             CEEEEECCCCCCHHHHHHHHCCH
T ss_conf             80899788987788887730535

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=89.35  E-value=0.13  Score=23.29  Aligned_cols=22  Identities=32%  Similarity=0.703  Sum_probs=19.4

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||||+..+.+.
T Consensus         8 KI~vvG~~~vGKSSli~~~~~~   29 (174)
T d1wmsa_           8 KVILLGDGGVGKSSLMNRYVTN   29 (174)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999997999999999849

>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=89.34  E-value=0.36  Score=20.61  Aligned_cols=45  Identities=18%  Similarity=0.197  Sum_probs=29.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH---C----CCCCEEEEEEECCCCCHHHH
Q ss_conf             159999948999188999999861---3----99883999995689678999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ---E----IPFDKVIFVRVTQTPDVKRV  227 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~---~----~~F~~~~wv~v~~~~~~~~~  227 (1074)
                      -.++.|.|.+|.|||++|.++...   .    ..+....++...........
T Consensus        23 G~v~~i~G~~GsGKT~l~l~la~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   74 (242)
T d1n0wa_          23 GSITEMFGEFRTGKTQICHTLAVTCQLPIDRGGGEGKAMYIDTEGTFRPERL   74 (242)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHHHHTTSCGGGTCCSSEEEEEESSSCCCHHHH
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHHHHHHHCCCCCCCEEHHHHHHHHHHHHHH
T ss_conf             9799999589999999999999999886244665520100355665589999

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=89.31  E-value=0.14  Score=23.25  Aligned_cols=22  Identities=36%  Similarity=0.662  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.++|..|+|||+|...+.++
T Consensus         6 Ki~lvG~~~vGKTsll~~~~~~   27 (169)
T d1x1ra1           6 KLVVVGDGGVGKSALTIQFFQK   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999998995989999999709

>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=89.30  E-value=0.09  Score=24.39  Aligned_cols=24  Identities=29%  Similarity=0.504  Sum_probs=20.9

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -.+++|.|+.|.|||||.+.+..-
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHTS
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             989999989998099999999488

>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=89.29  E-value=0.14  Score=23.21  Aligned_cols=23  Identities=26%  Similarity=0.517  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      --|.+.|.+|+|||||...+.+.
T Consensus         6 ~ki~vlG~~~vGKTsLi~~~~~~   28 (175)
T d2bmja1           6 LRLGVLGDARSGKSSLIHRFLTG   28 (175)
T ss_dssp             EEEEEECCTTTTHHHHHHHHHHS
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             79999998997899999999719

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=89.27  E-value=0.11  Score=23.92  Aligned_cols=24  Identities=25%  Similarity=0.358  Sum_probs=21.0

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      +..|.|-|.-|+||||+++.+.+.
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             429999898677899999999998

>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=89.26  E-value=0.14  Score=23.19  Aligned_cols=22  Identities=27%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|+++|.+|+|||||...+.+.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~   23 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKND   23 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999999999999999589

>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=89.24  E-value=0.14  Score=23.17  Aligned_cols=22  Identities=23%  Similarity=0.253  Sum_probs=18.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|.+|+|||||..++...
T Consensus         4 ki~i~G~~~~GKTsLl~~l~~~   25 (164)
T d1zd9a1           4 ELTLVGLQYSGKTTFVNVIASG   25 (164)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999999998989999999719

>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=89.20  E-value=0.12  Score=23.55  Aligned_cols=23  Identities=26%  Similarity=0.369  Sum_probs=19.5

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      --|.+.|.+|+|||+|++.+...
T Consensus         4 ~Kv~lvG~~~vGKTsLi~~~~~~   26 (172)
T d2g3ya1           4 YRVVLIGEQGVGKSTLANIFAGV   26 (172)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHCC
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             79999998992999999999728

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=88.87  E-value=0.12  Score=23.60  Aligned_cols=22  Identities=27%  Similarity=0.431  Sum_probs=19.9

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|+|+|.+|+|||||...+.+.
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~   23 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGK   23 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999998899999999689

>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=88.52  E-value=0.098  Score=24.13  Aligned_cols=21  Identities=24%  Similarity=0.566  Sum_probs=18.8

Q ss_pred             EEEECCCCCCHHHHHHHHHHH
Q ss_conf             999948999188999999861
Q 001457          186 IGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       186 i~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      |+|+|.+|+|||||...+.+.
T Consensus         4 VaivG~~nvGKSTLin~L~~~   24 (180)
T d1udxa2           4 VGLVGYPNAGKSSLLAAMTRA   24 (180)
T ss_dssp             EEEECCGGGCHHHHHHHHCSS
T ss_pred             EEEECCCCCCHHHHHHHHHCC
T ss_conf             999899999899999999689

>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=88.46  E-value=0.3  Score=21.04  Aligned_cols=37  Identities=32%  Similarity=0.280  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999999997229984159999948999188999999861
Q 001457          167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ++...++.......   +-|.|.|..|.||||+.+.+...
T Consensus       153 ~~~~~~l~~~v~~~---~nili~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         153 EQAISAIKDGIAIG---KNVIVCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             HHHHHHHHHHHHHT---CCEEEEESTTSSHHHHHHHHGGG
T ss_pred             HHHHHHHHHHHHHC---CCEEEEEECCCCCHHHHHHHHHH
T ss_conf             99999999999837---88899940356625789998653

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=88.32  E-value=0.22  Score=21.91  Aligned_cols=23  Identities=35%  Similarity=0.601  Sum_probs=20.2

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHH
Q ss_conf             15999994899918899999986
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~  205 (1074)
                      +|-|+|.|..|.|||||+..+..
T Consensus         2 iRNv~iiGh~~~GKTtL~e~ll~   24 (267)
T d2dy1a2           2 IRTVALVGHAGSGKTTLTEALLY   24 (267)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHH
T ss_conf             50999994889809999999999

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=88.28  E-value=0.12  Score=23.69  Aligned_cols=22  Identities=32%  Similarity=0.507  Sum_probs=19.2

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|+|+|.+++|||||...+.+.
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~   24 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSA   24 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             6999899998799999999689

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=88.14  E-value=0.17  Score=22.62  Aligned_cols=23  Identities=22%  Similarity=0.540  Sum_probs=19.7

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      --|+|.|..|+|||||...+.+.
T Consensus         9 ~kV~iiG~~~~GKSTLin~l~~~   31 (186)
T d1mkya2           9 IKVAIVGRPNVGKSTLFNAILNK   31 (186)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCC
T ss_conf             88999999999999999999778

>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=87.81  E-value=0.087  Score=24.46  Aligned_cols=22  Identities=36%  Similarity=0.619  Sum_probs=18.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.+.|.+|+|||+|..++.+.
T Consensus         5 Ki~vvG~~~vGKTsli~~~~~~   26 (170)
T d1i2ma_           5 KLVLVGDGGTGKTTFVKRHLTG   26 (170)
T ss_dssp             EEEEEECTTSSHHHHHHTTC--
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999990889999999849

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=87.35  E-value=0.27  Score=21.34  Aligned_cols=36  Identities=17%  Similarity=0.190  Sum_probs=25.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCC--CEEEEEEE
Q ss_conf             1599999489991889999998613998--83999995
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPF--DKVIFVRV  218 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F--~~~~wv~v  218 (1074)
                      -+-|.|.|.+|+||||+|.....+...|  |-.+++..
T Consensus        14 g~gvl~~G~sG~GKStlal~l~~~g~~lv~DD~~~i~~   51 (176)
T d1kkma_          14 GLGVLITGDSGVGKSETALELVQRGHRLIADDRVDVYQ   51 (176)
T ss_dssp             TEEEEEECCTTSCHHHHHHHHHHTTCEEEEEEEEEEEE
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHCCCEEEECCEEEEEE
T ss_conf             99999980899998999999998599198168689999

>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=86.83  E-value=0.21  Score=22.02  Aligned_cols=22  Identities=18%  Similarity=0.376  Sum_probs=19.0

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|+++|.+|+|||||..++...
T Consensus         3 kI~lvG~~nvGKSsLin~l~~~   24 (161)
T d2gj8a1           3 KVVIAGRPNAGKSSLLNALAGR   24 (161)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             9999899999899999999688

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=86.40  E-value=0.13  Score=23.34  Aligned_cols=22  Identities=23%  Similarity=0.456  Sum_probs=18.6

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|.|+|.+|+|||||...+.+.
T Consensus         8 Ki~vvG~~~vGKTsLi~~l~~~   29 (173)
T d2fu5c1           8 KLLLIGDSGVGKTCVLFRFSED   29 (173)
T ss_dssp             EEEEECCCCC------------
T ss_pred             EEEEECCCCCCHHHHHHHHHHC
T ss_conf             9999999994999999999709

>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=86.17  E-value=0.55  Score=19.41  Aligned_cols=40  Identities=15%  Similarity=0.187  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999999997229984159999948999188999999861
Q 001457          167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ..+..+..+|....+....+.++|+|+.|||+++..+..-
T Consensus        88 ~f~~~l~~~L~~~~~k~n~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_          88 YAASVFLGWATKKFGKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             HHHHHHHHHHTTCSTTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCCCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             9999999997599976179999858988778999999998

>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=85.91  E-value=0.26  Score=21.51  Aligned_cols=23  Identities=22%  Similarity=0.345  Sum_probs=20.2

Q ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             59999948999188999999861
Q 001457          184 NIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       184 ~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .-|.|.|.+|+||||+|.....+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHC
T ss_conf             99999818999989999999985

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=85.18  E-value=0.32  Score=20.89  Aligned_cols=35  Identities=23%  Similarity=0.313  Sum_probs=25.4

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHHCCCC--CEEEEEE
Q ss_conf             1599999489991889999998613998--8399999
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQEIPF--DKVIFVR  217 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~~~~F--~~~~wv~  217 (1074)
                      -.-|.|.|.+|+||||+|.....+...|  |-.+++.
T Consensus        15 g~gvli~G~sg~GKS~la~~l~~~g~~li~DD~~~~~   51 (169)
T d1ko7a2          15 GVGVLITGDSGIGKSETALELIKRGHRLVADDNVEIR   51 (169)
T ss_dssp             TEEEEEEESTTSSHHHHHHHHHHTTCEEEESSEEEEE
T ss_pred             CEEEEEEECCCCCHHHHHHHHHHCCCEEEECCEEEEE
T ss_conf             9999998089999999999999849938817868999

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=84.40  E-value=0.49  Score=19.73  Aligned_cols=27  Identities=19%  Similarity=0.306  Sum_probs=22.6

Q ss_pred             CCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             984159999948999188999999861
Q 001457          180 SISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       180 ~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ...+|-|+|.|..|.|||||+-.+...
T Consensus        14 ~~~IRNI~iiGhvd~GKTTL~d~Ll~~   40 (341)
T d1n0ua2          14 VTNVRNMSVIAHVDHGKSTLTDSLVQR   40 (341)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHH
T ss_pred             CCCCCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             316748999968888699999999997

>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=83.99  E-value=0.25  Score=21.63  Aligned_cols=24  Identities=17%  Similarity=0.249  Sum_probs=20.3

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      ...|+|+|.+++|||||.+.+...
T Consensus        16 ~~~I~lvG~~NvGKSSL~n~L~~~   39 (188)
T d1puia_          16 GIEVAFAGRSNAGKSSALNTLTNQ   39 (188)
T ss_dssp             SEEEEEEECTTSSHHHHHTTTCCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHCC
T ss_conf             978999889999899999998589

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=83.62  E-value=0.47  Score=19.83  Aligned_cols=24  Identities=33%  Similarity=0.459  Sum_probs=20.7

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             159999948999188999999861
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .++|+|.|....|||||+..+...
T Consensus         5 ~p~IaIiGh~d~GKSTL~~~L~~~   28 (227)
T d1g7sa4           5 SPIVSVLGHVDHGKTTLLDHIRGS   28 (227)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCHHHHHHHHHHH
T ss_conf             987999969985499999999823

>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=82.86  E-value=0.57  Score=19.31  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=19.6

Q ss_pred             EEEEEEECCCCCCHHHHHHHHHH
Q ss_conf             15999994899918899999986
Q 001457          183 INIIGVYGSGGIGKTTLMKQVMK  205 (1074)
Q Consensus       183 ~~vi~I~G~gGiGKTtLa~~v~~  205 (1074)
                      .--|+|.|.+|+|||||...+..
T Consensus        56 ~l~Iai~G~~n~GKSSLiNaL~G   78 (400)
T d1tq4a_          56 VLNVAVTGETGSGKSSFINTLRG   78 (400)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHC
T ss_conf             71799989999978999999958

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=82.06  E-value=0.79  Score=18.42  Aligned_cols=39  Identities=15%  Similarity=0.223  Sum_probs=28.1

Q ss_pred             HHHHHHHHHHHCCCCCEEEEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999999997229984159999948999188999999861
Q 001457          167 EVIKSVMKLLKDNSISINIIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       167 ~~~~~l~~~l~~~~~~~~vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      .-+..+..++.. .++..-+.++|+++.|||++|..+.+-
T Consensus        38 ~Fl~~l~~~l~~-~PKkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          38 TFLGALKSFLKG-TPKKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             HHHHHHHHHHHT-CTTCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCC-CCCCEEEEEECCCCCCHHHHHHHHHHH
T ss_conf             999999999738-987318999889985689999999998

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=81.78  E-value=0.84  Score=18.24  Aligned_cols=36  Identities=17%  Similarity=0.256  Sum_probs=21.1

Q ss_pred             EEEEECCCCCCHHHHHHH-HHHH--CCCC--CEEEEEEECC
Q ss_conf             999994899918899999-9861--3998--8399999568
Q 001457          185 IIGVYGSGGIGKTTLMKQ-VMKQ--EIPF--DKVIFVRVTQ  220 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~-v~~~--~~~F--~~~~wv~v~~  220 (1074)
                      .+.|.|.+|.||||.+.+ +.+-  ....  ..+..++.+.
T Consensus        26 ~~lV~g~aGSGKTt~l~~ri~~ll~~~~~~p~~il~lt~t~   66 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVLTHRIAYLMAEKHVAPWNILAITFTN   66 (318)
T ss_dssp             CEEEEECTTSCHHHHHHHHHHHHHHTTCCCGGGEEEEESSH
T ss_pred             CEEEEECCCCCHHHHHHHHHHHHHHCCCCCHHHEEEEECCH
T ss_conf             98999529866899999999999980899878937576649

>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=80.22  E-value=0.17  Score=22.63  Aligned_cols=22  Identities=23%  Similarity=0.567  Sum_probs=19.5

Q ss_pred             EEEEECCCCCCHHHHHHHHHHH
Q ss_conf             9999948999188999999861
Q 001457          185 IIGVYGSGGIGKTTLMKQVMKQ  206 (1074)
Q Consensus       185 vi~I~G~gGiGKTtLa~~v~~~  206 (1074)
                      -|++.|.+|+|||||...+...
T Consensus         2 kI~liG~~n~GKSSLin~l~g~   23 (160)
T d1xzpa2           2 RMVIVGKPNVGKSTLLNRLLNE   23 (160)
T ss_dssp             EEEEECCHHHHTCHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCC
T ss_conf             8999999999999999999589